Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 263 of 378
Found at i:78966919 original size:46 final size:46
Alignment explanation
Indices: 78966853--78966942 Score: 135
Period size: 46 Copynumber: 2.0 Consensus size: 46
78966843 GAACATGTAT
* * *
78966853 ATATGTGGTAAGGCCGAATGGCTAATGCGAAATGTGTATGAGATAG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAATATGTATGAGATAG
* *
78966899 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGAT
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAATATGTATGAGAT
78966943 GTATATATAT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.34, C:0.08, G:0.30, T:0.28
Consensus pattern (46 bp):
ATATGTGGTAAAGCCAAATGGCTAATGCGAAATATGTATGAGATAG
Found at i:78966951 original size:2 final size:2
Alignment explanation
Indices: 78966944--78966980 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
78966934 GTATGAGATG
78966944 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
78966981 TGTGGCCAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:78969339 original size:40 final size:40
Alignment explanation
Indices: 78969240--78969459 Score: 354
Period size: 40 Copynumber: 5.5 Consensus size: 40
78969230 AGTTGTATAG
* * *
78969240 CCGGGCTAAGTCCCGAAGAGCATTTGTGCTAGTGATATAT
1 CCGGGCTAAATCCCGAAGAGCATTCGTGCTAGTGATGTAT
78969280 CC-GGCTAAATCCCGAAGAGCATTCGTGCTAGTGATGTAT
1 CCGGGCTAAATCCCGAAGAGCATTCGTGCTAGTGATGTAT
* *
78969319 CCGGACTAAATCCCGAAGAGCATTCGTGCTAGTGATATAT
1 CCGGGCTAAATCCCGAAGAGCATTCGTGCTAGTGATGTAT
78969359 CCGGGCTAAATCCCGAAGAGCATTCGTGCTAGTGATGTAT
1 CCGGGCTAAATCCCGAAGAGCATTCGTGCTAGTGATGTAT
78969399 CCGGGCTAAATCCCGAA-AGCATTCGTGCTAGTGATGTAT
1 CCGGGCTAAATCCCGAAGAGCATTCGTGCTAGTGATGTAT
***
78969438 CCGGGCTGGGTCCCGAAGAGCA
1 CCGGGCTAAATCCCGAAGAGCA
78969460 ATCATGCTGG
Statistics
Matches: 168, Mismatches: 10, Indels: 4
0.92 0.05 0.02
Matches are distributed among these distances:
39 72 0.43
40 96 0.57
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAATCCCGAAGAGCATTCGTGCTAGTGATGTAT
Found at i:78969420 original size:79 final size:80
Alignment explanation
Indices: 78969240--78969459 Score: 363
Period size: 79 Copynumber: 2.8 Consensus size: 80
78969230 AGTTGTATAG
* *
78969240 CCGGGCTAAGTCCCGAAGAGCATTTGTGCTAGTGATATATCC-GGCTAAATCCCGAAGAGCATTC
1 CCGGGCTAAATCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAATCCCGAAGAGCATTC
78969304 GTGCTAGTGATGTAT
66 GTGCTAGTGATGTAT
*
78969319 CCGGACTAAATCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAATCCCGAAGAGCATTC
1 CCGGGCTAAATCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAATCCCGAAGAGCATTC
78969384 GTGCTAGTGATGTAT
66 GTGCTAGTGATGTAT
* ***
78969399 CCGGGCTAAATCCCGAA-AGCATTCGTGCTAGTGATGTATCCGGGCTGGGTCCCGAAGAGCA
1 CCGGGCTAAATCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAATCCCGAAGAGCA
78969460 ATCATGCTGG
Statistics
Matches: 132, Mismatches: 8, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
79 79 0.60
80 53 0.40
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.24
Consensus pattern (80 bp):
CCGGGCTAAATCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAATCCCGAAGAGCATTC
GTGCTAGTGATGTAT
Found at i:78969452 original size:119 final size:119
Alignment explanation
Indices: 78969235--78969459 Score: 362
Period size: 119 Copynumber: 1.9 Consensus size: 119
78969225 TTGAGAGTTG
* *
78969235 TATAGCCGGGCTAAGTCCCGAAGAGCATTTGTGCTAGTGATATATCCGGCTAAATCCCGAAGAGC
1 TATAGCCGGGCTAAATCCCGAAGAGCATTCGTGCTAGTGATATATCCGGCTAAATCCCGAAGAGC
78969300 ATTCGTGCTAGTGATGTATCCGGACTAAATCCCGAAGAGCATTCGTGCTAGTGA
66 ATTCGTGCTAGTGATGTATCCGGACTAAATCCCGAAGAGCATTCGTGCTAGTGA
* *
78969354 TATATCCGGGCTAAATCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAATCCCGAA-AG
1 TATAGCCGGGCTAAATCCCGAAGAGCATTCGTGCTAGTGATATATCC-GGCTAAATCCCGAAGAG
* ***
78969418 CATTCGTGCTAGTGATGTATCCGGGCTGGGTCCCGAAGAGCA
65 CATTCGTGCTAGTGATGTATCCGGACTAAATCCCGAAGAGCA
78969460 ATCATGCTGG
Statistics
Matches: 97, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
119 83 0.86
120 14 0.14
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (119 bp):
TATAGCCGGGCTAAATCCCGAAGAGCATTCGTGCTAGTGATATATCCGGCTAAATCCCGAAGAGC
ATTCGTGCTAGTGATGTATCCGGACTAAATCCCGAAGAGCATTCGTGCTAGTGA
Found at i:78972931 original size:47 final size:47
Alignment explanation
Indices: 78972880--78972976 Score: 140
Period size: 47 Copynumber: 2.1 Consensus size: 47
78972870 TTAGGATTTT
* * *
78972880 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCTGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
78972927 ATGTGATGAATGTGAACATGTATATATGTGGTAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
78972974 ATG
1 ATG
78972977 CGAAATGTGT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 44 1.00
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:78973016 original size:46 final size:46
Alignment explanation
Indices: 78972950--78973039 Score: 135
Period size: 46 Copynumber: 2.0 Consensus size: 46
78972940 GAACATGTAT
* * *
78972950 ATATGTGGTAAGGCCGAATGGCTAATGCGAAATGTGTATGAGATAG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAATATGTATGAGATAG
* *
78972996 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGAT
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAATATGTATGAGAT
78973040 GTATATATAT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.34, C:0.08, G:0.30, T:0.28
Consensus pattern (46 bp):
ATATGTGGTAAAGCCAAATGGCTAATGCGAAATATGTATGAGATAG
Found at i:78973048 original size:2 final size:2
Alignment explanation
Indices: 78973041--78973069 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
78973031 GTATGAGATG
78973041 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
78973070 TGTGGCCAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:78980463 original size:46 final size:46
Alignment explanation
Indices: 78980411--78980501 Score: 128
Period size: 46 Copynumber: 2.0 Consensus size: 46
78980401 TAGATCAATG
*
78980411 GATTGAAGAAGATACAAATTCTATAGCCCTGAGCTGTAGTGGGATT
1 GATTGAAGAAGATACAAATCCTATAGCCCTGAGCTGTAGTGGGATT
* * * * *
78980457 GATTGAAGATGGTACAAATCCTATATCCTTGAGTTGTAGTGGGAT
1 GATTGAAGAAGATACAAATCCTATAGCCCTGAGCTGTAGTGGGAT
78980502 GGATGTAAGA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.31, C:0.12, G:0.26, T:0.31
Consensus pattern (46 bp):
GATTGAAGAAGATACAAATCCTATAGCCCTGAGCTGTAGTGGGATT
Found at i:78981460 original size:46 final size:44
Alignment explanation
Indices: 78981373--78981496 Score: 124
Period size: 46 Copynumber: 2.7 Consensus size: 44
78981363 TTGTGAGAGT
* * *
78981373 TAGTGTAAGACCATGTCTAGGACATGGCATCAGTATTGAGACG-AGTTC
1 TAGTGTAAGA-CATGTCT-GGACAT-GCATCGGCATCGAGACGAAG--C
*
78981421 TAGTGTAAGACATGTCTGGAACATGCATCGGCCTCGAGACGTAAGC
1 TAGTGTAAGACATGTCTGG-ACATGCATCGGCATCGAGACG-AAGC
*
78981467 TAGTGTAAGAAATGTCTGGGACATGCATCG
1 TAGTGTAAGACATGTCT-GGACATGCATCG
78981497 ACTCAATGTA
Statistics
Matches: 67, Mismatches: 5, Indels: 10
0.82 0.06 0.12
Matches are distributed among these distances:
46 42 0.63
47 13 0.19
48 12 0.18
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.25
Consensus pattern (44 bp):
TAGTGTAAGACATGTCTGGACATGCATCGGCATCGAGACGAAGC
Found at i:78983549 original size:40 final size:39
Alignment explanation
Indices: 78983381--78983551 Score: 159
Period size: 40 Copynumber: 4.3 Consensus size: 39
78983371 AGAAATTGAA
* *
78983381 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
78983421 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
78983461 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
78983501 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
78983541 TGATATCCGGG
1 TGATATCCGGG
78983552 TAAAGTCCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
37 2 0.02
38 4 0.04
39 4 0.04
40 95 0.89
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:78991554 original size:40 final size:39
Alignment explanation
Indices: 78991451--78991562 Score: 152
Period size: 40 Copynumber: 2.8 Consensus size: 39
78991441 TGAAATTTAT
* * *
78991451 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCTAT
1 ATCCGGGCTAAGACCCGAAGGC-ATTGTGCAAGTAGCTAA
* *
78991491 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAA
1 ATCCGGGCTAAGACCCGAAGGCATT-GTGCAAGTAGCTAA
78991531 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAA
1 ATCCGGGCTAAGACCCGAAGGCA-TTGTGCAA
78991563 ATCGTGATAT
Statistics
Matches: 65, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
39 3 0.05
40 60 0.92
41 2 0.03
ACGTcount: A:0.28, C:0.22, G:0.28, T:0.22
Consensus pattern (39 bp):
ATCCGGGCTAAGACCCGAAGGCATTGTGCAAGTAGCTAA
Found at i:78991575 original size:40 final size:39
Alignment explanation
Indices: 78991408--78991577 Score: 150
Period size: 40 Copynumber: 4.3 Consensus size: 39
78991398 AGAAATTGAA
* *
78991408 TGATATCC-GGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
78991447 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
78991487 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
78991527 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
78991567 TGATATCCGGG
1 TGATATCCGGG
78991578 TAAAGTCCCG
Statistics
Matches: 106, Mismatches: 17, Indels: 15
0.77 0.12 0.11
Matches are distributed among these distances:
37 2 0.02
38 4 0.04
39 11 0.10
40 87 0.82
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:78993208 original size:13 final size:13
Alignment explanation
Indices: 78993190--78993216 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
78993180 TTTATGCTTA
78993190 CTCCTTCTCCTTT
1 CTCCTTCTCCTTT
78993203 CTCCTTCTCCTTT
1 CTCCTTCTCCTTT
78993216 C
1 C
78993217 CTTTTTCTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (13 bp):
CTCCTTCTCCTTT
Found at i:78999932 original size:46 final size:47
Alignment explanation
Indices: 78999850--79000013 Score: 212
Period size: 47 Copynumber: 3.6 Consensus size: 47
