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 270 of 378
Found at i:81115367 original size:5 final size:5
Alignment explanation
Indices: 81115357--81115393 Score: 58
Period size: 5 Copynumber: 7.4 Consensus size: 5
81115347 ATTTGTGAAA
81115357 AAAAT AAAAT AAAAT AAAAT AAAGA- AAAAT AAAAT AA
1 AAAAT AAAAT AAAAT AAAAT AAA-AT AAAAT AAAAT AA
81115394 CGCACAAATT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
4 1 0.03
5 28 0.93
6 1 0.03
ACGTcount: A:0.81, C:0.00, G:0.03, T:0.16
Consensus pattern (5 bp):
AAAAT
Found at i:81116254 original size:16 final size:16
Alignment explanation
Indices: 81116233--81116263 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
81116223 AATATTTTCA
81116233 AGTTTAGACTTTCTCG
1 AGTTTAGACTTTCTCG
81116249 AGTTTAGACTTTCTC
1 AGTTTAGACTTTCTC
81116264 AGATTCTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.19, C:0.19, G:0.16, T:0.45
Consensus pattern (16 bp):
AGTTTAGACTTTCTCG
Found at i:81117115 original size:14 final size:14
Alignment explanation
Indices: 81117096--81117125 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
81117086 GATATAATTC
*
81117096 AAAATATTGTAAAA
1 AAAATATTATAAAA
81117110 AAAATATTATAAAA
1 AAAATATTATAAAA
81117124 AA
1 AA
81117126 TTGTAATGCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (14 bp):
AAAATATTATAAAA
Found at i:81117162 original size:11 final size:10
Alignment explanation
Indices: 81117146--81117189 Score: 54
Period size: 11 Copynumber: 4.3 Consensus size: 10
81117136 TTATGAAAAT
81117146 AAAATTATCAA
1 AAAATTAT-AA
81117157 AAAATTAT-A
1 AAAATTATAA
81117166 AAAATTATAA
1 AAAATTATAA
*
81117176 ATAATTAATAA
1 AAAATT-ATAA
81117187 AAA
1 AAA
81117190 TTCTAACAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
9 9 0.31
10 6 0.21
11 14 0.48
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (10 bp):
AAAATTATAA
Found at i:81117168 original size:19 final size:19
Alignment explanation
Indices: 81117143--81117188 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
81117133 GCATTATGAA
81117143 AATAAAATTATCAAAAAATT
1 AATAAAATTAT-AAAAAATT
*
81117163 -ATAAAAATTATAAATAATT
1 AAT-AAAATTATAAAAAATT
81117182 AATAAAA
1 AATAAAA
81117189 ATTCTAACAA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
19 13 0.57
20 10 0.43
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.30
Consensus pattern (19 bp):
AATAAAATTATAAAAAATT
Found at i:81117171 original size:20 final size:20
Alignment explanation
Indices: 81117146--81117191 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
81117136 TTATGAAAAT
81117146 AAAATTATCAAAAAATT-ATA
1 AAAATTAT-AAAAAATTAATA
*
81117166 AAAATTATAAATAATTAATA
1 AAAATTATAAAAAATTAATA
81117186 AAAATT
1 AAAATT
81117192 CTAACAAACT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 7 0.29
20 17 0.71
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (20 bp):
AAAATTATAAAAAATTAATA
Found at i:81117191 original size:10 final size:9
Alignment explanation
Indices: 81117146--81117244 Score: 65
Period size: 9 Copynumber: 10.3 Consensus size: 9
81117136 TTATGAAAAT
81117146 AAAATTATCAA
1 AAAATTAT--A
81117157 AAAATTATA
1 AAAATTATA
81117166 AAAATTATA
1 AAAATTATA
81117175 AATAATTAATA
1 AA-AATT-ATA
*
81117186 AAAATTCTA
1 AAAATTATA
* *
81117195 ACAAACTACA
1 A-AAATTATA
*
81117205 AAAATCATA
1 AAAATTATA
*
81117214 AAAGGTTAT-
1 AAA-ATTATA
* *
81117223 AAAATGACA
1 AAAATTATA
81117232 AAAATTTATA
1 AAAA-TTATA
81117242 AAA
1 AAA
81117245 TAGAATAAAA
Statistics
Matches: 68, Mismatches: 14, Indels: 13
0.72 0.15 0.14
Matches are distributed among these distances:
8 2 0.03
9 30 0.44
10 23 0.34
11 13 0.19
ACGTcount: A:0.63, C:0.07, G:0.03, T:0.27
Consensus pattern (9 bp):
AAAATTATA
Found at i:81118715 original size:14 final size:14
Alignment explanation
Indices: 81118696--81118725 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
81118686 CAAGGCTATG
81118696 GACCCAACTCACAA
1 GACCCAACTCACAA
*
81118710 GACCCAACTCGCAA
1 GACCCAACTCACAA
81118724 GA
1 GA
81118726 ACCCTATGCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.40, C:0.40, G:0.13, T:0.07
Consensus pattern (14 bp):
GACCCAACTCACAA
Found at i:81133520 original size:47 final size:46
Alignment explanation
Indices: 81133457--81133583 Score: 159
Period size: 47 Copynumber: 2.7 Consensus size: 46
81133447 CATCTCGTAA
* **
81133457 CCGATGCATGTTCCAGACATGTCTTACACTAGCACTTGTCTCA-AT-G
1 CCGATGCATGTCCCAGACATGTCTTACACTAGCACTCAT-T-ATATGG
* *
81133503 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATTATATGG
1 CCGATG-CATGTCCCAGACAT-GTCTTACACTAGCACTCATTATATGG
81133551 CCGATGCATGTCCCAGACATGTCTTACACTAGC
1 CCGATGCATGTCCCAGACATGTCTTACACTAGC
81133584 TCACAGTAAT
Statistics
Matches: 71, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
46 19 0.27
47 30 0.42
48 22 0.31
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (46 bp):
CCGATGCATGTCCCAGACATGTCTTACACTAGCACTCATTATATGG
Found at i:81133528 original size:92 final size:93
Alignment explanation
Indices: 81133409--81133583 Score: 228
Period size: 92 Copynumber: 1.9 Consensus size: 93
81133399 AGCATATCTG
* * * *
81133409 TGCCAATGCCATGTCTCAAACATGGTCTTATACTGACACATC-TCGTA-ACCGATGCATGTTCCA
1 TGCCAATGCCATGTCCCAAACATGGTCTTACACTGACAC-TCATCATAGACCGATGCATGTCCCA
81133472 GACATGTCTTACACTAGCACTTGTCTCAA
65 GACATGTCTTACACTAGCACTTGTCTCAA
* * * * * *
81133501 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATTATATGGCCGATGCATGTCCCA
1 TGCCAATGCCATGTCCCAAACATGGTCTTACACTGACACTCATCATA-GACCGATGCATGTCCCA
81133566 GACATGTCTTACACTAGC
65 GACATGTCTTACACTAGC
81133584 TCACAGTAAT
Statistics
Matches: 70, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
91 2 0.03
92 36 0.51
94 32 0.46
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.29
Consensus pattern (93 bp):
TGCCAATGCCATGTCCCAAACATGGTCTTACACTGACACTCATCATAGACCGATGCATGTCCCAG
ACATGTCTTACACTAGCACTTGTCTCAA
Found at i:81138138 original size:50 final size:51
Alignment explanation
Indices: 81138061--81138189 Score: 199
Period size: 50 Copynumber: 2.5 Consensus size: 51
81138051 GACCATGGCA
*
81138061 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATTAAGGA-AAAGTG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAA-TG
*
81138112 A-AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGACAAATG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
* *
81138162 ACAAGTGAAAAGTGGTAGCTTCGGCTAC
1 ACAAGTGATAAGTGATAGCTTCGGCTAC
81138190 CTGATCAGTG
Statistics
Matches: 72, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
50 44 0.61
51 28 0.39
ACGTcount: A:0.35, C:0.16, G:0.23, T:0.26
Consensus pattern (51 bp):
ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
Found at i:81138203 original size:31 final size:31
Alignment explanation
Indices: 81138165--81138282 Score: 184
Period size: 31 Copynumber: 3.8 Consensus size: 31
81138155 ACAAATGACA
*
81138165 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
81138196 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
*
81138227 ACTGAAAAGTGGTAG-TACCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCT-CCGGCTACCTGATC
* *
81138258 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTCCGGCTAC
81138283 AAGTGACAAG
Statistics
Matches: 80, Mismatches: 5, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
30 1 0.01
31 78 0.98
32 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.25
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
Found at i:81138386 original size:47 final size:46
Alignment explanation
Indices: 81138300--81138428 Score: 134
Period size: 47 Copynumber: 2.8 Consensus size: 46
81138290 AAGTGTTTTC
* * * *
81138300 CGTACAAGACCATATCTGGGATATAGCATCGGTATGATATATGCTA
1 CGTATAAGACCATATCTGGGATATGGCATCAGTATGATATATGATA
* *
81138346 CTGTATAAGACCATATCTGGGATATGGCATCAGTGA-GATATGTGATT
1 C-GTATAAGACCATATCTGGGATATGGCATCAGT-ATGATATATGATA
* ** * *
81138393 CGTGTAAGACCATAGATGGGCTATGGCATCATTATG
1 CGTATAAGACCATATCTGGGATATGGCATCAGTATG
81138429 TGAAGATGTG
Statistics
Matches: 69, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
45 1 0.01
46 29 0.42
47 38 0.55
48 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (46 bp):
CGTATAAGACCATATCTGGGATATGGCATCAGTATGATATATGATA
Found at i:81140260 original size:68 final size:70
Alignment explanation
Indices: 81140188--81140385 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
81140178 ACACCCTGTA
* * * *
81140188 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
81140250 ATAAAT
65 ATAAAT
*
81140256 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
81140321 ATAAAT
65 ATAAAT
*
81140327 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
81140386 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:81140299 original size:41 final size:41
Alignment explanation
Indices: 81140254--81140371 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
81140244 TGAAAGATAA
81140254 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
81140295 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
81140325 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
81140366 ATGTAG
1 ATGTAG
81140372 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:81140311 original size:71 final size:71
Alignment explanation
Indices: 81140222--81140385 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
81140212 GAGATGTATC
81140222 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
81140287 AGGACA
66 AGGACA
81140293 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
81140358 AGGACA
66 AGGACA
81140364 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
81140386 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:81143292 original size:40 final size:40
