Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A07
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: 92880876
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2857347 characters in sequence are not A, C, G, or T
File 106 of 290
Found at i:32881197 original size:20 final size:19
Alignment explanation
Indices: 32881172--32881237 Score: 51
Period size: 21 Copynumber: 3.2 Consensus size: 19
32881162 ACGAGCTTCC
32881172 GTTAACTCATATGAGTTTCA
1 GTTAACTC-TATGAGTTTCA
* * *
32881192 GTTAACCCTTTTGGGGTTTCA
1 GTTAACTC-TAT-GAGTTTCA
*
32881213 GTTCAACTCTGATGAGCTTCA
1 GTT-AACTCT-ATGAGTTTCA
32881234 GTTA
1 GTTA
32881238 GCCTCCGGGC
Statistics
Matches: 35, Mismatches: 8, Indels: 6
0.71 0.16 0.12
Matches are distributed among these distances:
20 10 0.29
21 20 0.57
22 5 0.14
ACGTcount: A:0.23, C:0.18, G:0.20, T:0.39
Consensus pattern (19 bp):
GTTAACTCTATGAGTTTCA
Found at i:32881367 original size:39 final size:39
Alignment explanation
Indices: 32881228--32881348 Score: 233
Period size: 39 Copynumber: 3.1 Consensus size: 39
32881218 ACTCTGATGA
*
32881228 GCTTCAGTTAGCCTCCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
32881267 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
32881306 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
32881345 GCTT
1 GCTT
32881349 TAGCTAGATT
Statistics
Matches: 81, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
39 81 1.00
ACGTcount: A:0.12, C:0.26, G:0.23, T:0.38
Consensus pattern (39 bp):
GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
Found at i:32886170 original size:39 final size:38
Alignment explanation
Indices: 32886125--32886212 Score: 117
Period size: 36 Copynumber: 2.3 Consensus size: 38
32886115 TAAAATTATA
**
32886125 TTTAATATAATAAAATATTTATTATATTTAT-TTGTGTTT
1 TTTAATATAA-AAAA-ATTTATTATATTTATGTAATGTTT
32886164 TTTAATAT-AAAAAATTTATTATATTTATGGTAATGTTT
1 TTTAATATAAAAAAATTTATTATATTTAT-GTAATGTTT
32886202 TTTAATATAAA
1 TTTAATATAAA
32886213 TAATTTTAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
36 15 0.34
37 4 0.09
38 15 0.34
39 10 0.23
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.55
Consensus pattern (38 bp):
TTTAATATAAAAAAATTTATTATATTTATGTAATGTTT
Found at i:32886174 original size:36 final size:37
Alignment explanation
Indices: 32886134--32886218 Score: 118
Period size: 38 Copynumber: 2.3 Consensus size: 37
32886124 ATTTAATATA
* **
32886134 ATAAAATATTTATTATATTTAT-TTGTGTTTTTTAAT
1 ATAAAAAATTTATTATATTTATGTAATGTTTTTTAAT
32886170 ATAAAAAATTTATTATATTTATGGTAATGTTTTTTAAT
1 ATAAAAAATTTATTATATTTAT-GTAATGTTTTTTAAT
*
32886208 ATAAATAATTT
1 ATAAAAAATTT
32886219 TAATGTATTT
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
36 21 0.49
38 22 0.51
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (37 bp):
ATAAAAAATTTATTATATTTATGTAATGTTTTTTAAT
Found at i:32888212 original size:369 final size:364
Alignment explanation
Indices: 32887575--32888656 Score: 1513
Period size: 369 Copynumber: 3.0 Consensus size: 364
32887565 TTTGGTTAGT
* ** ** *
32887575 TGAAAATGCAGCTGCTTAAGGAGATAAGAAGTGCATGCAAAGCAATAAAATGAGGATATGGGCTT
1 TGAAACTGCAGCCACTTAAGGAGATAAGAAGTGCATATAAAGCAATAAAATGAGGATA-AGGCTT
