Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr6
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: 56482370
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1659275 characters in sequence are not A, C, G, or T
File 74 of 172
Found at i:24472071 original size:46 final size:46
Alignment explanation
Indices: 24472018--24472155 Score: 138
Period size: 46 Copynumber: 3.0 Consensus size: 46
24472008 TATATATACA
* * *
24472018 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACATCTCACATTAGCCATTCGGCCTTACCACATATC
* * *
24472064 CATCTCATACACGTTTCGCATTAGCCATTCGGCCTTACCACATAT-
1 CATCTCATACACATCTCACATTAGCCATTCGGCCTTACCACATATC
* * *
24472109 -AT-TCATGTTCACATTCATCACATTGGCCATTCGGCCTTAACACATAT
1 CATCTCA--TACACA-TC-TCACATTAGCCATTCGGCCTTACCACATAT
24472156 ATGCATGTTC
Statistics
Matches: 76, Mismatches: 12, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
43 3 0.04
44 2 0.03
45 4 0.05
46 40 0.53
47 27 0.36
ACGTcount: A:0.27, C:0.30, G:0.09, T:0.33
Consensus pattern (46 bp):
CATCTCATACACATCTCACATTAGCCATTCGGCCTTACCACATATC
Found at i:24472144 original size:47 final size:47
Alignment explanation
Indices: 24472082--24472199 Score: 200
Period size: 47 Copynumber: 2.5 Consensus size: 47
24472072 ACACGTTTCG
* * *
24472082 CATTAGCCATTCGGCCTTACCACATATATTCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTAACACATATATGCATGTTCACATTCATCA
24472129 CATTGGCCATTCGGCCTTAACACATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTAACACATATATGCATGTTCACATTCATCA
*
24472176 CATTGGCCATTCGGCCTTATCACA
1 CATTGGCCATTCGGCCTTAACACA
24472200 NNNNNNNNNN
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 67 1.00
ACGTcount: A:0.26, C:0.30, G:0.12, T:0.32
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTAACACATATATGCATGTTCACATTCATCA
Found at i:24478420 original size:40 final size:40
Alignment explanation
Indices: 24478356--24478752 Score: 622
Period size: 40 Copynumber: 9.9 Consensus size: 40
24478346 TCATGATTCC
** *
24478356 AGCACGAATGC-CTTCGAGGTTTAGCCCGGATATATCACT
1 AGCACGAATGCTCTTCGAGACTTAGCCCGGATACATCACT
24478395 AGCACGAATGCTCTTCGAGACTTAGCCCGGATACATCACT
1 AGCACGAATGCTCTTCGAGACTTAGCCCGGATACATCACT
24478435 AGCACGAATGCTCTTCGAGACTTAGCCCGGATACATCACT
1 AGCACGAATGCTCTTCGAGACTTAGCCCGGATACATCACT
24478475 AGCACGAATGCTCTTCGAGACTTAGCCCGGATACATCACT
1 AGCACGAATGCTCTTCGAGACTTAGCCCGGATACATCACT
*
24478515 AGCACGAATGCTCTTCGAGACTTAGCCCGGATACATCGCT
1 AGCACGAATGCTCTTCGAGACTTAGCCCGGATACATCACT
* * *
24478555 AGCGCGAATGCTCTTCG-GAACTTAGACCGGATACATCGCT
1 AGCACGAATGCTCTTCGAG-ACTTAGCCCGGATACATCACT
*
24478595 AGCACGAATGCTCTTCG-GAACTTAGCCCGGATACATCGCT
1 AGCACGAATGCTCTTCGAG-ACTTAGCCCGGATACATCACT
*
24478635 AGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACT
1 AGCACGAATGCTCTTCGAGACTTAGCCCGGATACATCACT
*
24478675 AACACGAATGCTCTTCG-GAACTTAGCCCGGATACATCACT
1 AGCACGAATGCTCTTCGAG-ACTTAGCCCGGATACATCACT
* * *
24478715 AGCACGAATGCTCTTCGGGACTTAGCCCAGATATATCA
1 AGCACGAATGCTCTTCGAGACTTAGCCCGGATACATCA
24478753 TACTAAACTT
Statistics
Matches: 340, Mismatches: 13, Indels: 9
0.94 0.04 0.02
Matches are distributed among these distances:
39 13 0.04
40 325 0.96
41 2 0.01
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (40 bp):
AGCACGAATGCTCTTCGAGACTTAGCCCGGATACATCACT
Found at i:24479737 original size:37 final size:37
Alignment explanation
Indices: 24479616--24479726 Score: 177
Period size: 37 Copynumber: 3.0 Consensus size: 37
24479606 AGCTCAGATG
* * * *
24479616 AAATCTCCACACGAAGTTATCCGGTCTTACCCGAACA
1 AAATCTCCACACGTAGTCATCAGGTCTTACCCGGACA
*
24479653 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCAGGTCTTACCCGGACA
24479690 AAATCTCCACACGTAGTCATCAGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCAGGTCTTACCCGGACA
24479727 TAGTCACCAC
Statistics
Matches: 69, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.30, C:0.32, G:0.16, T:0.22
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCAGGTCTTACCCGGACA
Found at i:24479746 original size:37 final size:37
Alignment explanation
Indices: 24479616--24479754 Score: 136
Period size: 37 Copynumber: 3.8 Consensus size: 37
24479606 AGCTCAGATG
* * * *
24479616 AAATCTCCACACGA-AGTTATCCGGTCTTACCCGAACA
1 AAATCACCACAC-ATAGTCATCAGGTCTTACCCGGACA
* * *
24479653 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCACCACACATAGTCATCAGGTCTTACCCGGACA
* *
24479690 AAATCTCCACACGTAGTCATCAGGTCTTACCCGGACA
1 AAATCACCACACATAGTCATCAGGTCTTACCCGGACA
* * * * *
24479727 TAGTCACCACATATGGTCATCTGGTCTT
1 AAATCACCACACATAGTCATCAGGTCTT
24479755 TAATCCCAGG
Statistics
Matches: 89, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
37 89 1.00
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.24
Consensus pattern (37 bp):
AAATCACCACACATAGTCATCAGGTCTTACCCGGACA
Found at i:24479746 original size:74 final size:74
Alignment explanation
Indices: 24479616--24479754 Score: 179
Period size: 74 Copynumber: 1.9 Consensus size: 74
24479606 AGCTCAGATG
* * * *
24479616 AAATCTCCACACGAAGTTATCCGGTCTTACCCGAACAAAATCTCCACACGTAGTCATCGGGTCTT
1 AAATCTCCACACGAAGTCATCAGGTCTTACCCGAACAAAATCACCACACATAGTCATCGGGTCTT
24479681 ACCCGGACA
66 ACCCGGACA
* * * * * * *
24479690 AAATCTCCACACGTAGTCATCAGGTCTTACCCGGACATAGTCACCACATATGGTCATCTGGTCTT
1 AAATCTCCACACGAAGTCATCAGGTCTTACCCGAACAAAATCACCACACATAGTCATCGGGTCTT
24479755 TAATCCCAGG
Statistics
Matches: 54, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
74 54 1.00
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.24
Consensus pattern (74 bp):
AAATCTCCACACGAAGTCATCAGGTCTTACCCGAACAAAATCACCACACATAGTCATCGGGTCTT
ACCCGGACA
Found at i:24479963 original size:46 final size:46
Alignment explanation
Indices: 24479900--24480045 Score: 159
Period size: 46 Copynumber: 3.1 Consensus size: 46
24479890 GCCACAATAT
* * * *
24479900 ATATATACACATCTCATACATATCTCACATTAGCCATTTGGCTTTACC
1 ATATAT-C-CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACC
* * *
24479948 ATATATCCATCTCATACACGTTTCGCATTTGCCATTCGACTTTACC
1 ATATATCCATCTCATACACATTTCGCATTAGCCATTCGGCTTTACC
* * *
24479994 -TCATATCTATCTCATACACATTTCGTATTAGCCATTCGGCCTTACC
1 AT-ATATCCATCTCATACACATTTCGCATTAGCCATTCGGCTTTACC
*
24480040 ACATAT
1 ATATAT
24480046 ATGCATGTTC
Statistics
Matches: 82, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
45 1 0.01
46 74 0.90
47 1 0.01
48 6 0.07
ACGTcount: A:0.27, C:0.29, G:0.08, T:0.36
Consensus pattern (46 bp):
ATATATCCATCTCATACACATTTCGCATTAGCCATTCGGCTTTACC
Found at i:24480080 original size:47 final size:47
Alignment explanation
Indices: 24480024--24480230 Score: 342
Period size: 47 Copynumber: 4.4 Consensus size: 47
24480014 TTTCGTATTA
* * *
24480024 GCCATTCGGCCTTACCACATATATGCATGTTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTG
* *
24480071 GCCATTCGGCCTTATCACACATACGCACGTTCACATTCATCAGATTG
1 GCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTG
* *
24480118 GCCATTCGGCCTTATCACACATACGCGTGTTCACATTGATCACATTG
1 GCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTG
*
24480165 GCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTG
24480212 GCCATTCGGCCTTATCACA
1 GCCATTCGGCCTTATCACA
24480231 NNNNNNNNNN
Statistics
Matches: 148, Mismatches: 12, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
47 148 1.00
ACGTcount: A:0.25, C:0.31, G:0.14, T:0.30
Consensus pattern (47 bp):
GCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTG
Found at i:24480183 original size:22 final size:22
Alignment explanation
Indices: 24480156--24480230 Score: 57
Period size: 22 Copynumber: 3.3 Consensus size: 22
24480146 GTTCACATTG
24480156 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* *
24480178 ATCACACATAT-G-CATGTTC-ACATT
1 AT--CACAT-TGGCCA--TTCGGCCTT
24480202 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
24480225 ATCACA
1 ATCACA
24480231 NNNNNNNNNN
Statistics
Matches: 40, Mismatches: 4, Indels: 18
0.65 0.06 0.29
Matches are distributed among these distances:
22 12 0.30
23 11 0.28
24 11 0.28
25 6 0.15
ACGTcount: A:0.25, C:0.31, G:0.13, T:0.31
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:24482235 original size:45 final size:45
Alignment explanation
Indices: 24482115--24482576 Score: 256
Period size: 45 Copynumber: 10.5 Consensus size: 45
24482105 ATTTGGCGTT
* * *
24482115 TCTGTATTAGACGAGGAGTAGATCGAAGATAGCAGATCTGACAT-
1 TCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATTTGACATC
* * *
24482159 TCATGTA-T---C--GAAGCAGATCGAAGAT-GACAGATTTGGCGTC
1 TC-TGTATTAGACGGGGAGCAGATCGAAGATAG-CAGATTTGACATC
*
24482199 TCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGACAT-
1 TCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATTTGACATC
* * *
24482243 TCATGTA-T---C--GAAGCAGATCGAAGAT-GACAGATTTGGCGTC
1 TC-TGTATTAGACGGGGAGCAGATCGAAGATAG-CAGATTTGACATC
* * * *
24482283 TCTGTATTAGACGGGGAGCAGATCAAAGATAGTAGATCTGACATT
1 TCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATTTGACATC
* * * * ** * *
24482328 TGTGTGTTTGTATC--GAAGCAGATAAAAAAT-GACAGATTTGCCATC
1 TCTGTATTAG-A-CGGGGAGCAGATCGAAGATAG-CAGATTTGACATC
* *
24482373 TCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGACATT
1 TCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATTTGACATC
* * * ** * * * *
24482418 TGTGTGTTTACATC--AAAGCAGACCGAAAAT-GACAGATTCGGCATC
1 TCTGT-ATTAGA-CGGGGAGCAGATCGAAGATAG-CAGATTTGACATC
*
24482463 TCTGTATTAGACGGGGAGCAGGTCGAAGATAGCAGATTTGACAT-
1 TCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATTTGACATC
* * * * *
24482507 TCGTGTGTTTACATC--GAAGCAGATCGAAGATAGCAAATTT-AGCGTC
1 TC-TGT-ATTAGA-CGGGGAGCAGATCGAAGATAGCAGATTTGA-CATC
*
24482553 TCTGTATTTGACGGGGAGCAGATC
1 TCTGTATTAGACGGGGAGCAGATC
24482577 AAGGATATTA
Statistics
Matches: 308, Mismatches: 71, Indels: 77
0.68 0.16 0.17
Matches are distributed among these distances:
38 2 0.01
39 55 0.18
40 6 0.02
41 2 0.01
43 5 0.02
44 19 0.06
45 201 0.65
46 15 0.05
47 3 0.01
ACGTcount: A:0.31, C:0.16, G:0.27, T:0.26
Consensus pattern (45 bp):
TCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATTTGACATC
Found at i:24482274 original size:39 final size:39
Alignment explanation
Indices: 24482134--24482267 Score: 146
Period size: 39 Copynumber: 3.3 Consensus size: 39
24482124 GACGAGGAGT
24482134 AGATCGAAGATAGCAGATCTGACATTCATGTATCGAAGC
1 AGATCGAAGATAGCAGATCTGACATTCATGTATCGAAGC
* * * *
24482173 AGATCGAAGAT-GACAGATTTGGCGTCTC-TGTATTAGACGGGGAGC
1 AGATCGAAGATAG-CAGATCTGACAT-TCATGTA-T---C--GAAGC
24482218 AGATCGAAGATAGCAGATCTGACATTCATGTATCGAAGC
1 AGATCGAAGATAGCAGATCTGACATTCATGTATCGAAGC
24482257 AGATCGAAGAT
1 AGATCGAAGAT
24482268 GACAGATTTG
Statistics
Matches: 77, Mismatches: 8, Indels: 20
0.73 0.08 0.19
Matches are distributed among these distances:
38 1 0.01
39 39 0.51
40 3 0.04
41 1 0.01
43 1 0.01
44 3 0.04
45 28 0.36
46 1 0.01
ACGTcount: A:0.34, C:0.16, G:0.27, T:0.23
Consensus pattern (39 bp):
AGATCGAAGATAGCAGATCTGACATTCATGTATCGAAGC
Found at i:24482289 original size:39 final size:39
Alignment explanation
Indices: 24482162--24482289 Score: 134
Period size: 39 Copynumber: 3.1 Consensus size: 39
24482152 CTGACATTCA
24482162 TGTATCGAAGCAGATCGAAGATGACAGATTTGGCGTCTC
1 TGTATCGAAGCAGATCGAAGATGACAGATTTGGCGTCTC
* * * *
24482201 TGTATTAGACGGGGAGCAGATCGAAGAT-AGCAGATCTGACAT-TC
1 TGTA-T---C--GAAGCAGATCGAAGATGA-CAGATTTGGCGTCTC
24482245 ATGTATCGAAGCAGATCGAAGATGACAGATTTGGCGTCTC
1 -TGTATCGAAGCAGATCGAAGATGACAGATTTGGCGTCTC
24482285 TGTAT
1 TGTAT
24482290 TAGACGGGGA
Statistics
Matches: 71, Mismatches: 8, Indels: 20
0.72 0.08 0.20
Matches are distributed among these distances:
39 33 0.46
40 4 0.06
41 1 0.01
43 1 0.01
44 4 0.06
45 28 0.39
ACGTcount: A:0.30, C:0.16, G:0.28, T:0.26
Consensus pattern (39 bp):
TGTATCGAAGCAGATCGAAGATGACAGATTTGGCGTCTC
Found at i:24482390 original size:90 final size:90
Alignment explanation
Indices: 24482103--24482576 Score: 587
Period size: 90 Copynumber: 5.4 Consensus size: 90
24482093 TGTCACAAGT