Alignment explanation
Indices: 81143237--81143446 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
81143227 AACATTGGAA
81143237 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
81143277 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
81143317 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
81143357 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
81143396 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
81143437 CTATATCCGG
1 ATATATCCGG
81143447 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:81151362 original size:40 final size:40
Alignment explanation
Indices: 81151307--81151516 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
81151297 AACATTGGAA
81151307 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
81151347 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
81151387 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
81151427 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
81151466 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
81151507 CTATATCCGG
1 ATATATCCGG
81151517 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:81159163 original size:68 final size:70
Alignment explanation
Indices: 81159091--81159288 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
81159081 ACACCCTGTA
* * * *
81159091 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
81159153 ATAAAT
65 ATAAAT
*
81159159 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
81159224 ATAAAT
65 ATAAAT
*
81159230 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
81159289 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:81159202 original size:41 final size:41
Alignment explanation
Indices: 81159157--81159274 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
81159147 TGAAAGATAA
81159157 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
81159198 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
81159228 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
81159269 ATGTAG
1 ATGTAG
81159275 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:81159214 original size:71 final size:71
Alignment explanation
Indices: 81159125--81159288 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
81159115 GAGATGTATC
81159125 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
81159190 AGGACA
66 AGGACA
81159196 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
81159261 AGGACA
66 AGGACA
81159267 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
81159289 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:81166273 original size:46 final size:46
Alignment explanation
Indices: 81166223--81166398 Score: 223
Period size: 46 Copynumber: 3.8 Consensus size: 46
81166213 TGGTTGAGCA
*
81166223 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
81166269 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
*
81166316 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
81166362 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
81166399 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 6 0.05
45 3 0.03
46 65 0.59
47 29 0.26
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:81166379 original size:93 final size:93
Alignment explanation
Indices: 81166220--81166390 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
81166210 GGATGGTTGA
* *
81166220 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
81166285 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
81166313 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
81166378 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
81166391 ACTTATGGGC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:81169210 original size:46 final size:45
Alignment explanation
Indices: 81169106--81169269 Score: 174
Period size: 46 Copynumber: 3.6 Consensus size: 45
81169096 ATGTCGATTC
* * * *
81169106 CATGTCCCAGACATGGTCTTACACTGAC-ACATCTCGTAGCCCATG
1 CATGTCCCAGACATGGTCTTACACTGACTACGTCTC-AAGCCGATA
81169151 CATGTCCCAGACAT-GTCTTACACTGACTTACGTCTCAAGGCCGATA
1 CATGTCCCAGACATGGTCTTACACTGAC-TACGTCTCAA-GCCGATA
* *
81169197 CATGTCCTAGACAT-GTCTTACACTAGCACT-CGTCTCAATGCCGATGC
1 CATGTCCCAGACATGGTCTTACACT-G-ACTACGTCTCAA-GCCGAT-A
*
81169244 CATGTCTCAGACATGGTCTTACACTG
1 CATGTCCCAGACATGGTCTTACACTG
81169270 GCTTTTATGA
Statistics
Matches: 103, Mismatches: 9, Indels: 12
0.83 0.07 0.10
Matches are distributed among these distances:
44 13 0.13
45 15 0.15
46 48 0.47
47 15 0.15
48 12 0.12
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (45 bp):
CATGTCCCAGACATGGTCTTACACTGACTACGTCTCAAGCCGATA
Found at i:81175785 original size:2 final size:2
Alignment explanation
Indices: 81175778--81175810 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
81175768 AAAGATAATC
81175778 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 T
81175811 TCAAGGATAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:81184307 original size:93 final size:93
Alignment explanation
Indices: 81184148--81184320 Score: 256
Period size: 93 Copynumber: 1.9 Consensus size: 93
81184138 CGCCCATAAG
* * ** * *
81184148 CGAACTCGGACTTAACTCAACGAGCTCGGGCGTTCGCATCCAAAAGTTAACTCGAACTCAACTCA
1 CGAACTCGGACTCAACTCAACAAGCTCGAACATTCGCATCCAAAAGTGAACTCGAACTCAACTCA
81184213 ACGAGCTCGGATGCCTAGTTACATCTCT
66 ACGAGCTCGGATGCCTAGTTACATCTCT
* * *
81184241 CGAACTCGGACTCAACTCAACAAGTTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACAAGCTCGAACATTCGCATCCAAAAGTGAACTCGAACTCAACTCA
*
81184306 ACGAGTTCGGATGCC
66 ACGAGCTCGGATGCC
81184321 CAAATATCCT
Statistics
Matches: 70, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACAAGCTCGAACATTCGCATCCAAAAGTGAACTCGAACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCT
Found at i:81188437 original size:30 final size:30
Alignment explanation
Indices: 81188402--81188464 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
81188392 TTAAAAATAT
* *
81188402 TATTTAATTAGGTTGTTAGTATTATTATAA
1 TATTTAATTAGGTTATTAGTATTACTATAA
*
81188432 TATTTAATTAGGTTATTAGTATTGCTATAA
1 TATTTAATTAGGTTATTAGTATTACTATAA
81188462 TAT
1 TAT
81188465 GACTTTCTCT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.33, C:0.02, G:0.13, T:0.52
Consensus pattern (30 bp):
TATTTAATTAGGTTATTAGTATTACTATAA
Found at i:81188990 original size:20 final size:21
Alignment explanation
Indices: 81188945--81188990 Score: 51
Period size: 20 Copynumber: 2.3 Consensus size: 21
81188935 AATATAAATT
* * *
81188945 ATTTAATAATTTTTAAAATTA
1 ATTTAATAATTGTCAAAATAA
81188966 A-TTAATAA-TGTCAAAATAA
1 ATTTAATAATTGTCAAAATAA
81188985 ATTTAA
1 ATTTAA
81188991 ACATATTAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
19 9 0.43
20 11 0.52
21 1 0.05
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (21 bp):
ATTTAATAATTGTCAAAATAA
Found at i:81200324 original size:55 final size:55
Alignment explanation
Indices: 81200211--81200322 Score: 188
Period size: 56 Copynumber: 2.0 Consensus size: 55
81200201 GGCCTTGATG
* *
81200211 TTATGGCTGAATTTGGTGAGTCACATGATAGCGTTACGATAAAATCGTTTTCATT
1 TTATGGCTGAAGTTGGTGAGTCACATGATAGCGTTACAATAAAATCGTTTTCATT
*
81200266 TTATGGCTGAAGTTGGTGATGTCACATGATAGCGTTACAATAAAATTGTTTTCATT
1 TTATGGCTGAAGTTGGTGA-GTCACATGATAGCGTTACAATAAAATCGTTTTCATT
81200322 T
1 T
81200323 ATTTACTCTT
Statistics
Matches: 53, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
55 18 0.34
56 35 0.66
ACGTcount: A:0.28, C:0.12, G:0.21, T:0.39
Consensus pattern (55 bp):
TTATGGCTGAAGTTGGTGAGTCACATGATAGCGTTACAATAAAATCGTTTTCATT
Found at i:81205707 original size:47 final size:47
Alignment explanation
Indices: 81205638--81205733 Score: 183
Period size: 47 Copynumber: 2.0 Consensus size: 47
81205628 ATCAGGAATG
*
81205638 TTTAGAAGCATTTGATACTCTTAAGGATAAATTAATTAATGCTCCAA
1 TTTAGAAGCATTTAATACTCTTAAGGATAAATTAATTAATGCTCCAA
81205685 TTTAGAAGCATTTAATACTCTTAAGGATAAATTAATTAATGCTCCAA
1 TTTAGAAGCATTTAATACTCTTAAGGATAAATTAATTAATGCTCCAA
81205732 TT
1 TT
81205734 GTAGTTGCAC
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.39, C:0.12, G:0.11, T:0.38
Consensus pattern (47 bp):
TTTAGAAGCATTTAATACTCTTAAGGATAAATTAATTAATGCTCCAA
Found at i:81208578 original size:3 final size:3
Alignment explanation
Indices: 81208555--81208593 Score: 55
Period size: 3 Copynumber: 13.3 Consensus size: 3
81208545 ATTCCTTTAC
81208555 ATT ATT -TT AATT ATT -TT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
81208594 CTCTTATTTC
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
2 4 0.12
3 27 0.82
4 2 0.06
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:81215433 original size:40 final size:40
Alignment explanation
Indices: 81215378--81215560 Score: 287
Period size: 40 Copynumber: 4.6 Consensus size: 40
81215368 GATGATAACT
* * *
81215378 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATTTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
*
81215418 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-ATTTC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCC
81215458 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
* **
81215498 GGGCTAAGTCCCGAAGGCATTTGTGTGAACTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
81215538 GGGCTAAGTCCCGAAGGCATTTG
1 GGGCTAAGTCCCGAAGGCATTTG
81215561 AGCAAGTGGC
Statistics
Matches: 133, Mismatches: 8, Indels: 4
0.92 0.06 0.03
Matches are distributed among these distances:
40 132 0.99
41 1 0.01
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
Found at i:81262360 original size:85 final size:86
Alignment explanation
Indices: 81262169--81262408 Score: 419
Period size: 85 Copynumber: 2.8 Consensus size: 86
81262159 CCGGCATTAC
* * *
81262169 GCCTGCTAGGCACGAAGGCCTGAATACACATCACCGGCACGAAGCCTGCTAGGCATGAAGGCCTG