78999840 AGACGAGTGC
* * *
78999850 CAGTGTAAGA-CATTTCT-GGACATGCATCGGCCACGAGATGTA-AG-
1 CAGTGTAAGACCATGTCTGGGACATGCGTCGGTCACGAGAT-TATAGT
* *
78999894 CTAGTGTAAGA-CATGTTTGGGACATGCGTCGGTTACGAGATTATAGT
1 C-AGTGTAAGACCATGTCTGGGACATGCGTCGGTCACGAGATTATAGT
* *
78999941 CAGTGTAAGACCATGTCTGGGACATGTGTCGGTGACGAGATTATAGT
1 CAGTGTAAGACCATGTCTGGGACATGCGTCGGTCACGAGATTATAGT
78999988 CAGTGTAAGACCATGTCTGGGACATG
1 CAGTGTAAGACCATGTCTGGGACATG
79000014 GCTTCAACTT
Statistics
Matches: 107, Mismatches: 8, Indels: 7
0.88 0.07 0.06
Matches are distributed among these distances:
44 1 0.01
45 16 0.15
46 30 0.28
47 60 0.56
ACGTcount: A:0.27, C:0.16, G:0.30, T:0.27
Consensus pattern (47 bp):
CAGTGTAAGACCATGTCTGGGACATGCGTCGGTCACGAGATTATAGT
Found at i:79001434 original size:27 final size:27
Alignment explanation
Indices: 79001404--79001459 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
79001394 GTTAGGTAAC
*
79001404 ACCTCGTATTCTGCCTTAGCATAGGAT
1 ACCTCGTATTCTGCCTCAGCATAGGAT
*
79001431 ACCTCGTATTCTGCCTCGGCATAGGAT
1 ACCTCGTATTCTGCCTCAGCATAGGAT
79001458 AC
1 AC
79001460 GGGTATGGGG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.21, C:0.29, G:0.20, T:0.30
Consensus pattern (27 bp):
ACCTCGTATTCTGCCTCAGCATAGGAT
Found at i:79002012 original size:43 final size:43
Alignment explanation
Indices: 79001914--79002439 Score: 278
Period size: 45 Copynumber: 11.9 Consensus size: 43
79001904 AATAAATAGA
* * * ** *
79001914 TCTTATCTCTCTGAAGTTGCAGTAGAGCAGA-TCATAG-CGAAC
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGA-AGTTAAAG
* *
79001956 T-TTATCTCCCTGAAGTAGCAGTGGAGCAGGTTGAAGTTAAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTAAAG
** ** * * *
79001998 TCTTATCTCCCTGAAGTTATAGTGGAATAGACTGAAGATAACGAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTAA--AG
* * *
79002043 TCTTATTTCCCTGAAGTTGTAGTGGAACAGATTGAAGCTATACATAAACAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG---T---T-AA-AG
* * *
79002094 ATCTTATCTCTCTGAAGTTGCAGTAGAGCAGA-TCATAG-TAAA-
1 -TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGA-AGTTAAAG
* * * *
79002136 CCTTATCTCCCTGAAGTTGCAGTGAAACAGGTTGAAGTTAAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTAAAG
* * * *
79002179 TCTTATCTCTCTAAAGTTGTAGTGGAGCAGACTGAA-TATAACAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGT-TAA-AG
* ** **
79002223 ATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATCAAAGCCACAA-
1 -TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTA-AAG
* * * * ** * *
79002267 TCCTTATCTCTCTGAATTTTCAGTAGAGCAGGATAAAAATATACAAA
1 T-CTTATCTCCCTGAAGTTGCAGTGGAGCA-GATTGAAGT-TA-AAG
* * *
79002314 CCTTATCTCCCTGAAGTTGCAGTGGAG-AGGTTGAAATATAAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGT-TAAAG
** * * *
79002357 TCTTATCTCTATGAAGTTGCAGTGGAGCAGACTGAAGATAGCAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTA-AAG
* * * * *
79002401 ATCTTATCTCCCTAAAATTACATTGGAGCAGATCGAAGT
1 -TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGT
79002440 ATCAATTCCT
Statistics
Matches: 368, Mismatches: 87, Indels: 55
0.72 0.17 0.11
Matches are distributed among these distances:
41 54 0.15
42 13 0.04
43 92 0.25
44 44 0.12
45 104 0.28
46 27 0.07
51 4 0.01
52 30 0.08
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (43 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTAAAG
Found at i:79002048 original size:181 final size:181
Alignment explanation
Indices: 79001762--79002413 Score: 705
Period size: 181 Copynumber: 3.6 Consensus size: 181
79001752 AAATTAACAC
* * * * * **
79001762 ATCATGGCAAATCTTATCTCCCTGAAGTTGCAATAGAGTAGGTTGAAGCCACAAGTCTTATCTCC
1 ATCATAGCAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTA-AAGTCTTATCTCC
* * * ** * *
79001827 CTAAAGTTACAGCGGAGCAGACTAAAGATAGTGAATCTTATTTCCTTGAAGTTGTAGTGGAATAG
65 CTAAAGTTATAGTGGAGCAGACTGAAGATAACGAATCTTATTTCCCTGAAGTTGTAGTGGAACAG
*
79001892 ATGGAAGCTATAAATAAATAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAG
130 ATGGAAGCTATAAATAAACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAG
* * *
79001944 ATCATAGCGAACTTTATCTCCCTGAAGTAGCAGTGGAGCAGGTTGAAGTTAAAGTCTTATCTCCC
1 ATCATAGCAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTAAAGTCTTATCTCCC
* **
79002009 TGAAGTTATAGTGGAATAGACTGAAGATAACGAATCTTATTTCCCTGAAGTTGTAGTGGAACAGA
66 TAAAGTTATAGTGGAGCAGACTGAAGATAACGAATCTTATTTCCCTGAAGTTGTAGTGGAACAGA
* *
79002074 TTGAAGCTATACATAAACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAG
131 TGGAAGCTATAAATAAACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAG
* * * *
79002125 ATCATAGTAAACCTTATCTCCCTGAAGTTGCAGTGAAACAGGTTGAAGTTAAAGTCTTATCTCTC
1 ATCATAGCAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTAAAGTCTTATCTCCC
* * * * * *
79002190 TAAAGTTGTAGTGGAGCAGACTGAATATAAC-AGATCTTATCTCCCTAAAGTTGCAGTGGAGCAG
66 TAAAGTTATAGTGGAGCAGACTGAAGATAACGA-ATCTTATTTCCCTGAAGTTGTAGTGGAACAG
** * * * *
79002254 ATCAAAGCCA-CAAT---C----CTTATCTCTCTGAATTTTCAGTAGAGCAGG
130 ATGGAAGCTATAAATAAACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCA-G
* * *
79002299 ATAAAAATATACAAACCTTATCTCCCTGAAGTTGCAGTGGAG-AGGTTGAAATATAAAGTCTTAT
1 AT---CATA-GCAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGT-TAAAGTCTTAT
** * ** * *
79002363 CTCTATGAAGTTGCAGTGGAGCAGACTGAAGATAGC-AGATCTTATCTCCCT
61 CTCCCTAAAGTTATAGTGGAGCAGACTGAAGATAACGA-ATCTTATTTCCCT
79002414 AAAATTACAT
Statistics
Matches: 406, Mismatches: 57, Indels: 18
0.84 0.12 0.04
Matches are distributed among these distances:
173 26 0.06
174 3 0.01
177 13 0.03
178 85 0.21
180 3 0.01
181 235 0.58
182 41 0.10
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (181 bp):
ATCATAGCAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTAAAGTCTTATCTCCC
TAAAGTTATAGTGGAGCAGACTGAAGATAACGAATCTTATTTCCCTGAAGTTGTAGTGGAACAGA
TGGAAGCTATAAATAAACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAG
Found at i:79002078 original size:88 final size:87
Alignment explanation
Indices: 79001957--79002413 Score: 372
Period size: 88 Copynumber: 5.1 Consensus size: 87
79001947 ATAGCGAACT
* * * * *
79001957 TTATCTCCCTGAAGTAGCAGTGGAGCAGGTTGAAGTTAAAGTCTTATCTCCCTGAAGTTATAGTG
1 TTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGTTAAAGTCTTATCTCTCTGAAGTTGTAGTG
**
79002022 GAATAGACTGAAGATAACGAATC
66 GAGCAGACTGAAGATAAC-AATC
* *
79002045 TTATTTCCCTGAAGTTGTAGTGGAACAGATTGAAGCTATACATAAACAGATCTTATCTCTCTGAA
1 TTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAG---T---T-AA-AG-TCTTATCTCTCTGAA
* * * *
79002110 GTTGCAGTAGAGCAGA-TCATAG-T-A-AACC
57 GTTGTAGTGGAGCAGACTGA-AGATAACAATC
* * *
79002138 TTATCTCCCTGAAGTTGCAGTGAAACAGGTTGAAGTTAAAGTCTTATCTCTCTAAAGTTGTAGTG
1 TTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGTTAAAGTCTTATCTCTCTGAAGTTGTAGTG
*
79002203 GAGCAGACTGAATATAACAGATC
66 GAGCAGACTGAAGATAACA-ATC
* * ** ** *
79002226 TTATCTCCCTAAAGTTGCAGTGGAGCAGATCAAAGCCACAA-TCCTTATCTCTCTGAA-TTTTCA
1 TTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGTTA-AAGT-CTTATCTCTCTGAAGTTGT-A
* * * *
79002289 GTAGAGCAGGA-TAAAAATATACAAACC
63 GTGGAGCA-GACTGAAGATA-AC-AATC
* * * * *
79002316 TTATCTCCCTGAAGTTGCAGTGG-AGAGGTTGAAATATAAAGTCTTATCTCTATGAAGTTGCAGT
1 TTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGT-TAAAGTCTTATCTCTCTGAAGTTGTAGT
*
79002380 GGAGCAGACTGAAGATAGCAGATC
65 GGAGCAGACTGAAGATAACA-ATC
79002404 TTATCTCCCT
1 TTATCTCCCT
79002414 AAAATTACAT
Statistics
Matches: 289, Mismatches: 54, Indels: 52
0.73 0.14 0.13
Matches are distributed among these distances:
84 29 0.10
85 5 0.02
86 3 0.01
87 3 0.01
88 81 0.28
89 63 0.22
90 33 0.11
91 2 0.01
93 34 0.12
94 1 0.00
95 3 0.01
96 5 0.02
97 27 0.09
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (87 bp):
TTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGTTAAAGTCTTATCTCTCTGAAGTTGTAGTG
GAGCAGACTGAAGATAACAATC
Found at i:79002248 original size:45 final size:44
Alignment explanation
Indices: 79002089--79002433 Score: 228
Period size: 43 Copynumber: 7.9 Consensus size: 44
79002079 GCTATACATA
* * *
79002089 AACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGAT-CATAGT
1 AACAGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATGAATA-T
* * * *
79002133 -A-A-ACCTTATCTCCCTGAAGTTGCAGTGAAACAGGTTGAAGT-T
1 AACAGATCTTATCTCCCTGAAGTTGCAGTGGAGCA-GATGAA-TAT
* * *
79002175 AA-AG-TCTTATCTCTCTAAAGTTGTAGTGGAGCAGACTGAATAT
1 AACAGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TGAATAT
* * *
79002218 AACAGATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATCAA-AGC
1 AACAGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATGAATA-T
* * * * * * *
79002262 CACA-ATCCTTATCTCTCTGAATTTTCAGTAGAGCAGGATAAAAAT
1 AACAGAT-CTTATCTCCCTGAAGTTGCAGTGGAGCA-GATGAATAT
* * *
79002307 ATACAAACCTTATCTCCCTGAAGTTGCAGTGGAG-AGGTTGAAATAT
1 A-ACAGATCTTATCTCCCTGAAGTTGCAGTGGAGCA-GATG-AATAT
** *
79002353 AA-AG-TCTTATCTCTATGAAGTTGCAGTGGAGCAGACTGAAGAT
1 AACAGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TGAATAT
* * * * *
79002396 AGCAGATCTTATCTCCCTAAAATTACATTGGAGCAGAT
1 AACAGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
79002434 CGAAGTATCA
Statistics
Matches: 233, Mismatches: 48, Indels: 40
0.73 0.15 0.12
Matches are distributed among these distances:
41 25 0.11
42 6 0.03
43 67 0.29
44 39 0.17
45 64 0.27
46 31 0.13
47 1 0.00
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (44 bp):
AACAGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATGAATAT
Found at i:79002365 original size:89 final size:88
Alignment explanation
Indices: 79002133--79002413 Score: 241
Period size: 89 Copynumber: 3.2 Consensus size: 88
79002123 AGATCATAGT
* * * * *
79002133 AAACCTTATCTCCCTGAAGTTGCAGTGAAACAGGTTGAAGTTAAAGTCTTATCTCTCTAAAGTTG
1 AAACCTTATCTCCCTGAAGTTGCAGTG-GAGAGGTTGAAATTAAAGTCTTATCTCTCTGAA-TTT
* *
79002198 T-AGTGGAGCA-GACTGAATATAAC
64 TCAGTGGAGCAGGACTAAAAATAAC
* * * * * **
