Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032255.1 Gossypioides kirkii chromosome KI_13
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: 42971368
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2600 characters in sequence are not A, C, G, or T
File 52 of 143
Found at i:16886809 original size:12 final size:12
Alignment explanation
Indices: 16886792--16886849 Score: 52
Period size: 12 Copynumber: 5.1 Consensus size: 12
16886782 CTTTGTCTCC
16886792 TTTATTATTATT
1 TTTATTATTATT
16886804 TTTATTATT-TT
1 TTTATTATTATT
*
16886815 TGTA-T-TTA-T
1 TTTATTATTATT
*
16886824 TTTATATGTTATT
1 TTTAT-TATTATT
*
16886837 ATTATTATTATT
1 TTTATTATTATT
16886849 T
1 T
16886850 ATTTCTTATG
Statistics
Matches: 36, Mismatches: 5, Indels: 10
0.71 0.10 0.20
Matches are distributed among these distances:
9 6 0.17
10 1 0.03
11 6 0.17
12 18 0.50
13 5 0.14
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.72
Consensus pattern (12 bp):
TTTATTATTATT
Found at i:16886860 original size:28 final size:27
Alignment explanation
Indices: 16886792--16886853 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
16886782 CTTTGTCTCC
*
16886792 TTTATTATTAT-TTTTATTATTTTTGTA
1 TTTATT-TTATATGTTATTATTTTTGTA
16886819 TTTATTTTATATGTTATTATTATTAT-TA
1 TTTATTTTATATGTTATTATT-TT-TGTA
16886847 TTTATTT
1 TTTATTT
16886854 CTTATGTCAT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
26 4 0.13
27 15 0.48
28 11 0.35
29 1 0.03
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.73
Consensus pattern (27 bp):
TTTATTTTATATGTTATTATTTTTGTA
Found at i:16887089 original size:25 final size:24
Alignment explanation
Indices: 16887020--16887100 Score: 72
Period size: 25 Copynumber: 3.2 Consensus size: 24
16887010 TTTATTATCC
* *
16887020 TTTTATTAATTTATTTATGTTATTAA
1 TTTTATT-ATTCA-TTATGTTATTTA
**
16887046 TCATATTATTCATTAATGTTATTTA
1 TTTTATTATTCATT-ATGTTATTTA
*
16887071 TTTTATTATTCATGTATGTATTTTTA
1 TTTTATTATTCAT-TATGT-TATTTA
16887097 TTTT
1 TTTT
16887101 GCCATCATCA
Statistics
Matches: 45, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
24 2 0.04
25 28 0.62
26 15 0.33
ACGTcount: A:0.27, C:0.04, G:0.05, T:0.64
Consensus pattern (24 bp):
TTTTATTATTCATTATGTTATTTA
Found at i:16892188 original size:27 final size:28
Alignment explanation
Indices: 16892122--16892194 Score: 87
Period size: 27 Copynumber: 2.6 Consensus size: 28
16892112 ACTTCGAAGG
* * *
16892122 ATAGCTCGGTTAGAGCTTTGAATCATTT
1 ATAGCTCGGGTAGAGCTTCGAATCATAT
*
16892150 ATAGCTCAGGTAGAGCTTCG-ATC-TGAT
1 ATAGCTCGGGTAGAGCTTCGAATCAT-AT
16892177 ATAGCTCGGGTAGAGCTT
1 ATAGCTCGGGTAGAGCTT
16892195 TGGACTGCTT
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
26 1 0.03
27 21 0.54
28 17 0.44
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.33
Consensus pattern (28 bp):
ATAGCTCGGGTAGAGCTTCGAATCATAT
Found at i:16892246 original size:28 final size:27
Alignment explanation
Indices: 16892215--16892304 Score: 69
Period size: 28 Copynumber: 3.2 Consensus size: 27
16892205 ACGTCTCGAT
16892215 TAGAGCATAATGCTATGTATAGCTCAGG
1 TAGAGC-TAATGCTATGTATAGCTCAGG
* * *
16892243 TAGAGCT-TTG-GACTGCT-TACGTCTCAGT
1 TAGAGCTAATGCTA-TG-TATA-G-CTCAGG
*
16892271 TAGAGCGTAATGCTATGTATAGCTCAAG
1 TAGAGC-TAATGCTATGTATAGCTCAGG
16892299 TAGAGC
1 TAGAGC
16892305 CTGGGATTGC
Statistics
Matches: 47, Mismatches: 7, Indels: 16
0.67 0.10 0.23
Matches are distributed among these distances:
25 1 0.02
26 6 0.13
27 3 0.06
28 27 0.57
29 3 0.06
30 6 0.13
31 1 0.02
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.30
Consensus pattern (27 bp):
TAGAGCTAATGCTATGTATAGCTCAGG
Found at i:16892248 original size:56 final size:56
Alignment explanation
Indices: 16892176--16892397 Score: 313
Period size: 56 Copynumber: 4.0 Consensus size: 56
16892166 TTCGATCTGA
*
16892176 TATAGCTCGGGTAGAGCTTTGGACTGCTTACGTCTC-GATTAGAGCATAATGCTATG
1 TATAGCTCAGGTAGAGCTTTGGACTGCTTACGTCTCAG-TTAGAGCATAATGCTATG
*
16892232 TATAGCTCAGGTAGAGCTTTGGACTGCTTACGTCTCAGTTAGAGCGTAATGCTATG
1 TATAGCTCAGGTAGAGCTTTGGACTGCTTACGTCTCAGTTAGAGCATAATGCTATG
* * * * * *
16892288 TATAGCTCAAGTAGAGCCTGGGATTGCTTACGTCTCGGTTAGAGCGTAATGCTAT-
1 TATAGCTCAGGTAGAGCTTTGGACTGCTTACGTCTCAGTTAGAGCATAATGCTATG
* * * *
16892343 TATAGCTCGGGTAGAGCTTTGGTCTACTTACGTCTCAGTTAGAGCATAAAGCTAT
1 TATAGCTCAGGTAGAGCTTTGGACTGCTTACGTCTCAGTTAGAGCATAATGCTAT
16892398 TTCAGCTTTG
Statistics
Matches: 148, Mismatches: 17, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
55 45 0.30
56 102 0.69
57 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (56 bp):
TATAGCTCAGGTAGAGCTTTGGACTGCTTACGTCTCAGTTAGAGCATAATGCTATG
Found at i:16895753 original size:55 final size:56
Alignment explanation
Indices: 16895602--16895765 Score: 206
Period size: 56 Copynumber: 2.9 Consensus size: 56
16895592 ACTTCGAAGG
* * *
16895602 ATAGCTTGGGTAGAGCTTTGGACTGCTTACATCACGGTTAGAGCGTAATGTTATGT
1 ATAGCTTGGGTAGAGCTTTGGATTGCTTACATCTCGGTTAGAGCGTAATGCTATGT
* * **
16895658 ATAGCTCGAGTAGAGCTTTGGATTGCTTA-AGTCTTAGTTAGAGCGTAATGCTAT-T
1 ATAGCTTGGGTAGAGCTTTGGATTGCTTACA-TCTCGGTTAGAGCGTAATGCTATGT
* * * *
16895713 ATAGCTTGGGTAGAGCTTTGGTTTGTTTACATCTCGGTTAGAGCATAAAGCTA
1 ATAGCTTGGGTAGAGCTTTGGATTGCTTACATCTCGGTTAGAGCGTAATGCTA
16895766 ATTCAGCTTG
Statistics
Matches: 91, Mismatches: 15, Indels: 5
0.82 0.14 0.05
Matches are distributed among these distances:
55 45 0.49
56 46 0.51
ACGTcount: A:0.24, C:0.13, G:0.27, T:0.35
Consensus pattern (56 bp):
ATAGCTTGGGTAGAGCTTTGGATTGCTTACATCTCGGTTAGAGCGTAATGCTATGT
Found at i:16904624 original size:274 final size:274
Alignment explanation
Indices: 16904133--16904684 Score: 926
Period size: 274 Copynumber: 2.0 Consensus size: 274
16904123 AATTTACAGC
* *
16904133 CCTGAACTTTCAGTGGACATTTACGACATACCAAGTTAACAATGACACTATGACCCAAAGGGTTT
1 CCTGAACTTTCAATGGACATTTACGACATACCAAGTTAACAATGACACTATGACCCAAAAGGTTT
** * *
16904198 GTGACTTGCACATCAAATTTAGTCGATTCAATGACCAATTTCTTATCAGTGGCTAAGACAGTGCA
66 GTGACTTGCACATCAAATCCAATCGATTCAACGACCAATTTCTTATCAGTGGCTAAGACAGTGCA
*
16904263 AATATCTGAATGAGTTGACCCTAGGTCAATCAAAGCACATACAATGTCATTAAAAAGATAGAATA
131 AATATATGAATGAGTTGACCCTAGGTCAATCAAAGCACATACAATGTCATTAAAAAGATAGAATA
*
16904328 TACCAGTCACCACATCAGGAGCGGTAGCTTCTTCTCTAGCTCGAATGGCATAAGTCCGCGCAGGT
196 TACCAGTCACCACATCAGGAGCGGTAGCTTCTTCTCTAGCTCGAATGGCAAAAGTCCGCGCAGGT
** *
16904393 GCTTGAGCCTCTAA
261 GCTCAAGCCTCCAA
* *
16904407 CCTGAACTTTCAATGGATATTTATGACATACCAAGTTAACAATGACACTATGACCCAAAAGGTTT
1 CCTGAACTTTCAATGGACATTTACGACATACCAAGTTAACAATGACACTATGACCCAAAAGGTTT
* *
16904472 GTGGCTTGCACATCAAATCCAATCGATTCAACGACCAATTTCTTATCAGTGGCTAAGATAGTGCA
66 GTGACTTGCACATCAAATCCAATCGATTCAACGACCAATTTCTTATCAGTGGCTAAGACAGTGCA
16904537 AATATATGAATGAGTTGACCCTCA-GTCAATCAAAGCACATACAATGTCATTAAAAAGATAGAAT
131 AATATATGAATGAGTTGACCCT-AGGTCAATCAAAGCACATACAATGTCATTAAAAAGATAGAAT
* * *
16904601 ATACCAGTCACCACATTAGGAGCGGTAGCTTTTTCTCTAGCTCGGATGGCAAAAGTCCGCGCAGG
195 ATACCAGTCACCACATCAGGAGCGGTAGCTTCTTCTCTAGCTCGAATGGCAAAAGTCCGCGCAGG
16904666 TGCTCAAGCCTCCAA
260 TGCTCAAGCCTCCAA
16904681 CCTG
1 CCTG
16904685 CTCTCACTAT
Statistics
Matches: 259, Mismatches: 18, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
274 258 1.00
275 1 0.00
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.26
Consensus pattern (274 bp):
CCTGAACTTTCAATGGACATTTACGACATACCAAGTTAACAATGACACTATGACCCAAAAGGTTT
GTGACTTGCACATCAAATCCAATCGATTCAACGACCAATTTCTTATCAGTGGCTAAGACAGTGCA
AATATATGAATGAGTTGACCCTAGGTCAATCAAAGCACATACAATGTCATTAAAAAGATAGAATA
TACCAGTCACCACATCAGGAGCGGTAGCTTCTTCTCTAGCTCGAATGGCAAAAGTCCGCGCAGGT
GCTCAAGCCTCCAA
Found at i:16908210 original size:21 final size:22
Alignment explanation
Indices: 16908173--16908215 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
16908163 ACTTTCATCA
*
16908173 TTAAGCTTTAATTAACC-ATTT
1 TTAACCTTTAATTAACCTATTT
16908194 TTAACCTTT-ATTAAACCTATTT
1 TTAACCTTTAATT-AACCTATTT
16908216 ATAATCAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 3 0.16
21 12 0.63
22 4 0.21
ACGTcount: A:0.33, C:0.16, G:0.02, T:0.49
Consensus pattern (22 bp):
TTAACCTTTAATTAACCTATTT
Found at i:16910197 original size:53 final size:53
Alignment explanation
Indices: 16910013--16910299 Score: 339
Period size: 53 Copynumber: 5.5 Consensus size: 53
16910003 TTAATTTAGT
* * * *
16910013 ACTCACAATGACACATAGTCATCGGACCTCACAATCCGTAAATGATTCACAT-
1 ACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCATATA
* * *
16910065 ACTCACGATGACACGTAGTCATCGAACCTCATAATTCGTAAAGGATTCATAT-
1 ACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCATATA
* *
16910117 ACTCACGATGACACATAGTTATTGGACCTCATAATCCGTAAAGGATTCATATA
1 ACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCATATA
* * *
16910170 ACTCACGATGACACATAGTCATCGGACCT-TTAATCCATGATAGGATTCATATA
1 ACTCACGATGACACATAGTCATCGGACCTCATAATCCGT-AAAGGATTCATATA
* * * * * **
16910223 AATCACGATGACACAGAGGCATCGGGCCT-TTAATCCGTGATTGGATTCATATA
1 ACTCACGATGACACATAGTCATCGGACCTCATAATCCGT-AAAGGATTCATATA
* *
16910276 ACTCACGATGACGCAGAGTCATCG
1 ACTCACGATGACACATAGTCATCG
16910300 AAACTTTAAT
Statistics
Matches: 207, Mismatches: 26, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
52 99 0.48
53 108 0.52
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.26
Consensus pattern (53 bp):
ACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCATATA
Found at i:16916505 original size:21 final size:21
Alignment explanation
Indices: 16916461--16916508 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
16916451 AGTGCAAACC
* *
16916461 TCTACCGATACAAGTGATAGT
1 TCTACCGAAACAAGTCATAGT
* *
16916482 TCTACCGAAACAAGTCTTATT
1 TCTACCGAAACAAGTCATAGT
16916503 TCTACC
1 TCTACC
16916509 AATACTAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.31, C:0.25, G:0.12, T:0.31
Consensus pattern (21 bp):
TCTACCGAAACAAGTCATAGT
Found at i:16917349 original size:51 final size:52
Alignment explanation
Indices: 16917239--16917424 Score: 230
Period size: 52 Copynumber: 3.6 Consensus size: 52
16917229 TTTCATTTAG
* * * * * * *
16917239 TACTCACGATGACACATAGTCGTCGGACCCCACAATCCGTAAAGTATTCACA
1 TACTCACAATGACACATAGTCATCGAACCTCATAATCCGTAAAGAATTCATA
* * *
16917291 TACTCACAATGACACGTAGTCATCGAACCTCATAAT-CATAAAGGATTCATA
1 TACTCACAATGACACATAGTCATCGAACCTCATAATCCGTAAAGAATTCATA
* * *
16917342 TACTCACAATGACACATAGTCATTGGACTTCATAATCCGTAAAGAATTCATA
1 TACTCACAATGACACATAGTCATCGAACCTCATAATCCGTAAAGAATTCATA
*
16917394 TACCTCACGATGACACATAGTCATCGAACCT
1 TA-CTCACAATGACACATAGTCATCGAACCT
16917425 TTAATTTATG
Statistics
Matches: 113, Mismatches: 19, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
51 44 0.39
52 45 0.40
53 24 0.21
ACGTcount: A:0.36, C:0.26, G:0.13, T:0.25
Consensus pattern (52 bp):
TACTCACAATGACACATAGTCATCGAACCTCATAATCCGTAAAGAATTCATA
Found at i:16917444 original size:53 final size:51
Alignment explanation
Indices: 16917239--16917536 Score: 240
Period size: 53 Copynumber: 5.7 Consensus size: 51
16917229 TTTCATTTAG
* * *** * * *
16917239 TACTCACGATGACACATAGTCGTCGGACCCCACAATCCGTAAAGTATTCACA
1 TACTCACAATGACACATAGTCATCGGA-CCTTTAATCCATAAAGGATTCATA
* * *
16917291 TACTCACAATGACACGTAGTCATCGAACCTCATAAT-CATAAAGGATTCATA
1 TACTCACAATGACACATAGTCATCGGACCT-TTAATCCATAAAGGATTCATA
* * *
16917342 TACTCACAATGACACATAGTCATTGGA-CTTCATAATCCGTAAAGAATTCATA
1 TACTCACAATGACACATAGTCATCGGACCTT--TAATCCATAAAGGATTCATA
* * ** *
16917394 TACCTCACGATGACACATAGTCATCGAACCTTTAATTTATGATAGGATTCATA
1 TA-CTCACAATGACACATAGTCATCGGACCTTTAATCCAT-AAAGGATTCATA
** * * * * * * *
16917447 TAACTCATGATGGCATAGAGCCATCGGACCTTTAATCCGTGATAGGATTCATG
1 T-ACTCACAATGACACATAGTCATCGGACCTTTAATCCAT-AAAGGATTCATA
*
16917500 TAACTCACAATGACACAGAGTCATCGGACCTTTAATC
1 T-ACTCACAATGACACATAGTCATCGGACCTTTAATC
16917537 TTTGGCACAA
Statistics
Matches: 200, Mismatches: 38, Indels: 15
0.79 0.15 0.06
Matches are distributed among these distances:
50 2 0.01
51 42 0.21
52 47 0.23
53 105 0.52
54 4 0.02
ACGTcount: A:0.35, C:0.24, G:0.15, T:0.27
Consensus pattern (51 bp):
TACTCACAATGACACATAGTCATCGGACCTTTAATCCATAAAGGATTCATA
Found at i:16917513 original size:106 final size:103
Alignment explanation
Indices: 16917272--16917535 Score: 273
Period size: 106 Copynumber: 2.5 Consensus size: 103
16917262 CGGACCCCAC
* * * *
16917272 AATCCGTAAAGTATTCACAT-ACTCACAATGACACGTAGTCATCGAACCTCATAA-TCATAAAGG
1 AATCCGTAAAGAATTCATATAACTCACAATGACACATAGTCATCGAACCT-TTAATTCATAAAGG
* * *
16917335 ATTCATATACTCACAATGACACATAGTCATTGGACTTCAT
65 ATTCATATACTCACAATGACACAGAGCCATCGGACTT-AT
* * * *
16917375 AATCCGTAAAGAATTCATATACCTCACGATGACACATAGTCATCGAACCTTTAATTTATGATAGG
1 AATCCGTAAAGAATTCATATAACTCACAATGACACATAGTCATCGAACCTTTAATTCAT-AAAGG
** * *
16917440 ATTCATATAACTCATGATGGCATAGAGCCATCGGACCTT-T
65 ATTCATAT-ACTCACAATGACACAGAGCCATCGGA-CTTAT
* * * * *
16917480 AATCCGTGATAGGATTCATGTAACTCACAATGACACAGAGTCATCGGACCTTTAAT
1 AATCCGT-AAAGAATTCATATAACTCACAATGACACATAGTCATCGAACCTTTAAT
16917536 CTTTGGCACA
Statistics
Matches: 133, Mismatches: 22, Indels: 9
0.81 0.13 0.05
Matches are distributed among these distances:
103 21 0.16
104 29 0.22
105 20 0.15
106 60 0.45
107 3 0.02
ACGTcount: A:0.36, C:0.22, G:0.14, T:0.28
Consensus pattern (103 bp):
AATCCGTAAAGAATTCATATAACTCACAATGACACATAGTCATCGAACCTTTAATTCATAAAGGA
TTCATATACTCACAATGACACAGAGCCATCGGACTTAT