1 GCCTGCTAGGCACGAAGGCCCGAATATACATCACCGGCACGAAGCCTGCTAGGCATGAAGGCCCG
*
81262234 AATACACATCATCGGCACGAA
66 AATACACATCACCGGCACGAA
81262255 GCCTGCTAGGCACGAAGGCCCGAATATACATCACCGGCACGAAGCCTGCTAGGCATGAA-GCCCG
1 GCCTGCTAGGCACGAAGGCCCGAATATACATCACCGGCACGAAGCCTGCTAGGCATGAAGGCCCG
81262319 AATACACATCACCGGCACGAA
66 AATACACATCACCGGCACGAA
**
81262340 GCCTGCTAGGCACGAAGGCCCGAATATACATCACCGGCACGAAGCCTGCTAGGCACAAAGGCCCG
1 GCCTGCTAGGCACGAAGGCCCGAATATACATCACCGGCACGAAGCCTGCTAGGCATGAAGGCCCG
81262405 AATA
66 AATA
81262409 TAATACTAGC
Statistics
Matches: 147, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
85 81 0.55
86 66 0.45
ACGTcount: A:0.30, C:0.32, G:0.25, T:0.12
Consensus pattern (86 bp):
GCCTGCTAGGCACGAAGGCCCGAATATACATCACCGGCACGAAGCCTGCTAGGCATGAAGGCCCG
AATACACATCACCGGCACGAA
Found at i:81262385 original size:128 final size:129
Alignment explanation
Indices: 81262169--81262410 Score: 414
Period size: 128 Copynumber: 1.9 Consensus size: 129
81262159 CCGGCATTAC
* * *
81262169 GCCTGCTAGGCACGAAGGCCTGAATACACATCACCGGCACGAAGCCTGCTAGGCATGAAGGCCTG
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCG
* *
81262234 AATACACATCATCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATATACATCACCGGCACGAA
66 AATACACATCACCGGCACGAAGCCTGCTAGGCACAAAGGCCCGAATATACATCACCGGCACGAA
*
81262298 GCCTGCTAGGCATGAA-GCCCGAATACACATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCG
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCG
*
81262362 AATATACATCACCGGCACGAAGCCTGCTAGGCACAAAGGCCCGAATATA
66 AATACACATCACCGGCACGAAGCCTGCTAGGCACAAAGGCCCGAATATA
81262411 ATACTAGCAC
Statistics
Matches: 106, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
128 91 0.86
129 15 0.14
ACGTcount: A:0.31, C:0.31, G:0.25, T:0.13
Consensus pattern (129 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCG
AATACACATCACCGGCACGAAGCCTGCTAGGCACAAAGGCCCGAATATACATCACCGGCACGAA
Found at i:81262410 original size:43 final size:43
Alignment explanation
Indices: 81262169--81262408 Score: 401
Period size: 43 Copynumber: 5.6 Consensus size: 43
81262159 CCGGCATTAC
*
81262169 GCCTGCTAGGCACGAAGGCCTGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* * *
81262212 GCCTGCTAGGCATGAAGGCCTGAATACACATCATCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
81262255 GCCTGCTAGGCACGAAGGCCCGAATATACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
81262298 GCCTGCTAGGCATGAA-GCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
81262340 GCCTGCTAGGCACGAAGGCCCGAATATACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
81262383 GCCTGCTAGGCACAAAGGCCCGAATA
1 GCCTGCTAGGCACGAAGGCCCGAATA
81262409 TAATACTAGC
Statistics
Matches: 185, Mismatches: 11, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
42 40 0.22
43 145 0.78
ACGTcount: A:0.30, C:0.32, G:0.25, T:0.12
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
Found at i:81267969 original size:42 final size:43
Alignment explanation
Indices: 81267806--81268042 Score: 374
Period size: 43 Copynumber: 5.6 Consensus size: 43
81267796 CCGGCATTAC
* *
81267806 GCCTGCTAGGCACGAAGGCCCGAATACACATCATCGACACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
81267849 GCCTGCTAGGCACGAAGGCCCGAATATACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
81267892 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
** * *
81267935 GCCTGCTAGG-AAAAAGTCCCGAATACACATCACCGGCATGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
81267977 GCCTGCTAGGCACGAAGGCCC-AATATACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
81268019 GCCTGCTA-GCACGAAGGCCC-AATA
1 GCCTGCTAGGCACGAAGGCCCGAATA
81268043 TAATACCAGC
Statistics
Matches: 180, Mismatches: 13, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
41 16 0.09
42 65 0.36
43 99 0.55
ACGTcount: A:0.32, C:0.32, G:0.24, T:0.12
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
Found at i:81268085 original size:38 final size:38
Alignment explanation
Indices: 81268040--81268158 Score: 157
Period size: 38 Copynumber: 3.1 Consensus size: 38
81268030 CGAAGGCCCA
* * * *
81268040 ATATAATACCAGCACTAGGCCTGCGGGATTTATCCCTG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
81268078 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
** *
81268116 ATATTTTACCAGCACGAAGCCTGCGGGTCTTTAAGCCCGG
1 ATATAATACCAGCACGAAGCCTGCGGG-ATTTAA-CCCGG
81268156 ATA
1 ATA
81268159 CACATCAAAT
Statistics
Matches: 72, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
38 59 0.82
39 5 0.07
40 8 0.11
ACGTcount: A:0.28, C:0.26, G:0.23, T:0.24
Consensus pattern (38 bp):
ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
Found at i:81274499 original size:54 final size:54
Alignment explanation
Indices: 81274440--81274572 Score: 149
Period size: 54 Copynumber: 2.5 Consensus size: 54
81274430 TCTCTACCCA
* * * * *
81274440 TGTAACTCTCTGACTAAATACACACGGCTGTGTCACTGATCGTGTTCCAGGCCG
1 TGTAACTCACTGACTAAATACACACGGCTGTGTCACAGACCATGTGCCAGGCCG
* * ** * * *
81274494 TGTAACTCGCTGGCTTGATACACACGGCTGTGTCGCAGCCCATGTGCCAGGCTG
1 TGTAACTCACTGACTAAATACACACGGCTGTGTCACAGACCATGTGCCAGGCCG
*
81274548 TGTAACTCACTGACTCAATACACAC
1 TGTAACTCACTGACTAAATACACAC
81274573 AGTCGTGTCA
Statistics
Matches: 64, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
54 64 1.00
ACGTcount: A:0.23, C:0.29, G:0.23, T:0.26
Consensus pattern (54 bp):
TGTAACTCACTGACTAAATACACACGGCTGTGTCACAGACCATGTGCCAGGCCG
Found at i:81275506 original size:40 final size:40
Alignment explanation
Indices: 81275462--81275653 Score: 249
Period size: 40 Copynumber: 4.8 Consensus size: 40
81275452 TCAAGATTAC
* * * *
81275462 CGAAGTAGAAACTGGGGCACGTATGTACATTTAGGGGTAT
1 CGAAGTACAAACAGGGGCACGTATGTGCATTCAGGGGTAT
* * *
81275502 CGAAGTACAAACACGGGCACGCATGTACATTCAGGGGTAT
1 CGAAGTACAAACAGGGGCACGTATGTGCATTCAGGGGTAT
* * * * *
81275542 CGAAGTACAAACAAGGGCACGTATGTGTATTAAAGGGTAC
1 CGAAGTACAAACAGGGGCACGTATGTGCATTCAGGGGTAT
* *
81275582 CGAAGTACAAAAAAGGGCCACGTATGTGCATTCAGGGGTAT
1 CGAAGTAC-AAACAGGGGCACGTATGTGCATTCAGGGGTAT
81275623 CGAAGTACAAACAGGGGCACGTATGTGCATT
1 CGAAGTACAAACAGGGGCACGTATGTGCATT
81275654 TCATGAAACG
Statistics
Matches: 130, Mismatches: 21, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
40 97 0.75
41 33 0.25
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.20
Consensus pattern (40 bp):
CGAAGTACAAACAGGGGCACGTATGTGCATTCAGGGGTAT
Found at i:81275509 original size:20 final size:20
Alignment explanation
Indices: 81275486--81275550 Score: 60
Period size: 20 Copynumber: 3.2 Consensus size: 20
81275476 GGGCACGTAT
*
81275486 GTACATTTAGGGGTATCGAA
1 GTACATTCAGGGGTATCGAA
** * * *
81275506 GTACAAACACGGGCA-CGCAT
1 GTACATTCAGGGGTATCG-AA
81275526 GTACATTCAGGGGTATCGAA
1 GTACATTCAGGGGTATCGAA
81275546 GTACA
1 GTACA
81275551 AACAAGGGCA
Statistics
Matches: 32, Mismatches: 11, Indels: 4
0.68 0.23 0.09
Matches are distributed among these distances:
19 2 0.06
20 28 0.88
21 2 0.06
ACGTcount: A:0.32, C:0.18, G:0.28, T:0.22
Consensus pattern (20 bp):
GTACATTCAGGGGTATCGAA
Found at i:81275641 original size:81 final size:80
Alignment explanation
Indices: 81275462--81275653 Score: 267
Period size: 81 Copynumber: 2.4 Consensus size: 80
81275452 TCAAGATTAC
* * * * * * * *
81275462 CGAAGTAGAAACTGGGGCACGTATGTACATTTAGGGGTATCGAAGTACAAACACGGGCACGCATG
1 CGAAGTACAAACAGGGGCACGTATGTGCATTAAAGGGTACCGAAGTACAAAAAAGGGCACGCATG
81275527 TACATTCAGGGGTAT
66 TACATTCAGGGGTAT
* * *
81275542 CGAAGTACAAACAAGGGCACGTATGTGTATTAAAGGGTACCGAAGTACAAAAAAGGGCCACGTAT
1 CGAAGTACAAACAGGGGCACGTATGTGCATTAAAGGGTACCGAAGTACAAAAAAGGG-CACGCAT
*
81275607 GTGCATTCAGGGGTAT
65 GTACATTCAGGGGTAT
81275623 CGAAGTACAAACAGGGGCACGTATGTGCATT
1 CGAAGTACAAACAGGGGCACGTATGTGCATT
81275654 TCATGAAACG
Statistics
Matches: 97, Mismatches: 14, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
80 47 0.48
81 50 0.52
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.20
Consensus pattern (80 bp):
CGAAGTACAAACAGGGGCACGTATGTGCATTAAAGGGTACCGAAGTACAAAAAAGGGCACGCATG
TACATTCAGGGGTAT
Found at i:81281411 original size:21 final size:21
Alignment explanation
Indices: 81281385--81281439 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
81281375 ATAGCGGTGG
*
81281385 CGGTGAGATTAGTTACTGTAA
1 CGGTGAGATTAGATACTGTAA
* * *
81281406 TGGTGAGATTGGATACTGTAG
1 CGGTGAGATTAGATACTGTAA
81281427 CGGTGAGATTAGA
1 CGGTGAGATTAGA
81281440 AACAATGGTG
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.27, C:0.07, G:0.35, T:0.31
Consensus pattern (21 bp):
CGGTGAGATTAGATACTGTAA
Found at i:81282706 original size:33 final size:31
Alignment explanation
Indices: 81282628--81282710 Score: 103
Period size: 31 Copynumber: 2.6 Consensus size: 31
81282618 CTTCCTGCAT
* *
81282628 TAAAATCCAACCAAATACAACAAATATAGCA
1 TAAAATACAACCAAAAACAACAAATATAGCA
* * *
81282659 TAAAATACAGCCAAAAACAGCAAATTTAGCA
1 TAAAATACAACCAAAAACAACAAATATAGCA
81282690 TAAAAAATACAACCAAAAACA
1 T--AAAATACAACCAAAAACA
81282711 TTAATTCTAA
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
31 27 0.61
33 17 0.39
ACGTcount: A:0.60, C:0.20, G:0.05, T:0.14
Consensus pattern (31 bp):
TAAAATACAACCAAAAACAACAAATATAGCA
Found at i:81283411 original size:13 final size:14
Alignment explanation
Indices: 81283384--81283412 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
81283374 TGATGACTTG
81283384 AATTAAACAATTAT
1 AATTAAACAATTAT
81283398 AATTAAAC-ATTAT
1 AATTAAACAATTAT
81283411 AA
1 AA
81283413 ATATTTAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACAATTAT
Found at i:81288427 original size:9 final size:9
Alignment explanation
Indices: 81288413--81288715 Score: 116
Period size: 9 Copynumber: 34.0 Consensus size: 9
81288403 TAAGTATAAC