* * * **
24482103 AGATTTGGCGTTTCTGTATTAGACGAGGAGTAGATCGAAGATAGCAGATCTGACA----T-T-CA
1 AGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGACATTTGTGTGTT
24482162 TGTATCGAAGCAGATCGAAGATGAC
66 TGTATCGAAGCAGATCGAAGATGAC
**
24482187 AGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGACA----T-T-CA
1 AGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGACATTTGTGTGTT
24482246 TGTATCGAAGCAGATCGAAGATGAC
66 TGTATCGAAGCAGATCGAAGATGAC
* *
24482271 AGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCAAAGATAGTAGATCTGACATTTGTGTGTT
1 AGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGACATTTGTGTGTT
** *
24482336 TGTATCGAAGCAGATAAAAAATGAC
66 TGTATCGAAGCAGATCGAAGATGAC
* *
24482361 AGATTTGCCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGACATTTGTGTGTT
1 AGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGACATTTGTGTGTT
** * * *
24482426 TACATCAAAGCAGACCGAAAATGAC
66 TGTATCGAAGCAGATCGAAGATGAC
* * * * *
24482451 AGATTCGGCATCTCTGTATTAGACGGGGAGCAGGTCGAAGATAGCAGATTTGACATTCGTGTGTT
1 AGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGACATTTGTGTGTT
**
24482516 TACATCGAAGCAGATCGAAGAT-AGC
66 TGTATCGAAGCAGATCGAAGATGA-C
* * *
24482541 AAATTTAGCGTCTCTGTATTTGACGGGGAGCAGATC
1 AGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATC
24482577 AAGGATATTA
Statistics
Matches: 349, Mismatches: 34, Indels: 8
0.89 0.09 0.02
Matches are distributed among these distances:
84 134 0.38
88 1 0.00
89 2 0.01
90 212 0.61
ACGTcount: A:0.31, C:0.16, G:0.27, T:0.26
Consensus pattern (90 bp):
AGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGACATTTGTGTGTT
TGTATCGAAGCAGATCGAAGATGAC
Found at i:24483951 original size:29 final size:29
Alignment explanation
Indices: 24483919--24483975 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
24483909 TTTTAATCCT
*
24483919 TTTTAAATTTTTTATATATGATTTATTTA
1 TTTTAAATATTTTATATATGATTTATTTA
*
24483948 TTTTAAATATTTTATATATTATTTATTT
1 TTTTAAATATTTTATATATGATTTATTT
24483976 TTACTATAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.67
Consensus pattern (29 bp):
TTTTAAATATTTTATATATGATTTATTTA
Found at i:24484037 original size:24 final size:23
Alignment explanation
Indices: 24484009--24484146 Score: 93
Period size: 23 Copynumber: 6.3 Consensus size: 23
24483999 TGTAAAAAAT
*
24484009 TATTATATATTATTTTTATTTATG
1 TATTATATATTA-TATTATTTATG
* *
24484033 TATTATTTATTATATTATTTATA
1 TATTATATATTATATTATTTATG
* *
24484056 TTTTAT-TATATATATTATTCAT-
1 TATTATATAT-TATATTATTTATG
24484078 TA-TAT-TATT-T-TTATTTCAT-
1 TATTATATATTATATTATTT-ATG
24484097 TATATATTATATTATATTATATTA--
1 TAT-TA-TATATTATATTAT-TTATG
24484121 TATTATA-ATT-TATTATTTAT-
1 TATTATATATTATATTATTTATG
24484141 TATTAT
1 TATTAT
24484147 GTATAATTTT
Statistics
Matches: 97, Mismatches: 7, Indels: 24
0.76 0.05 0.19
Matches are distributed among these distances:
18 5 0.05
19 8 0.08
20 13 0.13
21 11 0.11
22 7 0.07
23 31 0.32
24 15 0.15
25 5 0.05
26 2 0.02
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.64
Consensus pattern (23 bp):
TATTATATATTATATTATTTATG
Found at i:24484050 original size:5 final size:5
Alignment explanation
Indices: 24484014--24484146 Score: 95
Period size: 5 Copynumber: 26.6 Consensus size: 5
24484004 AAAATTATTA
* *
24484014 TATAT TAT-T TTTAT T-TAT GTATTAT T-TAT TATAT TAT-T TATAT TTTAT
1 TATAT TATAT TATAT TATAT -TA-TAT TATAT TATAT TATAT TATAT TATAT
*
24484062 TATA- TATAT TATTCAT TATAT TAT-T TTTAT T-TCATT ATATAT TATAT
1 TATAT TATAT TA-T-AT TATAT TATAT TATAT TAT-A-T -TATAT TATAT
24484109 TATAT TATAT TATAT TATAAT T-TAT TAT-T TATTAT TAT
1 TATAT TATAT TATAT TAT-AT TATAT TATAT TA-TAT TAT
24484147 GTATAATTTT
Statistics
Matches: 106, Mismatches: 4, Indels: 36
0.73 0.03 0.25
Matches are distributed among these distances:
4 28 0.26
5 57 0.54
6 11 0.10
7 9 0.08
8 1 0.01
ACGTcount: A:0.33, C:0.02, G:0.01, T:0.65
Consensus pattern (5 bp):
TATAT
Found at i:24484072 original size:35 final size:35
Alignment explanation
Indices: 24484008--24484146 Score: 153
Period size: 35 Copynumber: 4.0 Consensus size: 35
24483998 ATGTAAAAAA
*
24484008 TTATTATA-TA-TTAT-TTTTATT-TATGTATTAT
1 TTATTATATTATTTATATTTTATTATATATATTAT
24484039 TTATTATATTATTTATATTTTATTATATATATTAT
1 TTATTATATTATTTATATTTTATTATATATATTAT
* * *
24484074 TCATTATATTATTTTTATTTCATTATATAT-TATAT
1 TTATTATATTATTTATATTTTATTATATATAT-TAT
* *
24484109 TATATTATATTATATTATAATTTATTATTTATTATTAT
1 T-TATTATATTAT-TTATATTTTATTATATA-TATTAT
24484147 GTATAATTTT
Statistics
Matches: 90, Mismatches: 9, Indels: 11
0.82 0.08 0.10
Matches are distributed among these distances:
31 8 0.09
32 2 0.02
33 4 0.04
34 8 0.09
35 40 0.44
36 10 0.11
37 13 0.14
38 4 0.04
39 1 0.01
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.65
Consensus pattern (35 bp):
TTATTATATTATTTATATTTTATTATATATATTAT
Found at i:24484144 original size:7 final size:7
Alignment explanation
Indices: 24484008--24484144 Score: 99
Period size: 7 Copynumber: 19.1 Consensus size: 7
24483998 ATGTAAAAAA
24484008 TTATTAT
1 TTATTAT
*
24484015 ATATTAT
1 TTATTAT
24484022 TT-TTAT
1 TTATTAT
24484028 TTATGTA-
1 TTAT-TAT
24484035 TTATTTAT
1 TTA-TTAT
24484043 TATATTAT
1 T-TATTAT
24484051 TTA-TATT
1 TTATTA-T
24484058 TTATTAT
1 TTATTAT
*
24484065 ATA-TA-
1 TTATTAT
24484070 TTATTCAT
1 TTATT-AT
24484078 TATATTAT
1 T-TATTAT
24484086 TT-TTAT
1 TTATTAT
24484092 TTCATTAT
1 TT-ATTAT
*
24484100 ATATTAT
1 TTATTAT
24484107 ATTA-TAT
1 -TTATTAT
24484114 TATATTAT
1 T-TATTAT
*
24484122 ATTATAAT
1 -TTATTAT
24484130 TTATTAT
1 TTATTAT
24484137 TTATTAT
1 TTATTAT
24484144 T
1 T
24484145 ATGTATAATT
Statistics
Matches: 105, Mismatches: 8, Indels: 34
0.71 0.05 0.23
Matches are distributed among these distances:
5 2 0.02
6 18 0.17
7 48 0.46
8 30 0.29
9 7 0.07
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.65
Consensus pattern (7 bp):
TTATTAT
Found at i:24484481 original size:16 final size:17
Alignment explanation
Indices: 24484456--24484498 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
24484446 GTTCATAATT
* *
24484456 TATTGATTTAT-TTTCG
1 TATTGTTTTATATTTAG
*
24484472 TATTTTTTTATATTTAG
1 TATTGTTTTATATTTAG
24484489 TATTGTTTTA
1 TATTGTTTTA
24484499 GTATGTTAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 9 0.41
17 13 0.59
ACGTcount: A:0.21, C:0.02, G:0.09, T:0.67
Consensus pattern (17 bp):
TATTGTTTTATATTTAG
Found at i:24484545 original size:18 final size:19
Alignment explanation
Indices: 24484521--24484569 Score: 57
Period size: 18 Copynumber: 2.6 Consensus size: 19
24484511 TATCTCATAA
24484521 ATTATTTGTAT-TTTTTAT
1 ATTATTTGTATGTTTTTAT
* *
24484539 GTTATTTAT-TGTTTTTAT
1 ATTATTTGTATGTTTTTAT
24484557 ATATATTTGTATG
1 AT-TATTTGTATG
24484570 GAAATTGATC
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
17 1 0.04
18 15 0.62
19 6 0.25
20 2 0.08
ACGTcount: A:0.22, C:0.00, G:0.10, T:0.67
Consensus pattern (19 bp):
ATTATTTGTATGTTTTTAT
Found at i:24504297 original size:14 final size:15
Alignment explanation
Indices: 24504271--24504302 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
24504261 GTTGGTGTGA
24504271 AAAATAGAATAAAAT
1 AAAATAGAATAAAAT
24504286 AAAATA-AATAAAAT
1 AAAATAGAATAAAAT
24504300 AAA
1 AAA
24504303 GAACACACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.19
Consensus pattern (15 bp):
AAAATAGAATAAAAT
Found at i:24508729 original size:5 final size:5
Alignment explanation
Indices: 24508719--24508750 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
24508709 CAATTTGTGA
24508719 AAAAT AAAAT AAAAT AAAAT -AAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
24508751 GAACACACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:24508744 original size:9 final size:9
Alignment explanation
Indices: 24508720--24508750 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
24508710 AATTTGTGAA
24508720 AAATAAAAT
1 AAATAAAAT
24508729 AAAATAAAAT
1 -AAATAAAAT
24508739 AAATAAAAT
1 AAATAAAAT
24508748 AAA
1 AAA
24508751 GAACACACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (9 bp):
AAATAAAAT
Found at i:24513943 original size:21 final size:24
Alignment explanation
Indices: 24513901--24513945 Score: 60
Period size: 21 Copynumber: 2.0 Consensus size: 24
24513891 TTCATAACAT
*
24513901 ATATTAAATTATTTTTCTATTCAA
1 ATATTAAATTATTTATCTATTCAA
24513925 ATATT-AATT-TTTATC-ATTCAA
1 ATATTAAATTATTTATCTATTCAA
24513946 TTGCTATTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 6 0.30
22 5 0.25
23 4 0.20
24 5 0.25
ACGTcount: A:0.38, C:0.09, G:0.00, T:0.53
Consensus pattern (24 bp):
ATATTAAATTATTTATCTATTCAA
Found at i:24517604 original size:18 final size:18
Alignment explanation
Indices: 24517562--24517604 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
24517552 GCCCATTCCG
*
24517562 AAGTATATATATATACAT
1 AAGTATGTATATATACAT
24517580 ATA-TATGTATATATACAT
1 A-AGTATGTATATATACAT
24517598 AAGTATG
1 AAGTATG
24517605 CCCATTCGTG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 1 0.05
18 20 0.91
19 1 0.05
ACGTcount: A:0.47, C:0.05, G:0.09, T:0.40
Consensus pattern (18 bp):
AAGTATGTATATATACAT
Found at i:24518210 original size:27 final size:28
Alignment explanation
Indices: 24518072--24518197 Score: 209
Period size: 28 Copynumber: 4.5 Consensus size: 28
24518062 TAAATTGTAC
*
24518072 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGCTTGATTATAT
*
24518100 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGCTTGATTATAT
*
24518128 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGCTTGATTATAT
24518156 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGCTTGATTATAT
*
24518183 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
24518198 GACTTAATAT
Statistics
Matches: 95, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
27 24 0.25
28 71 0.75
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGCTTGATTATAT
Found at i:24528698 original size:43 final size:43
Alignment explanation
Indices: 24528651--24528733 Score: 105
Period size: 43 Copynumber: 1.9 Consensus size: 43
24528641 GTAAATCTAG
* * *
24528651 CAACCCATGTTTATCTTTTCCT-TTTTTAAAATTATTTTTTCAA
1 CAACCCAAGATTATCTTCTCCTCTTTTT-AAATTATTTTTTCAA
* *
24528694 CAACCTAAGATTATCTTCTCCTCTTTTTAAATTCTTTTTT
1 CAACCCAAGATTATCTTCTCCTCTTTTTAAATTATTTTTT
24528734 TTCTAGGATA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
43 29 0.85
44 5 0.15
ACGTcount: A:0.24, C:0.20, G:0.02, T:0.53
Consensus pattern (43 bp):
CAACCCAAGATTATCTTCTCCTCTTTTTAAATTATTTTTTCAA
Found at i:24540858 original size:30 final size:30
Alignment explanation
Indices: 24540777--24540859 Score: 130
Period size: 30 Copynumber: 2.8 Consensus size: 30
24540767 TCCTTCACTA
*
24540777 ATATCTCATTCAGGAGCTTGGAAAGACCCG
1 ATATCTCATTCAGGAGCTTGGGAAGACCCG
**
24540807 ATATCTCATTCAGGAGCTTGGGAAGACTTG
1 ATATCTCATTCAGGAGCTTGGGAAGACCCG
*
24540837 ATATCTCATTCAGGATCTTGGGA
1 ATATCTCATTCAGGAGCTTGGGA
24540860 TTGAGAAGAC
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 49 1.00
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (30 bp):
ATATCTCATTCAGGAGCTTGGGAAGACCCG
Found at i:24540875 original size:36 final size:36
Alignment explanation
Indices: 24540828--24540931 Score: 127
Period size: 36 Copynumber: 2.9 Consensus size: 36
24540818 AGGAGCTTGG
* *
24540828 GAAGACTTGATATCTCATTCAGGATCTTGGGATTGA
1 GAAGACTTGATATCTCATTAAAGATCTTGGGATTGA
*
24540864 GAAGACTTGATATCTCGTTAAAGATCTTGGGATTGA
1 GAAGACTTGATATCTCATTAAAGATCTTGGGATTGA
* * * * * *
24540900 AAAAACCTGATATCTCGTTTAAGAGCTTGGGA
1 GAAGACTTGATATCTCATTAAAGATCTTGGGA
24540932 AGATATGATA
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 60 1.00
ACGTcount: A:0.31, C:0.13, G:0.24, T:0.32
Consensus pattern (36 bp):
GAAGACTTGATATCTCATTAAAGATCTTGGGATTGA
Found at i:24545484 original size:13 final size:13
Alignment explanation
Indices: 24545466--24545492 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
24545456 GTATGCTGTC