** * * *
32887640 CAATCATTTGATGAAGTGACAATGCAACACTTAGCGAATGTTAAATTGACCATCTTGAAATGAAG
65 CAATCATTTGATGAAGTGACAATGTGACATTTAGCGAATGATAAATTGACCATCTTGGAATGAAG
* *
32887705 TCATATGGACAGTTGACCTTCTAAGTTCCAACATTGGTGAATTGCCCGTACAATG-TTAGAGAGT
130 -CATATGGACAGTTGACCTTCTAAGTTCTAACATTGGTGAATTGCCAGTACAA-GATTAGAGAGT
** *
32887769 AAATGCTATGGAGGAATTCAACTTCAAGTTT-CAGACAAGAAAATAAGAAGCTGCAACCTTAGAT
193 AAATGCTATGGAGGAATTCAACTTCAAGTTTACAGATGAGAAAATAAGAAGCTGCAATCTTAGAT
*
32887833 TATTACATAAACTGGTGAACACTTGAAGATTGGCATTCACTAAGGAATAAGTGCAAAGCTAGCAG
258 TATTACATAAACTGGT-AACA-TTGAAGATTGGCATTCAATAAGGAATAAGTGCAAAGCTAGCAG
*
32887898 CTACTAGAAAAAGTAGAATTTTGCATAGCATCAATGGGTTATAA
321 CTACTAGAAAAAGTAGAATTTTGCATAGCATCAATGGGTTACAA
*
32887942 TGAAACTG-TGACCACTTAAGGAGATAAGAAGTGCATATAGAAGCAATAGAAATGAGGATAAGAG
1 TGAAACTGCAG-CCACTTAAGGAGATAAGAAGTGCATATA-AAGCAATA-AAATGAGGATAAG-G
* * * *
32888006 CTTCAATCATTTGATGAAGTGACAATGTGCCATTTAGCAAATGATAAATTGACCACCTTGGAAGG
62 CTTCAATCATTTGATGAAGTGACAATGTGACATTTAGCGAATGATAAATTGACCATCTTGGAATG
* * *
32888071 AAGCCATATGGACACTTGACCTTCTAAGTTCTAA-ATTGGTGCATTGCCAGTAGAAGATTAGAGA
127 AAG-CATATGGACAGTTGACCTTCTAAGTTCTAACATTGGTGAATTGCCAGTACAAGATTAGAGA
* * * *
32888135 GTAAATGCCATGAAGGAATTTAACTTCAAGTTTACAAATGAGAAAATAAGAAGCTGCAATCTTAG
191 GTAAATGCTATGGAGGAATTCAACTTCAAGTTTACAGATGAGAAAATAAGAAGCTGCAATCTTAG
* * *
32888200 ATTATTACATAAACTGGTAA-ATAGAAGATCGGCATTCAATAAGGAATAAGTACAAAGCTAGCAG
256 ATTATTACATAAACTGGTAACATTGAAGATTGGCATTCAATAAGGAATAAGTGCAAAGCTAGCAG
*
32888264 CTACTAGAGAAAGTAGAATTTTGCATAGCATCAATGGGTTACAA
321 CTACTAGAAAAAGTAGAATTTTGCATAGCATCAATGGGTTACAA
* *
32888308 TGAAACTGCAGCCACTTAAGGAGATAAGAAATGCATATAAAAACAATAAAAATGAGG-T-AGGCT
1 TGAAACTGCAGCCACTTAAGGAGATAAGAAGTGCATAT-AAAGCAAT-AAAATGAGGATAAGGCT
* *
32888371 TCAATCATTGGATGAAGTGACAATGTGACATTTAGCGAATGATAAATTGACCATCTCGGAATGAA
64 TCAATCATTTGATGAAGTGACAATGTGACATTTAGCGAATGATAAATTGACCATCTTGGAATGAA
* * *
32888436 G---ATGGACAGTAGGCCTTCTAAGTTCTAACATTGGTGTATTGCCAGTACAAGATTAGAGAGTA
129 GCATATGGACAGTTGACCTTCTAAGTTCTAACATTGGTGAATTGCCAGTACAAGATTAGAGAGTA
32888498 AATGCTATGGAGGAATTCAACTTCAAGTTTACAGATGAGAAAATAAGAAGCTGCAATCTTAGATT
194 AATGCTATGGAGGAATTCAACTTCAAGTTTACAGATGAGAAAATAAGAAGCTGCAATCTTAGATT
* * * *
32888563 ATTACATAAAATGGCAAACATTTGAAGATTGGGATTCAATAATGAATAAGTGCAAAGCTAG-ATG
259 ATTACATAAACTGG-TAACA-TTGAAGATTGGCATTCAATAAGGAATAAGTGCAAAGCTAGCA-G
* *
32888627 CCACTAGAAATAA-TAGAATTTAGCATAGCA
321 CTACTAGAAA-AAGTAGAATTTTGCATAGCA
32888657 CGGATATAAT
Statistics
Matches: 637, Mismatches: 63, Indels: 34
0.87 0.09 0.05
Matches are distributed among these distances:
359 24 0.04
360 105 0.16
361 2 0.00
362 2 0.00
363 123 0.19
364 4 0.01
365 1 0.00
366 130 0.20
367 36 0.06
368 66 0.10
369 144 0.23
ACGTcount: A:0.39, C:0.14, G:0.21, T:0.26
Consensus pattern (364 bp):
TGAAACTGCAGCCACTTAAGGAGATAAGAAGTGCATATAAAGCAATAAAATGAGGATAAGGCTTC
AATCATTTGATGAAGTGACAATGTGACATTTAGCGAATGATAAATTGACCATCTTGGAATGAAGC
ATATGGACAGTTGACCTTCTAAGTTCTAACATTGGTGAATTGCCAGTACAAGATTAGAGAGTAAA
TGCTATGGAGGAATTCAACTTCAAGTTTACAGATGAGAAAATAAGAAGCTGCAATCTTAGATTAT
TACATAAACTGGTAACATTGAAGATTGGCATTCAATAAGGAATAAGTGCAAAGCTAGCAGCTACT
AGAAAAAGTAGAATTTTGCATAGCATCAATGGGTTACAA
Found at i:32890410 original size:60 final size:57
Alignment explanation