79002221 AGATCTTATCTCCCTAAAGTTGCAGTGGAGCA-GATCAAAGCCACAA-TCCTTATCTCTCTGAAT
1 AAACCTTATCTCCCTGAAGTTGCAGTGGAG-AGGTTGAAA-TTA-AAGT-CTTATCTCTCTGAAT
*
79002284 TTTCAGTAGAGCAGGA-TAAAAATATAC
62 TTTCAGTGGAGCAGGACTAAAAATA-AC
* * *
79002311 AAACCTTATCTCCCTGAAGTTGCAGTGGAGAGGTTGAAATATAAAGTCTTATCTCTATGAAGTTG
1 AAACCTTATCTCCCTGAAGTTGCAGTGGAGAGGTTGAAAT-TAAAGTCTTATCTCTCTGAATTTT
* * *
79002376 CAGTGGAGCA-GACTGAAGATAGC
65 CAGTGGAGCAGGACTAAAAATAAC
* *
79002399 AGATCTTATCTCCCT
1 AAACCTTATCTCCCT
79002414 AAAATTACAT
Statistics
Matches: 151, Mismatches: 31, Indels: 22
0.74 0.15 0.11
Matches are distributed among these distances:
87 5 0.03
88 46 0.30
89 62 0.41
90 38 0.25
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.29
Consensus pattern (88 bp):
AAACCTTATCTCCCTGAAGTTGCAGTGGAGAGGTTGAAATTAAAGTCTTATCTCTCTGAATTTTC
AGTGGAGCAGGACTAAAAATAAC
Found at i:79003949 original size:28 final size:28
Alignment explanation
Indices: 79003917--79003974 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
79003907 CTTCAATTAC
*
79003917 TTTATATATTGCTTAT-TTTAAACCTGTT
1 TTTATATATTACTTATCTTTAAA-CTGTT
* *
79003945 TTTATGTATTATTTATCTTTAAACTGTT
1 TTTATATATTACTTATCTTTAAACTGTT
79003973 TT
1 TT
79003975 GTACATTATG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 20 0.77
29 6 0.23
ACGTcount: A:0.24, C:0.09, G:0.07, T:0.60
Consensus pattern (28 bp):
TTTATATATTACTTATCTTTAAACTGTT
Found at i:79004102 original size:26 final size:26
Alignment explanation
Indices: 79004051--79004123 Score: 83
Period size: 26 Copynumber: 2.8 Consensus size: 26
79004041 AATTATCTTA
79004051 TATGTTATTTATTTTAAATTGCTTTG
1 TATGTTATTTATTTTAAATTGCTTTG
* * *
79004077 TATGTTATTTGTTTTCAATTGTTTTG
1 TATGTTATTTATTTTAAATTGCTTTG
* ** *
79004103 CACATTATTTATTTTACATTG
1 TATGTTATTTATTTTAAATTG
79004124 TTCTATACTA
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 38 1.00
ACGTcount: A:0.22, C:0.07, G:0.11, T:0.60
Consensus pattern (26 bp):
TATGTTATTTATTTTAAATTGCTTTG
Found at i:79007252 original size:46 final size:46
Alignment explanation
Indices: 79007127--79007338 Score: 179
Period size: 46 Copynumber: 4.6 Consensus size: 46
79007117 GTGCCAATGC
* * *
79007127 CATGTCCCAGACATGGTCTTACACT-GAC-ACATCTCGTA-GCCGATG
1 CATGTCCCAGACAT-GTCTTACACTAGCCTACGTCTC-AAGGCCGATG
* * *
79007172 CATGTCCCAGACATGTCTTACACTAGCTTACGTCTCGAGGCTGATG
1 CATGTCCCAGACATGTCTTACACTAGCCTACGTCTCAAGGCCGATG
* * * *
79007218 CATGCCCCACACATGTCTTACACTAGCACT-CGTCTCAATGCCAATG
1 CATGTCCCAGACATGTCTTACACTAGC-CTACGTCTCAAGGCCGATG
* *
79007264 CCATGTCCCAGACATGCTCTTACACT-GGCT--TTCAT-AATGTGCCCGATG
1 -CATGTCCCAGACATG-TCTTACACTAGCCTACGTC-TCAA-G-G-CCGATG
79007312 CATGTCCCAGACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
79007339 TCACACAAGT
Statistics
Matches: 137, Mismatches: 19, Indels: 20
0.78 0.11 0.11
Matches are distributed among these distances:
44 10 0.07
45 20 0.15
46 61 0.45
47 32 0.23
48 14 0.10
ACGTcount: A:0.24, C:0.32, G:0.18, T:0.26
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTAGCCTACGTCTCAAGGCCGATG
Found at i:79008534 original size:40 final size:39
Alignment explanation
Indices: 79008480--79008562 Score: 112
Period size: 40 Copynumber: 2.1 Consensus size: 39
79008470 CGACTTATCA
*
79008480 GCTAAAATGGCACTTAGTGTGCGATTCGAAATAGCTTCG
1 GCTAAAATGGCACTTAGTGTGCAATTCGAAATAGCTTCG
* * **
79008519 GCTAAAAGTGGCACTTGGTGTGCAATTTGAGGTAGCTTCG
1 GCTAAAA-TGGCACTTAGTGTGCAATTCGAAATAGCTTCG
79008559 GCTA
1 GCTA
79008563 TATATATATA
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
39 7 0.18
40 31 0.82
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (39 bp):
GCTAAAATGGCACTTAGTGTGCAATTCGAAATAGCTTCG
Found at i:79008568 original size:2 final size:2
Alignment explanation
Indices: 79008561--79008592 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
79008551 TAGCTTCGGC
79008561 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
79008593 AATGGCACTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:79013763 original size:55 final size:55
Alignment explanation
Indices: 79013697--79013806 Score: 202
Period size: 55 Copynumber: 2.0 Consensus size: 55
79013687 GAATTATAGA
* *
79013697 TTGCAAATTAATTATTCATGAGCACTATTCAAATTAAAAGTGATGATTTATCATC
1 TTGCAAATTAATTATTCATAAGCACTAATCAAATTAAAAGTGATGATTTATCATC
79013752 TTGCAAATTAATTATTCATAAGCACTAATCAAATTAAAAGTGATGATTTATCATC
1 TTGCAAATTAATTATTCATAAGCACTAATCAAATTAAAAGTGATGATTTATCATC
79013807 CAATGAATAC
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 53 1.00
ACGTcount: A:0.40, C:0.13, G:0.10, T:0.37
Consensus pattern (55 bp):
TTGCAAATTAATTATTCATAAGCACTAATCAAATTAAAAGTGATGATTTATCATC
Found at i:79016243 original size:53 final size:53
Alignment explanation
Indices: 79016176--79016281 Score: 194
Period size: 53 Copynumber: 2.0 Consensus size: 53
79016166 TTTCAAAAAG
79016176 ATAGGCAATAACTCTTACTCTAATTAATAAAAAAACCCGATGTTTTAAAATTT
1 ATAGGCAATAACTCTTACTCTAATTAATAAAAAAACCCGATGTTTTAAAATTT
* *
79016229 ATAGGCAATTACTCTTACTCTAATTAATAAAAAAACCTGATGTTTTAAAATTT
1 ATAGGCAATAACTCTTACTCTAATTAATAAAAAAACCCGATGTTTTAAAATTT
79016282 TTAAAAATTT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 51 1.00
ACGTcount: A:0.42, C:0.14, G:0.08, T:0.36
Consensus pattern (53 bp):
ATAGGCAATAACTCTTACTCTAATTAATAAAAAAACCCGATGTTTTAAAATTT
Found at i:79018504 original size:30 final size:30
Alignment explanation
Indices: 79018469--79018530 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
79018459 GGTCGAACGC
79018469 CACACTTTGGGAAGTGATAAGTTCGGATAA
1 CACACTTTGGGAAGTGATAAGTTCGGATAA
*
79018499 CACACTTTGGGAAGTGATAAGTTTGGATAA
1 CACACTTTGGGAAGTGATAAGTTCGGATAA
79018529 CA
1 CA
79018531 AGGAAGAATG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.34, C:0.13, G:0.26, T:0.27
Consensus pattern (30 bp):
CACACTTTGGGAAGTGATAAGTTCGGATAA
Found at i:79018756 original size:21 final size:21
Alignment explanation
Indices: 79018713--79018756 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
79018703 ACACACTTAG
*
79018713 CTTAATTGAGCTATTAATGAA
1 CTTAATTGAGCTATTAATAAA
79018734 CTTAATTGAGCTAATTAA-AAA
1 CTTAATTGAGCT-ATTAATAAA
79018755 CT
1 CT
79018757 ACAAGACCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 16 0.76
22 5 0.24
ACGTcount: A:0.41, C:0.11, G:0.11, T:0.36
Consensus pattern (21 bp):
CTTAATTGAGCTATTAATAAA
Found at i:79021999 original size:28 final size:28
Alignment explanation
Indices: 79021944--79021999 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
79021934 GCGACCACAT
**
79021944 GGGCGTGTCTAGGCCGTGTGAGGGACAC
1 GGGCGTGTCTAGGCCGTGTGAGAAACAC
*
79021972 GGGCGTGTGCTCGGCCGTGTGA-AAACAC
1 GGGCGTGT-CTAGGCCGTGTGAGAAACAC
79022000 CTGTAGGTTC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 12 0.50
29 12 0.50
ACGTcount: A:0.16, C:0.23, G:0.43, T:0.18
Consensus pattern (28 bp):
GGGCGTGTCTAGGCCGTGTGAGAAACAC
Found at i:79023505 original size:16 final size:17
Alignment explanation
Indices: 79023473--79023505 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
79023463 TTTCAAATAT
*
79023473 AATTTCCTCACAACCAA
1 AATTTCCTCAAAACCAA
79023490 AATTTCC-CAAAACCAA
1 AATTTCCTCAAAACCAA
79023506 CCAATCGATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.45, C:0.33, G:0.00, T:0.21
Consensus pattern (17 bp):
AATTTCCTCAAAACCAA
Found at i:79023640 original size:38 final size:39
Alignment explanation
Indices: 79023595--79023668 Score: 107
Period size: 39 Copynumber: 1.9 Consensus size: 39
79023585 AAATTTTAAA
79023595 TCAACATATGC-A-TTCACCCCAACAGCTAAAAGAAATTC
1 TCAACATAT-CTATTTCACCCCAACAGCTAAAAGAAATTC
* *
79023633 TCAACATATCTATTTCATCCCAACAGTTAAAAGAAA
1 TCAACATATCTATTTCACCCCAACAGCTAAAAGAAA
79023669 ATTCCAAAGC
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
37 1 0.03
38 10 0.31
39 21 0.66
ACGTcount: A:0.43, C:0.26, G:0.07, T:0.24
Consensus pattern (39 bp):
TCAACATATCTATTTCACCCCAACAGCTAAAAGAAATTC
Found at i:79027367 original size:29 final size:28
Alignment explanation
Indices: 79027293--79027397 Score: 86
Period size: 29 Copynumber: 3.7 Consensus size: 28
79027283 TACATACATG
* * *
79027293 CATATGGCCCACTAGGCCCAATCTTATT
1 CATATGGCCCATTAGGCCCATTCATATT
* *
79027321 CAAATGGCCCGTCT-GGCCCAGTTCATATT
1 CATATGGCCCAT-TAGGCCCA-TTCATATT
* * **
79027350 CTTATGGCCCATTAGGCCTAATTCACGTT
1 CATATGGCCCATTAGGCC-CATTCATATT
*
79027379 CATATGGCCCATTAAGCCC
1 CATATGGCCCATTAGGCCC
79027398 GAATCATAAT
Statistics
Matches: 59, Mismatches: 14, Indels: 8
0.73 0.17 0.10
Matches are distributed among these distances:
28 16 0.27
29 42 0.71
30 1 0.02
ACGTcount: A:0.23, C:0.31, G:0.17, T:0.29
Consensus pattern (28 bp):
CATATGGCCCATTAGGCCCATTCATATT
Found at i:79027655 original size:8 final size:8
Alignment explanation
Indices: 79027628--79027673 Score: 56
Period size: 8 Copynumber: 5.8 Consensus size: 8
79027618 CCAACTTTTA
79027628 GCTTTTCG
1 GCTTTTCG
* *
79027636 GCATTTCA
1 GCTTTTCG
*
79027644 GCTTTTTG
1 GCTTTTCG
79027652 GCTTTTCG
1 GCTTTTCG
*
79027660 GCATTTCG
1 GCTTTTCG
79027668 GCTTTT
1 GCTTTT
79027674 GTCGATTCAT
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
8 30 1.00
ACGTcount: A:0.07, C:0.22, G:0.22, T:0.50
Consensus pattern (8 bp):
GCTTTTCG
Found at i:79027655 original size:24 final size:24
Alignment explanation
Indices: 79027623--79027673 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
79027613 GTAGCCCAAC
79027623 TTTTAGCTTTTCGGCATTTCAGCT
1 TTTTAGCTTTTCGGCATTTCAGCT
* *
79027647 TTTTGGCTTTTCGGCATTTCGGCT
1 TTTTAGCTTTTCGGCATTTCAGCT
79027671 TTT
1 TTT
79027674 GTCGATTCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.08, C:0.20, G:0.20, T:0.53
Consensus pattern (24 bp):
TTTTAGCTTTTCGGCATTTCAGCT
Found at i:79027670 original size:16 final size:16
Alignment explanation
Indices: 79027622--79027673 Score: 52
Period size: 16 Copynumber: 3.3 Consensus size: 16
79027612 CGTAGCCCAA