24545466 TCATCAATGGACT
1 TCATCAATGGACT
24545479 TCATCAATGGACT
1 TCATCAATGGACT
24545492 T
1 T
24545493 AATGTATGCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.22, G:0.15, T:0.33
Consensus pattern (13 bp):
TCATCAATGGACT
Found at i:24549644 original size:23 final size:22
Alignment explanation
Indices: 24549618--24549660 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
24549608 TTTTTTCACA
24549618 TATTATTCATTTTAAAATTGTCT
1 TATTATTCATTTT-AAATTGTCT
* *
24549641 TATTGTTTATTTTAAATTGT
1 TATTATTCATTTTAAATTGT
24549661 TTGATGTCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.28, C:0.05, G:0.07, T:0.60
Consensus pattern (22 bp):
TATTATTCATTTTAAATTGTCT
Found at i:24553347 original size:19 final size:20
Alignment explanation
Indices: 24553303--24553347 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
24553293 ACGCCTCTTT
*
24553303 TGCATT-CATTTCATTCATT
1 TGCATTACATTTCATTCATA
24553322 TGCATTACATTTCA-TCATA
1 TGCATTACATTTCATTCATA
*
24553341 TGTATTA
1 TGCATTA
24553348 AGTTTCGTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.27, C:0.18, G:0.07, T:0.49
Consensus pattern (20 bp):
TGCATTACATTTCATTCATA
Found at i:24555469 original size:29 final size:28
Alignment explanation
Indices: 24555419--24555476 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 28
24555409 GTGCCAAGAG
24555419 TCATAATCCAGAAACCTGTATCCTTTCCC
1 TCATAATCCAGAAACCTGTATCC-TTCCC
* *
24555448 TCATAATTCAGAAGCC-GATATCCTTCCC
1 TCATAATCCAGAAACCTG-TATCCTTCCC
24555476 T
1 T
24555477 TACAAGGATA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 7 0.27
29 19 0.73
ACGTcount: A:0.28, C:0.33, G:0.09, T:0.31
Consensus pattern (28 bp):
TCATAATCCAGAAACCTGTATCCTTCCC
Found at i:24561660 original size:43 final size:43
Alignment explanation
Indices: 24561561--24561851 Score: 180
Period size: 43 Copynumber: 6.6 Consensus size: 43
24561551 AAGCCACAGA
* * * * * *
24561561 TCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATAG-CAAA-
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAAGTTAAAG
* * * * *
24561602 CCTTATCTCCTTGAAGTAGCAGTGGAGTAGGTTGAAGTTAAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAAGTTAAAG
** * *
24561645 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAA-
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAAGTTA---AAG
* * * *
24561690 TCTTATTTCACTGAAGTTGCAGTGGAACAGATTAAAGCTATAAATAAACAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAAG---T---T-AA-AG
* * * * *
24561741 ATCTTATCTCTCT-AGAGTTGCAGTGGAGCAGATCATAG-CAAA-
1 -TCTTATCTCCCTGA-AGTTGCAGTGGAGCAGGTTAAAGTTAAAG
* *
24561783 CCTTATCTCCCTGAAGTAGCAGTGGAGCAGGTTAAAGTTAAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAAGTTAAAG
*
24561826 TCTTATCTCCCTGAAGTTGTAGTGGA
1 TCTTATCTCCCTGAAGTTGCAGTGGA
24561852 ACAGACTAAA
Statistics
Matches: 191, Mismatches: 40, Indels: 36
0.72 0.15 0.13
Matches are distributed among these distances:
41 56 0.29
42 7 0.04
43 57 0.30
44 2 0.01
45 32 0.17
46 2 0.01
49 1 0.01
50 1 0.01
51 2 0.01
52 31 0.16
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.29
Consensus pattern (43 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAAGTTAAAG
Found at i:24561675 original size:84 final size:83
Alignment explanation
Indices: 24561561--24561856 Score: 306
Period size: 84 Copynumber: 3.4 Consensus size: 83
24561551 AAGCCACAGA
* *
24561561 TCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATAGCAAACCTTATCTCCTTGAAGTAGCAGTG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCATAGCAAACCTTATCTCC-TGAAGTAGCAGTG
* *
24561626 GAGTAGGTTGAAGTTAAAG
65 GAGCAGGTTAAAGTTAAAG
* * * * *
24561645 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAATCTTATTTCACTGAAGTTGC
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-T---CATAGCAAACCTTATCTC-CTGAAGTAGC
* *
24561710 AGTGGAACAGATTAAAGCTATAAATAAACAG
61 AGTGGAGCAGGTTAAAG---T---T-AA-AG
*
24561741 ATCTTATCTCTCT-AGAGTTGCAGTGGAGCAGATCATAGCAAACCTTATCTCCCTGAAGTAGCAG
1 -TCTTATCTCCCTGA-AGTTGCAGTGGAGCAGATCATAGCAAACCTTATCT-CCTGAAGTAGCAG
24561805 TGGAGCAGGTTAAAGTTAAAG
63 TGGAGCAGGTTAAAGTTAAAG
* *
24561826 TCTTATCTCCCTGAAGTTGTAGTGGAACAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
24561857 CTAAAGACAA
Statistics
Matches: 173, Mismatches: 22, Indels: 34
0.76 0.10 0.15
Matches are distributed among these distances:
84 55 0.32
85 4 0.02
86 2 0.01
87 1 0.01
88 35 0.20
89 1 0.01
90 1 0.01
91 1 0.01
93 37 0.21
94 2 0.01
95 2 0.01
96 4 0.02
97 28 0.16
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (83 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCATAGCAAACCTTATCTCCTGAAGTAGCAGTGG
AGCAGGTTAAAGTTAAAG
Found at i:24561818 original size:93 final size:95
Alignment explanation
Indices: 24561645--24561819 Score: 221
Period size: 93 Copynumber: 1.8 Consensus size: 95
24561635 GAAGTTAAAG
* * * * *
24561645 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAATCTTATTTCACTGAAGTTGC
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT--ACATAGCAAACCTTATCTCACTGAAGTAGC
24561710 AGTGGAACAGATTAAAGCTATAAATAAACAGA
64 AGTGGAACAGATTAAAGCTATAAATAAACAGA
* *
24561742 TCTTATCTCTCT-AGAGTTGCAGTGGAGCAGA-T-CATAGCAAACCTTATCTCCCTGAAGTAGCA
1 TCTTATCTCCCTGA-AGTTGCAGTGGAGCAGACTACATAGCAAACCTTATCTCACTGAAGTAGCA
* *
24561804 GTGGAGCAGGTTAAAG
65 GTGGAACAGATTAAAG
24561820 TTAAAGTCTT
Statistics
Matches: 68, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
93 38 0.56
96 2 0.03
97 28 0.41
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (95 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTACATAGCAAACCTTATCTCACTGAAGTAGCAG
TGGAACAGATTAAAGCTATAAATAAACAGA
Found at i:24561896 original size:181 final size:181
Alignment explanation
Indices: 24561556--24561901 Score: 523
Period size: 181 Copynumber: 1.9 Consensus size: 181
24561546 AATTGAAGCC
*
24561556 ACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATAGCAAACCTTATCTCCTTGAAGTAG
1 ACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATAGCAAACCTTATCTCCCTGAAGTAG
* * * * * *
24561621 CAGTGGAGTAGGTTGAAGTTAAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAG
66 CAGTGGAGCAGGTTAAAGTTAAAGTCTTATCTCCCTGAAGTTGCAGTGGAACAGACTAAAGACAA
* * * * **
24561686 CGAATCTTATTTCACTGAAGTTGCAGTGGAACAGATTAAAGCTATAAATAA
131 CAAATCTCATCTCACTAAAGTAACAGTGGAACAGATTAAAGCTATAAATAA
*
24561737 ACAGATCTTATCTCTCT-AGAGTTGCAGTGGAGCAGATCATAGCAAACCTTATCTCCCTGAAGTA
1 ACAGATCTTATCTCTCTGA-AGTTGCAGTAGAGCAGATCATAGCAAACCTTATCTCCCTGAAGTA
*
24561801 GCAGTGGAGCAGGTTAAAGTTAAAGTCTTATCTCCCTGAAGTTGTAGTGGAACAGACTAAAGACA
65 GCAGTGGAGCAGGTTAAAGTTAAAGTCTTATCTCCCTGAAGTTGCAGTGGAACAGACTAAAGACA
* *
24561866 ACAAATCTCATCTCCCTAAAGTAACAGTGGAGCAGA
130 ACAAATCTCATCTCACTAAAGTAACAGTGGAACAGA
24561902 GTGAAAACAC
Statistics
Matches: 147, Mismatches: 17, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
180 1 0.01
181 146 0.99
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.27
Consensus pattern (181 bp):
ACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATAGCAAACCTTATCTCCCTGAAGTAG
CAGTGGAGCAGGTTAAAGTTAAAGTCTTATCTCCCTGAAGTTGCAGTGGAACAGACTAAAGACAA
CAAATCTCATCTCACTAAAGTAACAGTGGAACAGATTAAAGCTATAAATAA
Found at i:24561939 original size:44 final size:44
Alignment explanation
Indices: 24561826--24561966 Score: 131
Period size: 44 Copynumber: 3.2 Consensus size: 44
24561816 AAAGTTAAAG
*
24561826 TCTTATCTCCCTGAAGTTGTAGTGGAACAGACT-AAAGACAACAAA
1 TCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTGAAA-AC-ACAAA
* * *** * * *
24561871 TCTCATCTCCCTAAAGTAACAGTGGAGCAGAGTGAAAACACCAG
1 TCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTGAAAACACAAA
* * * * *
24561915 TCTTATCTCTCTGAAGTTGTAGTGGAGCAAATTGAAACCACTAA
1 TCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTGAAAACACAAA
24561959 TCTTATCT
1 TCTTATCT
24561967 AAAGTTGCAG
Statistics
Matches: 75, Mismatches: 20, Indels: 3
0.77 0.20 0.03
Matches are distributed among these distances:
44 44 0.59
45 28 0.37
46 3 0.04
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.27
Consensus pattern (44 bp):
TCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTGAAAACACAAA
Found at i:24564047 original size:23 final size:22
Alignment explanation
Indices: 24564021--24564063 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
24564011 TTTTTTCACA
24564021 TATTATTCATTTTAAAATTGTCT
1 TATTATTCATTTT-AAATTGTCT
* *
24564044 TATTGTTTATTTTAAATTGT
1 TATTATTCATTTTAAATTGT
24564064 TTGATGTCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.28, C:0.05, G:0.07, T:0.60
Consensus pattern (22 bp):
TATTATTCATTTTAAATTGTCT
Found at i:24570254 original size:21 final size:20
Alignment explanation
Indices: 24570225--24570282 Score: 80
Period size: 21 Copynumber: 2.8 Consensus size: 20
24570215 TGAGATAGCC
24570225 CACATGGCCGTGTGAGTGGG
1 CACATGGCCGTGTGAGTGGG
* *
24570245 TCACAGGGCCGTGTGAATGGG
1 -CACATGGCCGTGTGAGTGGG
24570266 CGACATGGCCGTGTGAG
1 C-ACATGGCCGTGTGAG
24570283 CAAACCGTGT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
20 1 0.03
21 31 0.97
ACGTcount: A:0.17, C:0.21, G:0.43, T:0.19
Consensus pattern (20 bp):
CACATGGCCGTGTGAGTGGG
Found at i:24575293 original size:18 final size:19
Alignment explanation
Indices: 24575259--24575295 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
24575249 GAGGATACAA
24575259 GCGTGTCCGAGCCACACGG
1 GCGTGTCCGAGCCACACGG
*
24575278 GCGTGTGCGA-CCACACGG
1 GCGTGTCCGAGCCACACGG
24575296 CTTACCCACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.16, C:0.35, G:0.38, T:0.11
Consensus pattern (19 bp):
GCGTGTCCGAGCCACACGG
Found at i:24577596 original size:46 final size:46
Alignment explanation
Indices: 24577538--24577660 Score: 167
Period size: 46 Copynumber: 2.7 Consensus size: 46
24577528 TATGTATGCT
* * *
24577538 AGTGTAAGACATGTCTAGGACATGCATCGGCCA-CAATATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAG-CATCAATACGAGAGCC
* ** *
24577584 AGTGTAAAACATGTCTGGGACATGCATCAGCATTGATACGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCATCAATACGAGAGCC
24577630 AGTGTAAGACATGTCTGGGACATGCATCAGC
1 AGTGTAAGACATGTCTGGGACATGCATCAGC
24577661 CTCGCGATGT
Statistics
Matches: 68, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
45 2 0.03
46 66 0.97
ACGTcount: A:0.32, C:0.20, G:0.27, T:0.22
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCATCAATACGAGAGCC
Found at i:24593099 original size:43 final size:43
Alignment explanation
Indices: 24593051--24593200 Score: 169
Period size: 43 Copynumber: 3.5 Consensus size: 43
24593041 GTTACCAAGA
*
24593051 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
* *
24593094 TGTGATTACATGTAACACCATCTCTGGGACATTGGCATCGTTAT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCG-TAT
* * * * * *
24593138 T-CGATTTCATGTAAGACCTTGTCTAGGATAGTGGCATCG-AT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
* *
24593179 ATGTGATAACATGTAAAACCAT
1 -TGTGATTACATGTAAGACCAT
24593201 ATGTGGGATA
Statistics
Matches: 88, Mismatches: 16, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
41 2 0.02
42 1 0.01
43 81 0.92
44 4 0.05
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (43 bp):
TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
Found at i:24593208 original size:86 final size:85
Alignment explanation
Indices: 24593054--24593216 Score: 202
Period size: 86 Copynumber: 1.9 Consensus size: 85
24593044 ACCAAGATGT
* * * * * *
24593054 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTGTGATTACATGTAACACCATCTCT
1 GATTACATGTAAGACCATGTCTAGGACAGTGGCATCGTATTGTGATAACATGTAAAACCATATCT
24593119 GGGACATTGGCATCGTTATTC
66 GGGACA-TGGCATCGTTATTC
* * * *
24593140 GATTTCATGTAAGACCTTGTCTAGGATAGTGGCATCG-ATATGTGATAACATGTAAAACCATATG
1 GATTACATGTAAGACCATGTCTAGGACAGTGGCATCGTAT-TGTGATAACATGTAAAACCATATC
*
24593204 TGGGATATGGCAT
65 TGGGACATGGCAT
24593217 TGTACGAGCT
Statistics
Matches: 65, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
85 8 0.12
86 57 0.88