81288413 TAAGTTATG
1 TAAGTTATG
81288422 TAAGTTATG
1 TAAGTTATG
* * *
81288431 -ATGTGATA
1 TAAGTTATG
*
81288439 TATATTTATG
1 TA-AGTTATG
81288449 T-A-TTATG
1 TAAGTTATG
81288456 TAAGTTATG
1 TAAGTTATG
*
81288465 TAAATTATG
1 TAAGTTATG
81288474 TAAGTTATG
1 TAAGTTATG
81288483 TAAGTTATCCG
1 TAAGTTAT--G
81288494 -AA-TTATG
1 TAAGTTATG
*
81288501 TAAATTATG
1 TAAGTTATG
* *
81288510 TACGATATG
1 TAAGTTATG
*
81288519 ATATATATCTATG
1 -TA-A-GT-TATG
81288532 T-A-TTATG
1 TAAGTTATG
81288539 TAAGTTATG
1 TAAGTTATG
*
81288548 TAAATTATG
1 TAAGTTATG
* *
81288557 CAAGTTGT-
1 TAAGTTATG
**
81288565 TCATCTTATG
1 T-AAGTTATG
*
81288575 TAAATTATG
1 TAAGTTATG
*
81288584 TAAGATATGATA
1 TAAG-T-T-ATG
*
81288596 TATATTTATG
1 TA-AGTTATG
81288606 T-A-TTATG
1 TAAGTTATG
81288613 TAAGTTATG
1 TAAGTTATG
*
81288622 TAAATTATG
1 TAAGTTATG
* *
81288631 TAAGTTGTT
1 TAAGTTATG
**
81288640 TATCTTATG
1 TAAGTTATG
*
81288649 TAAATTATG
1 TAAGTTATG
*
81288658 TAAGATATG
1 TAAGTTATG
*
81288667 --A--TATA
1 TAAGTTATG
*
81288672 TATATTTATG
1 TA-AGTTATG
81288682 T-A-TTATG
1 TAAGTTATG
*
81288689 TAAGTAATG
1 TAAGTTATG
*
81288698 TAAATTATG
1 TAAGTTATG
*
81288707 TAAGATATG
1 TAAGTTATG
81288716 ATATATATTT
Statistics
Matches: 217, Mismatches: 48, Indels: 58
0.67 0.15 0.18
Matches are distributed among these distances:
5 3 0.01
7 25 0.12
8 16 0.07
9 141 0.65
10 18 0.08
11 3 0.01
12 6 0.03
13 5 0.02
ACGTcount: A:0.36, C:0.03, G:0.16, T:0.46
Consensus pattern (9 bp):
TAAGTTATG
Found at i:81288473 original size:18 final size:18
Alignment explanation
Indices: 81288450--81288715 Score: 133
Period size: 18 Copynumber: 14.8 Consensus size: 18
81288440 ATATTTATGT
81288450 ATTATGTAAGTTATGTAA
1 ATTATGTAAGTTATGTAA
81288468 ATTATGTAAGTTATGTAA
1 ATTATGTAAGTTATGTAA
*
81288486 GTTATCCG-AA-TTATGTAA
1 ATTAT--GTAAGTTATGTAA
* *
81288504 ATTATGTACGATATGATATA
1 ATTATGTAAGTTATG-TA-A
81288524 TATCTATGT-A-TTATGTAA
1 -AT-TATGTAAGTTATGTAA
* * *
81288542 GTTATGTAAATTATGCAA
1 ATTATGTAAGTTATGTAA
* * **
81288560 GTTGT-TCATCTTATGTAA
1 ATTATGT-AAGTTATGTAA
*
81288578 ATTATGTAAGATATGATATA
1 ATTATGTAAGTTATG-TA-A
81288598 TATTTATGT-A-TTATGTAA
1 -A-TTATGTAAGTTATGTAA
* *
81288616 GTTATGTAAATTATGTAA
1 ATTATGTAAGTTATGTAA
* * * **
81288634 GTTGTTTATCTTATGTAA
1 ATTATGTAAGTTATGTAA
* *
81288652 ATTATGTAAGATATG-AT
1 ATTATGTAAGTTATGTAA
* *
81288669 A-TATAT-ATTTATGT--
1 ATTATGTAAGTTATGTAA
*
81288683 ATTATGTAAGTAATGTAA
1 ATTATGTAAGTTATGTAA
*
81288701 ATTATGTAAGATATG
1 ATTATGTAAGTTATG
81288716 ATATATATTT
Statistics
Matches: 187, Mismatches: 38, Indels: 46
0.69 0.14 0.17
Matches are distributed among these distances:
14 1 0.01
15 9 0.05
16 22 0.12
17 7 0.04
18 111 0.59
19 11 0.06
20 11 0.06
21 4 0.02
22 11 0.06
ACGTcount: A:0.36, C:0.03, G:0.15, T:0.45
Consensus pattern (18 bp):
ATTATGTAAGTTATGTAA
Found at i:81288532 original size:83 final size:74
Alignment explanation
Indices: 81288452--81288710 Score: 374
Period size: 74 Copynumber: 3.4 Consensus size: 74
81288442 ATTTATGTAT
*
81288452 TATGTAAGTTATGTAAATTATGTAAGTTATGTAAGTTATCCGAATTATGTAAATTATGTACGATA
1 TATGTAAGTTATGTAAATTATGTAAG-T-TGT---TTAT-C---TTATGTAAATTATGTAAGATA
*
81288517 TGATATATATCTATGTAT
57 TGATATATATTTATGTAT
* *
81288535 TATGTAAGTTATGTAAATTATGCAAGTTGTTCATCTTATGTAAATTATGTAAGATATGATATATA
1 TATGTAAGTTATGTAAATTATGTAAGTTGTTTATCTTATGTAAATTATGTAAGATATGATATATA
81288600 TTTATGTAT
66 TTTATGTAT
81288609 TATGTAAGTTATGTAAATTATGTAAGTTGTTTATCTTATGTAAATTATGTAAGATATGATATATA
1 TATGTAAGTTATGTAAATTATGTAAGTTGTTTATCTTATGTAAATTATGTAAGATATG--ATATA
81288674 TATTTATGTAT
64 TATTTATGTAT
*
81288685 TATGTAAGTAATGTAAATTATGTAAG
1 TATGTAAGTTATGTAAATTATGTAAG
81288711 ATATGATATA
Statistics
Matches: 167, Mismatches: 7, Indels: 11
0.90 0.04 0.06
Matches are distributed among these distances:
74 93 0.56
76 41 0.25
77 1 0.01
78 3 0.02
81 3 0.02
82 1 0.01
83 25 0.15
ACGTcount: A:0.36, C:0.03, G:0.15, T:0.45
Consensus pattern (74 bp):
TATGTAAGTTATGTAAATTATGTAAGTTGTTTATCTTATGTAAATTATGTAAGATATGATATATA
TTTATGTAT
Found at i:81289146 original size:14 final size:13
Alignment explanation
Indices: 81289116--81289157 Score: 54
Period size: 14 Copynumber: 3.4 Consensus size: 13
81289106 TTTTTCATGA
81289116 TTAAAAT-AAAA-
1 TTAAAATAAAAAT
81289127 -TAAAATAAAATAT
1 TTAAAATAAAA-AT
81289140 TTAAAATAAAAAT
1 TTAAAATAAAAAT
81289153 TTAAA
1 TTAAA
81289158 TACAATTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
10 6 0.22
11 3 0.11
12 1 0.04
13 7 0.26
14 10 0.37
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
TTAAAATAAAAAT
Found at i:81289413 original size:209 final size:209
Alignment explanation
Indices: 81288855--81289425 Score: 1090
Period size: 208 Copynumber: 2.7 Consensus size: 209
81288845 TGCTAAATAC
81288855 AATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAATATTTTTCATGATTAAAATAAAAT
1 AATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAATATTTTTCATGATTAAAATAAAAT
81288920 AAAATAAAATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGATAATTTAAAAATTAA
66 AAAATAAAATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGATAATTTAAAAATTAA
*
81288985 AATAAAAGTAGATAAAATATTTTTAGTGATTAAATTAAAATCAAATAAAATACTCAAAATAAAAC
131 AATAAAAGTAGACAAAATATTTTTAGTGATTAAATTAAAATCAAATAAAATACTCAAAATAAAAC
81289050 TTTAAATACAATTT
196 TTTAAATACAATTT
81289064 AATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGA-AATATTTTTCATGATTAAAATAAAAT
1 AATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAATATTTTTCATGATTAAAATAAAAT
*
81289128 AAAATAAAATATTTAAAATAAAAATTTAAATACAATTTAATTTAATTAGATAATTTAAAAATTAA
66 AAAATAAAATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGATAATTTAAAAATTAA
*
81289193 AATAAAAGTAGACAAAATATTTTTAGTGATTAAATTAAAATCAAATAAAATATTCAAAATAAAAC
131 AATAAAAGTAGACAAAATATTTTTAGTGATTAAATTAAAATCAAATAAAATACTCAAAATAAAAC
81289258 TTTAAATACAATTT
196 TTTAAATACAATTT
* *
81289272 AATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAAACAATATTTTTCGTGATTAAAATAAAAT
1 AATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAATATTTTTCATGATTAAAATAAAAT
81289337 AAAATAAAATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGATAATTTAAAAATTAA
66 AAAATAAAATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGATAATTTAAAAATTAA
81289402 AATAAAAGTAGACAAAATATTTTT
131 AATAAAAGTAGACAAAATATTTTT
81289426 TCCAAAAAAG
Statistics
Matches: 355, Mismatches: 6, Indels: 2
0.98 0.02 0.01
Matches are distributed among these distances:
208 204 0.57
209 151 0.43
ACGTcount: A:0.56, C:0.04, G:0.05, T:0.35
Consensus pattern (209 bp):
AATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAATATTTTTCATGATTAAAATAAAAT
AAAATAAAATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGATAATTTAAAAATTAA
AATAAAAGTAGACAAAATATTTTTAGTGATTAAATTAAAATCAAATAAAATACTCAAAATAAAAC
TTTAAATACAATTT
Found at i:81290261 original size:16 final size:16
Alignment explanation
Indices: 81290242--81290275 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
81290232 AACAACTACA
81290242 AATTAACAATCATACC
1 AATTAACAATCATACC
*
81290258 AATTAACAATCTTACC
1 AATTAACAATCATACC
81290274 AA
1 AA
81290276 GATGAGCTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.50, C:0.24, G:0.00, T:0.26
Consensus pattern (16 bp):
AATTAACAATCATACC
Found at i:81292813 original size:44 final size:44
Alignment explanation
Indices: 81292765--81292856 Score: 139
Period size: 44 Copynumber: 2.1 Consensus size: 44
81292755 GGGAACAGAT
* *
81292765 TTAGGGAAAAAAGTATGGGGAAAAGAGGCGATTTGGGGAAAATG
1 TTAGGGAAAAAACTATGGAGAAAAGAGGCGATTTGGGGAAAATG
** *
81292809 TTAGGGAAATGACTATGGAGAAAAGAGGGGATTTGGGGAAAATG
1 TTAGGGAAAAAACTATGGAGAAAAGAGGCGATTTGGGGAAAATG
81292853 TTAG
1 TTAG
81292857 AGATTTCGGG
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.39, C:0.02, G:0.38, T:0.21
Consensus pattern (44 bp):
TTAGGGAAAAAACTATGGAGAAAAGAGGCGATTTGGGGAAAATG
Found at i:81293718 original size:15 final size:15
Alignment explanation
Indices: 81293695--81293726 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
81293685 AAATAATAAT
81293695 TTATATATATTTATC
1 TTATATATATTTATC
*
81293710 TTATTTATATTTATC
1 TTATATATATTTATC
81293725 TT
1 TT
81293727 CTAAATTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.66
Consensus pattern (15 bp):
TTATATATATTTATC
Found at i:81294450 original size:23 final size:21
Alignment explanation
Indices: 81294408--81294451 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
81294398 TAACCATAGT
*
81294408 CATTAAACCAAAAATTCATAA
1 CATTAAACCAAAAATACATAA
*
81294429 CATTAAACCTTAAAATAACATAA
1 CATTAAACC-AAAAAT-ACATAA
81294452 TTTTTTTGCG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 9 0.47
22 5 0.26
23 5 0.26
ACGTcount: A:0.57, C:0.18, G:0.00, T:0.25
Consensus pattern (21 bp):
CATTAAACCAAAAATACATAA
Found at i:81294818 original size:154 final size:153
Alignment explanation
Indices: 81294519--81294912 Score: 488
Period size: 154 Copynumber: 2.5 Consensus size: 153
81294509 CAGAAAAAAA
* * * *
81294519 CGCCGCTAATGCCCCTATAGCTCACCAAAAG-ACGACGTTGTTTTGCTCAAAACTTTTATGGCTT
1 CGCCGCTAATGCCTCTATAGCTCACC-AATGCACGACGTTGTTTT-CTCAAAACTTTTGTGGCAT
* * * * *
81294583 TTTTAAACAGCCGCTGCTATGTGCTTCACCTTTTGCGGCGTTTTAGGAAAAACGCCACTAATTCT
64 TTTTAAACAACCGCCGCTA-ATGCTTCACCTATTGCGGCGCTTTAGGAAAAACGCCACTAATTCT
*
81294648 CGATATATTGCTGCGTTTACAGGAAG
128 CGATATATTGCGGCGTTTACAGGAAG
* * * * *
81294674 TGCCGCTAAAGCCTCTATAGCTCACCAATGCACGATGTCGTATTTCTCAAAACTTTTGTAGCATT
1 CGCCGCTAATGCCTCTATAGCTCACCAATGCACGACGTTGT-TTTCTCAAAACTTTTGTGGCATT
* *
81294739 TTTAAACAACCGCCACTAATGCTTCACCTATTGTGGCGCTTTAGGAAAAACG-CAGCTAATTCTC
65 TTTAAACAACCGCCGCTAATGCTTCACCTATTGCGGCGCTTTAGGAAAAACGCCA-CTAATTCTC
*
81294803 GATATATTGCGGCGTTTTCAGGAAG
129 GATATATTGCGGCGTTTACAGGAAG