*
79027622 CTTTT-AGCTTTTCGG
1 CTTTTCAGCATTTCGG
* * *
79027637 CATTTCAGCTTTTTGG
1 CTTTTCAGCATTTCGG
*
79027653 CTTTTCGGCATTTCGG
1 CTTTTCAGCATTTCGG
79027669 CTTTT
1 CTTTT
79027674 GTCGATTCAT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
15 4 0.13
16 26 0.87
ACGTcount: A:0.08, C:0.21, G:0.19, T:0.52
Consensus pattern (16 bp):
CTTTTCAGCATTTCGG
Found at i:79037529 original size:20 final size:19
Alignment explanation
Indices: 79037506--79037598 Score: 80
Period size: 19 Copynumber: 4.7 Consensus size: 19
79037496 ATTGTAAAGG
79037506 AAAGAAAAGAAAAATGAGAA
1 AAAGAAAAGAAAAAT-AGAA
* *
79037526 AAAGAAAGGAAAAATAGCA
1 AAAGAAAAGAAAAATAGAA
* *
79037545 AAAGAAAGGGAAAATA-AA
1 AAAGAAAAGAAAAATAGAA
* *
79037563 ATGAGAAAAGAAAAAGAAGAA
1 A-AAGAAAAGAAAAA-TAGAA
*
79037584 AATGAAAATGAAAAA
1 AAAGAAAA-GAAAAA
79037599 ATGACTTTGA
Statistics
Matches: 59, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
18 2 0.03
19 28 0.47
20 20 0.34
21 9 0.15
ACGTcount: A:0.72, C:0.01, G:0.20, T:0.06
Consensus pattern (19 bp):
AAAGAAAAGAAAAATAGAA
Found at i:79037599 original size:14 final size:14
Alignment explanation
Indices: 79037555--79037602 Score: 55
Period size: 14 Copynumber: 3.5 Consensus size: 14
79037545 AAAGAAAGGG
*
79037555 AAAAT-AAAATGAG
1 AAAATGAAAATGAA
*
79037568 AAAA-GAAAAAGAA
1 AAAATGAAAATGAA
79037581 GAAAATGAAAATGAA
1 -AAAATGAAAATGAA
79037596 AAAATGA
1 AAAATGA
79037603 CTTTGATTGC
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
13 10 0.34
14 11 0.38
15 8 0.28
ACGTcount: A:0.73, C:0.00, G:0.17, T:0.10
Consensus pattern (14 bp):
AAAATGAAAATGAA
Found at i:79040624 original size:10 final size:10
Alignment explanation
Indices: 79040601--79040657 Score: 51
Period size: 10 Copynumber: 5.6 Consensus size: 10
79040591 AGCTCAAATT
* *
79040601 AGCTCACTTA
1 AGCTCATTTC
* *
79040611 AGCTTATTTG
1 AGCTCATTTC
* *
79040621 AGCTCGTTTG
1 AGCTCATTTC
79040631 AGCTCATTTC
1 AGCTCATTTC
79040641 AGCTTCATTTC
1 AGC-TCATTTC
79040652 AGCTCA
1 AGCTCA
79040658 ATTACTTAAT
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
10 29 0.74
11 10 0.26
ACGTcount: A:0.21, C:0.25, G:0.16, T:0.39
Consensus pattern (10 bp):
AGCTCATTTC
Found at i:79043147 original size:21 final size:22
Alignment explanation
Indices: 79043121--79043177 Score: 64
Period size: 21 Copynumber: 2.6 Consensus size: 22
79043111 CAATTGAAAG
* *
79043121 AAAAAGAAAAGAATGAAATTG-
1 AAAAAGAAAAGAAAGAAAATGA
*
79043142 TAAAAG-AAAGAAAAGAAAATGA
1 AAAAAGAAAAG-AAAGAAAATGA
79043164 AAAAAGAAAAGAAA
1 AAAAAGAAAAGAAA
79043178 AAGAGAAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
20 4 0.14
21 13 0.45
22 8 0.28
23 4 0.14
ACGTcount: A:0.74, C:0.00, G:0.18, T:0.09
Consensus pattern (22 bp):
AAAAAGAAAAGAAAGAAAATGA
Found at i:79043170 original size:13 final size:12
Alignment explanation
Indices: 79043152--79043256 Score: 54
Period size: 13 Copynumber: 8.2 Consensus size: 12
79043142 TAAAAGAAAG
79043152 AAAAGAAAATGAA
1 AAAAGAAAA-GAA
79043165 AAAAGAAAAGAA
1 AAAAGAAAAGAA
*
79043177 AAAGAGAAAA-AT
1 AAA-AGAAAAGAA
*
79043189 AAAGGAAAA-ATA
1 AAAAGAAAAGA-A
*
79043201 GCAAAAG-AAAGTA
1 --AAAAGAAAAGAA
* *
79043214 AAAGGAAAATGAG
1 AAAAGAAAA-GAA
79043227 AAAAGAAAAAGAA
1 AAAAG-AAAAGAA
79043240 GGAAAAGGAAAAGAA
1 --AAAA-GAAAAGAA
79043255 AA
1 AA
79043257 TGAGAAAATG
Statistics
Matches: 71, Mismatches: 10, Indels: 22
0.69 0.10 0.21
Matches are distributed among these distances:
11 10 0.14
12 13 0.18
13 28 0.39
14 8 0.11
15 11 0.15
16 1 0.01
ACGTcount: A:0.73, C:0.01, G:0.21, T:0.05
Consensus pattern (12 bp):
AAAAGAAAAGAA
Found at i:79043186 original size:19 final size:19
Alignment explanation
Indices: 79043148--79043264 Score: 105
Period size: 19 Copynumber: 6.1 Consensus size: 19
79043138 ATTGTAAAAG
*
79043148 AAAGAAAAGAAAATGA-AA
1 AAAGAAAAGAAAAAGAGAA
79043166 AAAGAAAAGAAAAAGAGAA
1 AAAGAAAAGAAAAAGAGAA
* * * *
79043185 AAATAAAGGAAAAATAGCA
1 AAAGAAAAGAAAAAGAGAA
*
79043204 AAAG-AAAGTAAAAG-GAA
1 AAAGAAAAGAAAAAGAGAA
79043221 AATGAGAAAAGAAAAAGAAGGAA
1 AA--AGAAAAGAAAAAG-A-GAA
* *
79043244 AAGGAAAAGAAAATGAGAA
1 AAAGAAAAGAAAAAGAGAA
79043263 AA
1 AA
79043265 TGACTTTGAT
Statistics
Matches: 79, Mismatches: 13, Indels: 13
0.75 0.12 0.12
Matches are distributed among these distances:
17 4 0.05
18 22 0.28
19 27 0.34
20 10 0.13
21 11 0.14
23 5 0.06
ACGTcount: A:0.73, C:0.01, G:0.21, T:0.05
Consensus pattern (19 bp):
AAAGAAAAGAAAAAGAGAA
Found at i:79043215 original size:24 final size:24
Alignment explanation
Indices: 79043189--79043255 Score: 72
Period size: 24 Copynumber: 2.9 Consensus size: 24
79043179 AGAGAAAAAT
79043189 AAAGGAAAAAT-AGCAAAAGAAAGTA
1 AAAGG-AAAATGAG-AAAAGAAAGTA
79043214 AAAGGAAAATGAGAAAAGAAA--A
1 AAAGGAAAATGAGAAAAGAAAGTA
79043236 AGAAGGAAAA-G-GAAAAGAAA
1 A-AAGGAAAATGAGAAAAGAAA
79043256 ATGAGAAAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
21 9 0.22
22 3 0.08
23 8 0.20
24 13 0.32
25 7 0.17
ACGTcount: A:0.70, C:0.01, G:0.24, T:0.04
Consensus pattern (24 bp):
AAAGGAAAATGAGAAAAGAAAGTA
Found at i:79043262 original size:23 final size:23
Alignment explanation
Indices: 79043181--79043256 Score: 70
Period size: 24 Copynumber: 3.3 Consensus size: 23
79043171 AAAGAAAAAG
*
79043181 AGAAAAATAAAGGAAAAAT-AGCAAA
1 AGAAAAA-GAAGG-AAAATGAG-AAA
79043206 AGAAAGTAA-AAGGAAAATGAGAAA
1 AGAAA--AAGAAGGAAAATGAGAAA
79043230 AGAAAAAGAAGGAAAA-G-GAAA
1 AGAAAAAGAAGGAAAATGAGAAA
79043251 AGAAAA
1 AGAAAA
79043257 TGAGAAAATG
Statistics
Matches: 47, Mismatches: 0, Indels: 12
0.80 0.00 0.20
Matches are distributed among these distances:
21 10 0.21
22 3 0.06
23 8 0.17
24 13 0.28
25 11 0.23
27 2 0.04
ACGTcount: A:0.71, C:0.01, G:0.22, T:0.05
Consensus pattern (23 bp):
AGAAAAAGAAGGAAAATGAGAAA
Found at i:79043262 original size:29 final size:30
Alignment explanation
Indices: 79043143--79043264 Score: 96
Period size: 29 Copynumber: 4.1 Consensus size: 30
79043133 ATGAAATTGT
*
79043143 AAAAGAAA-GAAAA-GAAAATGAAAAAAGA
1 AAAAGAAAGGAAAAGGAAAATGAAAATAGA
* * *
79043171 AAAGAAAAAGAGAAAA--ATAAAGGAAAAATAGC
1 AAA-AGAAAG-GAAAAGGA-AAATG-AAAATAGA
*
79043203 AAAAGAAAGTAAAAGGAAAATGAGAAA-AGA
1 AAAAGAAAGGAAAAGGAAAATGA-AAATAGA
79043233 AAAAG-AAGGAAAAGGAAAA-GAAAATGAGA
1 AAAAGAAAGGAAAAGGAAAATGAAAAT-AGA
79043262 AAA
1 AAA
79043265 TGACTTTGAT
Statistics
Matches: 75, Mismatches: 9, Indels: 19
0.73 0.09 0.18
Matches are distributed among these distances:
27 3 0.04
28 5 0.07
29 23 0.31
30 13 0.17
31 21 0.28
32 10 0.13
ACGTcount: A:0.73, C:0.01, G:0.21, T:0.05
Consensus pattern (30 bp):
AAAAGAAAGGAAAAGGAAAATGAAAATAGA
Found at i:79044960 original size:43 final size:43
Alignment explanation
Indices: 79044874--79044987 Score: 144
Period size: 42 Copynumber: 2.7 Consensus size: 43
79044864 CATTGACTTA
*
79044874 TGATTTACGTGTAAGACCATGTCTGGGACATCGGCATCGTATT
1 TGATTTACGTGTAAGACCATGTCTGGGACATCGGCATCATATT
*
79044917 TGATTT-CGTGTAAGACCCTGTCTGGGACAGT-GGCATCAATATT
1 TGATTTACGTGTAAGACCATGTCTGGGACA-TCGGCATC-ATATT
* * *
79044960 TG-TTTACATGTAAGACCACGTCTAGGAC
1 TGATTTACGTGTAAGACCATGTCTGGGAC
79044988 GTTGGCATTG
Statistics
Matches: 62, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
42 31 0.50
43 31 0.50
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.32
Consensus pattern (43 bp):
TGATTTACGTGTAAGACCATGTCTGGGACATCGGCATCATATT
Found at i:79044994 original size:43 final size:44
Alignment explanation
Indices: 79044837--79044995 Score: 159
Period size: 43 Copynumber: 3.7 Consensus size: 44
79044827 TATGTGTTAT
* * * *
79044837 CGTGTAAGACCACGTTTGGGACGTTGGCATTGACT-TATGATTTA
1 CGTGTAAGACCACGTCTGGGACGTTGGCA-TCAATATTTGATTTA
* * * *
79044881 CGTGTAAGACCATGTCTGGGACATCGGCATC-GTATTTGATTT-
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCAATATTTGATTTA
79044923 CGTGTAAGACC-CTGTCTGGGACAG-TGGCATCAATATTTG-TTTA
1 CGTGTAAGACCAC-GTCTGGGAC-GTTGGCATCAATATTTGATTTA
* *
79044966 CATGTAAGACCACGTCTAGGACGTTGGCAT
1 CGTGTAAGACCACGTCTGGGACGTTGGCAT
79044996 TGTACGAGCT
Statistics
Matches: 95, Mismatches: 13, Indels: 15
0.77 0.11 0.12
Matches are distributed among these distances:
42 31 0.33
43 38 0.40
44 26 0.27
ACGTcount: A:0.23, C:0.19, G:0.26, T:0.31
Consensus pattern (44 bp):
CGTGTAAGACCACGTCTGGGACGTTGGCATCAATATTTGATTTA
Found at i:79051979 original size:28 final size:29
Alignment explanation
Indices: 79051935--79051994 Score: 79
Period size: 28 Copynumber: 2.1 Consensus size: 29
79051925 ATTTTTGATG
*
79051935 AATTTGAATAATTTGGGA-TAAATTGTGA
1 AATTTGAATAATTTGGGACTAAAATGTGA
*
79051963 AATTTGTA-AATTGTGGGACTAAAATGTGA
1 AATTTGAATAATT-TGGGACTAAAATGTGA
79051992 AAT
1 AAT
79051995 AAATGAAACA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
27 4 0.14
28 12 0.43
29 12 0.43
ACGTcount: A:0.40, C:0.02, G:0.22, T:0.37
Consensus pattern (29 bp):
AATTTGAATAATTTGGGACTAAAATGTGA
Found at i:79054408 original size:13 final size:13
Alignment explanation
Indices: 79054392--79054418 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
79054382 TAGAATAGTG
79054392 TAAAAGAAAATTT
1 TAAAAGAAAATTT
79054405 TAAAAGAAAATTT
1 TAAAAGAAAATTT
79054418 T
1 T
79054419 TGGGTAAACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.33
Consensus pattern (13 bp):
TAAAAGAAAATTT
Found at i:79054870 original size:31 final size:31
Alignment explanation
Indices: 79054830--79054890 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
79054820 TAACAACCCA
79054830 ATAACTTAAACAAAAACTTTCAAATAGTTCG
1 ATAACTTAAACAAAAACTTTCAAATAGTTCG
* ** *
79054861 ATAATTTAAATGAAAATTTTCAAATAGTTC
1 ATAACTTAAACAAAAACTTTCAAATAGTTC
79054891 AGTGACTATA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.48, C:0.11, G:0.07, T:0.34
Consensus pattern (31 bp):
ATAACTTAAACAAAAACTTTCAAATAGTTCG
Found at i:79055190 original size:20 final size:20
Alignment explanation