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.33
Consensus pattern (85 bp):
GATTACATGTAAGACCATGTCTAGGACAGTGGCATCGTATTGTGATAACATGTAAAACCATATCT
GGGACATGGCATCGTTATTC
Found at i:24604122 original size:27 final size:27
Alignment explanation
Indices: 24604092--24604269 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
24604082 ATATTGAGTC
* * * *
24604092 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
24604119 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
24604146 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
24604174 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
24604201 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
24604228 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
24604255 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
24604270 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:24604231 original size:82 final size:81
Alignment explanation
Indices: 24604113--24604268 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
24604103 TGCTATATAA
* *
24604113 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
24604178 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
24604195 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
24604259 CACTTAGTGC
65 CACTTAGTGC
24604269 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:24609446 original size:32 final size:32
Alignment explanation
Indices: 24609408--24609472 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
24609398 AAGATGGATG
24609408 GGAAAGAGCTATCTAACCCAGTGAACTCAGAT
1 GGAAAGAGCTATCTAACCCAGTGAACTCAGAT
*
24609440 GGAAAGAGTTATCTAACCCAGTGAACTCAGAT
1 GGAAAGAGCTATCTAACCCAGTGAACTCAGAT
24609472 G
1 G
24609473 CTGTAAAGAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.37, C:0.20, G:0.23, T:0.20
Consensus pattern (32 bp):
GGAAAGAGCTATCTAACCCAGTGAACTCAGAT
Found at i:24610453 original size:14 final size:13
Alignment explanation
Indices: 24610418--24610449 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
24610408 CATGCCGAGA
24610418 TATTTTCAATTTC
1 TATTTTCAATTTC
24610431 TATTTTCAATTTC
1 TATTTTCAATTTC
*
24610444 TGTTTT
1 TATTTT
24610450 TCAAAAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.19, C:0.12, G:0.03, T:0.66
Consensus pattern (13 bp):
TATTTTCAATTTC
Found at i:24610524 original size:90 final size:90
Alignment explanation
Indices: 24610349--24610526 Score: 241
Period size: 90 Copynumber: 2.0 Consensus size: 90
24610339 TGATATTTTT
* * * *
24610349 ATTTCTGTTTTTTAAAAAAATCAACTCATGTTGCGAGAGGTGAGTTGAGCCTCGGGACACATGCC
1 ATTTCTGTTTTTCAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGACACACGCC
*
24610414 GAGATATTTTCAATTTCTATTTTCA
66 GAGATATTTTCAATTCCTATTTTCA
* * * *
24610439 ATTTCTGTTTTTCAAAAAAATCAACTCATATTATGAGAGGTGAGTTGAGCCTTGGGTCACACGCT
1 ATTTCTGTTTTTCAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGACACACGCC
* *
24610504 GAGGTATCTTT-AGTTCCTATTTT
66 GAGATAT-TTTCAATTCCTATTTT
24610527 TCAAAAAATC
Statistics
Matches: 76, Mismatches: 11, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
90 73 0.96
91 3 0.04
ACGTcount: A:0.27, C:0.16, G:0.19, T:0.38
Consensus pattern (90 bp):
ATTTCTGTTTTTCAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGACACACGCC
GAGATATTTTCAATTCCTATTTTCA
Found at i:24610573 original size:76 final size:77
Alignment explanation
Indices: 24610446--24610599 Score: 229
Period size: 76 Copynumber: 2.0 Consensus size: 77
24610436 TCAATTTCTG
* ** **
24610446 TTTTTCAAAAAAATCAACTCATATTATGAGAGGTGAGTTGAGCCTTGGGTCACACGCTGAGGTAT
1 TTTTTCAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGGTCACACGCTGAAATAT
24610511 CTTTAGTTCCTA
66 CTTTAGTTCCTA
*
24610523 TTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCTGAAATAT
1 TTTTTCAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGGTCACACGCTGAAATAT
* *
24610587 TTTTAGTTTCTA
66 CTTTAGTTCCTA
24610599 T
1 T
24610600 CTACTCATAT
Statistics
Matches: 69, Mismatches: 8, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
76 63 0.91
77 6 0.09
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.34
Consensus pattern (77 bp):
TTTTTCAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGGTCACACGCTGAAATAT
CTTTAGTTCCTA
Found at i:24612512 original size:3 final size:3
Alignment explanation
Indices: 24612493--24612686 Score: 281
Period size: 3 Copynumber: 64.7 Consensus size: 3
24612483 TTATTTTCAA
* *
24612493 ATT ACTT ATT TTT ATT ATT ATT -TT ATGT -TGT -TT ATT ATT ACT ATT
1 ATT A-TT ATT ATT ATT ATT ATT ATT AT-T AT-T ATT ATT ATT ATT ATT
*
24612538 AATT ATA ATT -TCT A-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 -ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
24612583 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
24612631 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
24612679 ATT ATT AT
1 ATT ATT AT
24612687 ATAGTAGTGT
Statistics
Matches: 177, Mismatches: 6, Indels: 16
0.89 0.03 0.08
Matches are distributed among these distances:
2 6 0.03
3 164 0.93
4 7 0.04
ACGTcount: A:0.32, C:0.02, G:0.01, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:24612804 original size:9 final size:9
Alignment explanation
Indices: 24612788--24612821 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
24612778 TTTGTATTTC
24612788 AATATTATT
1 AATATTATT
*
24612797 ACTATTATT
1 AATATTATT
*
24612806 ATTATTATT
1 AATATTATT
24612815 AATATTA
1 AATATTA
24612822 GTGCATATTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (9 bp):
AATATTATT
Found at i:24612808 original size:139 final size:140
Alignment explanation
Indices: 24612651--24612968 Score: 356
Period size: 149 Copynumber: 2.2 Consensus size: 140
24612641 TTATTATTAT
* * * *
24612651 TATTATTATTATTATTATTATTATTATTATTATTA-TATAGTAGTGTATGT-T-TATTTATATAT
1 TATTATTACTATTATTATTATTATTATTATTATTATTATAGTA-TATATGTATGTATATATATAC
* * *
24612713 ATATGTATATATAGTATTATTTTTAATTACTTTATTTTAACATTATTATTATGTTATATTTACTT
65 ATATGTAAATATAGTATTATTTTTAATTACTTTATTTTAACATTATTATTATATTATATATACTT
24612778 TTTGTATTTCAA
130 TTTG-ATTTCAA
* *
24612790 TATTATTACTATTATTATTATTATTAATATTAGTGCATATTATTTTTATTATATATGTATGTATA
1 TATTATTACTATTATTATTATTA-T--TATTA-T---TATTA-TTATAGTATATATGTATGTATA
* * * * * *
24612855 TGTATACATATTTAAATATAGTATTATTTTTTATTACTTTATTTTGATATTTTTATTATATTATA
58 TATATACATATGTAAATATAGTATTATTTTTAATTACTTTATTTTAACATTATTATTATATTATA
*
24612920 TATGCTTTTTGATTTCAA
123 TATACTTTTTGATTTCAA
* *
24612938 TATTATTACTATTATCATCA-TATTATTATTA
1 TATTATTACTATTATTATTATTATTATTATTA
24612969 CCTTTTTTAC
Statistics
Matches: 150, Mismatches: 18, Indels: 21
0.79 0.10 0.11
Matches are distributed among these distances:
139 22 0.15
140 3 0.02
142 5 0.03
143 2 0.01
144 5 0.03
146 6 0.04
147 8 0.05
148 31 0.21
149 68 0.45
ACGTcount: A:0.32, C:0.04, G:0.05, T:0.58
Consensus pattern (140 bp):
TATTATTACTATTATTATTATTATTATTATTATTATTATAGTATATATGTATGTATATATATACA
TATGTAAATATAGTATTATTTTTAATTACTTTATTTTAACATTATTATTATATTATATATACTTT
TTGATTTCAA
Found at i:24612996 original size:3 final size:3
Alignment explanation
Indices: 24612988--24613014 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
24612978 CTATCCAATG
24612988 TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT
24613015 ATTTTCCTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:24613197 original size:22 final size:22
Alignment explanation
Indices: 24613176--24613224 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
24613166 CTTAGATTAT
*
24613176 TTATTATTTGT-CTTATCGTTA
1 TTATTATTTGTACTTACCGTTA
* *
24613197 TTACTATTTGTATTTACCGTTA
1 TTATTATTTGTACTTACCGTTA
24613219 TTATTA
1 TTATTA
24613225 CTATTATTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
21 10 0.43
22 13 0.57
ACGTcount: A:0.22, C:0.10, G:0.08, T:0.59
Consensus pattern (22 bp):
TTATTATTTGTACTTACCGTTA
Found at i:24613224 original size:3 final size:3
Alignment explanation
Indices: 24613216--24613309 Score: 72
Period size: 3 Copynumber: 32.3 Consensus size: 3
24613206 GTATTTACCG
* * *
24613216 TTA TTA TTA CTA TTA TTT TTA CTT- TTA TTA CTA TTA TTA TTA TTTA
1 TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA -TTA
* * * *
24613262 TTA TTA CTA TTA TTA TCA CTA TTA TT- TT- TTA TT- TT- TTA TTA CTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
24613306 TTA T
1 TTA T
24613310 CATTTTAAAA
Statistics
Matches: 72, Mismatches: 14, Indels: 10
0.75 0.15 0.10
Matches are distributed among these distances:
2 10 0.14
3 57 0.79
4 5 0.07
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:24613408 original size:12 final size:12
Alignment explanation
Indices: 24613391--24613424 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
24613381 ATGTTTCTAT
*
24613391 TATACATGTATA
1 TATACATATATA
*
24613403 TATACATATATT
1 TATACATATATA
24613415 TATACATATA
1 TATACATATA
24613425 GTATTATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.44, C:0.09, G:0.03, T:0.44
Consensus pattern (12 bp):
TATACATATATA
Found at i:24617279 original size:29 final size:29
Alignment explanation
Indices: 24617241--24617298 Score: 71
Period size: 30 Copynumber: 2.0 Consensus size: 29
24617231 GTCTAAGAGA
*
24617241 AAAAAAAAGGGAGAAAGGAAGTTTTTTTTT
1 AAAAAAAGGGGAGAAAGGAA-TTTTTTTTT
* * *
24617271 AAAACAAGGGGTGAAATGAATTTTTTTT
1 AAAAAAAGGGGAGAAAGGAATTTTTTTT
24617299 AGAAAATTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 8 0.33
30 16 0.67
ACGTcount: A:0.43, C:0.02, G:0.22, T:0.33
Consensus pattern (29 bp):
AAAAAAAGGGGAGAAAGGAATTTTTTTTT
Found at i:24617989 original size:17 final size:19
Alignment explanation
Indices: 24617966--24618008 Score: 58
Period size: 16 Copynumber: 2.5 Consensus size: 19
24617956 ATTATTATCG
24617966 TTATTATTTTATC-TTATT
1 TTATTATTTTATCGTTATT
24617984 TT-TTA--TTATCGTTATT
1 TTATTATTTTATCGTTATT
24618000 TTATTATTT
1 TTATTATTT
24618009 CTTTTATTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 7
0.75 0.00 0.25
Matches are distributed among these distances:
15 5 0.24
16 7 0.33
17 6 0.29
18 2 0.10
19 1 0.05
ACGTcount: A:0.21, C:0.05, G:0.02, T:0.72
Consensus pattern (19 bp):
TTATTATTTTATCGTTATT
Found at i:24618006 original size:29 final size:29
Alignment explanation
Indices: 24617954--24618019 Score: 91
Period size: 29 Copynumber: 2.3 Consensus size: 29
24617944 CTTTGCATAA
24617954 TTATTATTATCGTTATTATTTTATCTTATT
1 TTATTATTATCGTTATTATTTTAT-TTATT
*
24617984 TT-TTATTATCGTTATT-TTATTATTTCTT
1 TTATTATTATCGTTATTATT-TTATTTATT
24618012 TTATTATT
1 TTATTATT
24618020 TCCAGCACTT
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
28 8 0.24
29 23 0.70
30 2 0.06
ACGTcount: A:0.21, C:0.06, G:0.03, T:0.70
Consensus pattern (29 bp):
TTATTATTATCGTTATTATTTTATTTATT
Found at i:24620206 original size:15 final size:15
Alignment explanation
Indices: 24620174--24620202 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
24620164 ATTTTCAGTG
24620174 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
24620189 TTTA-TATGTGTGAA
1 TTTATTATGTGTGAA
24620203 ATTTTCGTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:24621480 original size:43 final size:41
Alignment explanation
Indices: 24621325--24621481 Score: 113
Period size: 43 Copynumber: 3.7 Consensus size: 41
24621315 TGTGTTCTCG
* * *
24621325 TGTAAGACCAAGTCTAGGATGTTGGCATCGGTATGTGATTTCGA
1 TGTAAGACCACGTCTGGGATGTTGGCATC-GAATGTGA-TTC-A
* * ** * *
24621369 -GTAAGACCATGTCTGGAACATTGCCATCGTAATTGTGATTCG
1 TGTAAGACCACGTCTGGGATGTTGGCATCG-AA-TGTGATTCA
*
24621411 TGTAAGACC-CTGTCTGGGACAG-TGGCATCGACATGTGATTACA
1 TGTAAGACCAC-GTCTGGGA-TGTTGGCATCGA-ATGTGATT-CA
*
24621454 TGTAAAACCACGTCTGGGATGTTGGCAT
1 TGTAAGACCACGTCTGGGATGTTGGCAT
24621482 TGTACAATAT
Statistics
Matches: 88, Mismatches: 16, Indels: 19
0.72 0.13 0.15
Matches are distributed among these distances:
42 10 0.11
43 72 0.82
44 6 0.07
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.29
Consensus pattern (41 bp):
TGTAAGACCACGTCTGGGATGTTGGCATCGAATGTGATTCA