Found at i:16918886 original size:60 final size:60
Alignment explanation
Indices: 16918840--16919035 Score: 268
Period size: 60 Copynumber: 3.3 Consensus size: 60
16918830 TTATTAAAGA
16918840 AGACAAGCTGCCAGTATTGTGGACAAACCACCAGTA-TCGTAAATAAATTGCCAATAATGC
1 AGACAAGCTGCCAGTATTGTGGACAAACCACCAGTAGT-GTAAATAAATTGCCAATAATGC
* * * *
16918900 AGACAAGCTGCCAGTATTTTGGACAAATCACCAGGAGTGTAAATAAATTGCCAGTAATGC
1 AGACAAGCTGCCAGTATTGTGGACAAACCACCAGTAGTGTAAATAAATTGCCAATAATGC
* * * * * *
16918960 AGACAAGCTGCCAGTATTGTGGACAAGCCACCAGTAATGCAGATAAACTGCCACTAATGC
1 AGACAAGCTGCCAGTATTGTGGACAAACCACCAGTAGTGTAAATAAATTGCCAATAATGC
* *
16919020 AGATAAGCTGCGAGTA
1 AGACAAGCTGCCAGTA
16919036 CTTCCTCCTT
Statistics
Matches: 120, Mismatches: 15, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
60 119 0.99
61 1 0.01
ACGTcount: A:0.37, C:0.21, G:0.21, T:0.21
Consensus pattern (60 bp):
AGACAAGCTGCCAGTATTGTGGACAAACCACCAGTAGTGTAAATAAATTGCCAATAATGC
Found at i:16918971 original size:20 final size:20
Alignment explanation
Indices: 16918948--16919035 Score: 86
Period size: 20 Copynumber: 4.4 Consensus size: 20
16918938 GTAAATAAAT
16918948 TGCCAGTAATGCAGACAAGC
1 TGCCAGTAATGCAGACAAGC
* **
16918968 TGCCAGTATTGTGGACAAGC
1 TGCCAGTAATGCAGACAAGC
** * *
16918988 CACCAGTAATGCAGATAAAC
1 TGCCAGTAATGCAGACAAGC
* *
16919008 TGCCACTAATGCAGATAAGC
1 TGCCAGTAATGCAGACAAGC
*
16919028 TGCGAGTA
1 TGCCAGTA
16919036 CTTCCTCCTT
Statistics
Matches: 52, Mismatches: 16, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
20 52 1.00
ACGTcount: A:0.34, C:0.23, G:0.24, T:0.19
Consensus pattern (20 bp):
TGCCAGTAATGCAGACAAGC
Found at i:16922846 original size:27 final size:27
Alignment explanation
Indices: 16922808--16922859 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
16922798 AAATAGAGTG
*
16922808 TAAGAGAAATCATGTTTGTGTTTTTGC
1 TAAGAGAAATCATGATTGTGTTTTTGC
16922835 TAAGAGAAATCATGATTGTGTTTTT
1 TAAGAGAAATCATGATTGTGTTTTT
16922860 TAAATAAGCG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.29, C:0.06, G:0.21, T:0.44
Consensus pattern (27 bp):
TAAGAGAAATCATGATTGTGTTTTTGC
Found at i:16926416 original size:21 final size:20
Alignment explanation
Indices: 16926369--16926416 Score: 53
Period size: 22 Copynumber: 2.4 Consensus size: 20
16926359 CTATGTAAGT
*
16926369 ATGAG-TTTTAGGTTAAAAA
1 ATGAGTTTTTAGCTTAAAAA
*
16926388 ACTAAGTTTTTAAGCTTAAAAA
1 A-TGAGTTTTT-AGCTTAAAAA
16926410 ATGAGTT
1 ATGAGTT
16926417 AAATTATATT
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
19 1 0.04
20 3 0.13
21 9 0.39
22 10 0.43
ACGTcount: A:0.42, C:0.04, G:0.17, T:0.38
Consensus pattern (20 bp):
ATGAGTTTTTAGCTTAAAAA
Found at i:16928197 original size:20 final size:20
Alignment explanation
Indices: 16928172--16928214 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
16928162 GTTTTTTATT
*
16928172 GTTGTTAGTTT-TAGTAGTTA
1 GTTGTTACTTTAT-GTAGTTA
16928192 GTTGTTACTTTATGTAGTTA
1 GTTGTTACTTTATGTAGTTA
16928212 GTT
1 GTT
16928215 TAATTGCATC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 20 0.95
21 1 0.05
ACGTcount: A:0.19, C:0.02, G:0.23, T:0.56
Consensus pattern (20 bp):
GTTGTTACTTTATGTAGTTA
Found at i:16938012 original size:16 final size:16
Alignment explanation
Indices: 16937988--16938019 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
16937978 TATTTTTTTT
*
16937988 GTCTGAAGATCGGATC
1 GTCTAAAGATCGGATC
16938004 GTCTAAAGATCGGATC
1 GTCTAAAGATCGGATC
16938020 ATCTTGAAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (16 bp):
GTCTAAAGATCGGATC
Found at i:16938833 original size:18 final size:18
Alignment explanation
Indices: 16938794--16938845 Score: 79
Period size: 18 Copynumber: 2.9 Consensus size: 18
16938784 TGTTAGTAAG
* *
16938794 CATTATCATTGCA-TTCC
1 CATTGTCATTGCATTTTC
16938811 CATTGTCATTGCATTTTC
1 CATTGTCATTGCATTTTC
16938829 CATTGTCATTGCATTTT
1 CATTGTCATTGCATTTT
16938846 AATGTTAGTG
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
17 12 0.38
18 20 0.62
ACGTcount: A:0.19, C:0.23, G:0.10, T:0.48
Consensus pattern (18 bp):
CATTGTCATTGCATTTTC
Found at i:16947805 original size:17 final size:17
Alignment explanation
Indices: 16947783--16947821 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
16947773 ACTATGATAA
16947783 AAGTAAATTACATCGAC
1 AAGTAAATTACATCGAC
**
16947800 AAGTAAATTGTATCGAC
1 AAGTAAATTACATCGAC
16947817 AAGTA
1 AAGTA
16947822 TTATTTTCTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.46, C:0.13, G:0.15, T:0.26
Consensus pattern (17 bp):
AAGTAAATTACATCGAC
Found at i:16958124 original size:49 final size:49
Alignment explanation
Indices: 16958068--16958627 Score: 471
Period size: 49 Copynumber: 11.4 Consensus size: 49
16958058 AAATGATGCA
* * *
16958068 AAGGGAAAGGTTTAAGTCGCAATGACGAACCTTATACCTCAGAAGCATG
1 AAGGGAAAGATTTAAGTCGCAACGACGAACCTTGTACCTCAGAAGCATG
* * ** * * *
16958117 AAGGGAAAGATTTAAGCCGCAATGGTGAATCTGGTA-CAC-GAAG-ATTTG
1 AAGGGAAAGATTTAAGTCGCAACGACGAACCTTGTACCTCAGAAGCA--TG
*
16958165 AAGGGAAAGGTTTAAGTCGCAACGACGAACCTTGTACCTCAGAAGCATG
1 AAGGGAAAGATTTAAGTCGCAACGACGAACCTTGTACCTCAGAAGCATG
* * * * * *
16958214 AATGGAAAAATTTAAG-CTGCAACGGCGAATCC-AGTACCAC-GAAGATATG
1 AAGGGAAAGATTTAAGTC-GCAACGACGAA-CCTTGTACCTCAGAAG-CATG
* * * *
16958263 AAGGGGAAGGTTTAAGTCGCAACGATGAACCTTGTACCTCAAAAGCATG
1 AAGGGAAAGATTTAAGTCGCAACGACGAACCTTGTACCTCAGAAGCATG
* * * * * * *
16958312 AAGGGAAATATTTAAGCCGTAACGAGGAATCC-GGTACCAC-GAAGATATG
1 AAGGGAAAGATTTAAGTCGCAACGACGAA-CCTTGTACCTCAGAAG-CATG
* *
16958361 AAGGGAAAGGTTTAAGTCGCAACGACGAACCTTGTACCTCAAAAGCATG
1 AAGGGAAAGATTTAAGTCGCAACGACGAACCTTGTACCTCAGAAGCATG
** * * * *
16958410 AAGGGAAAGATTTAAACCGCAACGGCGAATCC-GGTACCAC-GAAGATATG
1 AAGGGAAAGATTTAAGTCGCAACGACGAA-CCTTGTACCTCAGAAG-CATG
* * *
16958459 AAGGGGAAGGTTTAAGTCGCAACGACGAACCTTGTACCTTAGAAGCATG
1 AAGGGAAAGATTTAAGTCGCAACGACGAACCTTGTACCTCAGAAGCATG
* ** * * *
16958508 AAAGGAAAGATTTAAACCGCAACGACGAATCC-AGTACCACA-AAGATATG
1 AAGGGAAAGATTTAAGTCGCAACGACGAA-CCTTGTACCTCAGAAG-CATG
* * *
16958557 AAGAGG-AAGGTTTAAGTCGCAACGGCGAACCTTGTACCTTAGAAGCATG
1 AAG-GGAAAGATTTAAGTCGCAACGACGAACCTTGTACCTCAGAAGCATG
* *
16958606 AAGGAAAAGATTTAAGCCGCAA
1 AAGGGAAAGATTTAAGTCGCAA
16958628 TGGCAAATCC
Statistics
Matches: 396, Mismatches: 90, Indels: 50
0.74 0.17 0.09
Matches are distributed among these distances:
46 1 0.00
47 4 0.01
48 56 0.14
49 306 0.77
50 28 0.07
51 1 0.00
ACGTcount: A:0.38, C:0.18, G:0.26, T:0.19
Consensus pattern (49 bp):
AAGGGAAAGATTTAAGTCGCAACGACGAACCTTGTACCTCAGAAGCATG
Found at i:16958643 original size:49 final size:49
Alignment explanation
Indices: 16958011--16958683 Score: 339
Period size: 49 Copynumber: 13.8 Consensus size: 49
16958001 TCATTACCTT
* * **
16958011 GAAGACATGAAAGG-AAAGATTTAAGCCACAACGGTGAATCCAGTACCAAA
1 GAAG-CATG-AAGGAAAAGATTTAAGCCGCAACGGCGAATCCAGTACCTCA
* * * * * *
16958061 TGATGCA--AAGGGAAAGGTTTAAGTCGCAATGACGAA-CCTTA-TACCTCA
1 -GAAGCATGAAGGAAAAGATTTAAGCCGCAACGGCGAATCC--AGTACCTCA
* * * ** *
16958109 GAAGCATGAAGGGAAAGATTTAAGCCGCAATGGTGAATCTGGTA-CAC-
1 GAAGCATGAAGGAAAAGATTTAAGCCGCAACGGCGAATCCAGTACCTCA
* * * * *
16958156 GAAG-ATTTGAAGGGAAAGGTTTAAGTCGCAACGACGAA-CCTTGTACCTCA
1 GAAGCA--TGAAGGAAAAGATTTAAGCCGCAACGGCGAATCC-AGTACCTCA
* *
16958206 GAAGCATGAATGGAAAA-ATTTAAGCTGCAACGGCGAATCCAGTACCAC-
1 GAAGCATGAA-GGAAAAGATTTAAGCCGCAACGGCGAATCCAGTACCTCA
* ** * * ** *
16958254 GAAGATATGAAGGGGAAGGTTTAAGTCGCAACGATGAA-CCTTGTACCTCA
1 GAAG-CATGAAGGAAAAGATTTAAGCCGCAACGGCGAATCC-AGTACCTCA
* * * * * *
16958304 AAAGCATGAAGGGAAATATTTAAGCCGTAACGAG-GAATCCGGTACCAC-
1 GAAGCATGAAGGAAAAGATTTAAGCCGCAACG-GCGAATCCAGTACCTCA
* * * * * *
16958352 GAAGATATGAAGGGAAAGGTTTAAGTCGCAACGACGAA-CCTTGTACCTCA
1 GAAG-CATGAAGGAAAAGATTTAAGCCGCAACGGCGAATCC-AGTACCTCA
* * * * *
16958402 AAAGCATGAAGGGAAAGATTTAAACCGCAACGGCGAATCCGGTACCAC-
1 GAAGCATGAAGGAAAAGATTTAAGCCGCAACGGCGAATCCAGTACCTCA
* ** * * * * *
16958450 GAAGATATGAAGGGGAAGGTTTAAGTCGCAACGACGAA-CCTTGTACCTTA
1 GAAG-CATGAAGGAAAAGATTTAAGCCGCAACGGCGAATCC-AGTACCTCA
* * *
16958500 GAAGCATGAAAGG-AAAGATTTAAACCGCAACGACGAATCCAGTACCACA
1 GAAGCATG-AAGGAAAAGATTTAAGCCGCAACGGCGAATCCAGTACCTCA
* * * * * *
16958549 -AAGATATGAA-GAGGAAGGTTTAAGTCGCAACGGCGAA-CCTTGTACCTTA
1 GAAG-CATGAAGGA-AAAGATTTAAGCCGCAACGGCGAATCC-AGTACCTCA
* * *
16958598 GAAGCATGAAGGAAAAGATTTAAGCCGCAATGGCAAATCCAGTACCAC-
1 GAAGCATGAAGGAAAAGATTTAAGCCGCAACGGCGAATCCAGTACCTCA
* * * *
16958646 GAAGATATGAAGGGAAAG-GTTACGACCGCAACGGCGAA
1 GAAG-CATGAAGGAAAAGATTTAAG-CCGCAACGGCGAA
16958684 CCCGATACCT
Statistics
Matches: 471, Mismatches: 111, Indels: 82
0.71 0.17 0.12
Matches are distributed among these distances:
46 1 0.00
47 17 0.04
48 89 0.19
49 319 0.68
50 41 0.09
51 4 0.01
ACGTcount: A:0.38, C:0.18, G:0.26, T:0.18
Consensus pattern (49 bp):
GAAGCATGAAGGAAAAGATTTAAGCCGCAACGGCGAATCCAGTACCTCA
Found at i:16958698 original size:98 final size:98
Alignment explanation
Indices: 16958011--16958666 Score: 917
Period size: 98 Copynumber: 6.7 Consensus size: 98
16958001 TCATTACCTT
* * * ***
16958011 GAAGACATGAAAGGAAAGATTTAAGCCACAACGGTGAATCCAGTACCA--AATGATGCAAAGGGA
1 GAAG-CATGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGAA-GATATGAAGGGA
* *
16958074 AAGGTTTAAGTCGCAATGACGAACCTTATACCTCA
64 AAGGTTTAAGTCGCAACGACGAACCTTGTACCTCA
* * ** *
16958109 GAAGCATGAAGGGAAAGATTTAAGCCGCAATGGTGAATCTGGTA-CACGAAGATTTGAAGGGAAA
1 GAAGCATGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGAAGATATGAAGGGAAA
16958173 GGTTTAAGTCGCAACGACGAACCTTGTACCTCA
66 GGTTTAAGTCGCAACGACGAACCTTGTACCTCA
* * * *
16958206 GAAGCATGAATGGAAAAATTTAAGCTGCAACGGCGAATCCAGTACCACGAAGATATGAAGGGGAA
1 GAAGCATGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGAAGATATGAAGGGAAA
*
16958271 GGTTTAAGTCGCAACGATGAACCTTGTACCTCA
66 GGTTTAAGTCGCAACGACGAACCTTGTACCTCA
* * * *
16958304 AAAGCATGAAGGGAAATATTTAAGCCGTAACGAG-GAATCCGGTACCACGAAGATATGAAGGGAA
1 GAAGCATGAAGGGAAAGATTTAAGCCGCAACG-GCGAATCCAGTACCACGAAGATATGAAGGGAA
16958368 AGGTTTAAGTCGCAACGACGAACCTTGTACCTCA
65 AGGTTTAAGTCGCAACGACGAACCTTGTACCTCA
* * * *
16958402 AAAGCATGAAGGGAAAGATTTAAACCGCAACGGCGAATCCGGTACCACGAAGATATGAAGGGGAA
1 GAAGCATGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGAAGATATGAAGGGAAA
*
16958467 GGTTTAAGTCGCAACGACGAACCTTGTACCTTA
66 GGTTTAAGTCGCAACGACGAACCTTGTACCTCA
* * * *
16958500 GAAGCATGAAAGGAAAGATTTAAACCGCAACGACGAATCCAGTACCACAAAGATATGAAGAGG-A
1 GAAGCATGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGAAGATATGAAG-GGAA
* *
16958564 AGGTTTAAGTCGCAACGGCGAACCTTGTACCTTA
65 AGGTTTAAGTCGCAACGACGAACCTTGTACCTCA
* * *
16958598 GAAGCATGAAGGAAAAGATTTAAGCCGCAATGGCAAATCCAGTACCACGAAGATATGAAGGGAAA
1 GAAGCATGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGAAGATATGAAGGGAAA
16958663 GGTT
66 GGTT
16958667 ACGACCGCAA
Statistics
Matches: 505, Mismatches: 46, Indels: 14
0.89 0.08 0.02
Matches are distributed among these distances:
96 2 0.00
97 117 0.23
98 383 0.76
99 3 0.01
ACGTcount: A:0.38, C:0.18, G:0.25, T:0.18
Consensus pattern (98 bp):
GAAGCATGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGAAGATATGAAGGGAAA
GGTTTAAGTCGCAACGACGAACCTTGTACCTCA
Found at i:16959063 original size:78 final size:77
Alignment explanation
Indices: 16958937--16959337 Score: 412
Period size: 78 Copynumber: 5.2 Consensus size: 77
16958927 ATCATTGGTC
* * *
16958937 AATCTCTTA-CCCGAGCTTGGGGCAGATTGCAACCATTCGATCTCTTACCTCAAGCCTGAGGCAG
1 AATCTCTTACCCCGAGCTTGGGGCAGATTACAGCCATTCGATCT-TTACCCCAAGCCTGAGGCAG
* *
16959001 ATCACCATCAACC
65 ATCATCATCAACA
** * * * * * * *
16959014 AATCTCTTACCTTGAGCCTGGGGCAAATTACAGCCATTTGATCATTTACCCCGAGCTTGGGGCAT
1 AATCTCTTACCCCGAGCTTGGGGCAGATTACAGCCATTCGATC-TTTACCCCAAGCCTGAGGCAG
*
16959079 ATCATCATCAACT
65 ATCATCATCAACA
* * ** ** * *
16959092 AATCTCTTACCCCGAGCTTGGGGCAAAGTGTAGCCATTCGATCTTTTACCCTGAGCTTGGGGCAG
1 AATCTCTTACCCCGAGCTTGGGGCAGATTACAGCCATTCGATC-TTTACCCCAAGCCTGAGGCAG
**
16959157 ATCATCATCATTA
65 ATCATCATCAACA
* * *
16959170 AATCTCTTACCCCGAGCCTGGGGCAGAGTACAGCTATTCGATCTTTTACCCCAAGCCT-AGGGCA
1 AATCTCTTACCCCGAGCTTGGGGCAGATTACAGCCATTCGATC-TTTACCCCAAGCCTGA-GGCA
16959234 GATCATCATCAACA
64 GATCATCATCAACA
* * *
16959248 AATCTCTTACCCCGAGCTTGGGGCAGATTACAACCATTCGATCTCTTACCTCAAGCCTAAGGCAG
1 AATCTCTTACCCCGAGCTTGGGGCAGATTACAGCCATTCGATCT-TTACCCCAAGCCTGAGGCAG
* **
16959313 ATTA-CTATCAATT
65 ATCATC-ATCAACA
16959326 AATCTCTTACCC
1 AATCTCTTACCC
16959338 GATCATAGGG
Statistics
Matches: 272, Mismatches: 46, Indels: 11
0.83 0.14 0.03
Matches are distributed among these distances:
77 11 0.04
78 259 0.95
79 2 0.01
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (77 bp):
AATCTCTTACCCCGAGCTTGGGGCAGATTACAGCCATTCGATCTTTACCCCAAGCCTGAGGCAGA
TCATCATCAACA
Found at i:16959102 original size:39 final size:40
Alignment explanation
Indices: 16958935--16959337 Score: 219
Period size: 39 Copynumber: 10.3 Consensus size: 40
16958925 ACATCATTGG
* *
16958935 TCAATCTCTTA-CCCGAGCTTGGGGCAGAT--TGCAACCAT
1 TCAATCTCTTACCCCGAGCTTGGGGCAGATCAT-CATCAAT
* * * * * *
16958973 TCGATCTCTTACCTCAAGCCTGAGGCAGATCACCATCAA-
1 TCAATCTCTTACCCCGAGCTTGGGGCAGATCATCATCAAT
* ** * * * * *
16959012 CCAATCTCTTACCTTGAGCCTGGGGCAAATTA-CAGCCAT
1 TCAATCTCTTACCCCGAGCTTGGGGCAGATCATCATCAAT
** * *
16959051 TTGATCAT-TTACCCCGAGCTTGGGGCATATCATCATCAAC