* * * * * *
81294828 CGCCGCTAATGCCTATATAGCTTACCAATACACGGCGTTGTTTTTCTCAACACTTTTGCGGCATT
1 CGCCGCTAATGCCTCTATAGCTCACCAATGCACGACGTTG-TTTTCTCAAAACTTTTGTGGCATT
81294893 TTTACAA-AACCGCCGCTAAT
65 TTTA-AACAACCGCCGCTAAT
81294913 AGTCCCCTTT
Statistics
Matches: 204, Mismatches: 30, Indels: 11
0.83 0.12 0.04
Matches are distributed among these distances:
153 2 0.01
154 133 0.65
155 66 0.32
156 3 0.01
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.31
Consensus pattern (153 bp):
CGCCGCTAATGCCTCTATAGCTCACCAATGCACGACGTTGTTTTCTCAAAACTTTTGTGGCATTT
TTAAACAACCGCCGCTAATGCTTCACCTATTGCGGCGCTTTAGGAAAAACGCCACTAATTCTCGA
TATATTGCGGCGTTTACAGGAAG
Found at i:81296415 original size:14 final size:14
Alignment explanation
Indices: 81296393--81296426 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
81296383 ACAATATCTG
*
81296393 AATAATAACAACAT
1 AATAGTAACAACAT
*
81296407 AATAGTAACAATAT
1 AATAGTAACAACAT
81296421 AATAGT
1 AATAGT
81296427 GAAATGATAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.59, C:0.09, G:0.06, T:0.26
Consensus pattern (14 bp):
AATAGTAACAACAT
Found at i:81300226 original size:12 final size:12
Alignment explanation
Indices: 81300209--81300237 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
81300199 ACCACACGGG
81300209 CGTGTGGTTGCC
1 CGTGTGGTTGCC
81300221 CGTGTGGTTGCC
1 CGTGTGGTTGCC
81300233 CGTGT
1 CGTGT
81300238 TTCATCACAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.00, C:0.24, G:0.41, T:0.34
Consensus pattern (12 bp):
CGTGTGGTTGCC
Found at i:81300464 original size:13 final size:13
Alignment explanation
Indices: 81300446--81300470 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
81300436 GTTTGGGCCC
81300446 ACACGAGTAGGCG
1 ACACGAGTAGGCG
81300459 ACACGAGTAGGC
1 ACACGAGTAGGC
81300471 CAAATGTCTC
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:0.32, C:0.24, G:0.36, T:0.08
Consensus pattern (13 bp):
ACACGAGTAGGCG
Found at i:81301743 original size:54 final size:54
Alignment explanation
Indices: 81301661--81301768 Score: 216
Period size: 54 Copynumber: 2.0 Consensus size: 54
81301651 AATTAAATTG
81301661 TTAGTAAATTAAATATTTATAATAGTATAGTATATATATAATTCACATTCATTA
1 TTAGTAAATTAAATATTTATAATAGTATAGTATATATATAATTCACATTCATTA
81301715 TTAGTAAATTAAATATTTATAATAGTATAGTATATATATAATTCACATTCATTA
1 TTAGTAAATTAAATATTTATAATAGTATAGTATATATATAATTCACATTCATTA
81301769 GAATGTGTAA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.44
Consensus pattern (54 bp):
TTAGTAAATTAAATATTTATAATAGTATAGTATATATATAATTCACATTCATTA
Found at i:81304167 original size:10 final size:10
Alignment explanation
Indices: 81304139--81304184 Score: 58
Period size: 10 Copynumber: 4.5 Consensus size: 10
81304129 AAAGTCTAAA
81304139 TATTTATTTAT
1 TATTTATTT-T
81304150 TCATTTATTTT
1 T-ATTTATTTT
81304161 TATTTA-TTT
1 TATTTATTTT
*
81304170 TAATTATTTT
1 TATTTATTTT
81304180 TATTT
1 TATTT
81304185 TGAAAGAGGC
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
9 8 0.26
10 12 0.39
11 3 0.10
12 8 0.26
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (10 bp):
TATTTATTTT
Found at i:81304178 original size:19 final size:18
Alignment explanation
Indices: 81304141--81304184 Score: 61
Period size: 19 Copynumber: 2.4 Consensus size: 18
81304131 AGTCTAAATA
*
81304141 TTTATTTATTCATTTATT
1 TTTATTTATTCAATTATT
*
81304159 TTTATTTATTTTAATTATT
1 TTTATTTA-TTCAATTATT
81304178 TTTATTT
1 TTTATTT
81304185 TGAAAGAGGC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 8 0.35
19 15 0.65
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.75
Consensus pattern (18 bp):
TTTATTTATTCAATTATT
Found at i:81308903 original size:17 final size:19
Alignment explanation
Indices: 81308861--81308904 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
81308851 ATGAAATTTT
*
81308861 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
81308880 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
81308898 AA-TATTA
1 AATTATTA
81308905 CTGTATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:81310731 original size:28 final size:28
Alignment explanation
Indices: 81310699--81310767 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
81310689 GCGTAGATCA
81310699 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
81310727 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
81310755 CGATA-TACCCCTA
1 CGAAATTACCCCTA
81310768 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:81314921 original size:17 final size:19
Alignment explanation
Indices: 81314896--81314941 Score: 60
Period size: 17 Copynumber: 2.5 Consensus size: 19
81314886 TAGTAAGTGT
*
81314896 ATATTAAAATCCT-GAAGG
1 ATATTAAAATCCTAGAAGC
*
81314914 AT-TTAAAATGCTAGAAGC
1 ATATTAAAATCCTAGAAGC
81314932 ATATTAAAAT
1 ATATTAAAAT
81314942 TATGAGGAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 9 0.38
18 8 0.33
19 7 0.29
ACGTcount: A:0.48, C:0.09, G:0.13, T:0.30
Consensus pattern (19 bp):
ATATTAAAATCCTAGAAGC
Found at i:81315886 original size:21 final size:22
Alignment explanation
Indices: 81315847--81315888 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
81315837 ATTAATTATA
81315847 AATAAATACTAATACCCTAAAT
1 AATAAATACTAATACCCTAAAT
81315869 AATAAAT-CTTAA-ACCCTAAA
1 AATAAATAC-TAATACCCTAAA
81315889 CTCAAAATCA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.55, C:0.19, G:0.00, T:0.26
Consensus pattern (22 bp):
AATAAATACTAATACCCTAAAT
Found at i:81315995 original size:22 final size:24
Alignment explanation
Indices: 81315941--81315995 Score: 60
Period size: 23 Copynumber: 2.3 Consensus size: 24
81315931 TTTATAATAG
* *
81315941 TTATTCATTATTATTTAATTATAT
1 TTATTTATTATTATTTAAGTATAT
*
81315965 TTAAATTATTATT-TTT-AGTATAT
1 TT-ATTTATTATTATTTAAGTATAT
81315988 TTATTTAT
1 TTATTTAT
81315996 AAATCTCCCA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
22 5 0.19
23 8 0.31
24 5 0.19
25 8 0.31
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.64
Consensus pattern (24 bp):
TTATTTATTATTATTTAAGTATAT
Found at i:81316274 original size:16 final size:16
Alignment explanation
Indices: 81316250--81316281 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
81316240 AAAAATAACC
*
81316250 TTTAGATTGAGTTTTA
1 TTTAAATTGAGTTTTA
81316266 TTTAAATTGAGTTTTA
1 TTTAAATTGAGTTTTA
81316282 ATAACACTGA
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:0.00, G:0.16, T:0.56
Consensus pattern (16 bp):
TTTAAATTGAGTTTTA
Found at i:81318331 original size:13 final size:13
Alignment explanation
Indices: 81318313--81318357 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
81318303 GTAAAAAATT
*
81318313 TAAAAAAATTATA
1 TAAAAATATTATA
81318326 TAAAAATATT-TA
1 TAAAAATATTATA
81318338 TTAAAAATATTATA
1 -TAAAAATATTATA
81318352 -AAAAAT
1 TAAAAAT
81318358 TATTGATAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
12 8 0.28
13 19 0.66
14 2 0.07
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
TAAAAATATTATA
Found at i:81318351 original size:24 final size:22
Alignment explanation
Indices: 81318304--81318358 Score: 67
Period size: 24 Copynumber: 2.4 Consensus size: 22
81318294 TTTAAAAAGG
81318304 TAAAAAATTTAAAAAAATTATA
1 TAAAAAATTTAAAAAAATTATA
*
81318326 TAAAAATATTTATTAAAAA-TATTA
1 TAAAAA-ATTTA-AAAAAATTA-TA
81318350 TAAAAAATT
1 TAAAAAATT
81318359 ATTGATAATT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
22 6 0.21
23 10 0.34
24 13 0.45
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (22 bp):
TAAAAAATTTAAAAAAATTATA
Found at i:81318361 original size:13 final size:12
Alignment explanation
Indices: 81318305--81318357 Score: 58
Period size: 12 Copynumber: 4.5 Consensus size: 12
81318295 TTAAAAAGGT
81318305 AAAAA-ATT-TA
1 AAAAATATTATA
81318315 AAAAA-ATTATA
1 AAAAATATTATA
*
81318326 TAAAAATATTTATT
1 -AAAAATA-TTATA
81318340 AAAAATATTATA
1 AAAAATATTATA
81318352 AAAAAT
1 AAAAAT
81318358 TATTGATAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
10 8 0.22
11 2 0.05
12 15 0.41
13 8 0.22
14 4 0.11
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (12 bp):
AAAAATATTATA
Found at i:81319291 original size:24 final size:24
Alignment explanation
Indices: 81319258--81319303 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
81319248 TCACAAATGA
* * *
81319258 GAAAGGTAAGGCATGTATATATGT
1 GAAAGATAAGGCACGCATATATGT
81319282 GAAAGATAAGGCACGCATATAT
1 GAAAGATAAGGCACGCATATAT
81319304 ACATAAGCAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.41, C:0.09, G:0.26, T:0.24
Consensus pattern (24 bp):
GAAAGATAAGGCACGCATATATGT
Found at i:81323150 original size:31 final size:32
Alignment explanation
Indices: 81323100--81323166 Score: 127
Period size: 31 Copynumber: 2.1 Consensus size: 32
81323090 TACCAATGAG
81323100 TTTATACTAAATTTTTTTCTTTTCTTTTTTTT
1 TTTATACTAAATTTTTTTCTTTTCTTTTTTTT
81323132 TTTATACTAAA-TTTTTTCTTTTCTTTTTTTT
1 TTTATACTAAATTTTTTTCTTTTCTTTTTTTT
81323163 TTTA
1 TTTA
81323167 CATTAGTTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 24 0.69
32 11 0.31
ACGTcount: A:0.16, C:0.09, G:0.00, T:0.75
Consensus pattern (32 bp):
TTTATACTAAATTTTTTTCTTTTCTTTTTTTT
Found at i:81324290 original size:22 final size:23
Alignment explanation
Indices: 81324264--81324309 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
81324254 CAACCAAACC
81324264 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
81324286 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
81324309 A
1 A
81324310 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:81324315 original size:23 final size:23
Alignment explanation
Indices: 81324271--81324315 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
81324261 ACCAATTCAA
*
81324271 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