Indices: 32890328--32890443 Score: 135
Period size: 57 Copynumber: 2.0 Consensus size: 57
32890318 ACACTGAAAC
* * * *
32890328 CAAACTTAGGTACTTAAATGGGACAAAGAAAAACTCAAGTACCAAAGTGAACTTTGAAGT
1 CAAACTTAAGTACTCAAATGGGAC--A-AAAAACTCAAATACCAAAGTGAACATTGAAGT
* *
32890388 CAAACTTAAGTAC-CAAATTGGGACAAAAAACTCAAATACCGAATTGAACATTGAAG
1 CAAACTTAAGTACTCAAA-TGGGACAAAAAACTCAAATACCAAAGTGAACATTGAAG
32890444 CTAAATTTAT
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
57 27 0.55
58 1 0.02
59 3 0.06
60 18 0.37
ACGTcount: A:0.47, C:0.16, G:0.16, T:0.21
Consensus pattern (57 bp):
CAAACTTAAGTACTCAAATGGGACAAAAAACTCAAATACCAAAGTGAACATTGAAGT
Found at i:32891172 original size:24 final size:24
Alignment explanation
Indices: 32891128--32891174 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 24
32891118 TTTGACAAGT
32891128 TTAGGTACAAATTGAGAAAAAAGC
1 TTAGGTACAAATTGAGAAAAAAGC
32891152 TTAGGTACCAAATT-AGGAAAAAA
1 TTAGGTA-CAAATTGA-GAAAAAA
32891175 ATGTCAAGTC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 8 0.38
25 13 0.62
ACGTcount: A:0.51, C:0.09, G:0.19, T:0.21
Consensus pattern (24 bp):
TTAGGTACAAATTGAGAAAAAAGC
Found at i:32894205 original size:24 final size:25
Alignment explanation
Indices: 32894153--32894211 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
32894143 TAGCCCTCTC
* *
32894153 GAGCTTCCCGTTATATAGTTTTTGC
1 GAGCTTCCCGTTATATAGTCTTTGA
32894178 GAGCTTCCCGTTA-ATAGCTCTTT-A
1 GAGCTTCCCGTTATATAG-TCTTTGA
*
32894202 GAGCATCCCG
1 GAGCTTCCCG
32894212 ATTGGTTGTG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
24 13 0.43
25 17 0.57
ACGTcount: A:0.19, C:0.25, G:0.20, T:0.36
Consensus pattern (25 bp):
GAGCTTCCCGTTATATAGTCTTTGA
Found at i:32905461 original size:2 final size:2
Alignment explanation
Indices: 32905454--32905484 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
32905444 CAAAGTTCCT
*
32905454 TC TC TC TC TC TC TT TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
32905485 TATCAACTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.45, G:0.00, T:0.55
Consensus pattern (2 bp):
TC
Found at i:32927785 original size:31 final size:28
Alignment explanation
Indices: 32927729--32927791 Score: 72
Period size: 31 Copynumber: 2.1 Consensus size: 28
32927719 TAGATATTTA
*
32927729 TTATTTATTATTATTAAATAAAAGATGT
1 TTATTTATGATTATTAAATAAAAGATGT
* *
32927757 TTATTTGATGATTAATTAAATTATAAGATTT
1 TTATTT-ATGATT-ATTAAA-TAAAAGATGT
32927788 TTAT
1 TTAT
32927792 GAGGTAAACA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
28 6 0.21
29 5 0.17
30 6 0.21
31 12 0.41
ACGTcount: A:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (28 bp):
TTATTTATGATTATTAAATAAAAGATGT
Found at i:32929556 original size:12 final size:12
Alignment explanation
Indices: 32929533--32929563 Score: 53
Period size: 12 Copynumber: 2.5 Consensus size: 12
32929523 TATGAGAAAG
32929533 TGAAATTATGAAT
1 TGAAA-TATGAAT
32929546 TGAAATATGAAT
1 TGAAATATGAAT
32929558 TGAAAT
1 TGAAAT
32929564 TGAGATATCG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 13 0.72
13 5 0.28
ACGTcount: A:0.48, C:0.00, G:0.16, T:0.35
Consensus pattern (12 bp):
TGAAATATGAAT
Found at i:32929847 original size:14 final size:15
Alignment explanation