1 TCAATC-TCTTACCCCGAGCTTGGGGCAGATCATCATCAAT
* * * *
16959091 T-AATCTCTTACCCCGAGCTTGGGGCAAAGT-GT-AGCCAT
1 TCAATCTCTTACCCCGAGCTTGGGGCAGA-TCATCATCAAT
* * *
16959129 TCGATCTTTTACCCTGAGCTTGGGGCAGATCATCATC-AT
1 TCAATCTCTTACCCCGAGCTTGGGGCAGATCATCATCAAT
* * * *
16959168 TAAATCTCTTACCCCGAGCCTGGGGCAGAGT-A-CAGCTAT
1 TCAATCTCTTACCCCGAGCTTGGGGCAGA-TCATCATCAAT
* * * * *
16959207 TCGATCTTTTACCCCAAGCCTAGGGCAGATCATCATCAA-
1 TCAATCTCTTACCCCGAGCTTGGGGCAGATCATCATCAAT
* * *
16959246 -CAAATCTCTTACCCCGAGCTTGGGGCAGATTA-CAACCAT
1 TC-AATCTCTTACCCCGAGCTTGGGGCAGATCATCATCAAT
* * * * ** *
16959285 TCGATCTCTTACCTCAAGCCTAAGGCAGATTA-CTATCAAT
1 TCAATCTCTTACCCCGAGCTTGGGGCAGATCATC-ATCAAT
16959325 T-AATCTCTTACCC
1 TCAATCTCTTACCC
16959338 GATCATAGGG
Statistics
Matches: 275, Mismatches: 71, Indels: 37
0.72 0.19 0.10
Matches are distributed among these distances:
38 29 0.11
39 222 0.81
40 24 0.09
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (40 bp):
TCAATCTCTTACCCCGAGCTTGGGGCAGATCATCATCAAT
Found at i:16959233 original size:156 final size:156
Alignment explanation
Indices: 16958937--16959337 Score: 491
Period size: 156 Copynumber: 2.6 Consensus size: 156
16958927 ATCATTGGTC
* *
16958937 AATCTCTTA-CCCGAGCTTGGGGCAGATTGCAACCATTCGATCTCTTACCTCAAGCCTGAGGCAG
1 AATCTCTTACCCCGAGCTTGGGGCAAAGTGCAACCATTCGATCTCTTACCTCAAGCCTGAGGCAG
* ** * *
16959001 ATCACCATCAACCAATCTCTTACCTTGAGCCTGGGGCAAATTACAGCCATTTGATCATTTACCCC
66 ATCACCATCAACAAATCTCTTACCCCGAGCCTGGGGCAAAGTACAGCCATTCGATCATTTACCCC
* * * * *
16959066 GAGCTTGGGGCATATCATCATCAACT
131 AAGCCTAGGGCAGATCATCATCAACA
* * * * * *
16959092 AATCTCTTACCCCGAGCTTGGGGCAAAGTGTAGCCATTCGATCTTTTACC-CTGAGCTTGGGGCA
1 AATCTCTTACCCCGAGCTTGGGGCAAAGTGCAACCATTCGATCTCTTACCTC-AAGCCTGAGGCA
* ** * * *
16959156 GATCATCATCATTAAATCTCTTACCCCGAGCCTGGGGCAGAGTACAGCTATTCGATCTTTTACCC
65 GATCACCATCAACAAATCTCTTACCCCGAGCCTGGGGCAAAGTACAGCCATTCGATCATTTACCC
16959221 CAAGCCTAGGGCAGATCATCATCAACA
130 CAAGCCTAGGGCAGATCATCATCAACA
* * * *
16959248 AATCTCTTACCCCGAGCTTGGGGCAGATTACAACCATTCGATCTCTTACCTCAAGCCTAAGGCAG
1 AATCTCTTACCCCGAGCTTGGGGCAAAGTGCAACCATTCGATCTCTTACCTCAAGCCTGAGGCAG
* * **
16959313 ATTACTATCAATTAATCTCTTACCC
66 ATCACCATCAACAAATCTCTTACCC
16959338 GATCATAGGG
Statistics
Matches: 204, Mismatches: 39, Indels: 5
0.82 0.16 0.02
Matches are distributed among these distances:
155 10 0.05
156 193 0.95
157 1 0.00
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (156 bp):
AATCTCTTACCCCGAGCTTGGGGCAAAGTGCAACCATTCGATCTCTTACCTCAAGCCTGAGGCAG
ATCACCATCAACAAATCTCTTACCCCGAGCCTGGGGCAAAGTACAGCCATTCGATCATTTACCCC
AAGCCTAGGGCAGATCATCATCAACA
Found at i:16977638 original size:19 final size:19
Alignment explanation
Indices: 16977625--16977662 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
16977615 TTATATTTTT
16977625 TTATTTTTAATATAATTAA
1 TTATTTTTAATATAATTAA
* *
16977644 TTATTTTTCATATAGTTAA
1 TTATTTTTAATATAATTAA
16977663 ATACTAATAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.37, C:0.03, G:0.03, T:0.58
Consensus pattern (19 bp):
TTATTTTTAATATAATTAA
Found at i:16984534 original size:41 final size:42
Alignment explanation
Indices: 16984438--16984534 Score: 106
Period size: 43 Copynumber: 2.3 Consensus size: 42
16984428 ACTTGATGTA
* * **
16984438 TAAATGGAAGACTCGTGTTTCGGATTGAGCATGAGAATTTATAT
1 TAAA-GGAAGACTCGTGATTCGAAACGAGCATGAGAA-TTATAT
* * *
16984482 GAATGGAAGACTCGTGATTCGAAACGAGCATGAGGA-TATAT
1 TAAAGGAAGACTCGTGATTCGAAACGAGCATGAGAATTATAT
16984523 TAAAGGAAGACT
1 TAAAGGAAGACT
16984535 TATGTCTCAG
Statistics
Matches: 44, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
41 15 0.34
43 27 0.61
44 2 0.05
ACGTcount: A:0.36, C:0.10, G:0.27, T:0.27
Consensus pattern (42 bp):
TAAAGGAAGACTCGTGATTCGAAACGAGCATGAGAATTATAT
Found at i:16984575 original size:42 final size:42
Alignment explanation
Indices: 16984522--16984630 Score: 130
Period size: 42 Copynumber: 2.5 Consensus size: 42
16984512 TGAGGATATA
*
16984522 TTAAAGGAAGACTTATGTCTCAGG-ATGAGAATGAGAATATGT
1 TTAAAGGAAGACTTATGACTC-GGAATGAGAATGAGAATATGT
* ** *
16984564 TTAAAGGAAGACTCATGACTCGGAATGAGCGTGAGATTATGT
1 TTAAAGGAAGACTTATGACTCGGAATGAGAATGAGAATATGT
*
16984606 TTAAAAAGGAAGACTTATAACTCGG
1 TT--AAAGGAAGACTTATGACTCGG
16984631 TAGAGCACAA
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
41 2 0.04
42 36 0.63
44 19 0.33
ACGTcount: A:0.38, C:0.10, G:0.26, T:0.27
Consensus pattern (42 bp):
TTAAAGGAAGACTTATGACTCGGAATGAGAATGAGAATATGT
Found at i:16987556 original size:195 final size:196
Alignment explanation
Indices: 16987214--16987656 Score: 692
Period size: 195 Copynumber: 2.3 Consensus size: 196
16987204 TAAACTGATG
* *
16987214 CGATGGCTGGGGTACCGCATATGTTGCGAGTCTTTGACAGCT-TGTGTGAGCAGCATCGTGAGTC
1 CGATGGCTGGGGTACCGCATATGTTGCGAGTCCTCGACAGCTCT-TGTGAGCAGCATCGTGAGTC
*
16987278 GAAAAAATGAGAAATGAATCCAAGAATGGATTATAGGCCCTACGATGGCTGAGACTTATGCATAA
65 AAAAAAATGAGAAATGAATCCAAGAATGGATTATAGGCCCTACGATGGCTGAGACTTATGCATAA
* * * * *
16987343 GTGCATATTCTCGACAGCTTATGTGAGTAGCATCGTTAAGGAACAGTTATATGCACAAATATCGT
130 GTGCATATTCTCGACAGCTCATGTGAGCAGCATCATTAAGGAACAATTATATGCACAAATACCGT
16987408 AT
195 AT
* * * *
16987410 CGATGGTTGGGGTACCACATATGTTGCGAGTCCTCGACAGCTCTTGTGAGTAGCATTGTGAGT-A
1 CGATGGCTGGGGTACCGCATATGTTGCGAGTCCTCGACAGCTCTTGTGAGCAGCATCGTGAGTCA
*
16987474 AAAAAATGAGAAATGAATCCAAGAATGGATTATATGCCCTACGATGGCTGAGACTTATGCATAAG
66 AAAAAATGAGAAATGAATCCAAGAATGGATTATAGGCCCTACGATGGCTGAGACTTATGCATAAG
* * *
16987539 TGCATATTCTTGACAGCTCGTGTGAGCAGCATCATTAGGGAACAATTATATGCACAAATACCGTA
131 TGCATATTCTCGACAGCTCATGTGAGCAGCATCATTAAGGAACAATTATATGCACAAATACCGTA
16987604 T
196 T
* * *
16987605 CAATGGCTGGGGTACCGCATATGTTGCAAGTCCTCGACAGCTCGTGTGAGCA
1 CGATGGCTGGGGTACCGCATATGTTGCGAGTCCTCGACAGCTCTTGTGAGCA
16987657 CCACCGTTAG
Statistics
Matches: 224, Mismatches: 22, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
195 168 0.75
196 55 0.25
197 1 0.00
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.27
Consensus pattern (196 bp):
CGATGGCTGGGGTACCGCATATGTTGCGAGTCCTCGACAGCTCTTGTGAGCAGCATCGTGAGTCA
AAAAAATGAGAAATGAATCCAAGAATGGATTATAGGCCCTACGATGGCTGAGACTTATGCATAAG
TGCATATTCTCGACAGCTCATGTGAGCAGCATCATTAAGGAACAATTATATGCACAAATACCGTA
T
Found at i:16987670 original size:90 final size:90
Alignment explanation
Indices: 16987550--16987744 Score: 282
Period size: 90 Copynumber: 2.2 Consensus size: 90
16987540 GCATATTCTT
* * * **
16987550 GACAGCTCGTGTGAGCAGCATCATTAGGGAACAATTATATGCACAAATACCGTATCAATGGCTGG
1 GACAGCTCGTGTGAGCACCACCATTAGGGAACAATTATATGCACAAATACCGTATCAATGACTAA
*
16987615 GGTACCGCATATGTTGCAAGTCCTC
66 GGTACCGCATAAGTTGCAAGTCCTC
* * * *
16987640 GACAGCTCGTGTGAGCACCACCGTTAGGGAACAGTTATATGCACAGATACCGTATCGATGACTAA
1 GACAGCTCGTGTGAGCACCACCATTAGGGAACAATTATATGCACAAATACCGTATCAATGACTAA
* *
16987705 GGTATCGCATAAGTTGCGAGTCCTC
66 GGTACCGCATAAGTTGCAAGTCCTC
16987730 GACAGCTCGTGTGAG
1 GACAGCTCGTGTGAG
16987745 TAGTATCGTA
Statistics
Matches: 93, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
90 93 1.00
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.24
Consensus pattern (90 bp):
GACAGCTCGTGTGAGCACCACCATTAGGGAACAATTATATGCACAAATACCGTATCAATGACTAA
GGTACCGCATAAGTTGCAAGTCCTC
Found at i:16989247 original size:81 final size:80
Alignment explanation
Indices: 16989112--16989292 Score: 236
Period size: 81 Copynumber: 2.2 Consensus size: 80
16989102 TAGTTCTTGA
* * * *
16989112 CAGCTTGTGTGAGTAGCATCATGAGTGGTAATATGGACCCTAGCGATGGCTGAGGTCCTACATAT
1 CAGCTTGTGTGAGCAGCATCATAAGGGGTAATATGGACCCTAGCGATGGCTGAGGTCCGACATAT
* *
16989177 GTTGCGGATTCTTAT
66 GATGCGGATTCTCAT
* * * *
16989192 CAGCTTGTGTGAGCAACATCATAAGCGGGTAATCTGGACCGTATCGATGGCTGAGGTCCGACATA
1 CAGCTTGTGTGAGCAGCATCATAAG-GGGTAATATGGACCCTAGCGATGGCTGAGGTCCGACATA
* *
16989257 TGATGTGGGTTCTCAT
65 TGATGCGGATTCTCAT
*
16989273 CAGTTTGTGTGAGCAGCATC
1 CAGCTTGTGTGAGCAGCATC
16989293 GTATACTGGT
Statistics
Matches: 86, Mismatches: 14, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
80 22 0.26
81 64 0.74
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.29
Consensus pattern (80 bp):
CAGCTTGTGTGAGCAGCATCATAAGGGGTAATATGGACCCTAGCGATGGCTGAGGTCCGACATAT
GATGCGGATTCTCAT
Found at i:16997457 original size:24 final size:21
Alignment explanation
Indices: 16997428--16997482 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 21
16997418 AAGTATACAT
16997428 ACTACCAATACATTAGTAATATAA
1 ACTACCAATAC-TT-GTAAT-TAA
* * *
16997452 ATTACCGATACTTGTAATTTA
1 ACTACCAATACTTGTAATTAA
16997473 ACTACCAATA
1 ACTACCAATA
16997483 TAACCTAAGT
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
21 10 0.38
22 5 0.19
23 2 0.08
24 9 0.35
ACGTcount: A:0.44, C:0.18, G:0.05, T:0.33
Consensus pattern (21 bp):
ACTACCAATACTTGTAATTAA
Found at i:17002161 original size:22 final size:22
Alignment explanation
Indices: 17002112--17002161 Score: 91
Period size: 22 Copynumber: 2.3 Consensus size: 22
17002102 AAAAGGAGTA
*
17002112 AATTGAAAAAGGGGTAAAAGTT
1 AATTGCAAAAGGGGTAAAAGTT
17002134 AATTGCAAAAGGGGTAAAAGTT
1 AATTGCAAAAGGGGTAAAAGTT
17002156 AATTGC
1 AATTGC
17002162 TATTGATTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.46, C:0.04, G:0.26, T:0.24
Consensus pattern (22 bp):
AATTGCAAAAGGGGTAAAAGTT
Found at i:17011177 original size:81 final size:81
Alignment explanation
Indices: 17011079--17011258 Score: 216
Period size: 81 Copynumber: 2.2 Consensus size: 81
17011069 AGTTCCTGAT
* * * ** **
17011079 AGCTTGTGTGAGTAGCATCGTGAGTGGGTAATATGGACTGTAGCGATGGGTGAGGTCTTACATAC
1 AGCTTGTGTGAGCAGCATCGTAAGTAGGTAATATGGACCATAGCGATGGGTGAGGTCCGACATAC
* *
17011144 ATTGCGGATTATCATC
66 ATTACAGATTATCATC
* * * * *
17011160 AGCTTGTGTGAACAGCATCGTAAGTAGGTAATCTGGACCATATCGATGGTTGAGGTCCGACATAT
1 AGCTTGTGTGAGCAGCATCGTAAGTAGGTAATATGGACCATAGCGATGGGTGAGGTCCGACATAC
* *
17011225 GTTACAGATTCTCATC
66 ATTACAGATTATCATC
17011241 AGCTTGTGTGAGCAGCAT
1 AGCTTGTGTGAGCAGCAT
17011259 TGTATACTGG
Statistics
Matches: 82, Mismatches: 17, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
81 82 1.00
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.30
Consensus pattern (81 bp):
AGCTTGTGTGAGCAGCATCGTAAGTAGGTAATATGGACCATAGCGATGGGTGAGGTCCGACATAC
ATTACAGATTATCATC
Found at i:17011343 original size:25 final size:26
Alignment explanation
Indices: 17011279--17011350 Score: 101
Period size: 26 Copynumber: 2.8 Consensus size: 26
17011269 TTAAACTCTA
17011279 AACTGGCTCGTAAGAGCGATATACTG
1 AACTGGCTCGTAAGAGCGATATACTG
* *
17011305 AACTGGCTCATAAGAGCGATATTCT-
1 AACTGGCTCGTAAGAGCGATATACTG
**
17011330 ATTTGGCTCGTAAGAGCGATA
1 AACTGGCTCGTAAGAGCGATA
17011351 CTCTTTCTGG
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
25 18 0.44
26 23 0.56
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (26 bp):
AACTGGCTCGTAAGAGCGATATACTG
Found at i:17017319 original size:47 final size:46
Alignment explanation
Indices: 17017206--17017330 Score: 117
Period size: 47 Copynumber: 2.7 Consensus size: 46
17017196 ATTGTGAACA
* *
17017206 ATGTCACAGTAATGCAGATAAACTGCCACATAATCAAATCGTGGAT
1 ATGTCACAATTATGCAGATAAACTGCCACATAATCAAATCGTGGAT
* * * * * **
17017252 AAGCCACCACATT-TGTAGATATACTACCACATAATTTAATCGTGGAT
1 ATGTCA-CA-ATTATGCAGATAAACTGCCACATAATCAAATCGTGGAT
* *
17017299 AGTGTCACATTTATGCAGATAGACTGCCACAT
1 A-TGTCACAATTATGCAGATAAACTGCCACAT
17017331 TCTTCCACCT
Statistics
Matches: 60, Mismatches: 15, Indels: 7
0.73 0.18 0.09
Matches are distributed among these distances:
46 6 0.10
47 50 0.83
48 4 0.07
ACGTcount: A:0.36, C:0.21, G:0.16, T:0.27
Consensus pattern (46 bp):
ATGTCACAATTATGCAGATAAACTGCCACATAATCAAATCGTGGAT
Found at i:17022344 original size:50 final size:49
Alignment explanation
Indices: 17022261--17022403 Score: 187
Period size: 49 Copynumber: 2.9 Consensus size: 49
17022251 CGAAACACCA
* * *
17022261 ATTGAGGACAAGCCACCACTAATTTGTAAATATACTACCACTTATAACAC
1 ATTGTGGACAAGCCACCACTAATATGCAAATATACTACCACTTA-AACAC
* * * *
17022311 ATTGTGGACAAGCCACCACTGATATGCATATATACTGCCACTGAAACAC
1 ATTGTGGACAAGCCACCACTAATATGCAAATATACTACCACTTAAACAC
* * *
17022360 TTTGTGGACAAGCCACCACTAATATACAAATAAACTACCACTTA
1 ATTGTGGACAAGCCACCACTAATATGCAAATATACTACCACTTA
17022404 CTTCCACCTT
Statistics
Matches: 79, Mismatches: 14, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
49 42 0.53
50 37 0.47
ACGTcount: A:0.38, C:0.25, G:0.12, T:0.24
Consensus pattern (49 bp):
ATTGTGGACAAGCCACCACTAATATGCAAATATACTACCACTTAAACAC
Found at i:17028672 original size:15 final size:15
Alignment explanation
Indices: 17028652--17028684 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
17028642 ATCTCAGTAT
*
17028652 CATCATACAATATCA
1 CATCATAAAATATCA
17028667 CATCATAAAATATCA
1 CATCATAAAATATCA
17028682 CAT
1 CAT
17028685 GCAATAGGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.48, C:0.24, G:0.00, T:0.27
Consensus pattern (15 bp):
CATCATAAAATATCA
Found at i:17035593 original size:19 final size:19
Alignment explanation
Indices: 17035569--17035606 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 19
17035559 GTTAGGCTCT
17035569 AAGGGT-TTGGGTCAAAGTA
1 AAGGGTATTGGG-CAAAGTA
17035588 AAGGGTAATTGGGCAAAGT
1 AAGGGT-ATTGGGCAAAGT
17035607 GTTTGGGTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 6 0.35
20 6 0.35
21 5 0.29