Found at i:24628449 original size:343 final size:343
Alignment explanation
Indices: 24627823--24628510 Score: 1358
Period size: 343 Copynumber: 2.0 Consensus size: 343
24627813 AGAAAAAACG
24627823 GCTAGACTTGAATCACCTGTCAATGAGCTAGTAACTAAGAACGAGGCTAAGGAATTCTTTAAGTT
1 GCTAGACTTGAATCACCTGTCAATGAGCTAGTAACTAAGAACGAGGCTAAGGAATTCTTTAAGTT
24627888 CTTCAAACATAGCAAGTATAGTGTTGTAGAATAGTTGCACAAACTCGCATATCAGTATTAGCATT
66 CTTCAAACATAGCAAGTATAGTGTTGTAGAATAGTTGCACAAACTCGCATATCAGTATTAGCATT
*
24627953 GCTCTTAAGCTCAAAGATACATCGTAACGCGTTGATGAAGGTGTTAAATGAAATTTATGTCGCTG
131 GCTCTTAAGCTCAAAGATACATCGTAACGCGTTGATGAAGGTGTTAAATGAAATTTATGTCACTG
24628018 ATAATATCTCTGTAAACAAGCTAGATCATTTGGTTAACAATTTGAGTGCCAACAATTTCATCTTT
196 ATAATATCTCTGTAAACAAGCTAGATCATTTGGTTAACAATTTGAGTGCCAACAATTTCATCTTT
24628083 TTCAATGATGATGAAATACCTCCATAAGGCATGGGATCCACGAAGACTCTACACATCACTACCTA
261 TTCAATGATGATGAAATACCTCCATAAGGCATGGGATCCACGAAGACTCTACACATCACTACCTA
24628148 CTACAAAGGATATACATT
326 CTACAAAGGATATACATT
24628166 GCTAGACTTGAATCACCTGTCAATGAGCTAGTAACTAAGAACGAGGCTAAGGAATTCTTTAAGTT
1 GCTAGACTTGAATCACCTGTCAATGAGCTAGTAACTAAGAACGAGGCTAAGGAATTCTTTAAGTT
24628231 CTTCAAACATAGCAAGTATAGTGTTGTAGAATAGTTGCACAAACTCGCATATCAGTATTAGCATT
66 CTTCAAACATAGCAAGTATAGTGTTGTAGAATAGTTGCACAAACTCGCATATCAGTATTAGCATT
24628296 GCTCTTAAGCTCAAAGATACATCGTAACGCGTTGATGAAGGTGTTAAATGAAATTTATGTCACTG
131 GCTCTTAAGCTCAAAGATACATCGTAACGCGTTGATGAAGGTGTTAAATGAAATTTATGTCACTG
24628361 ATAATATCTCTGTAAACAAGCTAGATCATTTGGTTAACAATTTGAGTGCCAACAATTTCATCTTT
196 ATAATATCTCTGTAAACAAGCTAGATCATTTGGTTAACAATTTGAGTGCCAACAATTTCATCTTT
24628426 TTCAATGATGATGAAATACCTCCATAAGGCATGGGATCCACGAAGACTCTACACATCACTACCTA
261 TTCAATGATGATGAAATACCTCCATAAGGCATGGGATCCACGAAGACTCTACACATCACTACCTA
*
24628491 CTGCAAAGGATATACATT
326 CTACAAAGGATATACATT
24628509 GC
1 GC
24628511 CAGGAGTGTT
Statistics
Matches: 343, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
343 343 1.00
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (343 bp):
GCTAGACTTGAATCACCTGTCAATGAGCTAGTAACTAAGAACGAGGCTAAGGAATTCTTTAAGTT
CTTCAAACATAGCAAGTATAGTGTTGTAGAATAGTTGCACAAACTCGCATATCAGTATTAGCATT
GCTCTTAAGCTCAAAGATACATCGTAACGCGTTGATGAAGGTGTTAAATGAAATTTATGTCACTG
ATAATATCTCTGTAAACAAGCTAGATCATTTGGTTAACAATTTGAGTGCCAACAATTTCATCTTT
TTCAATGATGATGAAATACCTCCATAAGGCATGGGATCCACGAAGACTCTACACATCACTACCTA
CTACAAAGGATATACATT
Found at i:24629831 original size:30 final size:30
Alignment explanation
Indices: 24629796--24629852 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
24629786 CAGGCACTTC
**
24629796 CACACGGGTAAACCACACGCCCGTGTGAGG
1 CACACGGACAAACCACACGCCCGTGTGAGG
**
24629826 CACACGGACAGGCCACACGCCCGTGTG
1 CACACGGACAAACCACACGCCCGTGTG
24629853 TCCTGGCCGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.25, C:0.37, G:0.30, T:0.09
Consensus pattern (30 bp):
CACACGGACAAACCACACGCCCGTGTGAGG
Found at i:24635463 original size:44 final size:44
Alignment explanation
Indices: 24635395--24635792 Score: 144
Period size: 44 Copynumber: 8.6 Consensus size: 44
24635385 TTACGATGGT
*
24635395 GAATCTTATCTCCCTGAAGTTGCAGTGGAGTAAGA-TAAAGCTAC
1 GAATCTTATCTCCCTGAAGTTGCAGTGGAGCAA-ATTAAAGCTAC
* * * *
24635439 GAATTTTATCTCTCTGTAGTTGCAGTGGAGCAAATTAAAGCTAT
1 GAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTAAAGCTAC
* * * * * ** * *
24635483 AAATCCTA-CACCCTTAAAGTTGTAGTGGTTCAGATTGAATCTACCATAGC
1 GAATCTTATCTCCC-TGAAGTTGCAGTGGAGCAAATT-AA---AGC-TA-C
* * * *
24635533 GAATCTTATCTCCCTAAAGTTGCTGTGGAGCATATTGAAGCTAC
1 GAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTAAAGCTAC
* * * * * *
24635577 AAATCCTATAC-CCCTAAAGTTGTAGTGG-GTCAGATTGAATCTACCATAGC
1 GAATCTTAT-CTCCCTGAAGTTGCAGTGGAG-CAAATT-AA---AGC-TA-C
* * * *
24635627 GAATATTATCTCCCTGAAGTTGCTGTGGAGCATATTGAAGCTAC
1 GAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTAAAGCTAC
* * * * * *
24635671 AAATCCTATAC-CCCTAAAGTTGTAGTGG-GTCAGATTGAATCTACCATAGC
1 GAATCTTAT-CTCCCTGAAGTTGCAGTGGAG-CAAATT-AA---AGC-TA-C
* * * *
24635721 GAATATTATCTCCCTGAAGTTGCTGTGGAGCATATTGAAGCTAC
1 GAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTAAAGCTAC
* * * *
24635765 AAATCCTATAC-CCCTAAAGTTGTAGTGG
1 GAATCTTAT-CTCCCTGAAGTTGCAGTGG
24635793 GTCTGATTGA
Statistics
Matches: 256, Mismatches: 68, Indels: 60
0.67 0.18 0.16
Matches are distributed among these distances:
43 6 0.02
44 133 0.52
45 13 0.05
46 6 0.02
48 6 0.02
49 11 0.04
50 75 0.29
51 6 0.02
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (44 bp):
GAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTAAAGCTAC
Found at i:24635542 original size:94 final size:94
Alignment explanation
Indices: 24635438--24635837 Score: 656
Period size: 94 Copynumber: 4.3 Consensus size: 94
24635428 GATAAAGCTA
* * * * * * * * *
24635438 CGAATTTTATCTCTCTGTAGTTGCAGTGGAGCAAATTAAAGCTATAAATCCTACACCCTTAAAGT
1 CGAATATTATCTCCCTGAAGTTGCTGTGGAGCATATTGAAGCTACAAATCCTATACCCCTAAAGT
*
24635503 TGTAGTGGTTCAGATTGAATCTACCATAG
66 TGTAGTGGGTCAGATTGAATCTACCATAG
* *
24635532 CGAATCTTATCTCCCTAAAGTTGCTGTGGAGCATATTGAAGCTACAAATCCTATACCCCTAAAGT
1 CGAATATTATCTCCCTGAAGTTGCTGTGGAGCATATTGAAGCTACAAATCCTATACCCCTAAAGT
24635597 TGTAGTGGGTCAGATTGAATCTACCATAG
66 TGTAGTGGGTCAGATTGAATCTACCATAG
24635626 CGAATATTATCTCCCTGAAGTTGCTGTGGAGCATATTGAAGCTACAAATCCTATACCCCTAAAGT
1 CGAATATTATCTCCCTGAAGTTGCTGTGGAGCATATTGAAGCTACAAATCCTATACCCCTAAAGT
24635691 TGTAGTGGGTCAGATTGAATCTACCATAG
66 TGTAGTGGGTCAGATTGAATCTACCATAG
24635720 CGAATATTATCTCCCTGAAGTTGCTGTGGAGCATATTGAAGCTACAAATCCTATACCCCTAAAGT
1 CGAATATTATCTCCCTGAAGTTGCTGTGGAGCATATTGAAGCTACAAATCCTATACCCCTAAAGT
* *
24635785 TGTAGTGGGTCTGATTGAATATACCATAG
66 TGTAGTGGGTCAGATTGAATCTACCATAG
* *
24635814 CGAATCTTATTTCCCTGAAGTTGC
1 CGAATATTATCTCCCTGAAGTTGC
24635838 AACTGTAACA
Statistics
Matches: 289, Mismatches: 17, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
94 289 1.00
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.31
Consensus pattern (94 bp):
CGAATATTATCTCCCTGAAGTTGCTGTGGAGCATATTGAAGCTACAAATCCTATACCCCTAAAGT
TGTAGTGGGTCAGATTGAATCTACCATAG
Found at i:24635598 original size:138 final size:137
Alignment explanation
Indices: 24635205--24635604 Score: 389
Period size: 138 Copynumber: 2.9 Consensus size: 137
24635195 GGTCAATGAA
* *
24635205 ACAAATCCTATC-CCCCTGAAGTTGCAGTGGGTCGGATTGAATTTACCATAGTGAATCTTATCTC
1 ACAAATCCTA-CACCCCAGAAGTTGCAGTGGTTCGGATTGAA-TTACCATAGTGAATCTTATCTC
* * * * *
24635269 CCTGAAGTTG-TAGTAGAGTAAGATGAACCTACAAATCCTATATCCTTAAAGTTGTAGTGGATCA
64 CCTGAAGTTGCT-GTGGAGTAAGATGAAGCTACAAATCCTATACCCCTAAAGTTGTAGTGGAGCA
*
24635333 AACTGAAGCT
128 AACTAAAGCT
* * * * * *
24635343 ACAATTTCTATACCCCAGAAGTTGCAGTGGGTT-GGAATGAAATTACGATGGTGAATCTTATCTC
1 ACAAATCCTACACCCCAGAAGTTGCAGT-GGTTCGGATTG-AATTACCATAGTGAATCTTATCTC
* * * ** * ** *
24635407 CCTGAAGTTGCAGTGGAGTAAGATAAAGCTACGAATTTTAT-CTCTCTGTAGTTGCAGTGGAGCA
64 CCTGAAGTTGCTGTGGAGTAAGATGAAGCTACAAATCCTATAC-CCCTAAAGTTGTAGTGGAGCA
*
24635471 AATTAAAGCT
128 AACTAAAGCT
* * * * *
24635481 ATAAATCCTACACCCTTA-AAGTTGTAGTGGTTCAGATTGAATCTACCATAGCGAATCTTATCTC
1 ACAAATCCTACACCC-CAGAAGTTGCAGTGGTTCGGATTGAAT-TACCATAGTGAATCTTATCTC
* * *
24635545 CCTAAAGTTGCTGTGGAGCATA-TTGAAGCTACAAATCCTATACCCCTAAAGTTGTAGTGG
64 CCTGAAGTTGCTGTGGAGTA-AGATGAAGCTACAAATCCTATACCCCTAAAGTTGTAGTGG
24635605 GTCAGATTGA
Statistics
Matches: 205, Mismatches: 47, Indels: 20
0.75 0.17 0.07
Matches are distributed among these distances:
137 7 0.03
138 190 0.93
139 8 0.04
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.30
Consensus pattern (137 bp):
ACAAATCCTACACCCCAGAAGTTGCAGTGGTTCGGATTGAATTACCATAGTGAATCTTATCTCCC
TGAAGTTGCTGTGGAGTAAGATGAAGCTACAAATCCTATACCCCTAAAGTTGTAGTGGAGCAAAC
TAAAGCT
Found at i:24635803 original size:44 final size:44
Alignment explanation
Indices: 24635566--24635803 Score: 164
Period size: 44 Copynumber: 5.1 Consensus size: 44
24635556 TGTGGAGCAT
*
24635566 ATTGAAGCTACAAATCCTATACCCCTAAAGTTGTAGTGGGTCAG
1 ATTGAAGCTACAAATCCTATACCCCTAAAGTTGTAGTGGGTCTG
* * * * *
24635610 ATTGAATCTACCATAGCGAATATTATCTCCCTGAAGTTGCT-GTGGAG-CAT-
1 ATTGAAGCTA-CAAATC--CTA-TA-C-CCCTAAAGTTG-TAGTGG-GTC-TG
*
24635660 ATTGAAGCTACAAATCCTATACCCCTAAAGTTGTAGTGGGTCAG
1 ATTGAAGCTACAAATCCTATACCCCTAAAGTTGTAGTGGGTCTG
* * * * *
24635704 ATTGAATCTACCATAGCGAATATTATCTCCCTGAAGTTGCT-GTGGAG-CAT-
1 ATTGAAGCTA-CAAATC--CTA-TA-C-CCCTAAAGTTG-TAGTGG-GTC-TG
24635754 ATTGAAGCTACAAATCCTATACCCCTAAAGTTGTAGTGGGTCTG
1 ATTGAAGCTACAAATCCTATACCCCTAAAGTTGTAGTGGGTCTG
24635798 ATTGAA
1 ATTGAA
24635804 TATACCATAG
Statistics
Matches: 147, Mismatches: 23, Indels: 48
0.67 0.11 0.22
Matches are distributed among these distances:
43 5 0.03
44 54 0.37
45 10 0.07
46 4 0.03
47 8 0.05
48 4 0.03
49 10 0.07
50 48 0.33
51 4 0.03
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (44 bp):
ATTGAAGCTACAAATCCTATACCCCTAAAGTTGTAGTGGGTCTG
Found at i:24638040 original size:21 final size:21
Alignment explanation
Indices: 24638015--24638077 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
24638005 TAGCCTCCGG
24638015 GCTTCCGTTTAGCACTTATGT
1 GCTTCCGTTTAGCACTTATGT
* * *
24638036 GCTTCAG-TTAGC-CTT-CGG
1 GCTTCCGTTTAGCACTTATGT
*
24638054 GCTGCCGTTTAGCACTTATGT
1 GCTTCCGTTTAGCACTTATGT
24638075 GCT
1 GCT
24638078 CCAGCTAGAT
Statistics
Matches: 32, Mismatches: 7, Indels: 6
0.71 0.16 0.13
Matches are distributed among these distances:
18 6 0.19
19 8 0.25
20 8 0.25
21 10 0.31
ACGTcount: A:0.13, C:0.25, G:0.24, T:0.38
Consensus pattern (21 bp):
GCTTCCGTTTAGCACTTATGT
Found at i:24638055 original size:39 final size:39
Alignment explanation
Indices: 24637997--24638077 Score: 135
Period size: 39 Copynumber: 2.1 Consensus size: 39
24637987 GCTCTGATGA
*
24637997 GCTTCAATTAGCCTCCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAATTAGCCTCCGGGCTGCCGTTTAGCACTTATGT
* *
24638036 GCTTCAGTTAGCCTTCGGGCTGCCGTTTAGCACTTATGT
1 GCTTCAATTAGCCTCCGGGCTGCCGTTTAGCACTTATGT
24638075 GCT
1 GCT
24638078 CCAGCTAGAT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.14, C:0.27, G:0.23, T:0.36
Consensus pattern (39 bp):
GCTTCAATTAGCCTCCGGGCTGCCGTTTAGCACTTATGT
Found at i:24638092 original size:39 final size:39
Alignment explanation
Indices: 24638012--24638092 Score: 117
Period size: 39 Copynumber: 2.1 Consensus size: 39
24638002 AATTAGCCTC
* * * *
24638012 CGGGCTTCCGTTTAGCACTTATGTGCTTCAGTTAGCCTT
1 CGGGCTGCCGTTTAGCACTTATGTGCTCCAGCTAGACTT
*
24638051 CGGGCTGCCGTTTAGCACTTATGTGCTCCAGCTAGATTT
1 CGGGCTGCCGTTTAGCACTTATGTGCTCCAGCTAGACTT
24638090 CGG
1 CGG
24638093 ACTTCAGATC
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.14, C:0.26, G:0.26, T:0.35
Consensus pattern (39 bp):
CGGGCTGCCGTTTAGCACTTATGTGCTCCAGCTAGACTT
Found at i:24639159 original size:18 final size:20
Alignment explanation
Indices: 24639130--24639167 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
24639120 TTTTGCCCGG
24639130 CCCAACACAAAT-AAACAAA
1 CCCAACACAAATAAAACAAA
24639149 CCCAA-ACAAATAAAACAAA
1 CCCAACACAAATAAAACAAA
24639168 ATCCAAAACA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.66, C:0.29, G:0.00, T:0.05
Consensus pattern (20 bp):
CCCAACACAAATAAAACAAA
Found at i:24640652 original size:12 final size:13
Alignment explanation
Indices: 24640615--24640654 Score: 55
Period size: 15 Copynumber: 3.0 Consensus size: 13
24640605 TCTTTGCATA
24640615 CTTATTATTATTAT
1 CTTATTATT-TTAT
24640629 CATTATTATTTTAT
1 C-TTATTATTTTAT
24640643 CTTATT-TTTTAT
1 CTTATTATTTTAT
24640655 TATCGTTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 6 0.24
13 5 0.20
14 6 0.24
15 8 0.32
ACGTcount: A:0.25, C:0.07, G:0.00, T:0.68
Consensus pattern (13 bp):
CTTATTATTTTAT
Found at i:24640654 original size:17 final size:19
Alignment explanation
Indices: 24640631--24640673 Score: 58
Period size: 16 Copynumber: 2.5 Consensus size: 19
24640621 ATTATTATCA
24640631 TTATTATTTTATC-TTATT
1 TTATTATTTTATCGTTATT
24640649 TT-TTA--TTATCGTTATT
1 TTATTATTTTATCGTTATT