Indices: 32929828--32929861 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
32929818 TTGAGATATA
32929828 GAAATAA-AATTTAT
1 GAAATAATAATTTAT
*
32929842 GAAATAATGATTTAT
1 GAAATAATAATTTAT
32929857 GAAAT
1 GAAAT
32929862 GGTTATTGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 7 0.39
15 11 0.61
ACGTcount: A:0.53, C:0.00, G:0.12, T:0.35
Consensus pattern (15 bp):
GAAATAATAATTTAT
Found at i:32934111 original size:261 final size:261
Alignment explanation
Indices: 32933647--32934168 Score: 990
Period size: 261 Copynumber: 2.0 Consensus size: 261
32933637 TCTGAACTCT
32933647 TCAGCTCCATACTTTCTAATTCTATCAACATGTGGGTTATTCAATCACAAAGGTTCCAAACATTA
1 TCAGCTCCATACTTTCTAATTCTATCAACATGTGGGTTATTCAATCACAAAGGTTCCAAACATTA
*
32933712 TGGAGCTACAGGAACCGGTTGGGGATTAAGAGGGGATGGAGACTGTTAAGTAGTCAAATTCATTT
66 TGGAGCTACAGGAACCGGTTGGGGATTAAGAGGGGATGGAGACTGTTAAGCAGTCAAATTCATTT
* *
32933777 GGACATACTTAGTGAACCATTCGTTCATCATTTGGAAGAAGGCTTCTTTAGCCTCTCCTCCTTAG
131 AGACATACTTAGTGAACCATTCGTTCATCATTTGGAAGAAGGCTTCTTCAGCCTCTCCTCCTTAG
32933842 CTACCCGATACGGGTCTAGATCTAGATGGCGCTGTCCCTTGAACGAGATCTGGCTCATTACTTTC
196 CTACCCGATACGGGTCTAGATCTAGATGGCGCTGTCCCTTGAACGAGATCTGGCTCATTACTTTC
32933907 A
261 A
*
32933908 TCAGCTCCATACTTTCTAATTCTATCAACATGTGGGTTATTCAATCGCAAAGGTTCCAAACATTA
1 TCAGCTCCATACTTTCTAATTCTATCAACATGTGGGTTATTCAATCACAAAGGTTCCAAACATTA
*
32933973 TGGAGCTACAGGAACCGGTTGGGGATTAAGAGGGGATGGAGGCTGTTAAGCAGTCAAATTCATTT
66 TGGAGCTACAGGAACCGGTTGGGGATTAAGAGGGGATGGAGACTGTTAAGCAGTCAAATTCATTT
32934038 AGACATACTTAGTGAACCATTCGTTCATCATTTGGAAGAAGGCTTCTTCAGCCTCTCCTCCTTAG
131 AGACATACTTAGTGAACCATTCGTTCATCATTTGGAAGAAGGCTTCTTCAGCCTCTCCTCCTTAG
*
32934103 TTACCCGATACGGGTCTAGATCTAGATGGCGCTGTCCCTTGAACGAGATCTGGCTCATTACTTTC
196 CTACCCGATACGGGTCTAGATCTAGATGGCGCTGTCCCTTGAACGAGATCTGGCTCATTACTTTC
32934168 A
261 A
32934169 ACCTCATCAG
Statistics
Matches: 255, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
261 255 1.00
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (261 bp):
TCAGCTCCATACTTTCTAATTCTATCAACATGTGGGTTATTCAATCACAAAGGTTCCAAACATTA
TGGAGCTACAGGAACCGGTTGGGGATTAAGAGGGGATGGAGACTGTTAAGCAGTCAAATTCATTT
AGACATACTTAGTGAACCATTCGTTCATCATTTGGAAGAAGGCTTCTTCAGCCTCTCCTCCTTAG
CTACCCGATACGGGTCTAGATCTAGATGGCGCTGTCCCTTGAACGAGATCTGGCTCATTACTTTC
A
Found at i:32938052 original size:17 final size:18
Alignment explanation
Indices: 32938032--32938069 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
32938022 ATTATTCTTT
32938032 ATTTCTTTTCATTTT-TC
1 ATTTCTTTTCATTTTATC
* *
32938049 ATTTTTTTTCTTTTTATC
1 ATTTCTTTTCATTTTATC
32938067 ATT
1 ATT
32938070 ATTAAGAATC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 13 0.72
18 5 0.28
ACGTcount: A:0.13, C:0.13, G:0.00, T:0.74
Consensus pattern (18 bp):
ATTTCTTTTCATTTTATC
Found at i:32939959 original size:72 final size:73
Alignment explanation
Indices: 32939872--32940008 Score: 190
Period size: 71 Copynumber: 1.9 Consensus size: 73
32939862 ATTTAAATGA
* *
32939872 TATTTAAATTCATTAATATTATAATATATAGACTATATAAAT-TTAAATTATAATAAAAA-TATT
1 TATTTAAATTAATTAATATTATAATATA-AGAATATAT-AATCTTAAATTATAATAAAAATTATT
32939935 AAAAATAAGT
64 AAAAATAAGT
* * *
32939945 TATTTAAA-TAATTAATATTATGATATAGGAATATATAATCTTAAGTTATAATAAAAATTATTAA