ACGTcount: A:0.34, C:0.05, G:0.37, T:0.24
Consensus pattern (19 bp):
AAGGGTATTGGGCAAAGTA
Found at i:17038933 original size:12 final size:12
Alignment explanation
Indices: 17038916--17038940 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
17038906 TTGTTATATG
17038916 ATGAATGCTATT
1 ATGAATGCTATT
17038928 ATGAATGCTATT
1 ATGAATGCTATT
17038940 A
1 A
17038941 ATTATTTAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.08, G:0.16, T:0.40
Consensus pattern (12 bp):
ATGAATGCTATT
Found at i:17039250 original size:17 final size:17
Alignment explanation
Indices: 17039230--17039316 Score: 95
Period size: 17 Copynumber: 5.1 Consensus size: 17
17039220 CCAATTTTAA
17039230 ATTTTAAAATTTAAA-TT
1 ATTTT-AAATTTAAATTT
*
17039247 ATTTTAAGTTTAAATTT
1 ATTTTAAATTTAAATTT
* *
17039264 ATTTTAAATTCAAACTT
1 ATTTTAAATTTAAATTT
* *
17039281 ATTTTTGATTTTAAATTT
1 A-TTTTAAATTTAAATTT
*
17039299 ATTTTGAATTTAAATTT
1 ATTTTAAATTTAAATTT
17039316 A
1 A
17039317 AAATTTAATT
Statistics
Matches: 59, Mismatches: 9, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
16 8 0.14
17 38 0.64
18 13 0.22
ACGTcount: A:0.38, C:0.02, G:0.03, T:0.56
Consensus pattern (17 bp):
ATTTTAAATTTAAATTT
Found at i:17039283 original size:34 final size:34
Alignment explanation
Indices: 17039230--17039314 Score: 100
Period size: 35 Copynumber: 2.5 Consensus size: 34
17039220 CCAATTTTAA
*
17039230 ATTTTAAAATTTAAATTA-TTTTAAGTTTAAATTT
1 ATTTT-AAATTCAAATTATTTTTAAGTTTAAATTT
* *
17039264 ATTTTAAATTCAAACTTATTTTTGATTTTAAATTT
1 ATTTTAAATTCAAA-TTATTTTTAAGTTTAAATTT
* *
17039299 ATTTTGAATTTAAATT
1 ATTTTAAATTCAAATT
17039315 TAAAATTTAA
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
33 8 0.18
34 10 0.23
35 26 0.59
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (34 bp):
ATTTTAAATTCAAATTATTTTTAAGTTTAAATTT
Found at i:17040337 original size:12 final size:12
Alignment explanation
Indices: 17040320--17040344 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
17040310 TTGTTATATG
17040320 ATGAATGCTATT
1 ATGAATGCTATT
17040332 ATGAATGCTATT
1 ATGAATGCTATT
17040344 A
1 A
17040345 ATTCTTTAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.08, G:0.16, T:0.40
Consensus pattern (12 bp):
ATGAATGCTATT
Found at i:17044185 original size:20 final size:18
Alignment explanation
Indices: 17044162--17044214 Score: 54
Period size: 20 Copynumber: 2.8 Consensus size: 18
17044152 TAATAGTATT
17044162 TTATCAATTTAATATTAAA
1 TTAT-AATTTAATATTAAA
* *
17044181 GTTATTATCTTATTATTAAA
1 -TTATAAT-TTAATATTAAA
17044201 TTA-AATTTAATATT
1 TTATAATTTAATATT
17044215 TATCTATATA
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
17 7 0.25
18 2 0.07
19 5 0.18
20 14 0.50
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.53
Consensus pattern (18 bp):
TTATAATTTAATATTAAA
Found at i:17044401 original size:25 final size:25
Alignment explanation
Indices: 17044360--17044410 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
17044350 AGTTGTAGAG
*
17044360 AGAAAATTCTCTGAAGAGATTATTTT
1 AGAAAATTCTCTAAAGAGA-TATTTT
*
17044386 AGAAAA-TCTCTAAAGATATATTTT
1 AGAAAATTCTCTAAAGAGATATTTT
17044410 A
1 A
17044411 TTTATAATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 7 0.30
25 10 0.43
26 6 0.26
ACGTcount: A:0.43, C:0.08, G:0.12, T:0.37
Consensus pattern (25 bp):
AGAAAATTCTCTAAAGAGATATTTT
Found at i:17048741 original size:20 final size:20
Alignment explanation
Indices: 17048696--17048749 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
17048686 CTCCAGTGAG
* *
17048696 ACTTCTACCGATAGAACTCC
1 ACTTCTACCGATACAACTAC
*
17048716 ACTTCTACCGATACAATTAC
1 ACTTCTACCGATACAACTAC
* *
17048736 AGTTCTACTGATAC
1 ACTTCTACCGATAC
17048750 CTTGAAGACT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.31, C:0.30, G:0.09, T:0.30
Consensus pattern (20 bp):
ACTTCTACCGATACAACTAC
Found at i:17048960 original size:20 final size:20
Alignment explanation
Indices: 17048935--17048990 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
17048925 CTACCCTGGG
* * *
17048935 ACTTCTACTGGTAGAACTTC
1 ACTTCTACCGATACAACTTC
17048955 ACTTCTACCGATACAACTTC
1 ACTTCTACCGATACAACTTC
* *
17048975 AGTTCTACCAATACAA
1 ACTTCTACCGATACAA
17048991 GTATGCTTCT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.32, C:0.29, G:0.09, T:0.30
Consensus pattern (20 bp):
ACTTCTACCGATACAACTTC
Found at i:17051732 original size:15 final size:15
Alignment explanation
Indices: 17051712--17051744 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
17051702 ATCTCAGTAT
*
17051712 CATCATACAATATCA
1 CATCATAAAATATCA
17051727 CATCATAAAATATCA
1 CATCATAAAATATCA
17051742 CAT
1 CAT
17051745 GCAATAGGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.48, C:0.24, G:0.00, T:0.27
Consensus pattern (15 bp):
CATCATAAAATATCA
Found at i:17058654 original size:19 final size:19
Alignment explanation
Indices: 17058630--17058667 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 19
17058620 GTTAGGCTCT
17058630 AAGGGT-TTGGGTCAAAGTA
1 AAGGGTATTGGG-CAAAGTA
17058649 AAGGGTAATTGGGCAAAGT
1 AAGGGT-ATTGGGCAAAGT
17058668 GTTTGGGTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 6 0.35
20 6 0.35
21 5 0.29
ACGTcount: A:0.34, C:0.05, G:0.37, T:0.24
Consensus pattern (19 bp):
AAGGGTATTGGGCAAAGTA
Found at i:17061999 original size:12 final size:12
Alignment explanation
Indices: 17061982--17062006 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
17061972 TTGTTATATG
17061982 ATGAATGCTATT
1 ATGAATGCTATT
17061994 ATGAATGCTATT
1 ATGAATGCTATT
17062006 A
1 A
17062007 ATTATTTAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.08, G:0.16, T:0.40
Consensus pattern (12 bp):
ATGAATGCTATT
Found at i:17062316 original size:17 final size:17
Alignment explanation
Indices: 17062296--17062382 Score: 95
Period size: 17 Copynumber: 5.1 Consensus size: 17
17062286 CCAATTTTAA
17062296 ATTTTAAAATTTAAA-TT
1 ATTTT-AAATTTAAATTT
*
17062313 ATTTTAAGTTTAAATTT
1 ATTTTAAATTTAAATTT
* *
17062330 ATTTTAAATTCAAACTT
1 ATTTTAAATTTAAATTT
* *
17062347 ATTTTTGATTTTAAATTT
1 A-TTTTAAATTTAAATTT
*
17062365 ATTTTGAATTTAAATTT
1 ATTTTAAATTTAAATTT
17062382 A
1 A
17062383 AAATTTAATT
Statistics
Matches: 59, Mismatches: 9, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
16 8 0.14
17 38 0.64
18 13 0.22
ACGTcount: A:0.38, C:0.02, G:0.03, T:0.56
Consensus pattern (17 bp):
ATTTTAAATTTAAATTT
Found at i:17062349 original size:34 final size:34
Alignment explanation
Indices: 17062296--17062380 Score: 100
Period size: 35 Copynumber: 2.5 Consensus size: 34
17062286 CCAATTTTAA
*
17062296 ATTTTAAAATTTAAATTA-TTTTAAGTTTAAATTT
1 ATTTT-AAATTCAAATTATTTTTAAGTTTAAATTT
* *
17062330 ATTTTAAATTCAAACTTATTTTTGATTTTAAATTT
1 ATTTTAAATTCAAA-TTATTTTTAAGTTTAAATTT
* *
17062365 ATTTTGAATTTAAATT
1 ATTTTAAATTCAAATT
17062381 TAAAATTTAA
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
33 8 0.18
34 10 0.23
35 26 0.59
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (34 bp):
ATTTTAAATTCAAATTATTTTTAAGTTTAAATTT
Found at i:17064299 original size:29 final size:28
Alignment explanation
Indices: 17064191--17064470 Score: 187
Period size: 30 Copynumber: 9.5 Consensus size: 28
17064181 TGTTTTGTTT
*
17064191 AAAAATTACATTTTGACCC-CTGCACTTCAC
1 AAAAATTACATTTT-ACCCTC-GAACTTC-C
* * *
17064221 AAAAATCACATTTTAACCCTCAAACTTCTT
1 AAAAATTACATTTT-ACCCTCGAACTTC-C
* * *
17064251 AAAAATCATATTTTGACCCTCGCACTTCAC
1 AAAAATTACATTTT-ACCCTCGAACTTC-C
17064281 AAAAATTACATTTTACCCTCGAACTTTTCC
1 AAAAATTACATTTTACCCTCGAAC--TTCC
* * *
17064311 -AAAATTACTATTTTCCCCCCGAACATCC
1 AAAAATTAC-ATTTTACCCTCGAACTTCC
*
17064339 AAAAATTACCATTTTACCC-CTGAACATCC
1 AAAAATTA-CATTTTACCCTC-GAACTTCC
17064368 AAAAATTACCATTTTACCC-CGAA-TATCC
1 AAAAATTA-CATTTTACCCTCGAACT-TCC
* *
17064396 AAAAAGATTACCATTTTGATCCT-AAACTTTTCC
1 -AAAA-ATTA-CATTTT-ACCCTCGAAC--TTCC
*
17064429 -AAAATTACCATTTTACCCTCGAACATCC
1 AAAAATTA-CATTTTACCCTCGAACTTCC
*
17064457 AAAAATCACATTTT
1 AAAAATTACATTTT
17064471 CTACCTCAAA
Statistics
Matches: 207, Mismatches: 26, Indels: 36
0.77 0.10 0.13
Matches are distributed among these distances:
28 19 0.09
29 74 0.36
30 98 0.47
31 12 0.06
33 3 0.01
34 1 0.00
ACGTcount: A:0.36, C:0.28, G:0.04, T:0.31
Consensus pattern (28 bp):
AAAAATTACATTTTACCCTCGAACTTCC
Found at i:17064323 original size:60 final size:58
Alignment explanation
Indices: 17064192--17064470 Score: 207
Period size: 60 Copynumber: 4.7 Consensus size: 58
17064182 GTTTTGTTTA
* * *
17064192 AAAATTA-CATTTTGACCCCTGCACTTCACAAAAATCACATTTTAACCCTCAAACTTCTT-A
1 AAAATTACCATTTT-ACCCC-GAACTTC-CAAAAATTACATTTTAACCCTCAAACTT-TTCC
* * * *
17064252 AAAATCA-TATTTTGACCCTCGCACTTCACAAAAATTACATTTT-ACCCTCGAACTTTTCC
1 AAAATTACCATTTT-ACCC-CGAACTTC-CAAAAATTACATTTTAACCCTCAAACTTTTCC
* * * * * *
17064311 AAAATTACTATTTTCCCCCCGAACATCCAAAAATTACCATTTTACCCCT-GAAC--ATCC
1 AAAATTACCATTTT-ACCCCGAACTTCCAAAAATTA-CATTTTAACCCTCAAACTTTTCC
* *
17064368 AAAAATTACCATTTTACCCCGAA-TATCCAAAAAGATTACCATTTTGATCCT-AAACTTTTCC
1 -AAAATTACCATTTTACCCCGAACT-TCC-AAAA-ATTA-CATTTTAACCCTCAAACTTTTCC
* *
17064429 AAAATTACCATTTTACCCTCGAACATCCAAAAATCACATTTT
1 AAAATTACCATTTTACCC-CGAACTTCCAAAAATTACATTTT
17064471 CTACCTCAAA
Statistics
Matches: 184, Mismatches: 22, Indels: 28
0.79 0.09 0.12
Matches are distributed among these distances:
57 13 0.07
58 34 0.18
59 53 0.29
60 73 0.40
61 11 0.06
ACGTcount: A:0.36, C:0.28, G:0.04, T:0.32
Consensus pattern (58 bp):
AAAATTACCATTTTACCCCGAACTTCCAAAAATTACATTTTAACCCTCAAACTTTTCC
Found at i:17064510 original size:29 final size:30
Alignment explanation
Indices: 17064477--17064542 Score: 89
Period size: 30 Copynumber: 2.2 Consensus size: 30
17064467 TTTTCTACCT
* *
17064477 CAAATTTCCCAAAAGTTTGATTTTAAT-CC
1 CAAATTTCCAAAAAATTTGATTTTAATCCC
*
17064506 CAAATTTTCCAAAAAATTTGATTTTGATCCC
1 CAAA-TTTCCAAAAAATTTGATTTTAATCCC
17064537 CAAATT
1 CAAATT
17064543 CCTCGAAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
29 4 0.12
30 22 0.69
31 6 0.19
ACGTcount: A:0.36, C:0.20, G:0.06, T:0.38
Consensus pattern (30 bp):
CAAATTTCCAAAAAATTTGATTTTAATCCC
Found at i:17064523 original size:89 final size:90
Alignment explanation
Indices: 17064336--17064520 Score: 220
Period size: 89 Copynumber: 2.1 Consensus size: 90
17064326 CCCCCGAACA
* *
17064336 TCCAAAAATTACCATTTTACCCCTGAACATCCAAAAATTACCATTTTACCCCGAATATCCAAAAA
1 TCCAAAAATTACCATTTTACCCCTGAACATCCAAAAATCACCATTTTACCCCAAATATCCAAAAA
* *
17064401 GATTACCATTTTGATCCTAAACTTT
66 GATTACCATTTTAATCCCAAACTTT
* * *
17064426 TCC-AAAATTACCATTTTA-CCCTCGAACATCCAAAAATCA-CATTTTCTACCTCAAATTTCCCA
1 TCCAAAAATTACCATTTTACCCCT-GAACATCCAAAAATCACCA-TTT-TACCCCAAATATCCAA
**
17064488 AAAG-TT-TGATTTTAATCCCAAA-TTT
63 AAAGATTACCATTTTAATCCCAAACTTT
17064513 TCCAAAAA
1 TCCAAAAA
17064521 ATTTGATTTT
Statistics
Matches: 82, Mismatches: 9, Indels: 10
0.81 0.09 0.10
Matches are distributed among these distances:
87 6 0.07
88 22 0.27
89 35 0.43
90 19 0.23
ACGTcount: A:0.38, C:0.26, G:0.04, T:0.32
Consensus pattern (90 bp):
TCCAAAAATTACCATTTTACCCCTGAACATCCAAAAATCACCATTTTACCCCAAATATCCAAAAA
GATTACCATTTTAATCCCAAACTTT
Found at i:17064691 original size:22 final size:23
Alignment explanation
Indices: 17064666--17064711 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
17064656 GTATTTTGTA
17064666 TTTTAT-TAATTT-TATGTTTAAT
1 TTTTATAT-ATTTATATGTTTAAT
*
17064688 TTTTATATATTTATCTGTTTAAT
1 TTTTATATATTTATATGTTTAAT
17064711 T
1 T
17064712 ATTTTGTTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 10 0.48
23 11 0.52
ACGTcount: A:0.26, C:0.02, G:0.04, T:0.67
Consensus pattern (23 bp):
TTTTATATATTTATATGTTTAAT
Found at i:17072011 original size:39 final size:39
Alignment explanation
Indices: 17071957--17072060 Score: 208
Period size: 39 Copynumber: 2.7 Consensus size: 39
17071947 CCAATTTGAC
17071957 AAACATACTCATACTCATACCATATAATCATTCTTTCGT
1 AAACATACTCATACTCATACCATATAATCATTCTTTCGT
17071996 AAACATACTCATACTCATACCATATAATCATTCTTTCGT
1 AAACATACTCATACTCATACCATATAATCATTCTTTCGT
17072035 AAACATACTCATACTCATACCATATA
1 AAACATACTCATACTCATACCATATA
17072061 CTCAATAGTA
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 65 1.00
ACGTcount: A:0.38, C:0.26, G:0.02, T:0.34
Consensus pattern (39 bp):
AAACATACTCATACTCATACCATATAATCATTCTTTCGT
Found at i:17076736 original size:78 final size:78
Alignment explanation
Indices: 17076649--17077220 Score: 401
Period size: 78 Copynumber: 7.3 Consensus size: 78
17076639 CAGCCATTTG
* * ** * * *
17076649 ATCTTTTACCACGAGCCTGGGGTAGATCACCA-TCATCTTATCTTTTACCTCGAGCTTGGGGTAG
1 ATCTCTTACC-CGAGCCTGGGGCAGATCACCAGTCATCCGATCTTTTACCCCGAGCCTGGGGCAG
*
17076713 ATCACCGTCAGCCA
65 ATCACCATCAGCCA
* * * * * * *
17076727 ATCTCTTACCCCGAGCTTGAGACAGATCACCA-TCAGCCAATCTCTTACCCCGAGCCTAGGGCAG
1 ATCTCTTA-CCCGAGCCTGGGGCAGATCACCAGTCATCCGATCTTTTACCCCGAGCCTGGGGCAG
**
17076791 ATTGCAGCCATTTG---
65 A-T-CA-CCATCAGCCA
* * * *
17076805 ATCTTTTACCCTAAGCCTGGGGCAGATCACCA-TCATCCGATCTTTTACCCCGAGCTTGGGGCAT
1 ATCTCTTACCC-GAGCCTGGGGCAGATCACCAGTCATCCGATCTTTTACCCCGAGCCTGGGGCAG
* * *
17076869 ATCACCACCAGTCG
65 ATCACCATCAGCCA
* ** * * * **
17076883 ATCTCTTACCCTGAGCATGGGGCAGAT-TGCAGTCATTCAATCTTTTACCTCGAGCCTAAGGCAG
1 ATCTCTTACCC-GAGCCTGGGGCAGATCACCAGTCATCCGATCTTTTACCCCGAGCCTGGGGCAG