Indices: 79055142--79055193 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 20
79055132 ACGATTTTAG
*
79055142 TATAAGTTTTATAGCTTTTAAT
1 TATAA-TTTT-TAACTTTTAAT
*
79055164 T-TGATTTTTAACTTTTAAT
1 TATAATTTTTAACTTTTAAT
79055183 TATAATTTTTA
1 TATAATTTTTA
79055194 TTTTTAAAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 11 0.42
20 12 0.46
21 2 0.08
22 1 0.04
ACGTcount: A:0.31, C:0.04, G:0.06, T:0.60
Consensus pattern (20 bp):
TATAATTTTTAACTTTTAAT
Found at i:79055200 original size:19 final size:19
Alignment explanation
Indices: 79055156--79055193 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
79055146 AGTTTTATAG
*
79055156 CTTTTAATTTGATTTTTAA
1 CTTTTAATTTAATTTTTAA
79055175 CTTTTAATTATAATTTTTA
1 CTTTTAATT-TAATTTTTA
79055194 TTTTTAAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.29, C:0.05, G:0.03, T:0.63
Consensus pattern (19 bp):
CTTTTAATTTAATTTTTAA
Found at i:79055555 original size:42 final size:42
Alignment explanation
Indices: 79055496--79055581 Score: 172
Period size: 42 Copynumber: 2.0 Consensus size: 42
79055486 TTAACTGTCT
79055496 TTCTCAATAATGTTATCTCTAAGGCATGAGCCTATTTTTTTA
1 TTCTCAATAATGTTATCTCTAAGGCATGAGCCTATTTTTTTA
79055538 TTCTCAATAATGTTATCTCTAAGGCATGAGCCTATTTTTTTA
1 TTCTCAATAATGTTATCTCTAAGGCATGAGCCTATTTTTTTA
79055580 TT
1 TT
79055582 GGGAGTATAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.26, C:0.16, G:0.12, T:0.47
Consensus pattern (42 bp):
TTCTCAATAATGTTATCTCTAAGGCATGAGCCTATTTTTTTA
Found at i:79056095 original size:14 final size:14
Alignment explanation
Indices: 79056076--79056105 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
79056066 TAAACTTAAA
79056076 AGCCAGTTTAGTTC
1 AGCCAGTTTAGTTC
79056090 AGCCAGTTTAGTTC
1 AGCCAGTTTAGTTC
79056104 AG
1 AG
79056106 TTTAATTGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.23, C:0.20, G:0.23, T:0.33
Consensus pattern (14 bp):
AGCCAGTTTAGTTC
Found at i:79057043 original size:24 final size:23
Alignment explanation
Indices: 79057016--79057074 Score: 64
Period size: 25 Copynumber: 2.5 Consensus size: 23
79057006 GAAATTTTTC
* *
79057016 TAAATATTCAAAAATTTATAATTA
1 TAAATATTCAAAAA-ATAAAATTA
*
79057040 TAAAATATTTAAAAAATAAAATTA
1 T-AAATATTCAAAAAATAAAATTA
*
79057064 TAAAAATTCAA
1 TAAATATTCAA
79057075 CCATGTTTTA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
23 8 0.28
24 9 0.31
25 12 0.41
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (23 bp):
TAAATATTCAAAAAATAAAATTA
Found at i:79057045 original size:25 final size:24
Alignment explanation
Indices: 79057017--79057074 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 24
79057007 AAATTTTTCT
* *
79057017 AAATATTCAAAAATTTATAATTATA
1 AAATATTCAAAAA-ATAAAATTATA
*
79057042 AAATATTTAAAAAATAAAATTATA
1 AAATATTCAAAAAATAAAATTATA
79057066 AAA-ATTCAA
1 AAATATTCAA
79057075 CCATGTTTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
23 5 0.17
24 12 0.41
25 12 0.41
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.34
Consensus pattern (24 bp):
AAATATTCAAAAAATAAAATTATA
Found at i:79057111 original size:15 final size:15
Alignment explanation
Indices: 79057089--79057124 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
79057079 GTTTTATGAA
79057089 ATAAAAAT-AAAATT
1 ATAAAAATGAAAATT
79057103 ATGAAAAATGAAAATT
1 AT-AAAAATGAAAATT
79057119 ATAAAA
1 ATAAAA
79057125 TTATAAAACA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 2 0.10
15 10 0.50
16 8 0.40
ACGTcount: A:0.69, C:0.00, G:0.06, T:0.25
Consensus pattern (15 bp):
ATAAAAATGAAAATT
Found at i:79057137 original size:21 final size:22
Alignment explanation
Indices: 79057091--79057153 Score: 58
Period size: 21 Copynumber: 2.9 Consensus size: 22
79057081 TTTATGAAAT
*
79057091 AAAA-ATAAAATTATGAAAAATGA
1 AAAATATAAAATTAT--AAAATCA
*
79057114 AAATTATAAAATTATAAAA-CA
1 AAAATATAAAATTATAAAATCA
* *
79057135 AAAATATATAATTAAAAAA
1 AAAATATAAAATTATAAAA
79057154 AGATAAAGGT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
21 17 0.50
22 4 0.12
23 3 0.09
24 10 0.29
ACGTcount: A:0.70, C:0.02, G:0.03, T:0.25
Consensus pattern (22 bp):
AAAATATAAAATTATAAAATCA
Found at i:79058325 original size:14 final size:16
Alignment explanation
Indices: 79058296--79058329 Score: 54
Period size: 14 Copynumber: 2.2 Consensus size: 16
79058286 TAATAAAGGT
79058296 AAAATAAAATATTTAA
1 AAAATAAAATATTTAA
79058312 AAAAT-AAATA-TTAA
1 AAAATAAAATATTTAA
79058326 AAAA
1 AAAA
79058330 GGATACACGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 8 0.44
15 5 0.28
16 5 0.28
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (16 bp):
AAAATAAAATATTTAA
Found at i:79061499 original size:20 final size:21
Alignment explanation
Indices: 79061459--79061560 Score: 74
Period size: 20 Copynumber: 5.1 Consensus size: 21
79061449 ATTCATTTTT
* *
79061459 ATTCT-TATAAACTGTAATTC
1 ATTCTATATAACCAGTAATTC
* *
79061479 ATTC-ATATAACTAGTAGTTC
1 ATTCTATATAACCAGTAATTC
*
79061499 A-TCTGTATAACCAGTAATTC
1 ATTCTATATAACCAGTAATTC
* *
79061519 ATTCGTA-ATAA-CAATAATTT
1 ATTC-TATATAACCAGTAATTC
79061539 A-TCTATATCAA-CAGTAATTC
1 ATTCTATAT-AACCAGTAATTC
79061559 AT
1 AT
79061561 CCGTATCAAT
Statistics
Matches: 63, Mismatches: 12, Indels: 13
0.72 0.14 0.15
Matches are distributed among these distances:
18 2 0.03
19 6 0.10
20 48 0.76
21 6 0.10
22 1 0.02
ACGTcount: A:0.38, C:0.16, G:0.07, T:0.39
Consensus pattern (21 bp):
ATTCTATATAACCAGTAATTC
Found at i:79061567 original size:20 final size:19
Alignment explanation
Indices: 79061472--79061580 Score: 83
Period size: 20 Copynumber: 5.5 Consensus size: 19
79061462 CTTATAAACT
* *
79061472 GTAATTCATTCATATAACTA
1 GTAATTCATCCGTATAAC-A
* *
79061492 GTAGTTCATCTGTATAACCA
1 GTAATTCATCCGTATAA-CA
*
79061512 GTAATTCATTCGTAATAACA
1 GTAATTCATCCGT-ATAACA
* * **
79061532 ATAATTTATCTATATCAACA
1 GTAATTCATCCGTAT-AACA
*
79061552 GTAATTCATCCGTATCAATA
1 GTAATTCATCCGTAT-AACA
79061572 GTAATTCAT
1 GTAATTCAT
79061581 TCACTAGCTT
Statistics
Matches: 69, Mismatches: 17, Indels: 6
0.75 0.18 0.07
Matches are distributed among these distances:
19 2 0.03
20 62 0.90
21 5 0.07
ACGTcount: A:0.38, C:0.17, G:0.08, T:0.38
Consensus pattern (19 bp):
GTAATTCATCCGTATAACA
Found at i:79061775 original size:23 final size:23
Alignment explanation
Indices: 79061749--79061853 Score: 65
Period size: 23 Copynumber: 4.6 Consensus size: 23
79061739 CTGAACTGAT
79061749 AAACAGTAAGCTCCATTAAGCTG
1 AAACAGTAAGCTCCATTAAGCTG
* * ** *
79061772 AAACGGTAAGCTCTATCGAGTTG
1 AAACAGTAAGCTCCATTAAGCTG
*
79061795 -AACAGTAAGAT-CA-TACGAGCTG
1 AAACAGTAAGCTCCATTA--AGCTG
* * *
79061817 AATC-GATAAGCTCCAATGAGCTG
1 AAACAG-TAAGCTCCATTAAGCTG
79061840 AAAACAGTAAGCTC
1 -AAACAGTAAGCTC
79061854 TTATGAGCTG
Statistics
Matches: 59, Mismatches: 15, Indels: 15
0.66 0.17 0.17
Matches are distributed among these distances:
21 1 0.02
22 14 0.24
23 30 0.51
24 12 0.20
25 2 0.03
ACGTcount: A:0.38, C:0.20, G:0.21, T:0.21
Consensus pattern (23 bp):
AAACAGTAAGCTCCATTAAGCTG
Found at i:79068877 original size:25 final size:25
Alignment explanation
Indices: 79068849--79068898 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
79068839 AACTGGAAAG
79068849 TAAACTTACCGATTAATTAGCATAC
1 TAAACTTACCGATTAATTAGCATAC
79068874 TAAACTTACCGATTAATTAGCATAC
1 TAAACTTACCGATTAATTAGCATAC
79068899 ATCCATATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.32
Consensus pattern (25 bp):
TAAACTTACCGATTAATTAGCATAC
Found at i:79072632 original size:11 final size:11
Alignment explanation
Indices: 79072611--79072660 Score: 56
Period size: 11 Copynumber: 5.0 Consensus size: 11
79072601 GAACCGAGAT
79072611 CTAAT-TAATA
1 CTAATATAATA
79072621 CTAATATAATA
1 CTAATATAATA
*
79072632 CTAATAGAATA
1 CTAATATAATA
79072643 -T-A-A-AATA
1 CTAATATAATA
79072650 CTAATATAATA
1 CTAATATAATA
79072661 GAGGGAAAAG
Statistics
Matches: 34, Mismatches: 1, Indels: 9
0.77 0.02 0.20
Matches are distributed among these distances:
7 4 0.12
8 2 0.06
9 2 0.06
10 7 0.21
11 19 0.56
ACGTcount: A:0.56, C:0.08, G:0.02, T:0.34
Consensus pattern (11 bp):
CTAATATAATA
Found at i:79075038 original size:48 final size:48
Alignment explanation
Indices: 79074848--79075065 Score: 171
Period size: 48 Copynumber: 4.6 Consensus size: 48
79074838 GACCCCATGA
* * * *
79074848 AAGACCATGTCTGCGACATGGCTTTGGCATCGATATGTAAT-TTCGTGT
1 AAGACCATGTCTGGGACATGGCATTGGCATCGATATGTAATCCT-ATGT
* * * *
79074896 AAGACCATAG-CTGGG-C-T---ATCGGCATTGATATGTGATCCCATGT
1 AAGACCAT-GTCTGGGACATGGCATTGGCATCGATATGTAATCCTATGT
* ** * **
79074939 AAGACTATGTCTGGGACATGGCATTGATATCGATCTACAATCCTATGT
1 AAGACCATGTCTGGGACATGGCATTGGCATCGATATGTAATCCTATGT
* * *
79074987 AAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCTTATAT
1 AAGACCATGTCTGGGACATGGCATTGGCATCGATATGTAATCCTATGT
* ** * *
79075035 AAGACCATATCCAGGATATAGCATTGGCATC
1 AAGACCATGTCTGGGACATGGCATTGGCATC
79075066 CTACCATGTG
Statistics
Matches: 130, Mismatches: 32, Indels: 16
0.73 0.18 0.09
Matches are distributed among these distances:
42 1 0.01
43 30 0.23
44 1 0.01
45 1 0.01
46 1 0.01
47 1 0.01
48 94 0.72
49 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (48 bp):
AAGACCATGTCTGGGACATGGCATTGGCATCGATATGTAATCCTATGT
Found at i:79076359 original size:13 final size:13
Alignment explanation
Indices: 79076341--79076374 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
79076331 GCAGAGAGTT
79076341 ACACGGGCTAAGG
1 ACACGGGCTAAGG
*
79076354 ACACGGGCTGAGG
1 ACACGGGCTAAGG
79076367 ACACGGGC
1 ACACGGGC
79076375 GTGTCCTAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.26, C:0.26, G:0.41, T:0.06
Consensus pattern (13 bp):
ACACGGGCTAAGG
Found at i:79081263 original size:5 final size:5
Alignment explanation
Indices: 79081253--79081292 Score: 55
Period size: 5 Copynumber: 8.0 Consensus size: 5
79081243 TTGTATATGA
*
79081253 ATCAT ATCAT ATCGA- ATCAT AGCAT ATCAT ATCAT ATCAT