24640665 TTATTATTT
1 TTATTATTT
24640674 CTTTTATTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 7
0.75 0.00 0.25
Matches are distributed among these distances:
15 5 0.24
16 7 0.33
17 6 0.29
18 2 0.10
19 1 0.05
ACGTcount: A:0.21, C:0.05, G:0.02, T:0.72
Consensus pattern (19 bp):
TTATTATTTTATCGTTATT
Found at i:24640671 original size:29 final size:29
Alignment explanation
Indices: 24640619--24640684 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 29
24640609 TGCATACTTA
24640619 TTATTATTATCATTATTATTTTATCTTATT
1 TTATTATTATCATTATTATTTTAT-TTATT
* *
24640649 TT-TTATTATCGTTATT-TTATTATTTCTT
1 TTATTATTATCATTATTATT-TTATTTATT
24640677 TTATTATT
1 TTATTATT
24640685 TTCAGCATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
28 8 0.25
29 22 0.69
30 2 0.06
ACGTcount: A:0.23, C:0.06, G:0.02, T:0.70
Consensus pattern (29 bp):
TTATTATTATCATTATTATTTTATTTATT
Found at i:24647320 original size:13 final size:13
Alignment explanation
Indices: 24647302--24647328 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
24647292 AAGAAAGACT
24647302 AGTAAAGAAAAAG
1 AGTAAAGAAAAAG
24647315 AGTAAAGAAAAAG
1 AGTAAAGAAAAAG
24647328 A
1 A
24647329 ATGGGAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.70, C:0.00, G:0.22, T:0.07
Consensus pattern (13 bp):
AGTAAAGAAAAAG
Found at i:24651149 original size:131 final size:132
Alignment explanation
Indices: 24650838--24651354 Score: 582
Period size: 132 Copynumber: 3.9 Consensus size: 132
24650828 TTTAGAGAGT
* * * * *
24650838 ATGAATGAAATTCT-AAAGGAATCTTCGATCATTTTG-GACAAAC-AGGAAGTAGCAACCCAGCA
1 ATGAGTGAAATTCTAAAAGG-ACCTTCGATTATTTTGAG-CAAACGA-GAAATTGCAACCCAGCA
* * * * * ** * *
24650900 CGATAGGGCACGATTCCCCGAATTGCCAAACATCGAATATTACCTTCGTTTTGAAGAGTTTTTAG
63 CGTTAGGGCACGATTCCGCGAATTGCCAAATATAGAACATCGCCTTCGTTTTAAAGAATTTTTAG
24650965 AAAAC
128 AAAAC
* * *
24650970 ATAAGTGAAATTC-AAAAGGGACCTTTGATTATTTTGAACAAACGAGAAATTGCAACCCAGCACG
1 ATGAGTGAAATTCTAAAA-GGACCTTCGATTATTTTGAGCAAACGAGAAATTGCAACCCAGCACG
* * *
24651034 TTAGGGCACGATTTCGCGAATTGTCAAATATAGAACATCGCCTTC-ATTTAAAGAATTTTTA-AA
65 TTAGGGCACGATTCCGCGAATTGCCAAATATAGAACATCGCCTTCGTTTTAAAGAATTTTTAGAA
*
24651097 GGAC
130 -AAC
* * * * *
24651101 ATGGGTGAAATTCTAAAATGACCTTCAATTACTTTGAGCAAACGAGAAATTGCAACCCAACACGT
1 ATGAGTGAAATTCTAAAAGGACCTTCGATTATTTTGAGCAAACGAGAAATTGCAACCCAGCACGT
* * * *
24651166 TAGGGCACGATTCCTCGAATTGCCAAATATTGAACATCGCCTTCGTTTTAAAGGATTTTTAGAAT
66 TAGGGCACGATTCCGCGAATTGCCAAATATAGAACATCGCCTTCGTTTTAAAGAATTTTTAGAAA
24651231 AC
131 AC
* * * **
24651233 ATGAGTGAAATTTTGAAGGGATATTCGATTATTTTGAGCAAACGAGAAATTGCAACCCAGCACGT
1 ATGAGTGAAATTCTAAAAGGACCTTCGATTATTTTGAGCAAACGAGAAATTGCAACCCAGCACGT
* *
24651298 TAGGGCACAATTCCGCGAATTGCCAAATATCA-AATC-TCGCCTTCGTTTTGAAGAATT
66 TAGGGCACGATTCCGCGAATTGCCAAATAT-AGAA-CATCGCCTTCGTTTTAAAGAATT
24651355 GTTAAACGAA
Statistics
Matches: 324, Mismatches: 51, Indels: 20
0.82 0.13 0.05
Matches are distributed among these distances:
130 2 0.01
131 107 0.33
132 209 0.65
133 6 0.02
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.28
Consensus pattern (132 bp):
ATGAGTGAAATTCTAAAAGGACCTTCGATTATTTTGAGCAAACGAGAAATTGCAACCCAGCACGT
TAGGGCACGATTCCGCGAATTGCCAAATATAGAACATCGCCTTCGTTTTAAAGAATTTTTAGAAA
AC
Found at i:24654913 original size:30 final size:30
Alignment explanation
Indices: 24654879--24654977 Score: 144
Period size: 30 Copynumber: 3.3 Consensus size: 30
24654869 CTAGCCTTTG
*
24654879 CCACCACCAATTCCAATAGCCACACTTGCT
1 CCACCACCAACTCCAATAGCCACACTTGCT
* * *
24654909 CCACCACCTACTCCACTAGCCGCACTTGCT
1 CCACCACCAACTCCAATAGCCACACTTGCT
* *
24654939 CCACCACCTACTCCATTAGCCACACTTGCT
1 CCACCACCAACTCCAATAGCCACACTTGCT
24654969 CCACCACCA
1 CCACCACCA
24654978 CTTGTACCTA
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 62 1.00
ACGTcount: A:0.25, C:0.48, G:0.07, T:0.19
Consensus pattern (30 bp):
CCACCACCAACTCCAATAGCCACACTTGCT
Found at i:24666717 original size:12 final size:13
Alignment explanation
Indices: 24666699--24666732 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
24666689 GGCATCTTAA
24666699 AAAAAGAGAAAAG
1 AAAAAGAGAAAAG
*
24666712 -AAAAGAAAAAAG
1 AAAAAGAGAAAAG
24666724 AAAAAGAGA
1 AAAAAGAGA
24666733 GAGGGATCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (13 bp):
AAAAAGAGAAAAG
Found at i:24667783 original size:13 final size:13
Alignment explanation
Indices: 24667739--24667783 Score: 63
Period size: 13 Copynumber: 3.4 Consensus size: 13
24667729 CGCCAAGGTA
*
24667739 TTTTTAATTTATG
1 TTTTTAATTTCTG
24667752 TTTTTCAATTTCTG
1 TTTTT-AATTTCTG
*
24667766 CTTTTAATTTCTG
1 TTTTTAATTTCTG
24667779 TTTTT
1 TTTTT
24667784 CAAAAATCAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
13 17 0.61
14 11 0.39
ACGTcount: A:0.16, C:0.09, G:0.07, T:0.69
Consensus pattern (13 bp):
TTTTTAATTTCTG
Found at i:24667848 original size:100 final size:99
Alignment explanation
Indices: 24667666--24668046 Score: 430
Period size: 100 Copynumber: 3.9 Consensus size: 99
24667656 AATTTCCATT
* * *
24667666 TTTTCAATTTATGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGCTGAGCCTCGGGGCACG
1 TTTT-AATTTATGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
** *
24667731 CCAAGGTATTTTTAATTTATGTTTTTCAATTTCTGC
65 CTGAGGTATTTTCAATTTATGTTTTTCAATTT-TGC
* * *
24667767 TTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGC
1 TTTTAATTTATGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
*
24667832 TGAGGTATTTTCAATTTCTGTTTTTCAATTTTTGCC
66 TGAGGTATTTTCAATTTATGTTTTTCAA-TTTTG-C
** * *
24667868 TTACAAATTCTGCTTTTC--AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
1 TTTTAATTTATGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
*
24667931 TGAGGTATTTTC-A---A---TTTTC--GTTT--
66 TGAGGTATTTTCAATTTATGTTTTTCAATTTTGC
* * *
24667954 TTTTAATTTATG-TTTCTAAAAAATCAATTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACG
1 TTTTAATTTATGCTTT-TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
* * *
24668018 CTGAGGTAGTTTCAATTTTTGTTTGTCAA
65 CTGAGGTATTTTCAATTTATGTTTTTCAA
24668047 AAATCAACTC
Statistics
Matches: 241, Mismatches: 25, Indels: 32
0.81 0.08 0.11
Matches are distributed among these distances:
85 3 0.01
86 9 0.04
88 54 0.22
89 4 0.02
92 5 0.02
95 4 0.02
98 1 0.00
99 56 0.23
100 83 0.34
101 22 0.09
ACGTcount: A:0.25, C:0.17, G:0.19, T:0.39
Consensus pattern (99 bp):
TTTTAATTTATGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
TGAGGTATTTTCAATTTATGTTTTTCAATTTTGC
Found at i:24668077 original size:73 final size:72
Alignment explanation
Indices: 24667953--24668478 Score: 558
Period size: 73 Copynumber: 7.2 Consensus size: 72
24667943 AATTTTCGTT
* * * * *
24667953 TTTTTAATTTATGTTTCTAAAAAATCAATTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACG
1 TTTTCAATTTTTGTTTGTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA-GACACG
24668018 CTGAGGTA
65 CTGAGGTA
* * *
24668026 GTTTCAATTTTTGTTTGTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAAGACACG
1 TTTTCAATTTTTGTTTGTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGACACG
*
24668091 TTGAGGTA
65 CTGAGGTA
* * * * * * *
24668099 TTTTCAATTTCTGTCTT-TAAAAAAAATCAGCTCATATTGCGATAGGTGAGATGAACCTTA-AGA
1 TTTTCAATTTTTGT-TTGT--AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGACA
24668162 CGCTGAGGTA
63 CGCTGAGGTA
* * * *
24668172 ATTTCAATTTTTATTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACG
1 TTTTCAATTTTTGTTTGTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA-GACACG
24668237 CTGAGGTA
65 CTGAGGTA
* * * * * * *
24668245 TTTTCAATTTCTGTTTTTTTAAAAAATCAACTCATATTGCGATAGGTGAGATGAACCTTA-AGAC
1 TTTTCAATTT-T-TGTTTGTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGACAC
24668309 GCTGAGGTA
64 GCTGAGGTA
* * * *
24668318 ATTTCAATTTTTATTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACATG
1 TTTTCAATTTTTGTTTGTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGACACG
*
24668383 TTGAGGTA
65 CTGAGGTA
* * * *
24668391 TTTTCAATTTCTGTCTT-TAAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCA-AGA
1 TTTTCAATTTTTGT-TTGT--AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGACA
*
24668454 CGCTGAGGTG
63 CGCTGAGGTA
* *
24668464 TTTTCCATTTCTGTT
1 TTTTCAATTTTTGTT
24668479 CTTCAATTTC
Statistics
Matches: 376, Mismatches: 63, Indels: 29
0.80 0.13 0.06
Matches are distributed among these distances:
71 73 0.19
72 5 0.01
73 182 0.48
74 8 0.02
75 108 0.29
ACGTcount: A:0.30, C:0.15, G:0.20, T:0.34
Consensus pattern (72 bp):
TTTTCAATTTTTGTTTGTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGACACGC
TGAGGTA
Found at i:24668222 original size:146 final size:146
Alignment explanation
Indices: 24668015--24668462 Score: 770
Period size: 146 Copynumber: 3.1 Consensus size: 146
24668005 GCCTCAGGAC
* * *
24668015 ACGCTGAGGTAGTTTCAATTTTTGTTTGTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGC
1 ACGCTGAGGTAATTTCAATTTTTATTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
24668080 CTCAAGACACGTTGAGGTATTTTCAATTTCTGTCTTTAAAAAAAATCAGCTCATATTGCGATAGG
66 CTCAAGACACGTTGAGGTATTTTCAATTTCTGTCTTTAAAAAAAATCAGCTCATATTGCGATAGG
24668145 TGAGATGAACCTTAAG
131 TGAGATGAACCTTAAG
24668161 ACGCTGAGGTAATTTCAATTTTTATTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
1 ACGCTGAGGTAATTTCAATTTTTATTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
* * * * ** *
24668226 CTCAGGGCACGCTGAGGTATTTTCAATTTCTGTTTTTTTAAAAAATCAACTCATATTGCGATAGG
66 CTCAAGACACGTTGAGGTATTTTCAATTTCTGTCTTTAAAAAAAATCAGCTCATATTGCGATAGG
24668291 TGAGATGAACCTTAAG
131 TGAGATGAACCTTAAG
24668307 ACGCTGAGGTAATTTCAATTTTTATTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
1 ACGCTGAGGTAATTTCAATTTTTATTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
* *
24668372 CTCAAGACATGTTGAGGTATTTTCAATTTCTGTCTTTAAAAAAAATCAGCTCATATTGCGAGAGG
66 CTCAAGACACGTTGAGGTATTTTCAATTTCTGTCTTTAAAAAAAATCAGCTCATATTGCGATAGG
* *
24668437 TGAGTTGAACCTCAAG
131 TGAGATGAACCTTAAG
24668453 ACGCTGAGGT
1 ACGCTGAGGT
24668463 GTTTTCCATT
Statistics
Matches: 281, Mismatches: 21, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
146 281 1.00
ACGTcount: A:0.31, C:0.15, G:0.21, T:0.33
Consensus pattern (146 bp):
ACGCTGAGGTAATTTCAATTTTTATTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
CTCAAGACACGTTGAGGTATTTTCAATTTCTGTCTTTAAAAAAAATCAGCTCATATTGCGATAGG
TGAGATGAACCTTAAG
Found at i:24668592 original size:15 final size:14
Alignment explanation
Indices: 24668556--24668588 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
24668546 CGCTGAGGTA
24668556 TTTTCAAATTCTGT
1 TTTTCAAATTCTGT
*
24668570 TTTTCAAATTTTGT
1 TTTTCAAATTCTGT
24668584 TTTTC
1 TTTTC
24668589 CAAAAAATCG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.18, C:0.12, G:0.06, T:0.64
Consensus pattern (14 bp):
TTTTCAAATTCTGT
Found at i:24668627 original size:91 final size:90
Alignment explanation
Indices: 24668453--24668943 Score: 351
Period size: 91 Copynumber: 5.3 Consensus size: 90
24668443 GAACCTCAAG
* * * * *
24668453 ACGCTGAGGTGTTTTCCATTTCTGTTCTTCAATTTCTGTGTTTCAAAAAAAATCAGCTCATATTG
1 ACGCTGAGGTATTTTCAATTTCTGTTTTTCAATTTATGTTTTTCAAAAAAAATCA-CTCATATTG
*
24668518 CGAGTGGTGAGTTGAGCCTTGACTCAC
65 CGAGAGGTGAGTTGAGCCTTGA-TCAC
* *
24668545 ACGCTGAGGTATTTTCAAATTCTGTTTTTCAAATTT-TGTTTTTC-CAAAAAATCGACTCATATT
1 ACGCTGAGGTATTTTCAATTTCTGTTTTTC-AATTTATGTTTTTCAAAAAAAATC-ACTCATATT
* * **
24668608 GCGAGAGGTGAGTTCAGCC-TCAGGAC
64 GCGAGAGGTGAGTTGAGCCTTGATCAC
* * *
24668634 ACGCTGAGATATTTTCAATTTCTTTTTTTTCAATTTATGTTTGTCAAAAAAAATCAACTCATATT
1 ACGCTGAGGTATTTTCAATTTC-TGTTTTTCAATTTATGTTTTTCAAAAAAAATC-ACTCATATT
*
24668699 GCGAGAGGTGAGTTGAGCCTCAGATCAC
64 GCGAGAGGTGAGTTGAGCCT-TGATCAC
* * * *
24668727 ATGCCGAGGTATTTTCAA--T-TGATTTTT-ATTTTTATTTTTTTCAATTTATGCTTTGCAAAAA
1 ACGCTGAGGTATTTTCAATTTCTG-TTTTTCA-ATTTATGTTTTTCAA---A--------AAAAA
* * * *
24668788 TCAACTCATATTACGAGAGGTAAGTTGAGCCTCGGGTCAC
53 TC-ACTCATATTGCGAGAGGTGAGTTGAGCCT-TGATCAC