81324294 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
81324316 CACATACCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:81324727 original size:5 final size:5
Alignment explanation
Indices: 81324711--81324747 Score: 65
Period size: 5 Copynumber: 7.2 Consensus size: 5
81324701 AGAGTTTTTT
81324711 GGCCC GGGCCC GGCCC GGCCC GGCCC GGCCC GGCCC G
1 GGCCC -GGCCC GGCCC GGCCC GGCCC GGCCC GGCCC G
81324748 AATTATATAT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 26 0.84
6 5 0.16
ACGTcount: A:0.00, C:0.57, G:0.43, T:0.00
Consensus pattern (5 bp):
GGCCC
Found at i:81324790 original size:15 final size:16
Alignment explanation
Indices: 81324770--81324802 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
81324760 ATATATATAT
81324770 TTATTTT-ATTTTTAA
1 TTATTTTAATTTTTAA
81324785 TTATTTTAAATTTTTAA
1 TTATTTT-AATTTTTAA
81324802 T
1 T
81324803 ATAACCATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
17 9 0.56
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TTATTTTAATTTTTAA
Found at i:81324875 original size:21 final size:22
Alignment explanation
Indices: 81324849--81324907 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 22
81324839 GTTTTAAGAA
*
81324849 TTGTTTTAGTA-TTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
*
81324870 TTGTTTTAATATTTGTTTTTAT
1 TTGTTTTAATATTTATTTTTAT
* *
81324892 GT-TTTTAA-ATATATTT
1 TTGTTTTAATATTTATTT
81324908 GATTTATTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
20 6 0.19
21 16 0.50
22 10 0.31
ACGTcount: A:0.22, C:0.00, G:0.08, T:0.69
Consensus pattern (22 bp):
TTGTTTTAATATTTATTTTTAT
Found at i:81324922 original size:26 final size:24
Alignment explanation
Indices: 81324878--81324927 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
81324868 ATTTGTTTTA
*
81324878 ATATTTGTTTTTATGTTTTTAAAT
1 ATATTTGTTTTTATATTTTTAAAT
81324902 ATATTTGATTTATTATATTTTTAAAT
1 ATATTTG-TTT-TTATATTTTTAAAT
81324928 TTTTTTATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (24 bp):
ATATTTGTTTTTATATTTTTAAAT
Found at i:81327705 original size:17 final size:18
Alignment explanation
Indices: 81327677--81327710 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
81327667 TTTTATTTGT
81327677 GATTTTTCTTTTAATTTA
1 GATTTTTCTTTTAATTTA
81327695 GATTTTT-TTTTAATTT
1 GATTTTTCTTTTAATTT
81327711 TTAAAAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.21, C:0.03, G:0.06, T:0.71
Consensus pattern (18 bp):
GATTTTTCTTTTAATTTA
Found at i:81329643 original size:52 final size:51
Alignment explanation
Indices: 81329574--81329691 Score: 134
Period size: 50 Copynumber: 2.3 Consensus size: 51
81329564 ATGTTCAAAT
* * *
81329574 GAGTTAC-TAATGCATGACTTCATTGAAAGATGCAAACTTTAACTAACAT-AG
1 GAGTTACATAATGCATGACATAATT-AAAGATCCAAAC-TTAACTAACATGAG
* ** *
81329625 GAGTTACATAATGCATGACATAATTTATTATCCAATCTTAACTAACATGAG
1 GAGTTACATAATGCATGACATAATTAAAGATCCAAACTTAACTAACATGAG
81329676 G-GTTACATAATGCATG
1 GAGTTACATAATGCATG
81329692 CTTAACTAAC
Statistics
Matches: 58, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
50 26 0.45
51 17 0.29
52 15 0.26
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (51 bp):
GAGTTACATAATGCATGACATAATTAAAGATCCAAACTTAACTAACATGAG
Found at i:81329696 original size:31 final size:31
Alignment explanation
Indices: 81329661--81329720 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
81329651 ATTATCCAAT
** *
81329661 CTTAACTAACATGAGGGTTACATAATGCATG
1 CTTAACTAACATGAAAGATACATAATGCATG
81329692 CTTAACTAACATGAAAGATACATAATGCA
1 CTTAACTAACATGAAAGATACATAATGCA
81329721 CGACTTTATT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.42, C:0.17, G:0.15, T:0.27
Consensus pattern (31 bp):
CTTAACTAACATGAAAGATACATAATGCATG
Found at i:81329980 original size:20 final size:21
Alignment explanation
Indices: 81329929--81329990 Score: 67
Period size: 20 Copynumber: 3.1 Consensus size: 21
81329919 ATCAGGTATG
* *
81329929 GGTTT-GGGTTCATGATTATA
1 GGTTTGGGGTTTAAGATTATA
*
81329949 GGTTTGGTGTTTAAGATTA-A
1 GGTTTGGGGTTTAAGATTATA
*
81329969 GGTTTGGGGTTTGAGATT-TA
1 GGTTTGGGGTTTAAGATTATA
81329989 GG
1 GG
81329991 ATAAAAAAGT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
20 25 0.71
21 10 0.29
ACGTcount: A:0.19, C:0.02, G:0.35, T:0.44
Consensus pattern (21 bp):
GGTTTGGGGTTTAAGATTATA
Found at i:81340100 original size:15 final size:15
Alignment explanation
Indices: 81340080--81340108 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
81340070 TCACAAAGAT
81340080 AACTTAAAAATAGGC
1 AACTTAAAAATAGGC
81340095 AACTTAAAAATAGG
1 AACTTAAAAATAGG
81340109 TGGGATGCCT
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:0.55, C:0.10, G:0.14, T:0.21
Consensus pattern (15 bp):
AACTTAAAAATAGGC
Found at i:81342660 original size:21 final size:20
Alignment explanation
Indices: 81342617--81342678 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 20
81342607 CAAATACACC
* *
81342617 AACAGAAGCTCG-AAAGCTA
1 AACAGAAGCTCGTAGAGCTG
81342636 AACAGAAGCTCGTAGGAGCTG
1 AACAGAAGCTCGTA-GAGCTG
*
81342657 AACAAAAGCTCGTAAGAGCTG
1 AACAGAAGCTCGT-AGAGCTG
81342678 A
1 A
81342679 TCCACCCAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
19 12 0.32
20 1 0.03
21 23 0.62
22 1 0.03
ACGTcount: A:0.42, C:0.19, G:0.26, T:0.13
Consensus pattern (20 bp):
AACAGAAGCTCGTAGAGCTG
Found at i:81347588 original size:21 final size:21
Alignment explanation
Indices: 81347562--81347602 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
81347552 TAATGGGACC
81347562 GCTAATGTGGCAAGTTAACTA
1 GCTAATGTGGCAAGTTAACTA
**
81347583 GCTAATGTGGCCGGTTAACT
1 GCTAATGTGGCAAGTTAACT
81347603 TACCATATTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (21 bp):
GCTAATGTGGCAAGTTAACTA
Found at i:81350168 original size:2 final size:2
Alignment explanation
Indices: 81350163--81350188 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
81350153 ATAGGTATGA
81350163 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
81350189 GTCTTATGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:81350921 original size:39 final size:39
Alignment explanation
Indices: 81350878--81351089 Score: 336
Period size: 39 Copynumber: 5.4 Consensus size: 39
81350868 AAGCTTTATA
81350878 CTGGTATTATATCCGGGCTAAGTCCCGAAGGCATTTGTG
1 CTGGTATTATATCCGGGCTAAGTCCCGAAGGCATTTGTG
* *
81350917 CTGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTTGTA
1 CTGGTATTATATCCGGGCTAAGTCCCGAAGGCATTTGTG
*
81350956 CTGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTTGTG
1 CTGGTATTATATCCGGGCTAAGTCCCGAAGGCATTTGTG
* * *
81350995 CTAGTGTTATATCCGGGCTAAGTCCCGAAGGCATTTATG
1 CTGGTATTATATCCGGGCTAAGTCCCGAAGGCATTTGTG
* *
81351034 CTGGTATTATATCCGGGCTAAAGTCCCGCAGGC-TTTATG
1 CTGGTATTATATCCGGGCT-AAGTCCCGAAGGCATTTGTG
81351073 CTGGTATTATATCCGGG
1 CTGGTATTATATCCGGG
81351090 TTTAAAGTCC
Statistics
Matches: 164, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
39 152 0.93
40 12 0.07
ACGTcount: A:0.20, C:0.21, G:0.28, T:0.31
Consensus pattern (39 bp):
CTGGTATTATATCCGGGCTAAGTCCCGAAGGCATTTGTG
Found at i:81351257 original size:18 final size:18
Alignment explanation
Indices: 81351234--81351269 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
81351224 AAGTTGGTCA
81351234 GGTATGTATTATATACTT
1 GGTATGTATTATATACTT
81351252 GGTATGTATTATATACTT
1 GGTATGTATTATATACTT
81351270 TTATATGTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.06, G:0.17, T:0.50
Consensus pattern (18 bp):
GGTATGTATTATATACTT
Found at i:81353171 original size:15 final size:15
Alignment explanation
Indices: 81353161--81353190 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
81353151 TGTCTGGTTT
81353161 TGATGTGTCTGATAG
1 TGATGTGTCTGATAG
*
81353176 TGATGTGTCTAATAG
1 TGATGTGTCTGATAG
81353191 GATTAGGGTT
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:0.23, C:0.07, G:0.30, T:0.40
Consensus pattern (15 bp):
TGATGTGTCTGATAG
Found at i:81353774 original size:21 final size:22
Alignment explanation
Indices: 81353725--81353776 Score: 63
Period size: 21 Copynumber: 2.4 Consensus size: 22
81353715 TTCAAATTTT
*
81353725 GCATCTAAATGTGTTCACACTAA
1 GCAT-TAAATGTGTTCACACAAA
81353748 -CAATTAAA-GTGTTCACACAAA
1 GC-ATTAAATGTGTTCACACAAA
81353769 GCATTAAA
1 GCATTAAA
81353777 ATTCTGTTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
21 18 0.69
22 6 0.23
23 2 0.08
ACGTcount: A:0.42, C:0.19, G:0.12, T:0.27
Consensus pattern (22 bp):
GCATTAAATGTGTTCACACAAA
Found at i:81354214 original size:32 final size:32
Alignment explanation
Indices: 81354178--81354241 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
81354168 TTGATTCTTG
*
81354178 AATATTCTAGGAGCTTCTCAATTGCATGAATT
1 AATATTCTAGGAGCTTCTCAAGTGCATGAATT
81354210 AATATTCTAGGAGCTTCTCAAGTGCATGAATT
1 AATATTCTAGGAGCTTCTCAAGTGCATGAATT
81354242 TGACACTATG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.31, C:0.16, G:0.17, T:0.36
Consensus pattern (32 bp):
AATATTCTAGGAGCTTCTCAAGTGCATGAATT
Found at i:81356082 original size:21 final size:20
Alignment explanation
Indices: 81356052--81356091 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
81356042 TTCTCTCATT
*
81356052 TTTTTTTCTCAAATTTTTTTA
1 TTTTTCTCTC-AATTTTTTTA
*
81356073 TTTTTCTCTCACTTTTTTT
1 TTTTTCTCTCAATTTTTTT
81356092 CATTATCAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.12, C:0.15, G:0.00, T:0.72
Consensus pattern (20 bp):
TTTTTCTCTCAATTTTTTTA
Found at i:81358135 original size:20 final size:20
Alignment explanation
Indices: 81358086--81358136 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
81358076 CTTAGAGCAA
*
81358086 ATTTGACTTGTTTGAAAATC
1 ATTTGACTTGGTTGAAAATC
*
81358106 ATTTTAACTTGGTT-AAAATC
1 A-TTTGACTTGGTTGAAAATC