1 TATTTAAATTAATTAATATTATAATATAAGAATATATAATCTTAAATTATAATAAAAATTATTAA
32940009 CATTGGGCAA
Statistics
Matches: 57, Mismatches: 5, Indels: 5
0.85 0.07 0.07
Matches are distributed among these distances:
70 3 0.05
71 23 0.40
72 23 0.40
73 8 0.14
ACGTcount: A:0.52, C:0.02, G:0.04, T:0.42
Consensus pattern (73 bp):
TATTTAAATTAATTAATATTATAATATAAGAATATATAATCTTAAATTATAATAAAAATTATTAA
AAATAAGT
Found at i:32940899 original size:20 final size:19
Alignment explanation
Indices: 32940861--32940916 Score: 78
Period size: 20 Copynumber: 2.9 Consensus size: 19
32940851 AAATAAAAAA
32940861 TTTATAA-TTTTAAATTTG
1 TTTATAATTTTTAAATTTG
*
32940879 TTTATAATTTTTATGATTTG
1 TTTATAATTTTTA-AATTTG
*
32940899 TTTATAATTTTAAAATTT
1 TTTATAATTTTTAAATTT
32940917 TAAAAGAGCT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
18 7 0.21
19 9 0.27
20 17 0.52
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.62
Consensus pattern (19 bp):
TTTATAATTTTTAAATTTG
Found at i:32940908 original size:11 final size:11
Alignment explanation
Indices: 32940869--32940908 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
32940859 AATTTATAAT
32940869 TTTA-AATTTG
1 TTTATAATTTG
32940879 TTTATAA-TT-
1 TTTATAATTTG
*
32940888 TTTATGATTTG
1 TTTATAATTTG
32940899 TTTATAATTT
1 TTTATAATTT
32940909 TAAAATTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
9 6 0.24
10 8 0.32
11 11 0.44
ACGTcount: A:0.28, C:0.00, G:0.07, T:0.65
Consensus pattern (11 bp):
TTTATAATTTG
Found at i:32941035 original size:15 final size:15
Alignment explanation
Indices: 32941015--32941044 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
32941005 TCCAAATAAA
32941015 GAGTAGGGGTCAAAT
1 GAGTAGGGGTCAAAT
32941030 GAGTAGGGGTCAAAT
1 GAGTAGGGGTCAAAT
32941045 TGTATGTGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.07, G:0.40, T:0.20
Consensus pattern (15 bp):
GAGTAGGGGTCAAAT
Found at i:32943669 original size:152 final size:152
Alignment explanation
Indices: 32943410--32943693 Score: 381
Period size: 152 Copynumber: 1.9 Consensus size: 152
32943400 TACACAAATA
* * *
32943410 GGGTGAAATTTACTACATTCCATTCACCGAAGGTGCCAATTTCTAAATTTGGAAACTCAATTGAC
1 GGGTGAAATTTACTAAATTCCATTCACCGAAGGTGCCAATTTCTAAATTTGGAAAATCAATTGAA
* * * * *
32943475 TTGCGATAACTTTTTAGATAGGATTCTAATATTTCTAGGTCAATATTTCCTCATATCGATTGAAG
66 TTGCGACAACTTTTTAGATAGGATACTAACATTTCTAGGTCAATATGTCCTCATATCGATCGAAG
32943540 ATATGTGATACATATACGGAGG
131 ATATGTGATACATATACGGAGG
* * * * *
32943562 GGGTGAAATTTATTAAATTCCATTCATCGAAGGTGTCAATTTTTAAGTTTGGAAAATCAATTGAA
1 GGGTGAAATTTACTAAATTCCATTCACCGAAGGTGCCAATTTCTAAATTTGGAAAATCAATTGAA
* * * * * *
32943627 TTGTGACAACTTTTTGGATTGGATAC-AGACATTTCTGGGTCAATATGTCTTCATATTGATCGAA
66 TTGCGACAACTTTTTAGATAGGATACTA-ACATTTCTAGGTCAATATGTCCTCATATCGATCGAA
32943691 GAT
130 GAT
32943694 CTATCTCTTA
Statistics
Matches: 112, Mismatches: 19, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
151 1 0.01
152 111 0.99
ACGTcount: A:0.31, C:0.14, G:0.19, T:0.36
Consensus pattern (152 bp):
GGGTGAAATTTACTAAATTCCATTCACCGAAGGTGCCAATTTCTAAATTTGGAAAATCAATTGAA
TTGCGACAACTTTTTAGATAGGATACTAACATTTCTAGGTCAATATGTCCTCATATCGATCGAAG
ATATGTGATACATATACGGAGG
Found at i:32945741 original size:20 final size:20
Alignment explanation