1 ATCAT ATCAT ATC-AT ATCAT ATCAT ATCAT ATCAT ATCAT
79081293 GTCCTACCCT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
4 1 0.03
5 29 0.94
6 1 0.03
ACGTcount: A:0.40, C:0.20, G:0.05, T:0.35
Consensus pattern (5 bp):
ATCAT
Found at i:79081271 original size:15 final size:15
Alignment explanation
Indices: 79081247--79081292 Score: 60
Period size: 15 Copynumber: 3.1 Consensus size: 15
79081237 GTCAGATTGT
79081247 ATAT-GAATCATATC
1 ATATCGAATCATATC
*
79081261 ATATCGAATCATAGC
1 ATATCGAATCATATC
79081276 ATATC-ATATCATATC
1 ATATCGA-ATCATATC
79081291 AT
1 AT
79081293 GTCCTACCCT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
14 5 0.18
15 23 0.82
ACGTcount: A:0.41, C:0.17, G:0.07, T:0.35
Consensus pattern (15 bp):
ATATCGAATCATATC
Found at i:79083198 original size:18 final size:18
Alignment explanation
Indices: 79083161--79083194 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
79083151 GGAATGATGG
79083161 AAGGGAATAAAATAAAAT
1 AAGGGAATAAAATAAAAT
*
79083179 AAGGGAA-ATAATAAAA
1 AAGGGAATAAAATAAAA
79083195 ATAATAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.68, C:0.00, G:0.18, T:0.15
Consensus pattern (18 bp):
AAGGGAATAAAATAAAAT
Found at i:79084046 original size:19 final size:19
Alignment explanation
Indices: 79084022--79084062 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
79084012 GAATTTACAT
79084022 AATTTCATAACCAATCTTG
1 AATTTCATAACCAATCTTG
79084041 AATTTCATAACCAATCTTG
1 AATTTCATAACCAATCTTG
79084060 AAT
1 AAT
79084063 GATTGACCAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.39, C:0.20, G:0.05, T:0.37
Consensus pattern (19 bp):
AATTTCATAACCAATCTTG
Found at i:79085043 original size:13 final size:14
Alignment explanation
Indices: 79085020--79085066 Score: 53
Period size: 13 Copynumber: 3.3 Consensus size: 14
79085010 ATAATATGTG
79085020 AATACTATTATTTAA
1 AATA-TATTATTTAA
79085035 AAT-TATTATTTTTAA
1 AATATATTA--TTTAA
79085050 AATATATTA-TTAA
1 AATATATTATTTAA
79085063 AATA
1 AATA
79085067 AAATTAAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
13 13 0.45
15 11 0.38
16 5 0.17
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (14 bp):
AATATATTATTTAA
Found at i:79085057 original size:16 final size:16
Alignment explanation
Indices: 79085025--79085061 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
79085015 ATGTGAATAC
79085025 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
79085041 TATT-TTTAAAATATAT
1 TATTATTTAAAAT-TAT
79085057 TATTA
1 TATTA
79085062 AAATAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 8 0.42
16 11 0.58
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:79085113 original size:22 final size:22
Alignment explanation
Indices: 79085069--79085128 Score: 70
Period size: 22 Copynumber: 2.8 Consensus size: 22
79085059 TTAAAATAAA
*
79085069 ATTAAAATATTAAA-TA-ATTT
1 ATTAAAATAATAAATTATATTT
79085089 ATTAAAATAATAAATTATATTT
1 ATTAAAATAATAAATTATATTT
* * *
79085111 ATTATATTAATAATTTAT
1 ATTAAAATAATAAATTAT
79085129 TATATGACTA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
20 13 0.38
21 2 0.06
22 19 0.56
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATTAAAATAATAAATTATATTT
Found at i:79085711 original size:23 final size:23
Alignment explanation
Indices: 79085652--79085721 Score: 63
Period size: 24 Copynumber: 3.0 Consensus size: 23
79085642 GAGTTTCCTT
* *
79085652 TGTTTCATTTTCAT-TTTATTTATT
1 TGTTTCATTTTCCTCTTTA-TT-TC
*
79085676 TATTTCATTTTCC-CTTTATTTC
1 TGTTTCATTTTCCTCTTTATTTC
*
79085698 TGTTTCTATTTTCCTTTTTATTTC
1 TGTTTC-ATTTTCCTCTTTATTTC
79085722 ATTTTTCCTT
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
22 6 0.16
23 9 0.24
24 23 0.61
ACGTcount: A:0.13, C:0.16, G:0.03, T:0.69
Consensus pattern (23 bp):
TGTTTCATTTTCCTCTTTATTTC
Found at i:79085739 original size:16 final size:18
Alignment explanation
Indices: 79085706--79085742 Score: 60
Period size: 16 Copynumber: 2.2 Consensus size: 18
79085696 TCTGTTTCTA
79085706 TTTTCCTTTTTATTTCAT
1 TTTTCCTTTTTATTTCAT
79085724 TTTTCC-TTTT-TTTCAT
1 TTTTCCTTTTTATTTCAT
79085740 TTT
1 TTT
79085743 CTATGTTCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 9 0.47
17 4 0.21
18 6 0.32
ACGTcount: A:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (18 bp):
TTTTCCTTTTTATTTCAT
Found at i:79089871 original size:11 final size:11
Alignment explanation
Indices: 79089852--79089899 Score: 62
Period size: 11 Copynumber: 4.4 Consensus size: 11
79089842 TTATATCAAC
79089852 AAATAATTTTA
1 AAATAATTTTA
*
79089863 AAATTATTTTA
1 AAATAATTTTA
*
79089874 AAA-AATAATTA
1 AAATAAT-TTTA
79089885 AAATAATTTTA
1 AAATAATTTTA
79089896 AAAT
1 AAAT
79089900 CATCATCATC
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
10 2 0.06
11 26 0.84
12 3 0.10
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (11 bp):
AAATAATTTTA
Found at i:79091555 original size:9 final size:9
Alignment explanation
Indices: 79091541--79091571 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
79091531 CATCCTTCTT
*
79091541 TCAACTTTC
1 TCAACTCTC
79091550 TCAACTCTC
1 TCAACTCTC
79091559 TCAACTCTC
1 TCAACTCTC
79091568 TCAA
1 TCAA
79091572 TCTTTTTGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.26, C:0.39, G:0.00, T:0.35
Consensus pattern (9 bp):
TCAACTCTC
Found at i:79101074 original size:17 final size:17
Alignment explanation
Indices: 79101052--79101084 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
79101042 CTGTAAGATT
79101052 TTAGTTACTTATACTTA
1 TTAGTTACTTATACTTA
79101069 TTAGTTACTTATACTT
1 TTAGTTACTTATACTT
79101085 TCGAACCTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.27, C:0.12, G:0.06, T:0.55
Consensus pattern (17 bp):
TTAGTTACTTATACTTA
Found at i:79111014 original size:11 final size:11
Alignment explanation
Indices: 79111000--79111044 Score: 54
Period size: 11 Copynumber: 3.9 Consensus size: 11
79110990 AGATAAATAT
79111000 TATTTTATTAA
1 TATTTTATTAA
*
79111011 TATTTTAATAAGA
1 TATTTT-ATTA-A
*
79111024 TATTTTATTAT
1 TATTTTATTAA
79111035 TATTTTATTA
1 TATTTTATTA
79111045 GTATATAAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
11 16 0.55
12 6 0.21
13 7 0.24
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:79113601 original size:46 final size:46
Alignment explanation
Indices: 79113328--79113601 Score: 352
Period size: 46 Copynumber: 6.0 Consensus size: 46
79113318 TTTGACATGA
* * ** * * *
79113328 TGCCATAGTGTCTTTCAACTTTGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
** * * *
79113374 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* *
79113420 TGCCATGGTATCTTTCAACCATGGTCTTATACATTTCATATCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* *
79113466 TGCCATGGTATCTTTCAACCATAGTCTTACACATTTCATATTAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
79113512 TGCCGTGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* * *
79113558 TGCCATAGCATCTTTCAACTATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
79113602 AGAGCACACT
Statistics
Matches: 205, Mismatches: 22, Indels: 2
0.90 0.10 0.01
Matches are distributed among these distances:
45 4 0.02
46 201 0.98
ACGTcount: A:0.22, C:0.23, G:0.14, T:0.41
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:79115741 original size:11 final size:11
Alignment explanation
Indices: 79115725--79115772 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
79115715 CTTTATATAC
79115725 TAATAAAATAA
1 TAATAAAATAA
*
79115736 TAATAAAATATCT
1 TAATAAAATA--A
* *
79115749 TATTAAAATAT
1 TAATAAAATAA
79115760 TAATAAAATAA
1 TAATAAAATAA
79115771 TA
1 TA
79115773 TTTATCTAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
11 22 0.71
13 9 0.29
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:79121766 original size:19 final size:20
Alignment explanation
Indices: 79121742--79121782 Score: 75
Period size: 19 Copynumber: 2.1 Consensus size: 20
79121732 TTGTTCACTT
79121742 TCTTTTCTTTGTTT-TTCTC
1 TCTTTTCTTTGTTTCTTCTC
79121761 TCTTTTCTTTGTTTCTTCTC
1 TCTTTTCTTTGTTTCTTCTC
79121781 TC
1 TC
79121783 GATTTCATTC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.00, C:0.24, G:0.05, T:0.71
Consensus pattern (20 bp):
TCTTTTCTTTGTTTCTTCTC
Found at i:79121850 original size:15 final size:15
Alignment explanation
Indices: 79121830--79121886 Score: 50
Period size: 13 Copynumber: 3.9 Consensus size: 15
79121820 TTTTCTTGCC
79121830 TCTCTTTTCTTTT-G
1 TCTCTTTTCTTTTCG
79121844 ATCTCTTTTTGCTTTTCG
1 -TCTC-TTTT-CTTTTCG
79121862 TCT-TTTTCTTTTC-
1 TCTCTTTTCTTTTCG
*
79121875 TC-ATTTTCTTTT
1 TCTCTTTTCTTTT
79121887 TCCAAGAGGT
Statistics
Matches: 38, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
13 11 0.29
14 6 0.16
15 8 0.21
16 4 0.11
17 8 0.21
18 1 0.03
ACGTcount: A:0.04, C:0.21, G:0.05, T:0.70
Consensus pattern (15 bp):
TCTCTTTTCTTTTCG
Found at i:79121888 original size:14 final size:13
Alignment explanation
Indices: 79121845--79121886 Score: 57
Period size: 13 Copynumber: 3.1 Consensus size: 13
79121835 TTTCTTTTGA
79121845 TCTCTTTTTGCTTT
1 TCTCTTTTT-CTTT
79121859 TCGTCTTTTTCTTT
1 TC-TCTTTTTCTTT
*
79121873 TCTCATTTTCTTT
1 TCTCTTTTTCTTT
79121886 T
1 T
79121887 TCCAAGAGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 11 0.42
14 8 0.31
15 7 0.27
ACGTcount: A:0.02, C:0.21, G:0.05, T:0.71
Consensus pattern (13 bp):
TCTCTTTTTCTTT
Found at i:79122785 original size:16 final size:16
Alignment explanation
Indices: 79122764--79122802 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
79122754 TTTTTTTAAC
**
79122764 ATTTTTTTTCTCTTCG
1 ATTTTTTTTAACTTCG
79122780 ATTTTTTTTAACTTCG
1 ATTTTTTTTAACTTCG
79122796 ATTTTTT
1 ATTTTTT
79122803 AACACTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.13, C:0.13, G:0.05, T:0.69
Consensus pattern (16 bp):
ATTTTTTTTAACTTCG
Found at i:79133730 original size:2 final size:2
Alignment explanation