* ** *
17076947 ATCACCTTCATTCG
65 ATCACCATCAGCCA
* * * ** * * * *
17076961 ATCTTTTACCTCGAGCTTAGGGCAGAT-TGCAGTCATTCGATCTTTTACCTCGAGCCTGTGACAG
1 ATCTCTTACC-CGAGCCTGGGGCAGATCACCAGTCATCCGATCTTTTACCCCGAGCCTGGGGCAG
*
17077025 ATCACCATAAGCCA
65 ATCACCATCAGCCA
* * * *
17077039 ATCTCTTACCTCGAGCCTGGGGTAGATTA-CAGTCATCCGATCTCTTACCCCGAG-CTAGGGACA
1 ATCTCTTACC-CGAGCCTGGGGCAGATCACCAGTCATCCGATCTTTTACCCCGAGCCT-GGGGCA
17077102 GATCACCATCAGCCA
64 GATCACCATCAGCCA
** * ** * * * **
17077117 ATCTCTTACGTGAGCCTAGGGCAGAT-TGCAGCCATTCGATCTTTTACCCTGAGCCTAAGGCAGA
1 ATCTCTTACCCGAGCCTGGGGCAGATCACCAGTCATCCGATCTTTTACCCCGAGCCTGGGGCAGA
*
17077181 TCATCATCAGCCA
66 TCACCATCAGCCA
* *
17077194 ATCTCTTACCCCGATCATGGGGCAGAT
1 ATCTCTTA-CCCGAGCCTGGGGCAGAT
17077221 TGCAGTCATT
Statistics
Matches: 394, Mismatches: 85, Indels: 30
0.77 0.17 0.06
Matches are distributed among these distances:
75 4 0.01
76 2 0.01
77 67 0.17
78 311 0.79
79 4 0.01
80 2 0.01
81 4 0.01
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (78 bp):
ATCTCTTACCCGAGCCTGGGGCAGATCACCAGTCATCCGATCTTTTACCCCGAGCCTGGGGCAGA
TCACCATCAGCCA
Found at i:17076753 original size:117 final size:114
Alignment explanation
Indices: 17076533--17077224 Score: 392
Period size: 117 Copynumber: 5.9 Consensus size: 114
17076523 GAAGATTACA
* ** * *
17076533 ATCTCTGACCCCGAGCCTGGGGCAGATTGCAGCCAT--TCGATCTTTT-CCCCGAGCCTGAGGTA
1 ATCTCTTA-CCCGAGCCTGGGGCAGA-T-CA-CCATCATTAATCTTTTACCTCGAGCCTGGGGTA
* * * * * * *
17076595 GATCACCATCAGCCAATCTCTTATCGCAAGCCTGGGGCAGATTGCAGCCATTTG
62 GATCACCATCATCCGATCTCTTACCCCGAGCTTGGGGCAGATTGCA-CCATTCG
* * * *
17076649 ATCTTTTACCACGAGCCTGGGGTAGATCACCATCATCTTATCTTTTACCTCGAGCTTGGGGTAGA
1 ATCTCTTACC-CGAGCCTGGGGCAGATCACCATCAT-TAATCTTTTACCTCGAGCCTGGGGTAGA
* * * * *
17076714 TCACCGTCAGCCAATCTCTTACCCCGAGCTTGAGACAGA-T-CACCA-TCAG
64 TCACCATCATCCGATCTCTTACCCCGAGCTTGGGGCAGATTGCACCATTC-G
* * *
17076763 CCAATCTCTTACCCCGAGCCTAGGGCAGATTGCAGCCAT--TTGATCTTTTACC-CTAAGCCTGG
1 ---ATCTCTTA-CCCGAGCCTGGGGCAGA-T-CA-CCATCATTAATCTTTTACCTC-GAGCCTGG
* * * ** *
17076825 GGCAGATCACCATCATCCGATCTTTTACCCCGAGCTTGGGGCATATCACCACCAGTCG
58 GGTAGATCACCATCATCCGATCTCTTACCCCGAGCTTGGGGCAGAT-TGCACCATTCG
* ** ** *
17076883 ATCTCTTACCCTGAGCATGGGGCAGAT-TGCAGTCATTCAATCTTTTACCTCGAGCCTAAGGCAG
1 ATCTCTTACCC-GAGCCTGGGGCAGATCACCA-TCATT-AATCTTTTACCTCGAGCCTGGGGTAG
* * * * * *
17076947 ATCACCTTCATTCGATCTTTTACCTCGAGCTTAGGGCAGATTGCAGTCATTCG
63 ATCACCATCATCCGATCTCTTACCCCGAGCTTGGGGCAGATTGCA-CCATTCG
* * * * ** *
17077000 ATCTTTTACCTCGAGCCTGTGACAGATCACCATAAGCCAATCTCTTACCTCGAGCCTGGGGTAGA
1 ATCTCTTACC-CGAGCCTGGGGCAGATCACCATCA-TTAATCTTTTACCTCGAGCCTGGGGTAGA
* * *
17077065 TTA-CAGTCATCCGATCTCTTACCCCGAGCTAGGGACAGA-T-CACCA-TCAG
64 TCACCA-TCATCCGATCTCTTACCCCGAGCTTGGGGCAGATTGCACCATTC-G
** * ** **
17077114 CCAATCTCTTACGTGAGCCTAGGGCAGATTGCAGCCAT--TCGATCTTTTACC-CTGAGCCTAAG
1 ---ATCTCTTACCCGAGCCTGGGGCAGA-T-CA-CCATCATTAATCTTTTACCTC-GAGCCTGGG
* * * * * *
17077176 GCAGATCATCATCAGCCAATCTCTTACCCCGATCATGGGGCAGATTGCA
59 GTAGATCACCATCATCCGATCTCTTACCCCGAGCTTGGGGCAGATTGCA
17077225 GTCATTGGAA
Statistics
Matches: 447, Mismatches: 89, Indels: 78
0.73 0.14 0.13
Matches are distributed among these distances:
113 9 0.02
114 10 0.02
115 9 0.02
116 100 0.22
117 289 0.65
118 12 0.03
119 6 0.01
120 10 0.02
121 2 0.00
ACGTcount: A:0.23, C:0.30, G:0.21, T:0.26
Consensus pattern (114 bp):
ATCTCTTACCCGAGCCTGGGGCAGATCACCATCATTAATCTTTTACCTCGAGCCTGGGGTAGATC
ACCATCATCCGATCTCTTACCCCGAGCTTGGGGCAGATTGCACCATTCG
Found at i:17076863 original size:156 final size:157
Alignment explanation
Indices: 17076579--17077207 Score: 529
Period size: 156 Copynumber: 4.0 Consensus size: 157
17076569 TCGATCTTTT
* * * * *
17076579 CCCCGAGCCTGAGGTAGATCACCA-TCAGCCAATCTCTTATCGCAAGCCTGGGGCAGATTGCAGC
1 CCCCGAGCCTGAGGCAGATCACCAGTCAGCCAATCTCTTACCCCGAGCCTAGGGCAGATTGCAGC
* **
17076643 CATTTGATCTTTTACCAC-GAGCCTGGGGTAGATCACCATCATCTTATCTTTTACCTCGAGCTTG
66 CATTTGATCTTTTACC-CTGAGCCTGGGGCAGATCACCATCATCCGATCTTTTACCTCGAGCTTG
* *
17076707 GGGTAGATCACCGTCAGCCAATCTCTTA
130 GGGCAGATCACCATCAGCCAATCTCTTA
* *
17076735 CCCCGAGCTTGAGACAGATCACCA-TCAGCCAATCTCTTACCCCGAGCCTAGGGCAGATTGCAGC
1 CCCCGAGCCTGAGGCAGATCACCAGTCAGCCAATCTCTTACCCCGAGCCTAGGGCAGATTGCAGC
* *
17076799 CATTTGATCTTTTACCCTAAGCCTGGGGCAGATCACCATCATCCGATCTTTTACCCCGAGCTTGG
66 CATTTGATCTTTTACCCTGAGCCTGGGGCAGATCACCATCATCCGATCTTTTACCTCGAGCTTGG
* * * *
17076864 GGCATATCACCACCAGTCGATCTCTTA
131 GGCAGATCACCATCAGCCAATCTCTTA
* * * ** ** * * * *
17076891 CCCTGAGCATGGGGCAGAT-TGCAGTCATTCAATCTTTTACCTCGAGCCTAAGGCAGA-T-CACC
1 CCCCGAGCCTGAGGCAGATCACCAGTCAGCCAATCTCTTACCCCGAGCCTAGGGCAGATTGCAGC
* * * ** *
17076953 TTCATTCGATCTTTTA-CCTCGAGCTTAGGGCAGAT-TGCAGTCATTCGATCTTTTACCTCGAGC
66 --CATTTGATCTTTTACCCT-GAGCCTGGGGCAGATCACCA-TCATCCGATCTTTTACCTCGAGC
* * * *
17077016 CTGTGACAGATCACCATAAGCCAATCTCTTA
127 TTGGGGCAGATCACCATCAGCCAATCTCTTA
* * * * * *
17077047 CCTCGAGCCTGGGGTAGATTA-CAGTCATCCGATCTCTTACCCCGAG-CTAGGGACAGA-T-CA-
1 CCCCGAGCCTGAGGCAGATCACCAGTCAGCCAATCTCTTACCCCGAGCCTAGGG-CAGATTGCAG
** * * *
17077107 CCATCAGCCAATCTCTTA-CGTGAGCCTAGGGCAGATTGCAGCCAT--T-CGATCTTTTACC-CT
65 CCATTTG---ATCTTTTACCCTGAGCCTGGGGCAGA-T-CA-CCATCATCCGATCTTTTACCTC-
* ** *
17077167 GAGCCTAAGGCAGATCATCATCAGCCAATCTCTTA
123 GAGCTTGGGGCAGATCACCATCAGCCAATCTCTTA
17077202 CCCCGA
1 CCCCGA
17077208 TCATGGGGCA
Statistics
Matches: 388, Mismatches: 69, Indels: 33
0.79 0.14 0.07
Matches are distributed among these distances:
153 4 0.01
154 4 0.01
155 75 0.19
156 302 0.78
158 1 0.00
159 2 0.01
ACGTcount: A:0.23, C:0.31, G:0.20, T:0.26
Consensus pattern (157 bp):
CCCCGAGCCTGAGGCAGATCACCAGTCAGCCAATCTCTTACCCCGAGCCTAGGGCAGATTGCAGC
CATTTGATCTTTTACCCTGAGCCTGGGGCAGATCACCATCATCCGATCTTTTACCTCGAGCTTGG
GGCAGATCACCATCAGCCAATCTCTTA
Found at i:17077204 original size:39 final size:39
Alignment explanation
Indices: 17076594--17077204 Score: 244
Period size: 39 Copynumber: 15.7 Consensus size: 39
17076584 AGCCTGAGGT
* * *
17076594 AGATCACCATCAGCCAATCTCTTATCGC-AAGCCTGGGGC
1 AGATCACCATCAGCCAATCTCTTA-CCCTGAGCCTAGGGC
** * * *
17076633 AGATTGCAGCCATTTG---ATCTTTTACCAC-GAGCCTGGGGT
1 AGA-T-CA-CCATCAGCCAATCTCTTACC-CTGAGCCTAGGGC
* ** * * * *
17076672 AGATCACCATCATCTTATCTTTTA-CCTCGAGCTTGGGGT
1 AGATCACCATCAGCCAATCTCTTACCCT-GAGCCTAGGGC
* * * *
17076711 AGATCACCGTCAGCCAATCTCTTACCCCGAG-CTTGAGAC
1 AGATCACCATCAGCCAATCTCTTACCCTGAGCCTAG-GGC
*
17076750 AGATCACCATCAGCCAATCTCTTACCCCGAGCCTAGGGC
1 AGATCACCATCAGCCAATCTCTTACCCTGAGCCTAGGGC
** * * *
17076789 AGATTGCAGCCATTTG---ATCTTTTACCCTAAGCCTGGGGC
1 AGA-T-CA-CCATCAGCCAATCTCTTACCCTGAGCCTAGGGC
* * * * * *
17076828 AGATCACCATCATCCGATCTTTTACCCCGAGCTTGGGGC
1 AGATCACCATCAGCCAATCTCTTACCCTGAGCCTAGGGC
* * * * * *
17076867 ATATCACCACCAGTCGATCTCTTACCCTGAGCATGGGGC
1 AGATCACCATCAGCCAATCTCTTACCCTGAGCCTAGGGC
** ** * *
17076906 AGAT-TGCAGTCATTCAATCTTTTA-CCTCGAGCCTAAGGC
1 AGATCACCA-TCAGCCAATCTCTTACCCT-GAGCCTAGGGC
* ** * * *
17076945 AGATCACCTTCATTCGATCTTTTA-CCTCGAGCTTAGGGC
1 AGATCACCATCAGCCAATCTCTTACCCT-GAGCCTAGGGC
** ** * * *
17076984 AGAT-TGCAGTCATTCGATCTTTTA-CCTCGAGCCT-GTGAC
1 AGATCACCA-TCAGCCAATCTCTTACCCT-GAGCCTAG-GGC
* * *
17077023 AGATCACCATAAGCCAATCTCTTA-CCTCGAGCCTGGGGT
1 AGATCACCATCAGCCAATCTCTTACCCT-GAGCCTAGGGC
* * * *
17077062 AGATTA-CAGTCATCCGATCTCTTACCCCGAG-CTAGGGAC
1 AGATCACCA-TCAGCCAATCTCTTACCCTGAGCCTAGGG-C
*
17077101 AGATCACCATCAGCCAATCTCTTA-CGTGAGCCTAGGGC
1 AGATCACCATCAGCCAATCTCTTACCCTGAGCCTAGGGC
* *
17077139 AGATTGCAGCCATTC-G---ATCTTTTACCCTGAGCCTAAGGC
1 AGA-T-CA-CCA-TCAGCCAATCTCTTACCCTGAGCCTAGGGC
*
17077178 AGATCATCATCAGCCAATCTCTTACCC
1 AGATCACCATCAGCCAATCTCTTACCC
17077205 CGATCATGGG
Statistics
Matches: 444, Mismatches: 89, Indels: 78
0.73 0.15 0.13
Matches are distributed among these distances:
35 2 0.00
36 11 0.02
37 7 0.02
38 36 0.08
39 351 0.79
40 17 0.04
41 8 0.02
42 12 0.03
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.27
Consensus pattern (39 bp):
AGATCACCATCAGCCAATCTCTTACCCTGAGCCTAGGGC
Found at i:17077688 original size:17 final size:17
Alignment explanation
Indices: 17077662--17077720 Score: 75
Period size: 17 Copynumber: 3.5 Consensus size: 17
17077652 TTATAAATTA
17077662 TAAA-TTATTTTAAGTT
1 TAAATTTATTTTAAGTT
*
17077678 TAAATTTATTTTAAATT
1 TAAATTTATTTTAAGTT
* *
17077695 TAAACTTATTTTTGAGTT
1 TAAATTTA-TTTTAAGTT
17077713 TAAATTTA
1 TAAATTTA
17077721 AATTTATTTT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
16 4 0.11
17 18 0.50
18 14 0.39
ACGTcount: A:0.37, C:0.02, G:0.05, T:0.56
Consensus pattern (17 bp):
TAAATTTATTTTAAGTT
Found at i:17077689 original size:41 final size:41
Alignment explanation
Indices: 17077644--17077745 Score: 120
Period size: 41 Copynumber: 2.5 Consensus size: 41
17077634 ATTGAACCCA
* *
17077644 ATTTTAAATTATAAATTATAAATT-ATTTTAAGTTTAAATTT
1 ATTTTAAATT-TAAATTATAAATTGAGTTTAAATTTAAATTT
**
17077685 ATTTTAAATTTAAACTTAT-TTTTGAGTTTAAATTTAAATTT
1 ATTTTAAATTTAAA-TTATAAATTGAGTTTAAATTTAAATTT
*
17077726 ATTTTGAATTTAAATT-TAAA
1 ATTTTAAATTTAAATTATAAA
17077746 ATTTAATTCA
Statistics
Matches: 51, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
39 1 0.02
40 8 0.16
41 42 0.82
ACGTcount: A:0.41, C:0.01, G:0.04, T:0.54
Consensus pattern (41 bp):
ATTTTAAATTTAAATTATAAATTGAGTTTAAATTTAAATTT
Found at i:17077714 original size:24 final size:23
Alignment explanation
Indices: 17077687--17077745 Score: 91
Period size: 23 Copynumber: 2.5 Consensus size: 23
17077677 TTAAATTTAT
*
17077687 TTTAAATTTAAACTTATTTTTGAG
1 TTTAAATTTAAACTTA-TTTTGAA
*
17077711 TTTAAATTTAAATTTATTTTGAA
1 TTTAAATTTAAACTTATTTTGAA
17077734 TTTAAATTTAAA
1 TTTAAATTTAAA
17077746 ATTTAATTCA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
23 18 0.55
24 15 0.45
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.54
Consensus pattern (23 bp):
TTTAAATTTAAACTTATTTTGAA
Found at i:17077720 original size:35 final size:34
Alignment explanation
Indices: 17077655--17077720 Score: 98
Period size: 35 Copynumber: 1.9 Consensus size: 34
17077645 TTTTAAATTA
17077655 TAAATTATAAATTATTTTAAGTTTAAATTTATTT
1 TAAATTATAAATTATTTTAAGTTTAAATTTATTT
*
17077689 TAAATT-TAAACTTATTTTTGAGTTTAAATTTA
1 TAAATTATAAA-TTA-TTTTAAGTTTAAATTTA
17077721 AATTTATTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
33 4 0.14
34 9 0.31
35 16 0.55
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.55
Consensus pattern (34 bp):
TAAATTATAAATTATTTTAAGTTTAAATTTATTT
Found at i:17077737 original size:17 final size:17
Alignment explanation
Indices: 17077657--17077743 Score: 61
Period size: 17 Copynumber: 4.7 Consensus size: 17
17077647 TTAAATTATA
17077657 AATTATAAA-TTATTTT-
1 AATT-TAAATTTATTTTG
*
17077673 AAGTTTAAATTTATTTTA
1 AA-TTTAAATTTATTTTG
*
17077691 AATTTAAACTTATTTTTGAG
1 AATTTAAATTTA-TTTT--G
17077711 TTTAAATTTAAATTTATTTTG
1 ----AATTTAAATTTATTTTG
17077732 AATTTAAATTTA
1 AATTTAAATTTA
17077744 AAATTTAATT
Statistics
Matches: 58, Mismatches: 3, Indels: 19
0.73 0.04 0.24
Matches are distributed among these distances:
16 6 0.10
17 30 0.52
18 6 0.10
21 1 0.02
23 4 0.07
24 11 0.19
ACGTcount: A:0.39, C:0.01, G:0.05, T:0.55
Consensus pattern (17 bp):
AATTTAAATTTATTTTG
Found at i:17077747 original size:24 final size:24
Alignment explanation
Indices: 17077687--17077750 Score: 94
Period size: 24 Copynumber: 2.7 Consensus size: 24
17077677 TTAAATTTAT
* *
17077687 TTTAAATTTAAACTTATTTTTGAG
1 TTTAAATTTAAATTTATTTTTGAA
17077711 TTTAAATTTAAATTTA-TTTTGAA
1 TTTAAATTTAAATTTATTTTTGAA
17077734 TTTAAATTTAAAATTTA
1 TTTAAATTT-AAATTTA
17077751 ATTCAAAATC
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
23 15 0.41
24 22 0.59
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.55
Consensus pattern (24 bp):
TTTAAATTTAAATTTATTTTTGAA
Found at i:17079616 original size:29 final size:29
Alignment explanation
Indices: 17079550--17079663 Score: 95
Period size: 29 Copynumber: 3.9 Consensus size: 29
17079540 CTTTTTTGTT
* *
17079550 TAAAAATTACATTTTGACCCCTGCACTTCA
1 TAAAAATTACATTTTG-CCCTTGAACTTCA
**
17079580 TAAAAATTACATTTTGCCCTTGAACTTTT
1 TAAAAATTACATTTTGCCCTTGAACTTCA
* * * *
17079609 TCAAAATTACCATTTTACCCTCGAACATC-
1 TAAAAATTA-CATTTTGCCCTTGAACTTCA
* * *
17079638 CAAAAATTACCATTTTTCCCTCGAAC
1 TAAAAATTA-CATTTTGCCCTTGAAC
17079664 ATCCAAAAAT
Statistics
Matches: 71, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
29 40 0.56
30 31 0.44
ACGTcount: A:0.33, C:0.26, G:0.05, T:0.35
Consensus pattern (29 bp):
TAAAAATTACATTTTGCCCTTGAACTTCA
Found at i:17079664 original size:29 final size:29
Alignment explanation
Indices: 17079581--17079736 Score: 130
Period size: 29 Copynumber: 5.5 Consensus size: 29
17079571 TGCACTTCAT
* * *
17079581 AAAAATTA-CATTTTGCCCTTGAACTTTTTC
1 AAAAATTACCATTTTGCCCTCGAAC--ATCC
*
17079611 -AAAATTACCATTTTACCCTCGAACATCC
1 AAAAATTACCATTTTGCCCTCGAACATCC
*
17079639 AAAAATTACCATTTTTCCCTCGAACATCC
1 AAAAATTACCATTTTGCCCTCGAACATCC
* * *
17079668 AAAAA-T---ATTTTGCCCT-AAATATCT
1 AAAAATTACCATTTTGCCCTCGAACATCC
*
17079692 AAAAAGGTTACCATTTTGCCCCCGAACATCC
1 AAAAA--TTACCATTTTGCCCTCGAACATCC
*
17079723 AAAAATCA-CATTTT
1 AAAAATTACCATTTT
17079737 CGACGTCAAA
Statistics
Matches: 103, Mismatches: 14, Indels: 20
0.75 0.10 0.15