Indices: 32945718--32945755 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
32945708 CGATGCTTTT
**
32945718 TGTTAATTTTTAGTTTTTAG
1 TGTTAATTGGTAGTTTTTAG
32945738 TGTTAATTGGTAGTTTTT
1 TGTTAATTGGTAGTTTTT
32945756 CTTACATTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.18, C:0.00, G:0.18, T:0.63
Consensus pattern (20 bp):
TGTTAATTGGTAGTTTTTAG
Found at i:32947061 original size:13 final size:14
Alignment explanation
Indices: 32947043--32947072 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
32947033 CTATGTGTTC
32947043 TTTA-TTTTATTTT
1 TTTATTTTTATTTT
32947056 TTTATTTTTATTTT
1 TTTATTTTTATTTT
32947070 TTT
1 TTT
32947073 CACAAATTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (14 bp):
TTTATTTTTATTTT
Found at i:32959236 original size:24 final size:24
Alignment explanation
Indices: 32959203--32959258 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 24
32959193 TTTATTTTTA
32959203 TATAAA-TAAA-AAATAAAATTAAT
1 TATAAATTAAAGAAA-AAAATTAAT
*
32959226 TATAAATTAAAGGAAAAAATTAAT
1 TATAAATTAAAGAAAAAAATTAAT
*
32959250 T-TTAATTAA
1 TATAAATTAA
32959259 GGTAATCATG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
23 13 0.45
24 14 0.48
25 2 0.07
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (24 bp):
TATAAATTAAAGAAAAAAATTAAT
Found at i:32963265 original size:28 final size:28
Alignment explanation
Indices: 32963233--32963286 Score: 108
Period size: 28 Copynumber: 1.9 Consensus size: 28
32963223 TTGTATGTGA
32963233 GTAAATATGTATTAGTTGAATAAGTTGT
1 GTAAATATGTATTAGTTGAATAAGTTGT
32963261 GTAAATATGTATTAGTTGAATAAGTT
1 GTAAATATGTATTAGTTGAATAAGTT
32963287 TAAAATTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.37, C:0.00, G:0.20, T:0.43
Consensus pattern (28 bp):
GTAAATATGTATTAGTTGAATAAGTTGT
Found at i:32972155 original size:64 final size:64
Alignment explanation
Indices: 32972054--32972181 Score: 238
Period size: 64 Copynumber: 2.0 Consensus size: 64
32972044 TCCCAAGCTA
32972054 CTTTGCATTCATCAGATGTCTCATCTCCTTCACAAACTTGCTTGGCTTCTGTCACTTTCTTCTC
1 CTTTGCATTCATCAGATGTCTCATCTCCTTCACAAACTTGCTTGGCTTCTGTCACTTTCTTCTC
* *
32972118 CTTTGCATTCATTAGATGTCTCATCTGCTTCACAAACTTGCTTGGCTTCTGTCACTTTCTTCTC
1 CTTTGCATTCATCAGATGTCTCATCTCCTTCACAAACTTGCTTGGCTTCTGTCACTTTCTTCTC
32972182 AATCATCTCA
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
64 62 1.00
ACGTcount: A:0.16, C:0.30, G:0.12, T:0.43
Consensus pattern (64 bp):
CTTTGCATTCATCAGATGTCTCATCTCCTTCACAAACTTGCTTGGCTTCTGTCACTTTCTTCTC
Found at i:32972898 original size:11 final size:11
Alignment explanation
Indices: 32972882--32972912 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
32972872 ATTTTCTATA
32972882 TATATATTTTT
1 TATATATTTTT
32972893 TATATATTTTT
1 TATATATTTTT
32972904 TATATATTT
1 TATATATTT
32972913 AAAAGTAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (11 bp):
TATATATTTTT
Found at i:32972898 original size:13 final size:13
Alignment explanation
Indices: 32972872--32972910 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
32972862 TAATCACTAC
*
32972872 ATTTTCTATATAT
1 ATTTTTTATATAT
32972885 ATATTTTT-TATAT
1 AT-TTTTTATATAT
32972898 ATTTTTTATATAT
1 ATTTTTTATATAT
32972911 TTAAAAGTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