Indices: 79133723--79133752 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
79133713 GGGATTATGG
79133723 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
79133753 TTGTAAGTGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:79135652 original size:6 final size:6
Alignment explanation
Indices: 79135641--79135702 Score: 124
Period size: 6 Copynumber: 10.3 Consensus size: 6
79135631 AAGGTTCTCC
79135641 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT
79135689 ATTTTT ATTTTT AT
1 ATTTTT ATTTTT AT
79135703 ATATAAAATC
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 56 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (6 bp):
ATTTTT
Found at i:79137050 original size:31 final size:31
Alignment explanation
Indices: 79137009--79137084 Score: 95
Period size: 31 Copynumber: 2.5 Consensus size: 31
79136999 AAACTTATAT
*
79137009 TAAAT-ATATAAA-ATTGTTAAAAATT-AAAA
1 TAAATAATATAAATATT-TAAAAAATTAAAAA
79137038 TAATATAATATAAATATTTAAAAAATTAAAAA
1 TAA-ATAATATAAATATTTAAAAAATTAAAAA
*
79137070 TAAATAATATGAATA
1 TAAATAATATAAATA
79137085 GATCTAAAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
29 3 0.07
30 2 0.05
31 26 0.63
32 10 0.24
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (31 bp):
TAAATAATATAAATATTTAAAAAATTAAAAA
Found at i:79137060 original size:39 final size:37
Alignment explanation
Indices: 79137009--79137084 Score: 91
Period size: 39 Copynumber: 2.0 Consensus size: 37
79136999 AAACTTATAT
**
79137009 TAAATATATAAAATTGTTAAAAATTAAAATAATAT-AATA
1 TAAATATATAAAA-AATTAAAAA-T-AAATAATATGAATA
*
79137048 TAAATATTTAAAAAATTAAAAATAAATAATATGAATA
1 TAAATATATAAAAAATTAAAAATAAATAATATGAATA
79137085 GATCTAAAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
36 9 0.27
37 5 0.15
38 7 0.21
39 12 0.36
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (37 bp):
TAAATATATAAAAAATTAAAAATAAATAATATGAATA
Found at i:79137638 original size:8 final size:8
Alignment explanation
Indices: 79137605--79137646 Score: 50
Period size: 8 Copynumber: 5.0 Consensus size: 8
79137595 AAATTTTCTA
79137605 TTTAAACTT
1 TTTAAA-TT
79137614 TTTATAA-T
1 TTTA-AATT
79137622 TTTATAATT
1 TTTA-AATT
79137631 TTTAAATT
1 TTTAAATT
79137639 TTTAAATT
1 TTTAAATT
79137647 AGTAATAGTA
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
8 20 0.65
9 9 0.29
10 2 0.06
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (8 bp):
TTTAAATT
Found at i:79137646 original size:16 final size:16
Alignment explanation
Indices: 79137605--79137646 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 16
79137595 AAATTTTCTA
79137605 TTTAAACTTTTTATAAT
1 TTTAAA-TTTTTATAAT
79137622 TTTATAATTTTTA-AATT
1 TTTA-AATTTTTATAA-T
79137639 TTTAAATT
1 TTTAAATT
79137647 AGTAATAGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
16 6 0.26
17 15 0.65
18 2 0.09
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (16 bp):
TTTAAATTTTTATAAT
Found at i:79139191 original size:98 final size:98
Alignment explanation
Indices: 79139022--79139221 Score: 400
Period size: 98 Copynumber: 2.0 Consensus size: 98
79139012 ATTGAGTAGG
79139022 ACATGTTTCGTCCTACACTCCCTCTTCTTTTTTGTTAATTACTGTTGTATTCTTATTAATTGATT
1 ACATGTTTCGTCCTACACTCCCTCTTCTTTTTTGTTAATTACTGTTGTATTCTTATTAATTGATT
79139087 TAAGAATTCCACCATAACACTTATAGTACATTA
66 TAAGAATTCCACCATAACACTTATAGTACATTA
79139120 ACATGTTTCGTCCTACACTCCCTCTTCTTTTTTGTTAATTACTGTTGTATTCTTATTAATTGATT
1 ACATGTTTCGTCCTACACTCCCTCTTCTTTTTTGTTAATTACTGTTGTATTCTTATTAATTGATT
79139185 TAAGAATTCCACCATAACACTTATAGTACATTA
66 TAAGAATTCCACCATAACACTTATAGTACATTA
79139218 ACAT
1 ACAT
79139222 TCAAATTTAT
Statistics
Matches: 102, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
98 102 1.00
ACGTcount: A:0.27, C:0.20, G:0.08, T:0.45
Consensus pattern (98 bp):
ACATGTTTCGTCCTACACTCCCTCTTCTTTTTTGTTAATTACTGTTGTATTCTTATTAATTGATT
TAAGAATTCCACCATAACACTTATAGTACATTA
Found at i:79153871 original size:22 final size:22
Alignment explanation
Indices: 79153845--79153889 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
79153835 TTAGTCATAT
79153845 AATA-AAT-TATTAATATAATA
1 AATATAATGTATTAATATAATA
* *
79153865 AATATAATGTATTATTTTAATA
1 AATATAATGTATTAATATAATA
79153887 AAT
1 AAT
79153890 TATTTAATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 4 0.19
21 3 0.14
22 14 0.67
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (22 bp):
AATATAATGTATTAATATAATA
Found at i:79153927 original size:13 final size:14
Alignment explanation
Indices: 79153909--79153950 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
79153899 TTTTATTTTT
79153909 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
79153922 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
79153937 ATTTTAAATAATAT
1 ATTTT-AATAATAT
79153951 TATTCACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:79153935 original size:16 final size:16
Alignment explanation
Indices: 79153913--79153949 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
79153903 ATTTTTATTT
79153913 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
79153930 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
79153945 TAATA
1 TAATA
79153950 TTATTCACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:79154011 original size:19 final size:19
Alignment explanation
Indices: 79153984--79154020 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
79153974 TCAATAATAA
*
79153984 TATTTTAATAATAAATATT
1 TATTATAATAATAAATATT
*
79154003 TATTATAATTATAAATAT
1 TATTATAATAATAAATAT
79154021 ATTACTAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
TATTATAATAATAAATATT
Found at i:79154993 original size:3 final size:3
Alignment explanation
Indices: 79154985--79155033 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
79154975 ATTCCCCCTT
79154985 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
79155033 T
1 T
79155034 AAATCCGCAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:79162208 original size:17 final size:17
Alignment explanation
Indices: 79162186--79162222 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
79162176 AATTTCCATT
79162186 GCTCCATTTATGTCCAA
1 GCTCCATTTATGTCCAA
79162203 GCTCCATTTATGTCCAA
1 GCTCCATTTATGTCCAA
79162220 GCT
1 GCT
79162223 GCAAACGCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.22, C:0.30, G:0.14, T:0.35
Consensus pattern (17 bp):
GCTCCATTTATGTCCAA
Found at i:79162699 original size:18 final size:19
Alignment explanation
Indices: 79162676--79162718 Score: 52
Period size: 21 Copynumber: 2.2 Consensus size: 19
79162666 CATTCCATGT
*
79162676 ACCGTT-GTTTCCAATCTC
1 ACCGTTAGTATCCAATCTC
79162694 ACCGTTACAGTATCCAATCTC
1 ACCGTT--AGTATCCAATCTC
79162715 ACCG
1 ACCG
79162719 CTTCAATAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 6 0.29
21 15 0.71
ACGTcount: A:0.23, C:0.35, G:0.12, T:0.30
Consensus pattern (19 bp):
ACCGTTAGTATCCAATCTC
Found at i:79166448 original size:20 final size:23
Alignment explanation
Indices: 79166415--79166456 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 23
79166405 GCCTAAATGG
79166415 TCACACAGGCGTGT-TGCCCCTC
1 TCACACAGGCGTGTGTGCCCCTC
79166437 TCACAC-GG-GTGTGTGCCCCT
1 TCACACAGGCGTGTGTGCCCCT
79166457 ATGTTAAGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.21
21 9 0.47
22 6 0.32
ACGTcount: A:0.12, C:0.38, G:0.26, T:0.24
Consensus pattern (23 bp):
TCACACAGGCGTGTGTGCCCCTC
Found at i:79167309 original size:86 final size:85
Alignment explanation
Indices: 79167212--79167427 Score: 248
Period size: 86 Copynumber: 2.6 Consensus size: 85
79167202 AATAAAAATA
*
79167212 AAAATTGAATAAATTCTATTTCAGGATTTATTCCCGCTGTTCAACAGATTTTATTCCATCTTTGA
1 AAAATTAAATAAATTCTATTTCAGGATTTATTCCCGCTGTTCAACAGATTTTATTCCATC-TTGA
79167277 TTTTGTTTCCAAACG-AGTA-TT
65 -TTTGTTTCCAAACGAAG-ACTT
* * * * *
79167298 AAAATTAAATAAATTTTATTTCAGGATTTATTCCTG-TCGTTTAATAGATTTTATTCGATCTTGA
1 AAAATTAAATAAATTCTATTTCAGGATTTATTCCCGCT-GTTCAACAGATTTTATTCCATCTTGA
*
79167362 TTTGTTTCCAAATGAAGACTT
65 TTTGTTTCCAAACGAAGACTT
* * *
79167383 --AATCAAAT-AATTCTATTTCGGGATTTATTCCCAAC-GTTCAACAGA
1 AAAATTAAATAAATTCTATTTCAGGATTTATTCCC-GCTGTTCAACAGA
79167428 ATTGGTTTTG
Statistics
Matches: 111, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
82 29 0.26
83 7 0.06
84 14 0.13
85 9 0.08
86 52 0.47
ACGTcount: A:0.31, C:0.15, G:0.12, T:0.42
Consensus pattern (85 bp):
AAAATTAAATAAATTCTATTTCAGGATTTATTCCCGCTGTTCAACAGATTTTATTCCATCTTGAT
TTGTTTCCAAACGAAGACTT
Found at i:79169228 original size:30 final size:30
Alignment explanation
Indices: 79169192--79169252 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
79169182 CAGATTGAAG
*
79169192 GAGCCACAAGAGT-TGGATACACGGCCATGT
1 GAGCCACAAG-GTCTGGACACACGGCCATGT
* *
79169222 GAGCCACACGGTCTGGACACACGGTCATGT
1 GAGCCACAAGGTCTGGACACACGGCCATGT
79169252 G
1 G
79169253 CCAGACCGTG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
29 2 0.07
30 25 0.93
ACGTcount: A:0.26, C:0.26, G:0.31, T:0.16
Consensus pattern (30 bp):
GAGCCACAAGGTCTGGACACACGGCCATGT
Found at i:79170333 original size:19 final size:19
Alignment explanation
Indices: 79170309--79170362 Score: 65
Period size: 19 Copynumber: 2.7 Consensus size: 19
79170299 GAACACTTTC
79170309 TTTTTA-TTAATTTATTAAT
1 TTTTTATTTAATTT-TTAAT
*
79170328 TTTTTATTTAATTTTTTAT
1 TTTTTATTTAATTTTTAAT
79170347 TTTTTAAATTTAATTT
1 TTTTT--ATTTAATTT
79170363 CTACATTCTA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
19 15 0.48
20 7 0.23
21 9 0.29
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (19 bp):
TTTTTATTTAATTTTTAAT
Found at i:79170340 original size:12 final size:12
Alignment explanation
Indices: 79170319--79170348 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
79170309 TTTTTATTAA
79170319 TTTA-TTAATTT
1 TTTATTTAATTT
79170330 TTTATTTAATTT
1 TTTATTTAATTT
79170342 TTTATTT
1 TTTATTT
79170349 TTTAAATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 4 0.22