81358126 ATTTGCACTTG
1 ATTTG-ACTTG
81358137 ATTTTAAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 3 0.12
20 13 0.50
21 10 0.38
ACGTcount: A:0.29, C:0.12, G:0.14, T:0.45
Consensus pattern (20 bp):
ATTTGACTTGGTTGAAAATC
Found at i:81367757 original size:21 final size:21
Alignment explanation
Indices: 81367727--81367784 Score: 107
Period size: 21 Copynumber: 2.8 Consensus size: 21
81367717 AACGATGTAG
*
81367727 TTTTGCATTTTAACTTAATTA
1 TTTTGAATTTTAACTTAATTA
81367748 TTTTGAATTTTAACTTAATTA
1 TTTTGAATTTTAACTTAATTA
81367769 TTTTGAATTTTAACTT
1 TTTTGAATTTTAACTT
81367785 TTAAAAAAGT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.29, C:0.07, G:0.05, T:0.59
Consensus pattern (21 bp):
TTTTGAATTTTAACTTAATTA
Found at i:81367903 original size:31 final size:31
Alignment explanation
Indices: 81367868--81367926 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
81367858 GTGTAATTCA
81367868 TATTCGAGTTAAACCGAAAAACTTAATTTTT
1 TATTCGAGTTAAACCGAAAAACTTAATTTTT
* * *
81367899 TATTCGAGTTGATCCGAATAACTTAATT
1 TATTCGAGTTAAACCGAAAAACTTAATT
81367927 AACTCAAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.39
Consensus pattern (31 bp):
TATTCGAGTTAAACCGAAAAACTTAATTTTT
Found at i:81370117 original size:46 final size:47
Alignment explanation
Indices: 81370034--81370196 Score: 176
Period size: 46 Copynumber: 3.5 Consensus size: 47
81370024 TGATACCATG
* * *
81370034 TCCCAGACATGGTCTTACACTGAC--ACATCTCGTAGCCGATGCATG
1 TCCCAGACATGGTCTTACACTGGCTTACATCTCGAAGCCGATGCATA
* * *
81370079 TCCCAAACAT-ATCTTACACTGGCTTACATCTCGAAGCCGATACATA
1 TCCCAGACATGGTCTTACACTGGCTTACATCTCGAAGCCGATGCATA
* *
81370125 TCCCAGACAT-GTCTTACACTAGCTCT-CATCTC-AATGTCGATGCCATA
1 TCCCAGACATGGTCTTACACTGGCT-TACATCTCGAA-GCCGATG-CATA
*
81370172 TCCCAGACATGGTCTTACAATGGCT
1 TCCCAGACATGGTCTTACACTGGCT
81370197 CCCATAATGT
Statistics
Matches: 99, Mismatches: 13, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
44 11 0.11
45 11 0.11
46 50 0.51
47 15 0.15
48 12 0.12
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (47 bp):
TCCCAGACATGGTCTTACACTGGCTTACATCTCGAAGCCGATGCATA
Found at i:81377730 original size:48 final size:47
Alignment explanation
Indices: 81377569--81377884 Score: 224
Period size: 48 Copynumber: 6.7 Consensus size: 47
81377559 GTATAATGCT
** ** * *
81377569 GATGCCATGTCCCAGACATGGTCTTACA-TTGACTATCAAAATCGAGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTACACT-TTTATA-CG-TGCC
* * * ***
81377618 GACGCCATGTCCCAGACATGATCTTACACTAGCTCTCACATATCAGTGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTA-CACTTTTATA-C-GTGCC
*
81377668 GATGCCATGCCCCAGACATGGTCTTACACTGACACTTTTATACGTGCC
1 GATGCCATGTCCCAGACATGGTCTTACACT-ACACTTTTATACGTGCC
* *
81377716 GATGCCATGTCCCAGACATGGTCTTACACTGACAC--ATCT-CGTAGCC
1 GATGCCATGTCCCAGACATGGTCTTACACT-ACACTTTTATACGT-GCC
* *
81377762 GATG-CATGTCCCAGACAT-CTCTTACACTAGCTCTCGTTTCA-A--TGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTA-CACT--TTT-ATACGTGCC
* * * *
81377808 GATGCCATGTCCCAGACATGGTCTTACACTA-GCTCTCATAATGTAGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTACACTTTTAT-ACGT-GCC
81377856 GATG-CATGTCCCAGACAT-GTCTTACACTA
1 GATGCCATGTCCCAGACATGGTCTTACACTA
81377885 GCATACAATA
Statistics
Matches: 220, Mismatches: 28, Indels: 41
0.76 0.10 0.14
Matches are distributed among these distances:
43 2 0.01
44 12 0.05
45 18 0.08
46 29 0.13
47 30 0.14
48 57 0.26
49 27 0.12
50 41 0.19
51 4 0.02
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.26
Consensus pattern (47 bp):
GATGCCATGTCCCAGACATGGTCTTACACTACACTTTTATACGTGCC
Found at i:81377832 original size:140 final size:146
Alignment explanation
Indices: 81377569--81377883 Score: 400
Period size: 140 Copynumber: 2.2 Consensus size: 146
81377559 GTATAATGCT
*
81377569 GATGCCATGTCCCAGACATGGTCTTACATTGACTATCAAAATCGAGGCCGACGCCATGTCCCAGA
1 GATGCCATGTCCCAGACATGGTCTTACACTGACTATCAAAATCGAGGCCGACGCCATGTCCCAGA
*
81377634 CATGATCTTACACTAGCTCTCACATATCAGTGCCGATGCCATGCCCCAGACATGGTCTTACACTG
66 CATGATCTTACACTAGCTCT-ACATATCAATGCCGATGCCATGCCCCAGACATGGTCTTACACT-
* *
81377699 ACACTTTTAT-ACGT-GCC
129 A-ACTCTCATAACGTAGCC
** *
81377716 GATGCCATGTCCCAGACATGGTCTTACACTGAC-A-C-ATCTCGTA-GCCGATG-CATGTCCCAG
1 GATGCCATGTCCCAGACATGGTCTTACACTGACTATCAAAATCG-AGGCCGACGCCATGTCCCAG
* * * *
81377776 ACAT-CTCTTACACTAGCTCT-CGTTTCAATGCCGATGCCATGTCCCAGACATGGTCTTACACTA
65 ACATGATCTTACACTAGCTCTACATATCAATGCCGATGCCATGCCCCAGACATGGTCTTACACTA
* *
81377839 GCTCTCATAATGTAGCC
130 ACTCTCATAACGTAGCC
81377856 GATG-CATGTCCCAGACAT-GTCTTACACT
1 GATGCCATGTCCCAGACATGGTCTTACACT
81377884 AGCATACAAT
Statistics
Matches: 152, Mismatches: 13, Indels: 15
0.84 0.07 0.08
Matches are distributed among these distances:
138 15 0.10
139 18 0.12
140 45 0.30
142 15 0.10
143 14 0.09
144 10 0.07
145 2 0.01
146 1 0.01
147 32 0.21
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.26
Consensus pattern (146 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGACTATCAAAATCGAGGCCGACGCCATGTCCCAGA
CATGATCTTACACTAGCTCTACATATCAATGCCGATGCCATGCCCCAGACATGGTCTTACACTAA
CTCTCATAACGTAGCC
Found at i:81377884 original size:94 final size:94
Alignment explanation
Indices: 81377615--81377887 Score: 328
Period size: 94 Copynumber: 2.9 Consensus size: 94
81377605 CAAAATCGAG
* * * *
81377615 GCCGACGCCATGTCCCAGACATGATCTTACACTAGCTCTCACATATCAGT-GCCGATGCCATGCC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATA-ATC-GTAGCCGATG-CATGTC
81377679 CCAGACATGGTCTTACACT-GACACTTTTATACGT
63 CCAGACAT-GTCTTACACTAG-CACTTTTATAC-T
* * *
81377713 GCCGATGCCATGTCCCAGACATGGTCTTACACT-G-ACACAT-CTCGTAGCCGATGCATGTCCCA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAATCGTAGCCGATGCATGTCCCA
* *
81377775 GACATCTCTTACACTAGCTCTCGTTTCA-A-T
66 GACATGTCTTACACTAGCACT--TTT-ATACT
81377805 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAAT-GTAGCCGATGCATGTCCCA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAATCGTAGCCGATGCATGTCCCA
81377869 GACATGTCTTACACTAGCA
66 GACATGTCTTACACTAGCA
81377888 TACAATAACC
Statistics
Matches: 153, Mismatches: 14, Indels: 20
0.82 0.07 0.11
Matches are distributed among these distances:
92 46 0.30
93 17 0.11
94 53 0.35
95 2 0.01
96 3 0.02
97 1 0.01
98 31 0.20
ACGTcount: A:0.24, C:0.32, G:0.18, T:0.26
Consensus pattern (94 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAATCGTAGCCGATGCATGTCCCA
GACATGTCTTACACTAGCACTTTTATACT
Found at i:81392353 original size:20 final size:20
Alignment explanation
Indices: 81392328--81392369 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
81392318 TTATTATAAA
81392328 TTTTCTATAATTTATATTTT
1 TTTTCTATAATTTATATTTT
** *
81392348 TTTTCTATTTTTTGTATTTT
1 TTTTCTATAATTTATATTTT
81392368 TT
1 TT
81392370 AAATGTGTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.17, C:0.05, G:0.02, T:0.76
Consensus pattern (20 bp):
TTTTCTATAATTTATATTTT
Found at i:81401168 original size:34 final size:35
Alignment explanation
Indices: 81401118--81401196 Score: 133
Period size: 35 Copynumber: 2.3 Consensus size: 35
81401108 TTTTAGGGTT
*
81401118 TTTAGGGTTAAGG-TTTTGTTAAAATAAGTTAAGG
1 TTTAGGGTTTAGGTTTTTGTTAAAATAAGTTAAGG
*
81401152 TTTAAGGTTTAGGTTTTTGTTAAAATAAGTTAAGG
1 TTTAGGGTTTAGGTTTTTGTTAAAATAAGTTAAGG
81401187 TTTAGGGTTT
1 TTTAGGGTTT
81401197 TAGTAGATTT
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
34 11 0.27
35 30 0.73
ACGTcount: A:0.29, C:0.00, G:0.25, T:0.46
Consensus pattern (35 bp):
TTTAGGGTTTAGGTTTTTGTTAAAATAAGTTAAGG
Found at i:81401591 original size:125 final size:126
Alignment explanation
Indices: 81401266--81401659 Score: 585
Period size: 126 Copynumber: 3.1 Consensus size: 126
81401256 GGGTTTATGA
*
81401266 TTTTTCTATAGTAGTTCTTGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAA
1 TTTTTCTACAGTAGTTCTTGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAA
* * * * * * * *
81401331 ACGTTTCAAGCAGAATGCAATGTCAGTAAAATTTCTTAAAAAAGCTCCCACGTGAATGTTC
66 ACGCTTCAAGCAGGATGCAATGTCAGAAAAATTTCTGAAAAAAGCTCTCACGTGGACGCTC
* *
81401392 TTTTTCTATAGTAGTTCTTGAAAAAATAATTTTGAGAAGACATTTCTGAACAAATAGTGTCAAAA
1 TTTTTCTACAGTAGTTCTTGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAA
* *
81401457 ACGCTTCAAGCAGGATGCAATATCAGCAAAATTTCTGAAAAAAGCTCTCACGTGGACGCTC
66 ACGCTTCAAGCAGGATGCAATGTCAGAAAAATTTCTGAAAAAAGCTCTCACGTGGACGCTC
* * * * *
81401518 TGTTTT-TACAATAGTTCCTG-AAAAATAATTTTGAGAAAATGTTTCTGAATAAATAGTGTCAAA
1 T-TTTTCTACAGTAGTTCTTGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAA
*
81401581 AACACTTCAAGCAGGATGCAATGTCAGAAAAATTTCTGAAAAAAGCTCTCACGTGGACGCTC
65 AACGCTTCAAGCAGGATGCAATGTCAGAAAAATTTCTGAAAAAAGCTCTCACGTGGACGCTC
*
81401643 TTTTTGTACAGTAGTTC
1 TTTTTCTACAGTAGTTC
81401660 ATGCTTGGCC
Statistics
Matches: 245, Mismatches: 21, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
124 4 0.02
125 109 0.44
126 128 0.52
127 4 0.02
ACGTcount: A:0.37, C:0.15, G:0.16, T:0.31
Consensus pattern (126 bp):
TTTTTCTACAGTAGTTCTTGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAA
ACGCTTCAAGCAGGATGCAATGTCAGAAAAATTTCTGAAAAAAGCTCTCACGTGGACGCTC
Found at i:81405189 original size:18 final size:18
Alignment explanation
Indices: 81405163--81405205 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
81405153 GATTGGGAAA
* * *
81405163 AGGAAACATATAAGGGTT
1 AGGATACATATAAGAGCT
81405181 AGGATACATATAAGAGCT
1 AGGATACATATAAGAGCT
81405199 AGGATAC
1 AGGATAC
81405206 GCACTTGGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.44, C:0.09, G:0.26, T:0.21
Consensus pattern (18 bp):
AGGATACATATAAGAGCT
Found at i:81405297 original size:30 final size:30
Alignment explanation
Indices: 81405258--81405318 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
81405248 GTTGAGGCGT
*