Matches are distributed among these distances:
24 10 0.10
25 9 0.09
27 1 0.01
28 9 0.09
29 41 0.40
30 23 0.22
31 10 0.10
ACGTcount: A:0.36, C:0.26, G:0.06, T:0.33
Consensus pattern (29 bp):
AAAAATTACCATTTTGCCCTCGAACATCC
Found at i:17079776 original size:29 final size:31
Alignment explanation
Indices: 17079743--17079808 Score: 91
Period size: 30 Copynumber: 2.2 Consensus size: 31
17079733 TTTTCGACGT
17079743 CAAATTTTCC-AAAAGTTCGATTTTAAT-CC
1 CAAATTTTCCAAAAAGTTCGATTTTAATCCC
* * *
17079772 CAAATTTTCCAAAAATTTTGATTTTGATCCC
1 CAAATTTTCCAAAAAGTTCGATTTTAATCCC
17079803 CAAATT
1 CAAATT
17079809 CCTCGAAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
29 10 0.31
30 14 0.44
31 8 0.25
ACGTcount: A:0.35, C:0.20, G:0.06, T:0.39
Consensus pattern (31 bp):
CAAATTTTCCAAAAAGTTCGATTTTAATCCC
Found at i:17083284 original size:15 final size:15
Alignment explanation
Indices: 17083249--17083278 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
17083239 AACTTTGTCA
17083249 GAACCAGAACCAATT
1 GAACCAGAACCAATT
*
17083264 GAACCAGAGCCAATT
1 GAACCAGAACCAATT
17083279 TTACCAAAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.27, G:0.17, T:0.13
Consensus pattern (15 bp):
GAACCAGAACCAATT
Found at i:17087622 original size:19 final size:20
Alignment explanation
Indices: 17087575--17087622 Score: 50
Period size: 19 Copynumber: 2.5 Consensus size: 20
17087565 TTGAAAATTC
17087575 TTAA-TATTA-AATTATAAA
1 TTAATTATTATAATTATAAA
*
17087593 TTAAATT-TTATAATT-TATA
1 TT-AATTATTATAATTATAAA
17087612 TTAATTATTAT
1 TTAATTATTAT
17087623 CAAGAGTTTG
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
18 6 0.24
19 14 0.56
20 5 0.20
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
TTAATTATTATAATTATAAA
Found at i:17087911 original size:97 final size:93
Alignment explanation
Indices: 17087791--17087983 Score: 287
Period size: 97 Copynumber: 2.0 Consensus size: 93
17087781 GAATTAAGAT
17087791 TTTTCATTTAAATTTTTATTTTTCAAAGGTATGATAAGTCTTAATATTAATTATAAATTAAATTT
1 TTTTCATTTAAATTTTTATTTTTCAAAGGTATGATAAGTCTTAATATTAATTATAAATTAAATTT
*
17087856 TATAATTTATATTAATAATTATCAAAAG
66 TATAATTTATATTAATAATTAACAAAAG
* * *
17087884 TTTTCATTTAAATGTTTTCTTATTTTTCAAAGTTTTGATAATTCTTAATATTAATTATAAATTAA
1 TTTTCATTTAAA---TTT-TTATTTTTCAAAGGTATGATAAGTCTTAATATTAATTATAAATTAA
* * *
17087949 ATTTTATAATTTGTATTAATTATTAACAAGAG
62 ATTTTATAATTTATATTAATAATTAACAAAAG
17087981 TTT
1 TTT
17087984 GAGATTAGTT
Statistics
Matches: 89, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
93 12 0.13
96 3 0.03
97 74 0.83
ACGTcount: A:0.38, C:0.05, G:0.06, T:0.52
Consensus pattern (93 bp):
TTTTCATTTAAATTTTTATTTTTCAAAGGTATGATAAGTCTTAATATTAATTATAAATTAAATTT
TATAATTTATATTAATAATTAACAAAAG
Found at i:17087934 original size:203 final size:204
Alignment explanation
Indices: 17087687--17088096 Score: 546
Period size: 210 Copynumber: 2.0 Consensus size: 204
17087677 TTTCATTTGA
* ** *
17087687 ATTTAATGTTATTTTTATTTTTTGAATTTTGATAATTTTTAATATTAATTATAAATTAAATTTTA
1 ATTTAATGTTATTCTTATTTTTCAAATTTTGATAATTCTTAATATTAATTATAAATTAAATTTTA
*
17087752 TAAATTATATTAATTATTATCAAAAGTTTGA-ATTAAGATTTTTC-A-TTTA-AATTTTTATTTT
66 TAAATTATATTAATTATTAACAAAAGTTTGAGATT-AG-TTTTTCTATTTTATAATTTTTATTTT
*
17087813 TCAAAGGTATGATAAGTC-TTAATATTAATTATAAATTAAATTTTATAATTTATATTAATAATTA
129 TCAAAAGTATGATAA-TCTTTAATATTAATTATAAATTAAATTTTATAATTTATATTAATAATTA
17087877 -TCAAAAGTTTTC
193 TTC-AAAGTTTTC
17087889 ATTTAAATGTT-TTCTTATTTTTCAAAGTTTTGATAATTCTTAATATTAATTATAAATTAAATTT
1 ATTT-AATGTTATTCTTATTTTTCAAA-TTTTGATAATTCTTAATATTAATTATAAATTAAATTT
* * * *
17087953 TATAATTTGTATTAATTATTAACAAGAGTTTGAGATTAGTTTTTCTTATTTTTATTTTTATTTTT
64 TATAAATTATATTAATTATTAACAAAAGTTTGAGATTAGTTTTTC-TA-TTTTA---TAATTTTT
* * * *
17088018 ATTTTTCAAAATTTTGATAATCTTTAATATTAATTATAACTTAAATTTTATAATTTATATTAATT
124 ATTTTTCAAAAGTATGATAATCTTTAATATTAATTATAAATTAAATTTTATAATTTATATTAATA
17088083 ATTATTCAAAGTTT
189 ATTATTCAAAGTTT
17088097 GAATTAGGAT
Statistics
Matches: 181, Mismatches: 14, Indels: 18
0.85 0.07 0.08
Matches are distributed among these distances:
202 22 0.12
203 73 0.40
204 4 0.02
206 4 0.02
209 2 0.01
210 74 0.41
211 2 0.01
ACGTcount: A:0.37, C:0.04, G:0.05, T:0.54
Consensus pattern (204 bp):
ATTTAATGTTATTCTTATTTTTCAAATTTTGATAATTCTTAATATTAATTATAAATTAAATTTTA
TAAATTATATTAATTATTAACAAAAGTTTGAGATTAGTTTTTCTATTTTATAATTTTTATTTTTC
AAAAGTATGATAATCTTTAATATTAATTATAAATTAAATTTTATAATTTATATTAATAATTATTC
AAAGTTTTC
Found at i:17088016 original size:5 final size:6
Alignment explanation
Indices: 17087998--17088023 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
17087988 TTAGTTTTTC
17087998 TTATTT TTATTT TTATTT TTATTT TT
1 TTATTT TTATTT TTATTT TTATTT TT
17088024 CAAAATTTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTATTT
Found at i:17088572 original size:16 final size:16
Alignment explanation
Indices: 17088551--17088596 Score: 56
Period size: 18 Copynumber: 2.7 Consensus size: 16
17088541 ATTTGTAATC
*
17088551 TTAATTTTTTAAATTT
1 TTAATTTTTTAAATTG
17088567 TTAATTTATTTTAAATTG
1 TTAA-TT-TTTTAAATTG
17088585 TTAATATTTTTA
1 TTAAT-TTTTTA
17088597 CTAATTAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
16 4 0.15
17 8 0.31
18 14 0.54
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (16 bp):
TTAATTTTTTAAATTG
Found at i:17090791 original size:20 final size:21
Alignment explanation
Indices: 17090766--17090805 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
17090756 TAGTACATAC
*
17090766 AAAAGAG-AAATGAAAAAGAA
1 AAAAGAGAAAAAGAAAAAGAA
17090786 AAAAGAGAAAAAGAAAAAGA
1 AAAAGAGAAAAAGAAAAAGA
17090806 GAGCATATGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.03
Consensus pattern (21 bp):
AAAAGAGAAAAAGAAAAAGAA
Found at i:17090802 original size:14 final size:15
Alignment explanation
Indices: 17090777--17090807 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
17090767 AAAGAGAAAT
17090777 GAAAAAGAAAAAAGA
1 GAAAAAGAAAAAAGA
17090792 GAAAAAG-AAAAAGA
1 GAAAAAGAAAAAAGA
17090806 GA
1 GA
17090808 GCATATGTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.56
15 7 0.44
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (15 bp):
GAAAAAGAAAAAAGA
Found at i:17092304 original size:12 final size:12
Alignment explanation
Indices: 17092287--17092311 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
17092277 TTGTTATATG
17092287 ATGAATGCTATT
1 ATGAATGCTATT
17092299 ATGAATGCTATT
1 ATGAATGCTATT
17092311 A
1 A
17092312 ATTCTTTAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.08, G:0.16, T:0.40
Consensus pattern (12 bp):
ATGAATGCTATT
Found at i:17096153 original size:20 final size:18
Alignment explanation
Indices: 17096130--17096182 Score: 54
Period size: 20 Copynumber: 2.8 Consensus size: 18
17096120 TAATAGTATT
17096130 TTATCAATTTAATATTAAA
1 TTAT-AATTTAATATTAAA
* *
17096149 GTTATTATCTTATTATTAAA
1 -TTATAAT-TTAATATTAAA
17096169 TTA-AATTTAATATT
1 TTATAATTTAATATT
17096183 TATCTATATA
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
17 7 0.25
18 2 0.07
19 5 0.18
20 14 0.50
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.53
Consensus pattern (18 bp):
TTATAATTTAATATTAAA
Found at i:17096369 original size:25 final size:25
Alignment explanation
Indices: 17096328--17096378 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
17096318 AGTTGTAGAG
*
17096328 AGAAAATTCTCTGAAGAGATTATTTT
1 AGAAAATTCTCTAAAGAGA-TATTTT
*
17096354 AGAAAA-TCTCTAAAGATATATTTT
1 AGAAAATTCTCTAAAGAGATATTTT
17096378 A
1 A
17096379 TTTATAATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 7 0.30
25 10 0.43
26 6 0.26
ACGTcount: A:0.43, C:0.08, G:0.12, T:0.37
Consensus pattern (25 bp):
AGAAAATTCTCTAAAGAGATATTTT
Found at i:17100708 original size:20 final size:20
Alignment explanation
Indices: 17100663--17100716 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
17100653 CTCCAGTGAG
* *
17100663 ACTTCTACCGATAGAACTCC
1 ACTTCTACCGATACAACTAC
*
17100683 ACTTCTACCGATACAATTAC
1 ACTTCTACCGATACAACTAC
* *
17100703 AGTTCTACTGATAC
1 ACTTCTACCGATAC
17100717 CTTGAAGACT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.31, C:0.30, G:0.09, T:0.30
Consensus pattern (20 bp):
ACTTCTACCGATACAACTAC
Found at i:17100927 original size:20 final size:20
Alignment explanation
Indices: 17100902--17100957 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
17100892 CTACCCTGGG
* * *
17100902 ACTTCTACTGGTAGAACTTC
1 ACTTCTACCGATACAACTTC
17100922 ACTTCTACCGATACAACTTC
1 ACTTCTACCGATACAACTTC
* *
17100942 AGTTCTACCAATACAA
1 ACTTCTACCGATACAA
17100958 GTATGCTTCT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.32, C:0.29, G:0.09, T:0.30
Consensus pattern (20 bp):
ACTTCTACCGATACAACTTC
Found at i:17103936 original size:21 final size:20
Alignment explanation
Indices: 17103899--17103938 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
17103889 ATTTTTAAAA
* *
17103899 AAATGAAAAACACATTTATC
1 AAATGAAAAAAAAATTTATC
17103919 AAATGAAAATAAAAATTTAT
1 AAATGAAAA-AAAAATTTAT
17103939 TTTTAATAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.60, C:0.07, G:0.05, T:0.28
Consensus pattern (20 bp):
AAATGAAAAAAAAATTTATC
Found at i:17105407 original size:14 final size:14
Alignment explanation
Indices: 17105382--17105415 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
17105372 ATTTCATTTT
17105382 AATTTA-AATGCCC
1 AATTTACAATGCCC
17105395 AATTTACAATGCCC
1 AATTTACAATGCCC
*
17105409 AAATTAC
1 AATTTAC
17105416 CCTAGCACTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 6 0.32
14 13 0.68
ACGTcount: A:0.41, C:0.24, G:0.06, T:0.29
Consensus pattern (14 bp):
AATTTACAATGCCC
Found at i:17107004 original size:30 final size:28
Alignment explanation
Indices: 17106966--17107117 Score: 153
Period size: 30 Copynumber: 5.1 Consensus size: 28
17106956 CCCAATAGGT
* *
17106966 CCCTAAACTTTCCAAAAATCATATTTTGA
1 CCCTAAACTTTCC-AAAATTACATTTTGA
*
17106995 CCACTAAACTTCTCTAAAATTACA-TTTGA
1 CC-CTAAACTT-TCCAAAATTACATTTTGA
17107024 CCCCTCAAACTTTTCCAAAATTACATTTTGA
1 -CCCT-AAAC-TTTCCAAAATTACATTTTGA
* * *
17107055 CCCATAAACTTCTTCAAAATCACATTTTAA
1 CCC-TAAACTT-TCCAAAATTACATTTTGA
17107085 TCCCTAAACCTTTCCAAAATTACATTTTGA
1 -CCCTAAA-CTTTCCAAAATTACATTTTGA
17107115 CCC
1 CCC
17107118 CCGAACTTCT
Statistics
Matches: 103, Mismatches: 10, Indels: 20
0.77 0.08 0.15
Matches are distributed among these distances:
29 14 0.14
30 73 0.71
31 16 0.16
ACGTcount: A:0.36, C:0.28, G:0.03, T:0.34
Consensus pattern (28 bp):
CCCTAAACTTTCCAAAATTACATTTTGA
Found at i:17107052 original size:60 final size:57
Alignment explanation
Indices: 17106966--17107148 Score: 206
Period size: 60 Copynumber: 3.1 Consensus size: 57
17106956 CCCAATAGGT
* * *
17106966 CCCTAAACTTTCCAAAAATCATATTTTGACCACTAAACTTCTCTAAAATTACA-TTTGAC
1 CCCTAAACTTTCC-AAAATTACATTTTGACC-CTAAACTTCT-TAAAATCACATTTTGAC
* *
17107025 CCCTCAAACTTTTCCAAAATTACATTTTGACCCATAAACTTCTTCAAAATCACATTTTAAT
1 CCCT-AAAC-TTTCCAAAATTACATTTTGACCC-TAAACTTCTT-AAAATCACATTTTGAC
**
17107086 CCCTAAACCTTTCCAAAATTACATTTTGACCCCCGAACTTCTTTAAAATCACATTTTGAC
1 CCCTAAA-CTTTCCAAAATTACATTTTGA-CCCTAAACTTC-TTAAAATCACATTTTGAC
17107146 CCC
1 CCC
17107149 GTATTCTCTA
Statistics
Matches: 107, Mismatches: 9, Indels: 15
0.82 0.07 0.11
Matches are distributed among these distances:
59 6 0.06
60 82 0.77
61 19 0.18
ACGTcount: A:0.34, C:0.28, G:0.03, T:0.34
Consensus pattern (57 bp):
CCCTAAACTTTCCAAAATTACATTTTGACCCTAAACTTCTTAAAATCACATTTTGAC
Found at i:17107125 original size:90 final size:90
Alignment explanation
Indices: 17106980--17107147 Score: 218
Period size: 90 Copynumber: 1.9 Consensus size: 90
17106970 AAACTTTCCA
* * *
17106980 AAAATCATATTTTGACCACTAAACTTCTCTAAAATTACATTTGACCCCTCAAACTT-TTCCAAAA
1 AAAATCACATTTTAACCACTAAACTTCTCCAAAATTACATTTGACCCCTCAAACTTCTT-CAAAA
*
17107044 TTACATTTTGACCCATAAACTTCTTC
65 TCACATTTTGACCCATAAACTTCTTC
* *
17107070 AAAATCACATTTTAATCC-CTAAACCTT-TCCAAAATTACATTTTGACCCC-CGAACTTCTTTAA
1 AAAATCACATTTTAA-CCACTAAA-CTTCTCCAAAATTACA-TTTGACCCCTCAAACTTCTTCAA
17107132 AATCACATTTTGACCC
63 AATCACATTTTGACCC
17107148 CGTATTCTCT
Statistics
Matches: 68, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
90 52 0.76
91 16 0.24
ACGTcount: A:0.35, C:0.27, G:0.04, T:0.35
Consensus pattern (90 bp):
AAAATCACATTTTAACCACTAAACTTCTCCAAAATTACATTTGACCCCTCAAACTTCTTCAAAAT
CACATTTTGACCCATAAACTTCTTC
Found at i:17107134 original size:30 final size:30
Alignment explanation
Indices: 17106988--17107148 Score: 141
Period size: 30 Copynumber: 5.4 Consensus size: 30
17106978 CAAAAATCAT
* * *
17106988 ATTTTGACCACTAAACTTCTCTAAAATTAC
1 ATTTTGACCCCCAAACTTCTTTAAAATTAC
*
17107018 A-TTTGACCCCTCAAACTT-TTCCAAAATTAC
1 ATTTTGACCCC-CAAACTTCTT-TAAAATTAC
** * *
17107048 ATTTTGACCCATAAACTTCTTCAAAATCAC
1 ATTTTGACCCCCAAACTTCTTTAAAATTAC
* * *
17107078 ATTTTAATCCCTAAAC--CTTTCCAAAATTAC
1 ATTTTGACCCCCAAACTTCTTT--AAAATTAC
* *
17107108 ATTTTGACCCCCGAACTTCTTTAAAATCAC
1 ATTTTGACCCCCAAACTTCTTTAAAATTAC
17107138 ATTTTGACCCC
1 ATTTTGACCCC
17107149 GTATTCTCTA
Statistics
Matches: 106, Mismatches: 17, Indels: 16
0.76 0.12 0.12
Matches are distributed among these distances:
28 3 0.03
29 9 0.08
30 80 0.75
31 10 0.09
32 4 0.04
ACGTcount: A:0.34, C:0.28, G:0.04, T:0.35
Consensus pattern (30 bp):