** * ** *
24668828 ATACCGAGGTATTTTCAAAATCTGTTTTACAAATTT-TG-TTTT----AAAAATCAACTCATATT
1 ACGCTGAGGTATTTTCAATTTCTGTTTTTC-AATTTATGTTTTTCAAAAAAAATC-ACTCATATT
* *
24668887 GCGAGAAGTGAGTTGAGCCTTAGCTCAC
64 GCGAGAGGTGAGTTGAGCCTT-GATCAC
** *
24668915 GTGCTGAGCTATTTTCAATTTCTGTTTTT
1 ACGCTGAGGTATTTTCAATTTCTGTTTTT
24668944 AATGTTTAGT
Statistics
Matches: 324, Mismatches: 49, Indels: 57
0.75 0.11 0.13
Matches are distributed among these distances:
87 61 0.19
89 29 0.09
90 33 0.10
91 69 0.21
92 34 0.10
93 24 0.07
101 58 0.18
102 4 0.01
103 6 0.02
104 5 0.02
105 1 0.00
ACGTcount: A:0.27, C:0.17, G:0.18, T:0.39
Consensus pattern (90 bp):
ACGCTGAGGTATTTTCAATTTCTGTTTTTCAATTTATGTTTTTCAAAAAAAATCACTCATATTGC
GAGAGGTGAGTTGAGCCTTGATCAC
Found at i:24668711 original size:182 final size:179
Alignment explanation
Indices: 24668411--24668744 Score: 467
Period size: 182 Copynumber: 1.8 Consensus size: 179
24668401 CTGTCTTTAA
* * * * *
24668411 AAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGACGCTGAGGTGTTTTCCATTTCT
1 AAAAAATCAGCTCATATTGCGAGAGGTGAGTTCAACCTCAACACGCTGAGATATTTTCAATTTCT
* * * *
24668476 GTTCTTCAATTTCTGTGTTTCAAAAAAAATCAGCTCATATTGCGAGTGGTGAGTTGAGCCT-TGA
66 GTTCTTCAATTTATGTGTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGA
*
24668540 CTCACACGCTGAGGTATTTTCAAATTCTGTTTTTCAAATTTTGTTTTTCC
131 -TCACACGCCGAGGTATTTTCAAATTCTGTTTTTCAAATTTTGTTTTTCC
*
24668590 AAAAAATC-GACTCATATTGCGAGAGGTGAGTTCAGCCTCAGGACACGCTGAGATATTTTCAATT
1 AAAAAATCAG-CTCATATTGCGAGAGGTGAGTTCAACCTCA--ACACGCTGAGATATTTTCAATT
* *
24668654 TCTTTTTTTTCAATTTATGT-TTGTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
63 TC-TGTTCTTCAATTTATGTGTT-TCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
*
24668718 TCAGATCACATGCCGAGGTATTTTCAA
126 TCAGATCACACGCCGAGGTATTTTCAA
24668745 TTGATTTTTA
Statistics
Matches: 135, Mismatches: 14, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
178 1 0.01
179 36 0.27
181 22 0.16
182 74 0.55
183 2 0.01
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.35
Consensus pattern (179 bp):
AAAAAATCAGCTCATATTGCGAGAGGTGAGTTCAACCTCAACACGCTGAGATATTTTCAATTTCT
GTTCTTCAATTTATGTGTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGA
TCACACGCCGAGGTATTTTCAAATTCTGTTTTTCAAATTTTGTTTTTCC
Found at i:24668828 original size:101 final size:102
Alignment explanation
Indices: 24668657--24668845 Score: 292
Period size: 101 Copynumber: 1.8 Consensus size: 102
24668647 TTCAATTTCT
* *
24668657 TTTTTTTCAATTTATGTTTGTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
1 TTTTTTTCAATTTATGTTTGTC--AAAAAATCAACTCATATTACGAGAGGTAAGTTGAGCCTCAG
*
24668722 ATCACATGCCGAGGTATTTTCAATTGATTTTTATTTTTA
64 ATCACATACCGAGGTATTTTCAATTGATTTTTATTTTTA
* *
24668761 TTTTTTTCAATTTATGCTTTG-C-AAAAATCAACTCATATTACGAGAGGTAAGTTGAGCCTCGGG
1 TTTTTTTCAATTTATG-TTTGTCAAAAAATCAACTCATATTACGAGAGGTAAGTTGAGCCTCAGA
24668824 TCACATACCGAGGTATTTTCAA
65 TCACATACCGAGGTATTTTCAA
24668846 AATCTGTTTT
Statistics
Matches: 79, Mismatches: 5, Indels: 5
0.89 0.06 0.06
Matches are distributed among these distances:
101 58 0.73
104 17 0.22
105 4 0.05
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.39
Consensus pattern (102 bp):
TTTTTTTCAATTTATGTTTGTCAAAAAATCAACTCATATTACGAGAGGTAAGTTGAGCCTCAGAT
CACATACCGAGGTATTTTCAATTGATTTTTATTTTTA
Found at i:24668901 original size:87 final size:87
Alignment explanation
Indices: 24668783--24669010 Score: 237
Period size: 87 Copynumber: 2.6 Consensus size: 87
24668773 TATGCTTTGC
* * * * * *
24668783 AAAAATCAACTCATATTACGAGAGGTAAGTTGAGCCTCGGGTCACATACCGAGGTATTTTCAAAA
1 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGATCACATGCCGAGCTATTTTCAAAA
24668848 TCTGTTTTACAAAT-TTT-GTTTT
66 TCTGTTTT--AAATGTTTAGTTTT
** * * * **
24668870 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTAGCTCACGTGCTGAGCTATTTTCAATT
1 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGATCACATGCCGAGCTATTTTCAAAA
*
24668935 TCTGTTTTTAATGTTTAGTTTT
66 TCTGTTTTAAATGTTTAGTTTT
* * * *
24668957 AAAGAGTCAATTCATATTGCGAGAAATGAGTTAAG-CTCAGGATCACATGCCGAG
1 AAA-AATCAACTCATATTGCGAGAAGTGAGTTGAGCCTC-GGATCACATGCCGAG
24669011 TAAAGAATAA
Statistics
Matches: 115, Mismatches: 22, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
85 3 0.03
86 3 0.03
87 71 0.62
88 38 0.33
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (87 bp):
AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGATCACATGCCGAGCTATTTTCAAAA
TCTGTTTTAAATGTTTAGTTTT
Found at i:24669661 original size:30 final size:30
Alignment explanation
Indices: 24669625--24669932 Score: 505
Period size: 30 Copynumber: 10.3 Consensus size: 30
24669615 CTAGCCTTTG
*
24669625 CCACCACCAACTC-CACTAGCCACACTTGCT
1 CCACCACCTACTCTC-CTAGCCACACTTGCT
*
24669655 CCACCACCTACTCTACTAGCCACACTTGCT
1 CCACCACCTACTCTCCTAGCCACACTTGCT
*
24669685 CCACCACCTACTC-CATTAGCCACACTTGCT
1 CCACCACCTACTCTC-CTAGCCACACTTGCT
24669715 CCACCACCTACTCTCCTAGCCACACTTGCT
1 CCACCACCTACTCTCCTAGCCACACTTGCT
24669745 CCACCACCTACTCTCCTAGCCACACTTGCT
1 CCACCACCTACTCTCCTAGCCACACTTGCT
24669775 CCACCACCTACTCTCCTAGCCACACTTGCT
1 CCACCACCTACTCTCCTAGCCACACTTGCT
24669805 CCACCACCTACTCTCCTAGCCACACTTGCT
1 CCACCACCTACTCTCCTAGCCACACTTGCT
24669835 CCACCACCTACTCTCCTAGCCACACTTGCT
1 CCACCACCTACTCTCCTAGCCACACTTGCT
**
24669865 CCACCACCTACTCTATTAGCCACACTTGCT
1 CCACCACCTACTCTCCTAGCCACACTTGCT
* *
24669895 CTACCACCTACTC-CATTAGCCACACTTGCT
1 CCACCACCTACTCTC-CTAGCCACACTTGCT
24669925 CCACCACC
1 CCACCACC
24669933 ACTTGTACCT
Statistics
Matches: 264, Mismatches: 10, Indels: 8
0.94 0.04 0.03
Matches are distributed among these distances:
30 263 1.00
31 1 0.00
ACGTcount: A:0.22, C:0.49, G:0.06, T:0.23
Consensus pattern (30 bp):
CCACCACCTACTCTCCTAGCCACACTTGCT
Found at i:24675642 original size:30 final size:31
Alignment explanation
Indices: 24675608--24675666 Score: 95
Period size: 30 Copynumber: 1.9 Consensus size: 31
24675598 ACCAGCTAAC
24675608 AGCTAACCATACTAACTG-AAGAC-GTTACAA
1 AGCTAACCA-ACTAACTGTAAGACAGTTACAA
24675638 AGCTAACCAACTAACTGTAAGACAGTTAC
1 AGCTAACCAACTAACTGTAAGACAGTTAC
24675667 TCCTAACATC
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
29 8 0.30
30 14 0.52
31 5 0.19
ACGTcount: A:0.42, C:0.24, G:0.14, T:0.20
Consensus pattern (31 bp):
AGCTAACCAACTAACTGTAAGACAGTTACAA
Found at i:24676160 original size:5 final size:5
Alignment explanation
Indices: 24676150--24676174 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
24676140 GGTTTTATAC
24676150 TTTTA TTTTA TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA
24676175 ATGTAATTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:24676205 original size:19 final size:18
Alignment explanation
Indices: 24676142--24676237 Score: 72
Period size: 19 Copynumber: 5.3 Consensus size: 18
24676132 GGGGAAGGGG
*
24676142 TTTTATACTTTTATTTT-A
1 TTTTATAATTTT-TTTTAA
*
24676160 TTTTAT--TTTATTTTAA
1 TTTTATAATTTTTTTTAA
* * *
24676176 TGTAATTATTTTTATTTAA
1 TTTTATAATTTTT-TTTAA
*
24676195 TTTTATAATTTTTTATAA
1 TTTTATAATTTTTTTTAA
*
24676213 TTCTTATAATATTTTTTATA
1 TT-TTATAATTTTTTTTA-A
24676233 TTTTA
1 TTTTA
24676238 ATTTATTTTA
Statistics
Matches: 62, Mismatches: 10, Indels: 11
0.75 0.12 0.13
Matches are distributed among these distances:
15 4 0.06
16 8 0.13
18 16 0.26
19 31 0.50
20 3 0.05
ACGTcount: A:0.28, C:0.02, G:0.01, T:0.69
Consensus pattern (18 bp):
TTTTATAATTTTTTTTAA
Found at i:24676207 original size:20 final size:20
Alignment explanation
Indices: 24676182--24676228 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
24676172 TTAATGTAAT
24676182 TATTTTTATTTAATT-TTATAA
1 TATTTTTA--TAATTCTTATAA
24676203 T-TTTTTATAATTCTTATAA
1 TATTTTTATAATTCTTATAA
24676222 TATTTTT
1 TATTTTT
24676229 TATATTTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
18 5 0.21
19 7 0.29
20 11 0.46
21 1 0.04
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (20 bp):
TATTTTTATAATTCTTATAA
Found at i:24676244 original size:19 final size:19
Alignment explanation
Indices: 24676142--24676246 Score: 54
Period size: 21 Copynumber: 5.1 Consensus size: 19
24676132 GGGGAAGGGG
*
24676142 TTTTATACTTTTATTTTATT
1 TTTTATA-TTTTAATTTATT
* *
24676162 TTATTTTATTTTAATGTAATT
1 TT-TTATATTTTAAT-TTATT
24676183 ATTTT-TA-TTTAATTTTATAATT
1 -TTTTATATTTTAA--TT-T-ATT
*
24676205 TTTTATAATTCTT-ATAATATT
1 TTTTAT-ATT-TTAAT-TTATT
24676226 TTTTATATTTTAATTTATT
1 TTTTATATTTTAATTTATT
24676245 TT
1 TT
24676247 AAAGATTTTT
Statistics
Matches: 66, Mismatches: 6, Indels: 27
0.67 0.06 0.27
Matches are distributed among these distances:
19 13 0.20
20 16 0.24
21 24 0.36
22 8 0.12
23 1 0.02
24 2 0.03
25 2 0.03
ACGTcount: A:0.28, C:0.02, G:0.01, T:0.70
Consensus pattern (19 bp):
TTTTATATTTTAATTTATT
Found at i:24676279 original size:13 final size:13
Alignment explanation
Indices: 24676258--24676298 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
24676248 AAGATTTTTT
24676258 TATATCAAAATAA
1 TATATCAAAATAA
*
24676271 TATAACAAAAATAA
1 TATATC-AAAATAA
*
24676285 TATTTCAAAATAA
1 TATATCAAAATAA
24676298 T
1 T
24676299 GTCAATTTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
13 13 0.54
14 11 0.46
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.32
Consensus pattern (13 bp):
TATATCAAAATAA
Found at i:24681999 original size:16 final size:16
Alignment explanation
Indices: 24681975--24682014 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
24681965 AAATTTATAT
*
24681975 TTTTCATCCTTTC-AA
1 TTTTCATCCCTTCAAA
24681990 TTTTCTATCCCTTCAAA
1 TTTTC-ATCCCTTCAAA
24682007 TTTTCATC
1 TTTTCATC
24682015 TTTCTCATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 5 0.23
16 10 0.45
17 7 0.32
ACGTcount: A:0.20, C:0.28, G:0.00, T:0.53
Consensus pattern (16 bp):
TTTTCATCCCTTCAAA
Found at i:24686938 original size:46 final size:44
Alignment explanation
Indices: 24686878--24686992 Score: 131
Period size: 44 Copynumber: 2.6 Consensus size: 44
24686868 ACAGGACAGA
* *
24686878 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* * * *
24686924 AGAGGATTGAGCCATGTAAGTCTATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
24686968 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
24686993 GTCAAAGACA
Statistics
Matches: 57, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
44 33 0.58
46 24 0.42
ACGTcount: A:0.36, C:0.12, G:0.23, T:0.29
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:24686984 original size:44 final size:45
Alignment explanation
Indices: 24686878--24687011 Score: 126
Period size: 46 Copynumber: 3.0 Consensus size: 45
24686868 ACAGGACAGA
* * *
24686878 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATAAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* * * * *
24686924 AGAGGATTGAGCCATGTAAGTCTATATT-ATATATGGCATTGGAG
1 ACAGGAATAAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
** * * *
24686968 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATAAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
24687012 CAGGATATTG
Statistics
Matches: 70, Mismatches: 16, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
44 34 0.49
45 1 0.01
46 35 0.50
ACGTcount: A:0.35, C:0.13, G:0.25, T:0.28
Consensus pattern (45 bp):
ACAGGAATAAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:24688969 original size:15 final size:15
Alignment explanation
Indices: 24688944--24689001 Score: 80
Period size: 15 Copynumber: 3.8 Consensus size: 15
24688934 TCATATATAT
*
24688944 TATATAATTCAATTAA
1 TATA-AATTCAATCAA
24688960 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* *
24688975 AATAATTTCAATCAA
1 TATAAATTCAATCAA
24688990 TATAAATTCAAT
1 TATAAATTCAAT
24689002 AAATTCATCG
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
15 33 0.89
16 4 0.11
ACGTcount: A:0.52, C:0.10, G:0.00, T:0.38
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:24690270 original size:5 final size:5
Alignment explanation
Indices: 24690256--24690288 Score: 57
Period size: 5 Copynumber: 6.4 Consensus size: 5