81405258 TGGGTCCGGTAATTGTGTGGGCACTATTAA
1 TGGGCCCGGTAATTGTGTGGGCACTATTAA
* * *
81405288 TGGGCCCGGTGATTGTGTGGGCGCTGTTAA
1 TGGGCCCGGTAATTGTGTGGGCACTATTAA
81405318 T
1 T
81405319 AGGTTTGTGC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.15, C:0.15, G:0.38, T:0.33
Consensus pattern (30 bp):
TGGGCCCGGTAATTGTGTGGGCACTATTAA
Found at i:81405828 original size:7 final size:7
Alignment explanation
Indices: 81405818--81405856 Score: 78
Period size: 7 Copynumber: 5.6 Consensus size: 7
81405808 TTATATACAT
81405818 AATACTA
1 AATACTA
81405825 AATACTA
1 AATACTA
81405832 AATACTA
1 AATACTA
81405839 AATACTA
1 AATACTA
81405846 AATACTA
1 AATACTA
81405853 AATA
1 AATA
81405857 TGAAACGACT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.59, C:0.13, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:81406621 original size:21 final size:21
Alignment explanation
Indices: 81406588--81406637 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
81406578 TAAAAAGAGC
* *
81406588 TTTGAGAAATTTAATGAGAAA
1 TTTGAGAGATTTAAGGAGAAA
* *
81406609 TTTGAGAGCTTTAGGGAGAAA
1 TTTGAGAGATTTAAGGAGAAA
*
81406630 TTTTAGAG
1 TTTGAGAG
81406638 TTTTTTTTTA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.38, C:0.02, G:0.26, T:0.34
Consensus pattern (21 bp):
TTTGAGAGATTTAAGGAGAAA
Found at i:81410733 original size:22 final size:20
Alignment explanation
Indices: 81410708--81410748 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 20
81410698 TAAATGAAAT
81410708 AAAAGAAACAAAAGCATAAAAC
1 AAAAGAAAC-AAAGC-TAAAAC
81410730 AAAAGAAACAAAGCTAAAA
1 AAAAGAAACAAAGCTAAAA
81410749 AGAATCATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.26
21 5 0.26
22 9 0.47
ACGTcount: A:0.73, C:0.12, G:0.10, T:0.05
Consensus pattern (20 bp):
AAAAGAAACAAAGCTAAAAC
Found at i:81426648 original size:19 final size:18
Alignment explanation
Indices: 81426615--81426653 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
81426605 AGAAATTGAG
81426615 ATAAAAAAAGGGAAAATA
1 ATAAAAAAAGGGAAAATA
*
81426633 ATAAAATAATGGGAAAATA
1 ATAAAA-AAAGGGAAAATA
81426652 AT
1 AT
81426654 TTAAAATATC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 6 0.32
19 13 0.68
ACGTcount: A:0.67, C:0.00, G:0.15, T:0.18
Consensus pattern (18 bp):
ATAAAAAAAGGGAAAATA
Found at i:81426909 original size:2 final size:2
Alignment explanation
Indices: 81426904--81426941 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
81426894 ACACACACAC
81426904 AT AT AT AT 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 AT AT AT AT
81426942 TTGAAATCAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:81427346 original size:15 final size:14
Alignment explanation
Indices: 81427330--81427380 Score: 50
Period size: 14 Copynumber: 3.5 Consensus size: 14
81427320 GCAGCTAGAT
81427330 TTTAAGTTTTAAAA
1 TTTAAGTTTTAAAA
*
81427344 TTTAA-TTATTTAAA
1 TTTAAGTT-TTAAAA
*
81427358 TTAATAGTTTTAAAA
1 TTTA-AGTTTTAAAA
81427373 TTTTAAGT
1 -TTTAAGT
81427381 ATTGTATAAC
Statistics
Matches: 29, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
13 2 0.07
14 13 0.45
15 9 0.31
16 5 0.17
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (14 bp):
TTTAAGTTTTAAAA
Found at i:81427998 original size:49 final size:52
Alignment explanation
Indices: 81427945--81428043 Score: 141
Period size: 52 Copynumber: 2.0 Consensus size: 52
81427935 AAATTTAAGC
* * *
81427945 ATGTTGAATGATTT-A-AAAAACA-GTTATGATGAAAGAATTTGAAATGACT
1 ATGTTCAATGATTTAAGAAAAAAATGTTATGATCAAAGAATTTGAAATGACT
*
81427994 ATGTTCAATGGTTTAAGAAAAAAATGTTATGATCAAAGAATTTGAAATGA
1 ATGTTCAATGATTTAAGAAAAAAATGTTATGATCAAAGAATTTGAAATGA
81428044 TAAATATTAG
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
49 12 0.28
50 1 0.02
51 6 0.14
52 24 0.56
ACGTcount: A:0.45, C:0.04, G:0.18, T:0.32
Consensus pattern (52 bp):
ATGTTCAATGATTTAAGAAAAAAATGTTATGATCAAAGAATTTGAAATGACT
Found at i:81429186 original size:21 final size:21
Alignment explanation
Indices: 81429143--81429182 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
81429133 TATTTGATTT
81429143 TTTTTGAAATTATAAAAAATA
1 TTTTTGAAATTATAAAAAATA
*
81429164 TTTTT-AAATTTTAAAAAAT
1 TTTTTGAAATTATAAAAAAT
81429183 TATTAATTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (21 bp):
TTTTTGAAATTATAAAAAATA
Found at i:81430561 original size:25 final size:24
Alignment explanation
Indices: 81430514--81430561 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
81430504 CCACATGGCA
*
81430514 ATTAAATTTATTTAAAATTAAAAT
1 ATTAAATTTAATTAAAATTAAAAT
*
81430538 ATTAAATTATAATTATAATTAAAA
1 ATTAAATT-TAATTAAAATTAAAA
81430562 ATAGAAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 8 0.38
25 13 0.62
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (24 bp):
ATTAAATTTAATTAAAATTAAAAT
Found at i:81431096 original size:19 final size:20
Alignment explanation
Indices: 81431050--81431101 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 20
81431040 TGTAAATTTT
*
81431050 ATTTTTATA-ATTTTTTATA
1 ATTTTTATATATTTTTAATA
*
81431069 ATTTATATATATTTTTAAT-
1 ATTTTTATATATTTTTAATA
*
81431088 TTTTTTATATATTT
1 ATTTTTATATATTT
81431102 ACTTCTATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 20 0.71
20 8 0.29
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (20 bp):
ATTTTTATATATTTTTAATA
Found at i:81431110 original size:29 final size:29
Alignment explanation
Indices: 81431049--81431121 Score: 87
Period size: 29 Copynumber: 2.5 Consensus size: 29
81431039 TTGTAAATTT
*
81431049 TATTTTTATAATTTTTTATAATTTATATA
1 TATTTTTATATTTTTTTATAATTTATATA
*
81431078 TATTTTTA-ATTTTTTTATATATTTACT-TC
1 TATTTTTATATTTTTTTATA-ATTTA-TATA
*
81431107 TATTTTCATATTTTT
1 TATTTTTATATTTTT
81431122 AATGTCTATA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
28 10 0.26
29 21 0.55
30 7 0.18
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.68
Consensus pattern (29 bp):
TATTTTTATATTTTTTTATAATTTATATA
Found at i:81434410 original size:43 final size:43
Alignment explanation
Indices: 81434346--81434474 Score: 152
Period size: 43 Copynumber: 3.0 Consensus size: 43
81434336 TTTATTTGAA
* **
81434346 AAAAATGCCAC-AAAAGATCATGAATTTTAGCGGCGTTTGTGGG
1 AAAAATGCCGCTAAAAG-TCATGGCTTTTAGCGGCGTTTGTGGG
81434389 AAAAATGCCGCTAAAAGTCATGGCTTTTAGCGGCGTTTGTGGG
1 AAAAATGCCGCTAAAAGTCATGGCTTTTAGCGGCGTTTGTGGG
** ** * * *
81434432 GGAAGCGCCGTTACAAGTGATGGCTTTTAGCGGCGTTTGTGGG
1 AAAAATGCCGCTAAAAGTCATGGCTTTTAGCGGCGTTTGTGGG
81434475 GGAAGCATCG
Statistics
Matches: 75, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
43 70 0.93
44 5 0.07
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.27
Consensus pattern (43 bp):
AAAAATGCCGCTAAAAGTCATGGCTTTTAGCGGCGTTTGTGGG
Found at i:81434475 original size:43 final size:43
Alignment explanation
Indices: 81434370--81434507 Score: 177
Period size: 43 Copynumber: 3.2 Consensus size: 43
81434360 AGATCATGAA
** **
81434370 TTTTAGCGGCGTTTGTGGGAAAAATGCCGCTAAAAGTCATGGC
1 TTTTAGCGGCGTTTGTGGGGGAAGCGCCGCTAAAAGTCATGGC
* * *
81434413 TTTTAGCGGCGTTTGTGGGGGAAGCGCCGTTACAAGTGATGGC
1 TTTTAGCGGCGTTTGTGGGGGAAGCGCCGCTAAAAGTCATGGC
** * *
81434456 TTTTAGCGGCGTTTGTGGGGGAAGCATCGCTAAAAGTTATGAC
1 TTTTAGCGGCGTTTGTGGGGGAAGCGCCGCTAAAAGTCATGGC
81434499 TTTTAGCGG
1 TTTTAGCGG
81434508 AGCTTTTGTC
Statistics
Matches: 82, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 82 1.00
ACGTcount: A:0.21, C:0.15, G:0.34, T:0.30
Consensus pattern (43 bp):
TTTTAGCGGCGTTTGTGGGGGAAGCGCCGCTAAAAGTCATGGC
Found at i:81434647 original size:32 final size:31
Alignment explanation
Indices: 81434587--81434648 Score: 79
Period size: 32 Copynumber: 2.0 Consensus size: 31
81434577 TCCTGTATTA
* *
81434587 AAATCTAACCAAAAACAGCAAATATAGCATG
1 AAATCCAACCAAAAACAGAAAATATAGCATG
* *
81434618 AAATCCAACCAAAAAATAGAAAATGTAGCAT
1 AAATCCAACC-AAAAACAGAAAATATAGCAT
81434649 AAAAAATACA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
31 9 0.35
32 17 0.65
ACGTcount: A:0.56, C:0.18, G:0.10, T:0.16
Consensus pattern (31 bp):
AAATCCAACCAAAAACAGAAAATATAGCATG
Found at i:81435372 original size:13 final size:14
Alignment explanation
Indices: 81435346--81435374 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
81435336 ATTAACGACG
81435346 AATTAAACCATTAT
1 AATTAAACCATTAT
81435360 AATTAAA-CATTAT
1 AATTAAACCATTAT
81435373 AA
1 AA
81435375 ATATTTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACCATTAT
Found at i:81439658 original size:26 final size:26
Alignment explanation
Indices: 81439629--81439683 Score: 92
Period size: 26 Copynumber: 2.1 Consensus size: 26
81439619 GATCACGTGT
*
81439629 GTAGTACTAAGTGTAAGCTACTATGC
1 GTAGTACTAAGTGCAAGCTACTATGC
*
81439655 GTAGTACTAAGTGCAGGCTACTATGC
1 GTAGTACTAAGTGCAAGCTACTATGC
81439681 GTA
1 GTA
81439684 CCCGATAACT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.29
Consensus pattern (26 bp):
GTAGTACTAAGTGCAAGCTACTATGC
Found at i:81439674 original size:77 final size:77
Alignment explanation
Indices: 81439578--81439728 Score: 257
Period size: 77 Copynumber: 2.0 Consensus size: 77
81439568 CAGGGCATGT
* *
81439578 GTAGTACTAAGTGCAGGCTACTATACGTACCCGATAACTTCGATCACGTGTGTAGTACTAAGTGT
1 GTAGTACTAAGTGCAGGCTACTATACGTACCCGATAACTTCGATCACGTATGTAGTACTAAGTGC
81439643 AAGCTACTATGC
66 AAGCTACTATGC
* *
81439655 GTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGATCATGTATGTAGTACTAAGTGC
1 GTAGTACTAAGTGCAGGCTACTATACGTACCCGATAACTTCGATCACGTATGTAGTACTAAGTGC
*
81439720 AGGCTACTA
66 AAGCTACTA
81439729 CGTGTATCAG
Statistics
Matches: 69, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
77 69 1.00
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (77 bp):
GTAGTACTAAGTGCAGGCTACTATACGTACCCGATAACTTCGATCACGTATGTAGTACTAAGTGC
AAGCTACTATGC
Done.