ATTTTGACCCCCAAACTTCTTTAAAATTAC
Found at i:17112596 original size:13 final size:14
Alignment explanation
Indices: 17112578--17112613 Score: 56
Period size: 15 Copynumber: 2.6 Consensus size: 14
17112568 AATAAATAAG
17112578 AAAGAAAAAA-GAA
1 AAAGAAAAAAGGAA
17112591 AAAGAAAAAAGGGAA
1 AAAGAAAAAA-GGAA
17112606 AAAGAAAA
1 AAAGAAAA
17112614 GGAGAGATCG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 10 0.48
15 11 0.52
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (14 bp):
AAAGAAAAAAGGAA
Found at i:17113661 original size:49 final size:49
Alignment explanation
Indices: 17113545--17113675 Score: 131
Period size: 49 Copynumber: 2.7 Consensus size: 49
17113535 TCGTGGTACC
* * * ** *
17113545 ATGAAGGGAAAGGTTGAGGCCGCAACGGTGAATTTGGTACTTTAGAAGAT
1 ATGAAGGGAAAGGTTGAGGCCGCAAAGGCGAATCTGACACATTA-AAGAT
* *
17113595 GTGATGGG-AAGGATTGAGGCCGCAAAGGCGAATCTGACACCATT-AAGAT
1 ATGAAGGGAAAGG-TTGAGGCCGCAAAGGCGAATCTGACA-CATTAAAGAT
* *
17113644 ATGAAGGGAAAGGTTGAGGCTGCAATGGCGAA
1 ATGAAGGGAAAGGTTGAGGCCGCAAAGGCGAA
17113676 CCCAATACCT
Statistics
Matches: 66, Mismatches: 12, Indels: 7
0.78 0.14 0.08
Matches are distributed among these distances:
49 32 0.48
50 31 0.47
51 3 0.05
ACGTcount: A:0.33, C:0.12, G:0.35, T:0.20
Consensus pattern (49 bp):
ATGAAGGGAAAGGTTGAGGCCGCAAAGGCGAATCTGACACATTAAAGAT
Found at i:17114054 original size:86 final size:85
Alignment explanation
Indices: 17113900--17114058 Score: 219
Period size: 86 Copynumber: 1.9 Consensus size: 85
17113890 TCAAACACCA
* * * * *
17113900 TCTTCTTGATGAGATACTGAGAAGTGGGTCAAAGCAATAAAGTGGTCGTCTTCCTGATGAGATAC
1 TCTTCCTGATGAGATACAGAGAAGTGGATCAAAACAATAAAGTGGTCATCTTCCTGATGAGATAC
17113965 AGAGAAGTGGACCAAATCTG
66 AGAGAAGTGGACCAAATCTG
* * * * *
17113985 TCTTCCTGATGAGATACAGAGAAGTGGATTAAAACAAATGATGTGGTCATCTTCTTGATGAGGTA
1 TCTTCCTGATGAGATACAGAGAAGTGGATCAAAAC-AATAAAGTGGTCATCTTCCTGATGAGATA
17114050 CAGAGAAGT
65 CAGAGAAGT
17114059 AAACCAATTC
Statistics
Matches: 63, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
85 30 0.48
86 33 0.52
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.27
Consensus pattern (85 bp):
TCTTCCTGATGAGATACAGAGAAGTGGATCAAAACAATAAAGTGGTCATCTTCCTGATGAGATAC
AGAGAAGTGGACCAAATCTG
Found at i:17114340 original size:161 final size:160
Alignment explanation
Indices: 17114148--17114497 Score: 524
Period size: 161 Copynumber: 2.2 Consensus size: 160
17114138 ATAAAGTGGT
* *
17114148 CGTCTTCTTGATAAGATATAGAGAAGTGGACCAAA-TCTATCTTCCTGATAAGATACAAAGAAGT
1 CGTCTTCCTGATGAGATATAGAGAAGTGGACCAAATTC-ATCTTCCTGATAAGATACAAAGAAGT
*
17114212 GGATTAAAACAAATGAGGCGGTCATCTTCCTGATAAGATACAGAGAAGTAAACCAAATCAAAGAA
65 GGATTAAAACAAATGACGCGGTCATCTTCCTGATAAGATACAGAGAAGTAAACCAAATCAAAGAA
17114277 GCAAAGCTCAATGTGAGTGAAACTTCAAACCC
130 GCAAAGCTCAATGTGAGTGAAAC-TCAAACCC
* * * * *
17114309 CGTCTTCCTGATGAGATATAGAGAAGTGGACCAAATTCGTCTTCTTGATGAGATATAGAGAAGTG
1 CGTCTTCCTGATGAGATATAGAGAAGTGGACCAAATTCATCTTCCTGATAAGATACAAAGAAGTG
* * *
17114374 GATTAAAACGAATGACGCGGTCATCTTCCTGATGAGATACAGAGAAGTAAACCAAATCAATGAAG
66 GATTAAAACAAATGACGCGGTCATCTTCCTGATAAGATACAGAGAAGTAAACCAAATCAAAGAAG
**
17114439 CAAAGCTCAATGTGAGTGAAACTCAAATTC
131 CAAAGCTCAATGTGAGTGAAACTCAAACCC
* *
17114469 CATCTTACTGATGAGATACT-GAGAAGTGG
1 CGTCTTCCTGATGAGATA-TAGAGAAGTGG
17114498 GTCAAAGAAA
Statistics
Matches: 172, Mismatches: 15, Indels: 5
0.90 0.08 0.03
Matches are distributed among these distances:
160 31 0.18
161 139 0.81
162 2 0.01
ACGTcount: A:0.38, C:0.17, G:0.21, T:0.24
Consensus pattern (160 bp):
CGTCTTCCTGATGAGATATAGAGAAGTGGACCAAATTCATCTTCCTGATAAGATACAAAGAAGTG
GATTAAAACAAATGACGCGGTCATCTTCCTGATAAGATACAGAGAAGTAAACCAAATCAAAGAAG
CAAAGCTCAATGTGAGTGAAACTCAAACCC
Found at i:17114559 original size:37 final size:36
Alignment explanation
Indices: 17114518--17114620 Score: 152
Period size: 37 Copynumber: 2.8 Consensus size: 36
17114508 TAAAGCGGTT
17114518 GTCTTCGTGATGAGATACAGAGAAGTGGAACAAATCC
1 GTCTTC-TGATGAGATACAGAGAAGTGGAACAAATCC
* * *
17114555 GTCTTTCTAATAAGATACAGAGAAGTGGAACAAATCT
1 GTC-TTCTGATGAGATACAGAGAAGTGGAACAAATCC
17114592 GTCTGTCTGATGAGATACAGAGAAGTGGA
1 GTCT-TCTGATGAGATACAGAGAAGTGGA
17114621 TTGAAACAAA
Statistics
Matches: 59, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
36 1 0.02
37 55 0.93
38 3 0.05
ACGTcount: A:0.36, C:0.14, G:0.26, T:0.24
Consensus pattern (36 bp):
GTCTTCTGATGAGATACAGAGAAGTGGAACAAATCC
Found at i:17114776 original size:245 final size:245
Alignment explanation
Indices: 17114308--17114828 Score: 744
Period size: 245 Copynumber: 2.1 Consensus size: 245
17114298 ACTTCAAACC
* * * *
17114308 CCGTCTTCCTGATGAGATATAGAGAAGTGGACCAAATTCGTCTTCTTGATGAGATATAGAGAAGT
1 CCGTCTTTCTGATGAGATACAGAGAAGTGGAACAAATTCGTCTTCTTGATGAGATACAGAGAAGT
*
17114373 GGATTAAAACGAATGACGCGGTCATCTTCCTGATGAGATACAGAGAAGTAAACCAAATCAATGAA
66 GGATTAAAACAAATGACGCGGTCATCTTCCTGATGAGATACAGAGAAGTAAACCAAATCAATGAA
* * ** *
17114438 GCAAAGCTCAATGTGAGTGAAACTCAAATTCCATCTTACTGATGAGATACTGAGAAGTGGGTCAA
131 GCAAAACTCAATGTGAGTAAAACTCAAACCCCATCTTACTAATGAGATACTGAGAAGTGGGTCAA
* * * *
17114503 AGAAATAAAGCGGTTGTCTTCGTGATGAGATACAGAGAAGTGGAACAAAT
196 AGAAATAAAGCGATCGTCTCCGTGATGAGATACAAAGAAGTGGAACAAAT
* *
17114553 CCGTCTTTCTAATAAGATACAGAGAAGTGGAACAAA-TCTGTCTGTC-TGATGAGATACAGAGAA
1 CCGTCTTTCTGATGAGATACAGAGAAGTGGAACAAATTC-GTCT-TCTTGATGAGATACAGAGAA
* * * *
17114616 GTGGATTGAAACAAATGAGGCGGTCATCTTCTTGATGAGATACAGAGAAGTAAACGAAATCAATG
64 GTGGATTAAAACAAATGACGCGGTCATCTTCCTGATGAGATACAGAGAAGTAAACCAAATCAATG
*
17114681 AAGCAAAACTCAATGTGAGTAAAACTTCAAACCCCATCTTCCTAATGAGATACTGAGAAGTGGGT
129 AAGCAAAACTCAATGTGAGTAAAAC-TCAAACCCCATCTTACTAATGAGATACTGAGAAGTGGGT
* * *
17114746 CAAAGCAAT-AAGCGATCGTCTCCTTGATGAGATACAAAGAAGTGGACCAAAT
193 CAAAGAAATAAAGCGATCGTCTCCGTGATGAGATACAAAGAAGTGGAACAAAT
* *
17114798 CTGTC-TTCTTGATGAGATACAAAGAAGTGGA
1 CCGTCTTTC-TGATGAGATACAGAGAAGTGGA
17114829 TTAAAACAAA
Statistics
Matches: 244, Mismatches: 28, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
244 5 0.02
245 194 0.80
246 45 0.18
ACGTcount: A:0.37, C:0.16, G:0.23, T:0.24
Consensus pattern (245 bp):
CCGTCTTTCTGATGAGATACAGAGAAGTGGAACAAATTCGTCTTCTTGATGAGATACAGAGAAGT
GGATTAAAACAAATGACGCGGTCATCTTCCTGATGAGATACAGAGAAGTAAACCAAATCAATGAA
GCAAAACTCAATGTGAGTAAAACTCAAACCCCATCTTACTAATGAGATACTGAGAAGTGGGTCAA
AGAAATAAAGCGATCGTCTCCGTGATGAGATACAAAGAAGTGGAACAAAT
Found at i:17115045 original size:210 final size:208
Alignment explanation
Indices: 17113776--17115214 Score: 1168
Period size: 209 Copynumber: 7.0 Consensus size: 208
17113766 AAAGTGGTCA
* * * * * * * *
17113776 TCTTCCTGATGAGATATAGAGAAGTGGATTAAAACAAGTGATGCGGTTATCTTCCTAATGAGATA
1 TCTTCTTGATGAGATACAGAGAAGTGGATTAAAACAAATGAGGAGGTCATCTTCTTGATGAGATA
* * * ** * * ** * *
17113841 CAGAGAAGTAGACCAATTCAACGAAGTAAAGCTCAATATGAGTGAAACTTCAAACACCATCTTCT
66 CAGAGAAGTAGACCAAATCGATGAAGCGAAGCTCAATGTGAGTAAAACTTTGAACCCCATCTTCC
* * * *
17113906 TGATGAGATACTGAGAAGTGGGTCAAAGCAATAAAGTGGTCGTCTTCCTGATGAGATACAGAGAA
131 TAATGAGATATTGAGAAGTGGGTCAAAGCAAT-AAGCGGTCGTCTTCTTGATGAGATACAGAGAA
17113971 GTGGACCAAATCTG
195 GTGGACCAAATCTG
* * * *
17113985 TCTTCCTGATGAGATACAGAGAAGTGGATTAAAACAAATGATGTGGTCATCTTCTTGATGAGGTA
1 TCTTCTTGATGAGATACAGAGAAGTGGATTAAAACAAATGAGGAGGTCATCTTCTTGATGAGATA
* * * * *
17114050 CAGAGAAGTAAACC-AAT---TCAA-CGAAG-TGAA-GTGAGTGAAAC-TTGAAACCTCATCTTC
66 CAGAGAAGTAGACCAAATCGATGAAGCGAAGCTCAATGTGAGTAAAACTTTG-AACCCCATCTTC
* * * * *
17114107 CTGATGAGATAATGAGAAGTGGGTCAAAGCAATAAAGTGGTCGTCTTCTTGATAAGATATAGAGA
130 CTAATGAGATATTGAGAAGTGGGTCAAAGCAAT-AAGCGGTCGTCTTCTTGATGAGATACAGAGA
*
17114172 AGTGGACCAAATCTA
194 AGTGGACCAAATCTG
* * * * * *
17114187 TCTTCCTGATAAGATACAAAGAAGTGGATTAAAACAAATGAGGCGGTCATCTTCCTGATAAGATA
1 TCTTCTTGATGAGATACAGAGAAGTGGATTAAAACAAATGAGGAGGTCATCTTCTTGATGAGATA
* * * * * ** *
17114252 CAGAGAAGTAAACCAAATCAAAGAAGCAAAGCTCAATGTGAGTGAAACTTCAAACCCCGTCTTCC
66 CAGAGAAGTAGACCAAATCGATGAAGCGAAGCTCAATGTGAGTAAAACTTTGAACCCCATCTTCC
* * * * *
17114317 TGATGAGATATAGAGAAGT-GG----A-CCA-AA---TTCGTCTTCTTGATGAGATATAGAGAAG
131 TAATGAGATATTGAGAAGTGGGTCAAAGCAATAAGCGGTCGTCTTCTTGATGAGATACAGAGAAG
* * *
17114372 TGGATTAAAACGAATGACGCGGTCA
196 TGG------ACCAA--A-TC--T-G
* ** ** * * * * *
17114397 TCTTCCTGATGAGATACAGAGAAGTAAACCAAATC-AATGAAGCAAAG-C-TCAAT-GTGAGTGA
1 TCTTCTTGATGAGATACAGAGAAGTGGATTAAAACAAATG-AG-GAGGTCATC-TTCTTGA-TGA
** * * * * * * * ** *
17114458 -A-ACTCA-AA-T--TCC--ATCTTACTGATGAGATA-CTGAGAAGTGGGTCAAAGA-AATAAAG
62 GATACAGAGAAGTAGACCAAATC-GA-TGAAGCGA-AGCTCA-ATGTGAGT-AAA-ACTTTGAA-
**** * * ** * * * *
17114513 CGGTTGTCTTCGTGATGAGATACAGAGAAGT-GG---AA-C-A-AATCCGTC-T-TTC-TAATAA
120 C-CCCATCTTCCTAATGAGATATTGAGAAGTGGGTCAAAGCAATAAGCGGTCGTCTTCTTGATGA
*
17114568 GATACAGAGAAGTGGAACAAATCTG
184 GATACAGAGAAGTGGACCAAATCTG
* *
17114593 TCTGTC-TGATGAGATACAGAGAAGTGGATTGAAACAAATGAGGCGGTCATCTTCTTGATGAGAT
1 TCT-TCTTGATGAGATACAGAGAAGTGGATTAAAACAAATGAGGAGGTCATCTTCTTGATGAGAT
* * * * * **
17114657 ACAGAGAAGTAAACGAAATCAATGAAGCAAAACTCAATGTGAGTAAAACTTCAAACCCCATCTTC
65 ACAGAGAAGTAGACCAAATCGATGAAGCGAAGCTCAATGTGAGTAAAACTTTGAACCCCATCTTC
* * * *
17114722 CTAATGAGATACTGAGAAGTGGGTCAAAGCAATAAGCGATCGTCTCCTTGATGAGATACAAAGAA
130 CTAATGAGATATTGAGAAGTGGGTCAAAGCAATAAGCGGTCGTCTTCTTGATGAGATACAGAGAA
17114787 GTGGACCAAATCTG
195 GTGGACCAAATCTG
* *
17114801 TCTTCTTGATGAGATACAAAGAAGTGGATTAAAACAAATGAGGAGGTCATCTTCTTAATGAGATA
1 TCTTCTTGATGAGATACAGAGAAGTGGATTAAAACAAATGAGGAGGTCATCTTCTTGATGAGATA
*
17114866 CAGAGAAGTAGACCAAATCGATGAAGCGAAGCTCATTGTGAGTAAAACTTTGAACCTCCATCTTC
66 CAGAGAAGTAGACCAAATCGATGAAGCGAAGCTCAATGTGAGTAAAACTTTGAACC-CCATCTTC
17114931 CTAATGAGATATTGAGAAGTGGGTCAAAGCAATAAAGCGGTCGTCTTCTTGATGAGATACAGAGA
130 CTAATGAGATATTGAGAAGTGGGTCAAAGCAAT-AAGCGGTCGTCTTCTTGATGAGATACAGAGA
17114996 AGTGGACCAAAT-TCG
194 AGTGGACCAAATCT-G
* *
17115011 TCTTCTTGATAAGATACAGAGAAGTGGATTAAAACAAATGAGGGGGTCATCTTCTTGATGAGATA
1 TCTTCTTGATGAGATACAGAGAAGTGGATTAAAACAAATGAGGAGGTCATCTTCTTGATGAGATA
*
17115076 CAGAGAAGTAGACCAAATCGATGAAGCGAAGCTCAATGTGAGTAAAACTTTGAACCCCATCTTCT
66 CAGAGAAGTAGACCAAATCGATGAAGCGAAGCTCAATGTGAGTAAAACTTTGAACCCCATCTTCC
* * * * * * *
17115141 TGATGAGATATAGAGAAGTGGATCAAAACAATGAAGTGGTCATCTTCCTGATGAGATACTA-AGA
131 TAATGAGATATTGAGAAGTGGGTCAAAGCAAT-AAGCGGTCGTCTTCTTGATGAGATAC-AGAGA
*
17115205 AGTAGACCAA
194 AGTGGACCAA
17115215 GAAATGAAGC
Statistics
Matches: 1004, Mismatches: 159, Indels: 134
0.77 0.12 0.10
Matches are distributed among these distances:
195 1 0.00
196 33 0.03
197 13 0.01
198 54 0.05
199 7 0.01
200 8 0.01
201 10 0.01
202 183 0.18
203 11 0.01
204 21 0.02
205 14 0.01
206 10 0.01
207 13 0.01
208 190 0.19
209 238 0.24
210 195 0.19
211 3 0.00
ACGTcount: A:0.37, C:0.15, G:0.23, T:0.24
Consensus pattern (208 bp):
TCTTCTTGATGAGATACAGAGAAGTGGATTAAAACAAATGAGGAGGTCATCTTCTTGATGAGATA
CAGAGAAGTAGACCAAATCGATGAAGCGAAGCTCAATGTGAGTAAAACTTTGAACCCCATCTTCC
TAATGAGATATTGAGAAGTGGGTCAAAGCAATAAGCGGTCGTCTTCTTGATGAGATACAGAGAAG
TGGACCAAATCTG
Found at i:17116592 original size:12 final size:12
Alignment explanation
Indices: 17116577--17116611 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
17116567 ACAGTTTTTA
*
17116577 AAAGGAAAGGGG
1 AAAGCAAAGGGG
17116589 AAAGCAAAGGGG
1 AAAGCAAAGGGG
17116601 AAAGCAAAGGG
1 AAAGCAAAGGG
17116612 AATAAAAATC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.51, C:0.06, G:0.43, T:0.00
Consensus pattern (12 bp):
AAAGCAAAGGGG
Found at i:17117212 original size:30 final size:30
Alignment explanation
Indices: 17117177--17117507 Score: 311
Period size: 30 Copynumber: 11.1 Consensus size: 30
17117167 TTCAATTTAG
17117177 CCCTAAACTTCTCCAAAATTACATTTTGAC
1 CCCTAAACTTCTCCAAAATTACATTTTGAC
* * *
17117207 CCCTAAA-TAAT-TCTAAAATTATATTTTAAC
1 CCCTAAACT--TCTCCAAAATTACATTTTGAC
*
17117237 CCCTAAACTTTTCCAAAATTACATTTTGAC
1 CCCTAAACTTCTCCAAAATTACATTTTGAC
* *
17117267 CCTTAAACTTTTCCAAAATTACATTTTGAC
1 CCCTAAACTTCTCCAAAATTACATTTTGAC
* * * *
17117297 CCTTAAACTTTTCCAAAATTGCATTTTAAC
1 CCCTAAACTTCTCCAAAATTACATTTTGAC
* * *
17117327 CCTTAAACTAT-TCCAAAATTGCA-TTTAAC
1 CCCTAAACT-TCTCCAAAATTACATTTTGAC
* * * *
17117356 CCCTAAACTTATCCAAAATCACATTTTAAT
1 CCCTAAACTTCTCCAAAATTACATTTTGAC
* *
17117386 CCCTAAACCTT-TCAAAAATTACATTTT-AA
1 CCCTAAA-CTTCTCCAAAATTACATTTTGAC
* * *
17117415 CCCTCGAACTTCTCTAAAATCACATTTTGA-
1 CCCT-AAACTTCTCCAAAATTACATTTTGAC
* *
17117445 CCCTCAAACCTTC-CCAAAAATAGATTTTGAC
1 CCCT-AAA-CTTCTCCAAAATTACATTTTGAC
*
17117476 CCC-AAACTTCTCCAAAATCACATTTTGAC
1 CCCTAAACTTCTCCAAAATTACATTTTGAC
17117505 CCC
1 CCC
17117508 GTATTCTCTA
Statistics
Matches: 260, Mismatches: 27, Indels: 29
0.82 0.09 0.09
Matches are distributed among these distances:
28 5 0.02
29 55 0.21
30 186 0.72
31 14 0.05
ACGTcount: A:0.36, C:0.27, G:0.03, T:0.34
Consensus pattern (30 bp):
CCCTAAACTTCTCCAAAATTACATTTTGAC
Found at i:17117393 original size:119 final size:119
Alignment explanation
Indices: 17117172--17117506 Score: 367
Period size: 119 Copynumber: 2.8 Consensus size: 119
17117162 TTATTTTCAA
* * * *
17117172 TTTAGCCC-TAAACTTCTCCAAAATTACATTTTGACCCCTAAA-TAATTCTAAAATTATATTTTA
1 TTTAACCCTTAAACTTCTCCAAAATTACATTTTGACCCTTAAACT-ATTCCAAAATT-GATTTTA
* * * * *
17117235 ACCCCTAAACTTTTCCAAAATTACATTTTGACCCTTAAACTTTTCCAAAATTACAT