12 14 0.78
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (12 bp):
TTTATTTAATTT
Found at i:79176178 original size:46 final size:44
Alignment explanation
Indices: 79176127--79176338 Score: 180
Period size: 46 Copynumber: 4.6 Consensus size: 44
79176117 GTCGATGCTG
* * *
79176127 TGTCCCAGACAGGTCTTACACT-GACACATGTAACCGT-GCTGATGCA
1 TGTCCCAGACATGTCTTACACTAG-CACATCT---CGTAGCCGATGCA
79176173 TGTCCCAGACATGTCTTACACTAGCACATCTCGTAGCCGATGCA
1 TGTCCCAGACATGTCTTACACTAGCACATCTCGTAGCCGATGCA
* * *
79176217 TGTCCCAGACATGTCTTACACTAGCCCTCATCTC-AATGCCAATGCCA
1 TGTCCCAGACATGTCTTACACTAG--CACATCTCGTA-GCCGATG-CA
* * * * * *
79176264 TGTCCCAGACATGGTCATACACTGGTTATCATAAT-ATGGCCGATGCA
1 TGTCCCAGACAT-GTCTTACACTAG-CA-CAT-CTCGTAGCCGATGCA
79176311 TGTCCCAGACATGTCTTACACTAGCACA
1 TGTCCCAGACATGTCTTACACTAGCACA
79176339 CAAATATCAT
Statistics
Matches: 138, Mismatches: 18, Indels: 22
0.78 0.10 0.12
Matches are distributed among these distances:
43 3 0.02
44 34 0.25
45 2 0.01
46 50 0.36
47 29 0.21
48 19 0.14
49 1 0.01
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.25
Consensus pattern (44 bp):
TGTCCCAGACATGTCTTACACTAGCACATCTCGTAGCCGATGCA
Found at i:79183379 original size:155 final size:155
Alignment explanation
Indices: 79183097--79183406 Score: 566
Period size: 155 Copynumber: 2.0 Consensus size: 155
79183087 AGTGGAAATT
*
79183097 GGGGGCTTTCATAGTTATGAAAAATGATCAGCATGCCATAAAACATAAGAAAATAGGATGAAGTT
1 GGGGGCTGTCATAGTTATGAAAAATGATCAGCATGCCATAAAACATAAGAAAATAGGATGAAGTT
* * *
79183162 TAATTTTCGAGCCTTGGGGCAAAAGTGCAAATATGCAAAAGTTTAAGGGTCAAAATGTAAATTTG
66 TAATTTCCGAGCCTTGAGGCAAAAGTGCAAATATGCAAAAGTTTAAGGGTCAAAATATAAATTTG
*
79183227 TAAAAATATGATTTTTAGACTCATA
131 TAAAAATATGATTTTTAGACCCATA
79183252 GGGGGCTGTCATAGTTATGAAAAATGATCAGCATGCCATAAAACATAAGAAAATAGGATGAAGTT
1 GGGGGCTGTCATAGTTATGAAAAATGATCAGCATGCCATAAAACATAAGAAAATAGGATGAAGTT
*
79183317 TAATTTCCGAGCCTTGAGGCAAAAGTGCAAATATGCAAAAGTTTAGGGGTCAAAATATAAATTTG
66 TAATTTCCGAGCCTTGAGGCAAAAGTGCAAATATGCAAAAGTTTAAGGGTCAAAATATAAATTTG
79183382 TAAAAATATGATTTTTAGACCCATA
131 TAAAAATATGATTTTTAGACCCATA
79183407 TGAATATTTT
Statistics
Matches: 149, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
155 149 1.00
ACGTcount: A:0.40, C:0.11, G:0.21, T:0.28
Consensus pattern (155 bp):
GGGGGCTGTCATAGTTATGAAAAATGATCAGCATGCCATAAAACATAAGAAAATAGGATGAAGTT
TAATTTCCGAGCCTTGAGGCAAAAGTGCAAATATGCAAAAGTTTAAGGGTCAAAATATAAATTTG
TAAAAATATGATTTTTAGACCCATA
Found at i:79190480 original size:12 final size:12
Alignment explanation
Indices: 79190465--79190555 Score: 67
Period size: 12 Copynumber: 7.3 Consensus size: 12
79190455 CACTATTTTA
79190465 TTTTCTTATTAT
1 TTTTCTTATTAT
* *
79190477 TTTTATTTTTAT
1 TTTTCTTATTAT
* *
79190489 TTTATTTTATCTCT
1 TTT-TCTTAT-TAT
**
79190503 ACTT-TTATTATT
1 TTTTCTTATTA-T
79190515 TTTTCTTATTAT
1 TTTTCTTATTAT
*
79190527 TTTTCCTATTAT
1 TTTTCTTATTAT
*
79190539 TTTTATTATTAT
1 TTTTCTTATTAT
79190551 ATTTT
1 -TTTT
79190556 GAACTATTTT
Statistics
Matches: 61, Mismatches: 13, Indels: 9
0.73 0.16 0.11
Matches are distributed among these distances:
11 1 0.02
12 42 0.69
13 15 0.25
14 3 0.05
ACGTcount: A:0.19, C:0.08, G:0.00, T:0.74
Consensus pattern (12 bp):
TTTTCTTATTAT
Found at i:79190490 original size:28 final size:29
Alignment explanation
Indices: 79190458--79190555 Score: 92
Period size: 31 Copynumber: 3.2 Consensus size: 29
79190448 TATTATTCAC
79190458 TATTTTA-TTTTCTTATTATTTTTATTTT
1 TATTTTATTTTTCTTATTATTTTTATTTT
*
79190486 TATTTTATTTTATCTCTACTT-TTATTATTTTT
1 TATTTTATTTT-TCT-TA-TTATTTTTA-TTTT
* *
79190518 TCTTATTATTTTTCCTATTATTTTTATTATT
1 TATT-TTATTTTTCTTATTATTTTTATT-TT
79190549 ATATTTT
1 -TATTTT
79190556 GAACTATTTT
Statistics
Matches: 56, Mismatches: 5, Indels: 15
0.74 0.07 0.20
Matches are distributed among these distances:
28 7 0.12
29 3 0.05
30 7 0.12
31 18 0.32
32 14 0.25
33 7 0.12
ACGTcount: A:0.19, C:0.07, G:0.00, T:0.73
Consensus pattern (29 bp):
TATTTTATTTTTCTTATTATTTTTATTTT
Found at i:79190498 original size:22 final size:21
Alignment explanation
Indices: 79190460--79190530 Score: 61
Period size: 22 Copynumber: 3.2 Consensus size: 21
79190450 TTATTCACTA
79190460 TTTTATTTTCTTATTATTTTTAT
1 TTTTATTTT-TT-TTATTTTTAT
* * *
79190483 TTTTATTTTATTTTATCTCTAC
1 TTTTATTTT-TTTTATTTTTAT
* *
79190505 TTTTATTATTTTTTCTTATTAT
1 TTTTATT-TTTTTTATTTTTAT
79190527 TTTT
1 TTTT
79190531 CCTATTATTT
Statistics
Matches: 38, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
22 25 0.66
23 13 0.34
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.76
Consensus pattern (21 bp):
TTTTATTTTTTTTATTTTTAT
Found at i:79192206 original size:6 final size:6
Alignment explanation
Indices: 79192192--79192244 Score: 52
Period size: 6 Copynumber: 8.3 Consensus size: 6
79192182 TTAATTATTA
* * *
79192192 TTTTCT TTTTAT TTTCAT TTTCAT TTTTAT TTTTATTT GTTTTAT TTTTAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTA--T -TTTTAT TTTTAT
79192243 TT
1 TT
79192245 CTTAAATTTC
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
6 34 0.83
7 1 0.02
8 1 0.02
9 5 0.12
ACGTcount: A:0.13, C:0.06, G:0.02, T:0.79
Consensus pattern (6 bp):
TTTTAT
Found at i:79192220 original size:18 final size:17
Alignment explanation
Indices: 79192191--79192229 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 17
79192181 CTTAATTATT
79192191 ATTTTCTTTTTATTTTC
1 ATTTTCTTTTTATTTTC
*
79192208 ATTTTCATTTTTATTTTT
1 ATTTTC-TTTTTATTTTC
79192226 ATTT
1 ATTT
79192230 GTTTTATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.15, C:0.08, G:0.00, T:0.77
Consensus pattern (17 bp):
ATTTTCTTTTTATTTTC
Found at i:79192236 original size:15 final size:15
Alignment explanation
Indices: 79192216--79192244 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
79192206 TCATTTTCAT
79192216 TTTTATTTTTATTTG
1 TTTTATTTTTATTTG
79192231 TTTTATTTTTATTT
1 TTTTATTTTTATTT
79192245 CTTAAATTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.14, C:0.00, G:0.03, T:0.83
Consensus pattern (15 bp):
TTTTATTTTTATTTG
Found at i:79193143 original size:30 final size:27
Alignment explanation
Indices: 79193080--79193144 Score: 76
Period size: 30 Copynumber: 2.3 Consensus size: 27
79193070 TTCTTGATTT
79193080 ATATTATAAAAATATTATTTAATTAAA
1 ATATTATAAAAATATTATTTAATTAAA
* * *
79193107 ACATTATAAATTATATTAATTTAAATTAAG
1 ATATTATAAA-AATATT-ATTT-AATTAAA
79193137 ATATTATA
1 ATATTATA
79193145 TTAAAGGAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
27 9 0.29
28 5 0.16
29 4 0.13
30 13 0.42
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (27 bp):
ATATTATAAAAATATTATTTAATTAAA
Found at i:79193701 original size:15 final size:13
Alignment explanation
Indices: 79193669--79193719 Score: 52
Period size: 15 Copynumber: 3.8 Consensus size: 13
79193659 AAATAGATAT
79193669 TTATT-ATATTTA
1 TTATTGATATTTA
*
79193681 TTATTGTTATTTAA
1 TTATTGATATTT-A
79193695 TTAATTGATATTATA
1 TT-ATTGATATT-TA
79193710 TTATT-ATATT
1 TTATTGATATT
79193720 AATGAATAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
12 5 0.15
13 10 0.30
14 6 0.18
15 11 0.33
16 1 0.03
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (13 bp):
TTATTGATATTTA
Found at i:79194349 original size:17 final size:18
Alignment explanation
Indices: 79194327--79194362 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
79194317 TAAATGAGTT
79194327 AATTAGGAT-TAAATTGG
1 AATTAGGATATAAATTGG
*
79194344 AATTAGGGTATAAATTGG
1 AATTAGGATATAAATTGG
79194362 A
1 A
79194363 TAGAAATTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.42, C:0.00, G:0.25, T:0.33
Consensus pattern (18 bp):
AATTAGGATATAAATTGG
Found at i:79200176 original size:20 final size:20
Alignment explanation
Indices: 79200148--79200196 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
79200138 ATATATTCTG
* *
79200148 ATTTTATTTTATTCTAATCA
1 ATTTGATTTGATTCTAATCA
*
79200168 ATTTGATTTGATTTTAATCA
1 ATTTGATTTGATTCTAATCA
79200188 ATTTGATTT
1 ATTTGATTT
79200197 AATTGCTACT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.29, C:0.06, G:0.06, T:0.59
Consensus pattern (20 bp):
ATTTGATTTGATTCTAATCA
Found at i:79200684 original size:22 final size:23
Alignment explanation
Indices: 79200643--79200689 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
79200633 TTCAATTTAT
79200643 TTTATTTTATACTTAAATATTTG
1 TTTATTTTATACTTAAATATTTG
* *
79200666 TTTA-TTTATATTTATATATTTG
1 TTTATTTTATACTTAAATATTTG
79200688 TT
1 TT
79200690 CGCCAACGTG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 18 0.82
23 4 0.18
ACGTcount: A:0.28, C:0.02, G:0.04, T:0.66
Consensus pattern (23 bp):
TTTATTTTATACTTAAATATTTG
Found at i:79201021 original size:19 final size:19
Alignment explanation
Indices: 79200999--79201038 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
79200989 CAAAAACGCC
79200999 GCTAAAAACCAGAGCATTA
1 GCTAAAAACCAGAGCATTA
79201018 GCTAAAAACCAGAGCATTA
1 GCTAAAAACCAGAGCATTA
79201037 GC
1 GC
79201039 GGCGTTTCTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.45, C:0.23, G:0.17, T:0.15
Consensus pattern (19 bp):
GCTAAAAACCAGAGCATTA
Found at i:79201039 original size:60 final size:61
Alignment explanation
Indices: 79200961--79201079 Score: 179
Period size: 60 Copynumber: 2.0 Consensus size: 61
79200951 CAAAAATTAT
79200961 AAAACACAGAGCAATAGCGGCGTTT-TACCAAAAACGCCGCTAAAAACCAGAGCATTAGCTA
1 AAAACACAGAGCAATAGCGGCGTTTCT-CCAAAAACGCCGCTAAAAACCAGAGCATTAGCTA
* ***
79201022 AAAAC-CAGAGCATTAGCGGCGTTTCTGGTAAAACGCCGCTAAAAACCAGAGCATTAGC
1 AAAACACAGAGCAATAGCGGCGTTTCTCCAAAAACGCCGCTAAAAACCAGAGCATTAGC
79201080 GGCGCTTCTG
Statistics
Matches: 53, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
60 47 0.89
61 6 0.11
ACGTcount: A:0.39, C:0.24, G:0.20, T:0.16
Consensus pattern (61 bp):
AAAACACAGAGCAATAGCGGCGTTTCTCCAAAAACGCCGCTAAAAACCAGAGCATTAGCTA
Done.