12 5 0.22
13 14 0.61
14 4 0.17
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (13 bp):
ATTTTTTATATAT
Found at i:32975241 original size:32 final size:32
Alignment explanation
Indices: 32975175--32975242 Score: 77
Period size: 32 Copynumber: 2.1 Consensus size: 32
32975165 TTTTTGTTAA
* *
32975175 TGTTGGATTCTAAAATTTTAGTTTATTATATT
1 TGTTGGATTCTAAAATTTTAGTCTATGATATT
*
32975207 TGTTGGATTCTGAAATTATTATGTCT-TGAT-TT
1 TGTTGGATTCTAAAATT-TTA-GTCTATGATATT
32975239 TGTT
1 TGTT
32975243 AGATATTGAT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
32 22 0.71
33 6 0.19
34 3 0.10
ACGTcount: A:0.24, C:0.04, G:0.16, T:0.56
Consensus pattern (32 bp):
TGTTGGATTCTAAAATTTTAGTCTATGATATT
Found at i:32975268 original size:27 final size:27
Alignment explanation
Indices: 32975238--32975310 Score: 83
Period size: 32 Copynumber: 2.5 Consensus size: 27
32975228 TGTCTTGATT
32975238 TTGTTAGATATTGATTATGTTTCAAGC
1 TTGTTAGATATTGATTATGTTTCAAGC
*
32975265 TTGTTAGATATTGAATTTATTATGTTTTAAGC
1 TTGTTAGATATTG-----ATTATGTTTCAAGC
*
32975297 TTGTTGGATATTGA
1 TTGTTAGATATTGA
32975311 AATGATTGAC
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
27 14 0.36
32 25 0.64
ACGTcount: A:0.26, C:0.04, G:0.19, T:0.51
Consensus pattern (27 bp):
TTGTTAGATATTGATTATGTTTCAAGC
Found at i:32975290 original size:32 final size:32
Alignment explanation
Indices: 32975251--32975311 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
32975241 TTAGATATTG
32975251 ATTATGTTTCAAGCTTGTTAGATATTGAATTT
1 ATTATGTTTCAAGCTTGTTAGATATTGAATTT
* *
32975283 ATTATGTTTTAAGCTTGTTGGATATTGAA
1 ATTATGTTTCAAGCTTGTTAGATATTGAA
32975312 ATGATTGACA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.28, C:0.05, G:0.18, T:0.49
Consensus pattern (32 bp):
ATTATGTTTCAAGCTTGTTAGATATTGAATTT
Found at i:32976341 original size:22 final size:22
Alignment explanation
Indices: 32976270--32976341 Score: 58
Period size: 22 Copynumber: 3.2 Consensus size: 22
32976260 TAATGTGGTG
32976270 TAATATTAGTTATGCACTTGGA
1 TAATATTAGTTATGCACTTGGA
* * * *
32976292 CAAAATTGTTGTTAT-CA-TGTGGTG
1 TAATA-T-TAGTTATGCACT-TGG-A
32976316 TAATATTAGTTATGCACTTGGA
1 TAATATTAGTTATGCACTTGGA
32976338 TAAT
1 TAAT
32976342 GTTGTTGTTA
Statistics
Matches: 36, Mismatches: 8, Indels: 12
0.64 0.14 0.21
Matches are distributed among these distances:
22 14 0.39
23 12 0.33
24 10 0.28
ACGTcount: A:0.31, C:0.08, G:0.19, T:0.42
Consensus pattern (22 bp):
TAATATTAGTTATGCACTTGGA
Found at i:32976377 original size:46 final size:46
Alignment explanation
Indices: 32976262--32976390 Score: 177
Period size: 46 Copynumber: 2.8 Consensus size: 46
32976252 GATACTTTTA
* *
32976262 ATGTGGTGTAATATTAGTTATGCACTTGGACAAAATTGTTGTTATC
1 ATGTGGTGTAATATTAGTTATGCACTTGGATAATATTGTTGTTATC
* *
32976308 ATGTGGTGTAATATTAGTTATGCACTTGGATAATGTTGTTGTTATT
1 ATGTGGTGTAATATTAGTTATGCACTTGGATAATATTGTTGTTATC
* * * * *
32976354 ATGTGGTGTAACACTAATGATGCATTTGGATAATATT
1 ATGTGGTGTAATATTAGTTATGCACTTGGATAATATT
32976391 ATTAATTTCT
Statistics
Matches: 73, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 73 1.00
ACGTcount: A:0.28, C:0.07, G:0.22, T:0.43
Consensus pattern (46 bp):
ATGTGGTGTAATATTAGTTATGCACTTGGATAATATTGTTGTTATC