24690246 TCTTTAGTTT
24690256 ATATA TATATA ATATA ATATA ATATA ATATA AT
1 ATATA -ATATA ATATA ATATA ATATA ATATA AT
24690289 TAAAACATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 22 0.81
6 5 0.19
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (5 bp):
ATATA
Found at i:24690324 original size:8 final size:8
Alignment explanation
Indices: 24690311--24690339 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
24690301 TATTTTTATT
24690311 ATATAATA
1 ATATAATA
24690319 ATATAATA
1 ATATAATA
24690327 ATATAATA
1 ATATAATA
24690335 ATATA
1 ATATA
24690340 CTAAACATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
ATATAATA
Found at i:24692221 original size:3 final size:3
Alignment explanation
Indices: 24692215--24692310 Score: 104
Period size: 3 Copynumber: 31.7 Consensus size: 3
24692205 TTTAGCAATT
* *
24692215 TTA TTA TTA TTA TCA TCTT TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * **
24692261 TCT- TTA CTA TTA TTA TTA TTA TTA TTA TTA TCA ATA TTA TGG TTA
1 T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
24692306 TTA TT
1 TTA TT
24692311 GTGATGTTTT
Statistics
Matches: 76, Mismatches: 14, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
2 1 0.01
3 73 0.96
4 2 0.03
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:24717344 original size:13 final size:13
Alignment explanation
Indices: 24717328--24717353 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
24717318 GTGTAACGTG
24717328 ACCGTGTGTCGCA
1 ACCGTGTGTCGCA
24717341 ACCGTGTGTCGCA
1 ACCGTGTGTCGCA
24717354 CATGGGTGAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.31, G:0.31, T:0.23
Consensus pattern (13 bp):
ACCGTGTGTCGCA
Found at i:24723990 original size:34 final size:34
Alignment explanation
Indices: 24723942--24724013 Score: 110
Period size: 34 Copynumber: 2.1 Consensus size: 34
24723932 GCATTTCTGT
*
24723942 TACTGTTACTGTAATGGGCTAAGGCCC-ACACTGA
1 TACTATTACTGTAATGGGCTAAGGCCCTA-ACTGA
*
24723976 TACTATTACTGTAATGGGCTATGGCCCTAACTGA
1 TACTATTACTGTAATGGGCTAAGGCCCTAACTGA
24724010 TACT
1 TACT
24724014 GGATTGTCAC
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
34 34 0.97
35 1 0.03
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (34 bp):
TACTATTACTGTAATGGGCTAAGGCCCTAACTGA
Found at i:24735188 original size:5 final size:5
Alignment explanation
Indices: 24735180--24735205 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
24735170 AAAATGGAAT
24735180 TCGAA TCGAA TCGAA TCGAA TCGAA T
1 TCGAA TCGAA TCGAA TCGAA TCGAA T
24735206 ATATTTGTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.23
Consensus pattern (5 bp):
TCGAA
Found at i:24743599 original size:36 final size:36
Alignment explanation
Indices: 24743552--24743623 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
24743542 TTCTACCAAT
24743552 GGATACATCTATGCCTGAAGTCAACTACTTCGATAG
1 GGATACATCTATGCCTGAAGTCAACTACTTCGATAG
24743588 GGATACATCTATGCCTGAAGTCAACTACTTCGATAG
1 GGATACATCTATGCCTGAAGTCAACTACTTCGATAG
24743624 CCAGGACTAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.28
Consensus pattern (36 bp):
GGATACATCTATGCCTGAAGTCAACTACTTCGATAG
Found at i:24743880 original size:16 final size:16
Alignment explanation
Indices: 24743859--24743892 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
24743849 CTATGCATGC
*
24743859 AAAATATAAAAGACAA
1 AAAATACAAAAGACAA
*
24743875 AAAATACAAAAGATAA
1 AAAATACAAAAGACAA
24743891 AA
1 AA
24743893 TGTGAAATGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.76, C:0.06, G:0.06, T:0.12
Consensus pattern (16 bp):
AAAATACAAAAGACAA
Found at i:24758218 original size:12 final size:12
Alignment explanation
Indices: 24758203--24758232 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
24758193 CATTGATCCA
24758203 CTCCTCAAATCT
1 CTCCTCAAATCT
*
24758215 CTCCCCAAATCT
1 CTCCTCAAATCT
24758227 CTCCTC
1 CTCCTC
24758233 TAACAAATTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.20, C:0.50, G:0.00, T:0.30
Consensus pattern (12 bp):
CTCCTCAAATCT
Found at i:24771660 original size:42 final size:42
Alignment explanation
Indices: 24771550--24771696 Score: 145
Period size: 44 Copynumber: 3.4 Consensus size: 42
24771540 TTTTGATATG
* **
24771550 TGATTT-TGTGTAAGACCACGTCTGGGATGTTGGCATCG-ATT
1 TGATTTCT-TGTAAGACCATGTCTGGGACATTGGCATCGTATT
* *
24771591 TGAAATTTATGTGTAAGACCATGTCTGGGGCATTGGCATCGTATT
1 TG--ATTTCT-TGTAAGACCATGTCTGGGACATTGGCATCGTATT
* *
24771636 TGATTTCTTGTAAGACCCTGTCTGGGACAGTGGCATCGATATT
1 TGATTTCTTGTAAGACCATGTCTGGGACATTGGCATCG-TATT
* * *
24771679 TGGTTACATGTAAGACCA
1 TGATTTCTTGTAAGACCA
24771697 AGTTTAGGAC
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
41 2 0.02
42 27 0.30
43 27 0.30
44 28 0.31
45 5 0.06
ACGTcount: A:0.23, C:0.16, G:0.27, T:0.35
Consensus pattern (42 bp):
TGATTTCTTGTAAGACCATGTCTGGGACATTGGCATCGTATT
Found at i:24771693 original size:43 final size:42
Alignment explanation
Indices: 24771558--24771696 Score: 129
Period size: 42 Copynumber: 3.2 Consensus size: 42
24771548 TGTGATTTTG
* * **
24771558 TGTAAGACCACGTCTGGGA-TGTTGGCATCG-ATTTGAAATTTATG
1 TGTAAGACCATGTCTGGGACAG-TGGCATCGTATTTG--A-TTACA
* * * *
24771602 TGTAAGACCATGTCTGGGGCATTGGCATCGTATTTGATTTCT
1 TGTAAGACCATGTCTGGGACAGTGGCATCGTATTTGATTACA
* *
24771644 TGTAAGACCCTGTCTGGGACAGTGGCATCGATATTTGGTTACA
1 TGTAAGACCATGTCTGGGACAGTGGCATCG-TATTTGATTACA
24771687 TGTAAGACCA
1 TGTAAGACCA
24771697 AGTTTAGGAC
Statistics
Matches: 78, Mismatches: 14, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
42 29 0.37
43 19 0.24
44 25 0.32
45 5 0.06
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.33
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACAGTGGCATCGTATTTGATTACA
Found at i:24780611 original size:41 final size:42
Alignment explanation
Indices: 24780548--24780632 Score: 118
Period size: 41 Copynumber: 2.0 Consensus size: 42
24780538 TAATTATGAG
*
24780548 CACTTAGTGTGCGAAATCGAGATAGCATTGGTTATATAT-TA
1 CACTTAGTGTGCGAAATCGAGATAGCATTGGCTATATATATA
* * * *
24780589 CACTTAGTGTGTGAGATTGAGATAGCTTTGGCTATATATATA
1 CACTTAGTGTGCGAAATCGAGATAGCATTGGCTATATATATA
24780631 CA
1 CA
24780633 TTGGCACTTA
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
41 34 0.89
42 4 0.11
ACGTcount: A:0.31, C:0.12, G:0.22, T:0.35
Consensus pattern (42 bp):
CACTTAGTGTGCGAAATCGAGATAGCATTGGCTATATATATA
Found at i:24780628 original size:43 final size:44
Alignment explanation
Indices: 24780532--24780629 Score: 116
Period size: 41 Copynumber: 2.3 Consensus size: 44
24780522 TTGAGTATGA
24780532 TTTGGCTA-AT-TATGAGCACTTAGTGTGCGAAATCGAGATAGC
1 TTTGGCTATATATATGAGCACTTAGTGTGCGAAATCGAGATAGC
* * * * *
24780574 ATTGG-T-TATATATTA-CACTTAGTGTGTGAGATTGAGATAGC
1 TTTGGCTATATATATGAGCACTTAGTGTGCGAAATCGAGATAGC
24780615 TTTGGCTATATATAT
1 TTTGGCTATATATAT
24780630 ACATTGGCAC
Statistics
Matches: 46, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
41 30 0.65
42 9 0.20
43 7 0.15
ACGTcount: A:0.29, C:0.10, G:0.23, T:0.38
Consensus pattern (44 bp):
TTTGGCTATATATATGAGCACTTAGTGTGCGAAATCGAGATAGC
Found at i:24781031 original size:56 final size:56
Alignment explanation
Indices: 24780945--24781176 Score: 455
Period size: 56 Copynumber: 4.1 Consensus size: 56
24780935 ACAAGGGATG
24780945 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
24781001 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
24781057 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
24781113 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
24781169 ATGGGCAA
1 ATGGGCAA
24781177 TAAACTAATA
Statistics
Matches: 175, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
56 175 1.00
ACGTcount: A:0.46, C:0.09, G:0.22, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:24783119 original size:38 final size:38
Alignment explanation
Indices: 24783068--24783143 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
24783058 TTCATCCTTT
*
24783068 TTCATTTCTTTTGGCCGACAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
24783106 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
24783144 GGAGTTCTTG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.32
Consensus pattern (38 bp):
TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
Found at i:24784426 original size:40 final size:40
Alignment explanation
Indices: 24784332--24784476 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
24784322 TACTCGAATG
*
24784332 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
24784373 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
24784413 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
24784453 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
24784477 CTTGTGCGAG
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 62 0.67
41 28 0.30
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:24784856 original size:61 final size:61
Alignment explanation
Indices: 24784757--24784880 Score: 239
Period size: 61 Copynumber: 2.0 Consensus size: 61
24784747 ATTATCCGTT
24784757 TAGCTATATGAATGCTATACTTTTGTTGTGCTGAAATCCCTTGCTCAAAACTTACTAAGCA
1 TAGCTATATGAATGCTATACTTTTGTTGTGCTGAAATCCCTTGCTCAAAACTTACTAAGCA
*
24784818 TAGCTATATGAATGCTATACTTTTGTTGTGCTGGAATCCCTTGCTCAAAACTTACTAAGCA
1 TAGCTATATGAATGCTATACTTTTGTTGTGCTGAAATCCCTTGCTCAAAACTTACTAAGCA
24784879 TA
1 TA
24784881 AATTGCTTAC
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 62 1.00
ACGTcount: A:0.29, C:0.19, G:0.15, T:0.36
Consensus pattern (61 bp):
TAGCTATATGAATGCTATACTTTTGTTGTGCTGAAATCCCTTGCTCAAAACTTACTAAGCA
Found at i:24785000 original size:34 final size:34
Alignment explanation
Indices: 24784961--24785028 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
24784951 TTTGGAAGTC
24784961 GAAGTCTCCCACACTATCAAAGCCCCCTTTTGGT
1 GAAGTCTCCCACACTATCAAAGCCCCCTTTTGGT
24784995 GAAGTCTCCCACACTATCAAAGCCCCCTTTTGGT
1 GAAGTCTCCCACACTATCAAAGCCCCCTTTTGGT
24785029 ACAATTTTGG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.24, C:0.35, G:0.15, T:0.26
Consensus pattern (34 bp):
GAAGTCTCCCACACTATCAAAGCCCCCTTTTGGT
Found at i:24785364 original size:34 final size:34
Alignment explanation
Indices: 24785321--24785388 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
24785311 ACCTTAAAGG
*
24785321 CAGATGCTGAGAGCAGCAGCGATGTGGATGTGAA
1 CAGATGCTGACAGCAGCAGCGATGTGGATGTGAA
24785355 CAGATGCTGACAGCAGCAGCGATGTGGATGTGAA
1 CAGATGCTGACAGCAGCAGCGATGTGGATGTGAA
24785389 AAATCACTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.29, C:0.16, G:0.37, T:0.18
Consensus pattern (34 bp):
CAGATGCTGACAGCAGCAGCGATGTGGATGTGAA
Found at i:24796120 original size:27 final size:27
Alignment explanation
Indices: 24796090--24796267 Score: 187
Period size: 27 Copynumber: 6.6 Consensus size: 27
24796080 ATATTGAGTC
* *
24796090 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
24796117 CGCACACTTAGTGCTACATAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
24796144 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
24796172 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
24796199 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* ** *
24796226 CGCACACTTAGTGCAACATAGCCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
24796253 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
24796268 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:24796229 original size:82 final size:81
Alignment explanation
Indices: 24796111--24796266 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
24796101 TGCTATATAA
* *
24796111 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGCCAAA-TCGCA
24796176 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
24796193 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGCCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGCCAAATCGCA
24796257 CACTTAGTGC
65 CACTTAGTGC
24796267 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGCCAAATCGCAC
ACTTAGTGCCGCATGG
Done.