64 ACCCCTAAACTTATCCAAAATCACATTTTAACCCTTAAACCTTTCAAAAATTACAT
* * * *
17117291 TTTGACCCTTAAACTTTTCCAAAATTGCATTTTAACCCTTAAACTATTCCAAAATTGCA-TTTAA
1 TTTAACCCTTAAACTTCTCCAAAATTACATTTTGACCCTTAAACTATTCCAAAATTG-ATTTTAA
17117355 CCCCTAAACTTATCCAAAATCACATTTTAATCCC-TAAACCTTTCAAAAATTACAT
65 CCCCTAAACTTATCCAAAATCACATTTTAA-CCCTTAAACCTTTCAAAAATTACAT
** * * * * * *
17117410 TTTAACCCTCGAACTTCTCTAAAATCACATTTTGACCCTCAAACCT-TCCCAAAAATAGATTTTG
1 TTTAACCCTTAAACTTCTCCAAAATTACATTTTGACCCTTAAA-CTATTCC-AAAATTGATTTTA
* *
17117474 ACCCC-AAACTTCTCCAAAATCACATTTTGACCC
64 ACCCCTAAACTTATCCAAAATCACATTTTAACCC
17117507 CGTATTCTCT
Statistics
Matches: 182, Mismatches: 27, Indels: 15
0.81 0.12 0.07
Matches are distributed among these distances:
118 3 0.02
119 118 0.65
120 60 0.33
121 1 0.01
ACGTcount: A:0.36, C:0.27, G:0.03, T:0.35
Consensus pattern (119 bp):
TTTAACCCTTAAACTTCTCCAAAATTACATTTTGACCCTTAAACTATTCCAAAATTGATTTTAAC
CCCTAAACTTATCCAAAATCACATTTTAACCCTTAAACCTTTCAAAAATTACAT
Found at i:17120144 original size:18 final size:20
Alignment explanation
Indices: 17120121--17120183 Score: 73
Period size: 18 Copynumber: 3.4 Consensus size: 20
17120111 AATATTTTTT
17120121 TCATAAAAAAAT-TAAA-AA
1 TCATAAAAAAATATAAACAA
17120139 TCATAAAAAAATATAAACAA
1 TCATAAAAAAATATAAACAA
* *
17120159 TCA-GAAAAATTATAAA-AA
1 TCATAAAAAAATATAAACAA
17120177 T-ATAAAA
1 TCATAAAA
17120184 TGTATTACGT
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
17 1 0.03
18 18 0.46
19 15 0.38
20 5 0.13
ACGTcount: A:0.70, C:0.06, G:0.02, T:0.22
Consensus pattern (20 bp):
TCATAAAAAAATATAAACAA
Found at i:17120197 original size:27 final size:27
Alignment explanation
Indices: 17120167--17120264 Score: 71
Period size: 27 Copynumber: 3.6 Consensus size: 27
17120157 AATCAGAAAA
*
17120167 ATTATAAAAATATAAAATGTATTACGT
1 ATTATAAAAATATAAAATGTATTAAGT
*
17120194 ATTA-AAAAA-ATGAAAATTGATATGAA--
1 ATTATAAAAATAT-AAAA-TG-TATTAAGT
* * *
17120220 CTTATAAATATTATAAAATGT-TATAAAT
1 ATTATAAA-AATATAAAATGTAT-TAAGT
17120248 ATTATAAAAATATAAAA
1 ATTATAAAAATATAAAA
17120265 AATCTAATAA
Statistics
Matches: 55, Mismatches: 7, Indels: 18
0.69 0.09 0.22
Matches are distributed among these distances:
25 3 0.05
26 15 0.27
27 19 0.35
28 16 0.29
29 2 0.04
ACGTcount: A:0.57, C:0.02, G:0.06, T:0.35
Consensus pattern (27 bp):
ATTATAAAAATATAAAATGTATTAAGT
Found at i:17120289 original size:64 final size:64
Alignment explanation
Indices: 17120221--17120376 Score: 144
Period size: 64 Copynumber: 2.5 Consensus size: 64
17120211 TGATATGAAC
* * *
17120221 TTATAAATATTATAAAATGT-TAT-AAATATTATAAAAATATAAAAAATCTA-ATAAATTATAAA
1 TTATAAATATTATAAAATATATATAAAATATTATAAAAAT-T-AAAAATCTATAAAAATAAT-AA
17120283 AA
63 AA
* * * * *
17120285 TTATAAGAT-TAATAAAATATATTTAAAATTTTATAAGAATTAAAATTCTATAAAAATAATAAAA
1 TTATAA-ATATTATAAAATATATATAAAATATTATAAAAATTAAAAATCTATAAAAATAATAAAA
*
17120349 TTATAAAAAATTATAAAAT-TAT-TAAAAT
1 TTAT-AAATATTATAAAATATATATAAAAT
17120377 TGCTATAAAC
Statistics
Matches: 76, Mismatches: 10, Indels: 13
0.77 0.10 0.13
Matches are distributed among these distances:
63 6 0.08
64 35 0.46
65 22 0.29
66 13 0.17
ACGTcount: A:0.60, C:0.01, G:0.02, T:0.37
Consensus pattern (64 bp):
TTATAAATATTATAAAATATATATAAAATATTATAAAAATTAAAAATCTATAAAAATAATAAAA
Found at i:17120401 original size:47 final size:46
Alignment explanation
Indices: 17120221--17120413 Score: 155
Period size: 46 Copynumber: 4.2 Consensus size: 46
17120211 TGATATGAAC
* * *
17120221 TTATAAATATTA-TAAAATGT-TATAAATATTATAAAAATATAAAAAA
1 TTATAAA-ATTATTAAAAT-TCTATAAAAATAATAAAATTATAAAAAA
* * * **
17120267 TCTA-ATAAATTA-TAAAAAT-TATAAGATTAATAAAATATATTTAAAA
1 T-TATA-AAATTATTAAAATTCTATAAAAATAATAAAAT-TATAAAAAA
* * **
17120313 TTTTATAAGAATTAAAATTCTATAAAAATAATAAAATTATAAAAAA
1 TTATAAAATTATTAAAATTCTATAAAAATAATAAAATTATAAAAAA
* *
17120359 TTATAAAATTATTAAAATTGCTAT-AAACTTATAAAAATTATAAAAAA
1 TTATAAAATTATTAAAATT-CTATAAAAATAAT-AAAATTATAAAAAA
17120406 TTATAAAA
1 TTATAAAA
17120414 ACATAAACTG
Statistics
Matches: 116, Mismatches: 23, Indels: 15
0.75 0.15 0.10
Matches are distributed among these distances:
45 17 0.15
46 54 0.47
47 45 0.39
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (46 bp):
TTATAAAATTATTAAAATTCTATAAAAATAATAAAATTATAAAAAA
Found at i:17120406 original size:10 final size:10
Alignment explanation
Indices: 17120340--17120414 Score: 68
Period size: 10 Copynumber: 7.7 Consensus size: 10
17120330 TTCTATAAAA
17120340 ATAATAAAATT
1 ATAA-AAAATT
17120351 ATAAAAAATT
1 ATAAAAAATT
17120361 AT--AAAATT
1 ATAAAAAATT
*
17120369 AT-TAAAATT
1 ATAAAAAATT
* * *
17120378 GCTATAAACTT
1 -ATAAAAAATT
17120389 AT-AAAAATT
1 ATAAAAAATT
17120398 ATAAAAAATT
1 ATAAAAAATT
17120408 ATAAAAA
1 ATAAAAA
17120415 CATAAACTGG
Statistics
Matches: 55, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
8 8 0.15
9 13 0.24
10 24 0.44
11 10 0.18
ACGTcount: A:0.63, C:0.03, G:0.01, T:0.33
Consensus pattern (10 bp):
ATAAAAAATT
Found at i:17120409 original size:19 final size:19
Alignment explanation
Indices: 17120221--17120414 Score: 95
Period size: 19 Copynumber: 10.5 Consensus size: 19
17120211 TGATATGAAC
* **
17120221 TTATAAATATTATAAAATG
1 TTATAAAAATTATAAAAAA
*
17120240 TTATAAATATTAT-AAAAA
1 TTATAAAAATTATAAAAAA
* * *
17120258 -TATAAAAAATCTAATAAA
1 TTATAAAAATTATAAAAAA
*
17120276 TTATAAAAATTAT--AAGA
1 TTATAAAAATTATAAAAAA
* **
17120293 TTAATAAAATATATTTAAAATT
1 TT-ATAAAA-AT-TATAAAAAA
* *
17120315 TTATAAGAA-T-T-AAAAT
1 TTATAAAAATTATAAAAAA
*
17120331 TCTATAAAAA-TA-ATAAAA
1 T-TATAAAAATTATAAAAAA
17120349 TTATAAAAAATTAT--AAAA
1 TTAT-AAAAATTATAAAAAA
* * * *
17120367 TTATTAAAATTGCTATAAAC
1 TTATAAAAATT-ATAAAAAA
17120387 TTATAAAAATTATAAAAAA
1 TTATAAAAATTATAAAAAA
17120406 TTATAAAAA
1 TTATAAAAA
17120415 CATAAACTGG
Statistics
Matches: 134, Mismatches: 25, Indels: 32
0.70 0.13 0.17
Matches are distributed among these distances:
16 5 0.04
17 31 0.23
18 32 0.24
19 41 0.31
20 16 0.12
21 5 0.04
22 4 0.03
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (19 bp):
TTATAAAAATTATAAAAAA
Found at i:17120414 original size:9 final size:9
Alignment explanation
Indices: 17120221--17120414 Score: 121
Period size: 9 Copynumber: 21.0 Consensus size: 9
17120211 TGATATGAAC
*
17120221 TTATAAATA
1 TTATAAAAA
*
17120230 TTATAAAATG
1 TTATAAAA-A
*
17120240 TTATAAATA
1 TTATAAAAA
17120249 TTATAAAAA
1 TTATAAAAA
17120258 -TATAAAAA
1 TTATAAAAA
* *
17120266 ATCTAATAAA
1 TTATAA-AAA
17120276 TTATAAAAA
1 TTATAAAAA
*
17120285 TTAT-AAGA
1 TTATAAAAA
17120293 TTAATAAAATA
1 TT-ATAAAA-A
* *
17120304 TATTTAAAATT
1 T-TATAAAA-A
*
17120315 TTATAAGAA
1 TTATAAAAA
*
17120324 -T-TAAAAT
1 TTATAAAAA
17120331 TCTATAAAAA
1 T-TATAAAAA
*
17120341 TAAT-AAAA
1 TTATAAAAA
17120349 TTATAAAAAA
1 TTAT-AAAAA
17120359 TTAT-AAAA
1 TTATAAAAA
*
17120367 TTATTAAAA
1 TTATAAAAA
* *
17120376 TTGCTATAAAC
1 TT-ATA-AAAA
17120387 TTATAAAAA
1 TTATAAAAA
17120396 TTATAAAAAA
1 TTAT-AAAAA
17120406 TTATAAAAA
1 TTATAAAAA
17120415 CATAAACTGG
Statistics
Matches: 144, Mismatches: 25, Indels: 32
0.72 0.12 0.16
Matches are distributed among these distances:
7 4 0.03
8 29 0.20
9 49 0.34
10 47 0.33
11 14 0.10
12 1 0.01
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (9 bp):
TTATAAAAA
Found at i:17121010 original size:38 final size:39
Alignment explanation
Indices: 17120942--17121015 Score: 89
Period size: 38 Copynumber: 1.9 Consensus size: 39
17120932 AAAAAATTAT
* * *
17120942 AATTTATTATATATTTTTATAGTATGTATTAGTTTTTAC
1 AATTTATTATATATTTTAATAGTATATATTAATTTTTAC
*
17120981 AATTT-TTATA-ATTTTAATAAGTTTATATTAATTTT
1 AATTTATTATATATTTTAAT-AGTATATATTAATTTT
17121016 AATATTTTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
37 7 0.23
38 18 0.60
39 5 0.17
ACGTcount: A:0.34, C:0.01, G:0.05, T:0.59
Consensus pattern (39 bp):
AATTTATTATATATTTTAATAGTATATATTAATTTTTAC
Found at i:17121014 original size:20 final size:22
Alignment explanation
Indices: 17120989--17121038 Score: 68
Period size: 20 Copynumber: 2.4 Consensus size: 22
17120979 ACAATTTTTA
17120989 TAATTTTAATAAGTTT-ATA-T
1 TAATTTTAATAAGTTTAATATT
**
17121009 TAATTTTAATATTTTTAATATT
1 TAATTTTAATAAGTTTAATATT
17121031 TAATTTTA
1 TAATTTTA
17121039 TTTTTATAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
20 14 0.54
21 3 0.12
22 9 0.35
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (22 bp):
TAATTTTAATAAGTTTAATATT
Found at i:17121043 original size:28 final size:28
Alignment explanation
Indices: 17120982--17121052 Score: 74
Period size: 29 Copynumber: 2.5 Consensus size: 28
17120972 AGTTTTTACA
*
17120982 ATTTTTATAATTTTAATAAGTTTATATT
1 ATTTTTATATTTTTAATAAGTTTATATT
* *
17121010 AATTTTAATATTTTTAAT-A-TTTAATTTT
1 -ATTTTTATATTTTTAATAAGTTT-ATATT
17121038 ATTTTTATAATTTTT
1 ATTTTTAT-ATTTTT
17121053 TTATGATTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
27 10 0.28
28 11 0.31
29 15 0.42
ACGTcount: A:0.34, C:0.00, G:0.01, T:0.65
Consensus pattern (28 bp):
ATTTTTATATTTTTAATAAGTTTATATT
Found at i:17121050 original size:9 final size:9
Alignment explanation
Indices: 17120938--17121052 Score: 56
Period size: 9 Copynumber: 12.2 Consensus size: 9
17120928 TATAAAAAAA
17120938 TTATAATTT
1 TTATAATTT
17120947 ATTATATATTT
1 -TTATA-ATTT
* *
17120958 TTATAGTAT
1 TTATAATTT
* *
17120967 GTATTAGTTT
1 TTA-TAATTT
*
17120977 TTACAATTT
1 TTATAATTT
17120986 TTATAATTT
1 TTATAATTT
*
17120995 TAATAAGTTT
1 TTATAA-TTT
*
17121005 ATATTAATTT
1 TTA-TAATTT
*
17121015 TAAT-ATTT
1 TTATAATTT
17121023 TTA-ATATTT
1 TTATA-ATTT
*
17121032 AATT-TTATTT
1 --TTATAATTT
17121042 TTATAATTT
1 TTATAATTT
17121051 TT
1 TT
17121053 TTATGATTTT
Statistics
Matches: 79, Mismatches: 16, Indels: 21
0.68 0.14 0.18
Matches are distributed among these distances:
8 8 0.10
9 33 0.42
10 29 0.37
11 9 0.11
ACGTcount: A:0.33, C:0.01, G:0.03, T:0.63
Consensus pattern (9 bp):
TTATAATTT
Found at i:17122065 original size:13 final size:13
Alignment explanation
Indices: 17122047--17122071 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17122037 TAAAATAATT
17122047 ATTTTATTTTATC
1 ATTTTATTTTATC
17122060 ATTTTATTTTAT
1 ATTTTATTTTAT
17122072 TTTTGTTATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.04, G:0.00, T:0.72
Consensus pattern (13 bp):
ATTTTATTTTATC
Found at i:17125827 original size:5 final size:5
Alignment explanation
Indices: 17125819--17125848 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
17125809 AAAAAAAGAA
17125819 AAAAG AAAAG AAAAG AAGAAG AAAAG AAAA
1 AAAAG AAAAG AAAAG AA-AAG AAAAG AAAA
17125849 AGGAAGAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 19 0.79
6 5 0.21
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:17125832 original size:11 final size:11
Alignment explanation
Indices: 17125811--17125864 Score: 56
Period size: 11 Copynumber: 4.8 Consensus size: 11
17125801 CATCTTTAAA
*
17125811 AAAAAGAAAAA
1 AAAAAGAAAAG
17125822 AGAAAAGAAAAG
1 A-AAAAGAAAAG
*
17125834 AAGAAGAAAAG
1 AAAAAGAAAAG
*
17125845 AAAAAG-GAAG
1 AAAAAGAAAAG
17125855 AAAAAAGAAA
1 -AAAAAGAAA
17125865 GTCAAGATGA
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
10 3 0.09
11 21 0.60
12 11 0.31
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (11 bp):
AAAAAGAAAAG
Found at i:17125849 original size:17 final size:17
Alignment explanation
Indices: 17125811--17125864 Score: 67
Period size: 17 Copynumber: 3.2 Consensus size: 17
17125801 CATCTTTAAA
*
17125811 AAAAAGAAAAAAGAAAAG
1 AAAAAG-AAGAAGAAAAG
17125829 -AAAAGAAGAAGAAAAG
1 AAAAAGAAGAAGAAAAG
17125845 AAAAAGGAAGAA-AAAAG
1 AAAAA-GAAGAAGAAAAG
17125862 AAA
1 AAA
17125865 GTCAAGATGA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
16 10 0.30
17 17 0.52
18 6 0.18
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (17 bp):
AAAAAGAAGAAGAAAAG
Found at i:17125855 original size:21 final size:20
Alignment explanation
Indices: 17125809--17125864 Score: 64
Period size: 18 Copynumber: 2.9 Consensus size: 20
17125799 GACATCTTTA
*
17125809 AAAAAAAGAAAAAAGAAAAG
1 AAAAGAAGAAAAAAGAAAAG
17125829 AAAAGAAGAAGAAAAG--AA-
1 AAAAGAAGAA-AAAAGAAAAG
*
17125847 AAAGGAAGAAAAAAGAAA
1 AAAAGAAGAAAAAAGAAA
17125865 GTCAAGATGA
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
17 5 0.16
18 9 0.29
19 3 0.10
20 9 0.29
21 5 0.16
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (20 bp):
AAAAGAAGAAAAAAGAAAAG
Found at i:17125867 original size:88 final size:88
Alignment explanation
Indices: 17125736--17125899 Score: 235
Period size: 88 Copynumber: 1.9 Consensus size: 88
17125726 AGAGGAGATC
17125736 AAAAAAAAAGAAGAAGAAGAAGAAAAGAAAATAAAGAAAAAGTCAAGATGAAAACCCGCAAAGGA
1 AAAAAAAAAGAAGAAGAAGAAGAAAAGAAAATAAAGAAAAAGTCAAGATGAAAACCCGCAAAGGA
*
17125801 CATCTTTAAAAAAAAGAAAAAAG
66 CATCTTGAAAAAAAAGAAAAAAG
* * *
17125824 AAAAGAAAAGAAGAAGAA-AAGAAAAAGGAAGAA-AAA-AGAAAGTCAAGATGAAAACTCGCAAA
1 AAAAAAAAAGAAGAAGAAGAAG-AAAA-GAA-AATAAAGAAAAAGTCAAGATGAAAACCCGCAAA
*
17125886 GGGCATCTTGAAAA
63 GGACATCTTGAAAA
17125900 TCTATATATC
Statistics
Matches: 68, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
87 3 0.04
88 57 0.84
89 6 0.09
90 2 0.03
ACGTcount: A:0.65, C:0.08, G:0.20, T:0.08
Consensus pattern (88 bp):
AAAAAAAAAGAAGAAGAAGAAGAAAAGAAAATAAAGAAAAAGTCAAGATGAAAACCCGCAAAGGA
CATCTTGAAAAAAAAGAAAAAAG
Done.