Found at i:32976574 original size:18 final size:19
Alignment explanation
Indices: 32976548--32976583 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
32976538 TTGAGTATTA
32976548 TTATATATTTA-AAATAAT
1 TTATATATTTATAAATAAT
*
32976566 TTATTTATTTATAAATAA
1 TTATATATTTATAAATAA
32976584 ATCATTGCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
TTATATATTTATAAATAAT
Found at i:32976819 original size:15 final size:14
Alignment explanation
Indices: 32976786--32976845 Score: 84
Period size: 14 Copynumber: 4.2 Consensus size: 14
32976776 CCAGAAAAGT
* *
32976786 AAATCATTTTCCTG
1 AAATTATTTTCCAG
32976800 AAATTATTTTCCAAG
1 AAATTATTTTCC-AG
32976815 AAATTATTTTCCAG
1 AAATTATTTTCCAG
*
32976829 AAATTATTTTCCGG
1 AAATTATTTTCCAG
32976843 AAA
1 AAA
32976846 ACATTTTACC
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
14 29 0.69
15 13 0.31
ACGTcount: A:0.37, C:0.15, G:0.08, T:0.40
Consensus pattern (14 bp):
AAATTATTTTCCAG
Found at i:32983287 original size:8 final size:8
Alignment explanation
Indices: 32983276--32983303 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
32983266 TTAAAAATTC
32983276 AAAATAAT
1 AAAATAAT
32983284 AAAATAAT
1 AAAATAAT
32983292 AAAATAAT
1 AAAATAAT
32983300 AAAA
1 AAAA
32983304 GCTGATAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (8 bp):
AAAATAAT
Found at i:32983967 original size:16 final size:16
Alignment explanation
Indices: 32983941--32983974 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 16
32983931 ATCATAGTTT
32983941 AATTAATTTAAACCTTA
1 AATTAATTTAAA-CTTA
32983958 AATTAA-TTAAACTTA
1 AATTAATTTAAACTTA
32983973 AA
1 AA
32983975 ACCTTGATCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.35
16 5 0.29
17 6 0.35
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.38
Consensus pattern (16 bp):
AATTAATTTAAACTTA
Found at i:33000090 original size:14 final size:15
Alignment explanation
Indices: 33000068--33000108 Score: 59
Period size: 15 Copynumber: 2.8 Consensus size: 15
33000058 AACTAAATTA
33000068 TTAAAATTAATAAAT-
1 TTAAAATTAA-AAATG
33000083 TT-AAATTAAAAATG
1 TTAAAATTAAAAATG
33000097 TTAAAATTAAAA
1 TTAAAATTAAAA
33000109 TTGTGTTATG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 4 0.17
14 9 0.38
15 11 0.46
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (15 bp):
TTAAAATTAAAAATG
Found at i:33000264 original size:15 final size:15
Alignment explanation
Indices: 33000238--33000266 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
33000228 AATATTAAGA
33000238 TAAATATTATTTATT
1 TAAATATTATTTATT
33000253 TAAATATTATTTAT
1 TAAATATTATTTAT
33000267 CTTTAGACTT
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:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
TAAATATTATTTATT
Found at i:33000568 original size:169 final size:165
Alignment explanation
Indices: 33000312--33000612 Score: 383
Period size: 169 Copynumber: 1.8 Consensus size: 165
33000302 AAATTTAAGC
* *
33000312 TTTAAACTATATTTTTTAAAGGAGAAATAAAAACATATTATTTGAAATATATAGAGAAACTTTTA
1 TTTAAACTATATTTTTTAAAGGAGAAATAAAAACATATTATTTGAAATATATAAAGAAAATTTTA
* * * * *
33000377 AATTTAAACTAAATACTAAAATTAAAAAATTTAAATTTCGAATTTAAAATAA-AAATATTAAAAT
66 AATTTAAACTAAATACTAAAATTAAAAAATTTAAACTTAGAATTTAAAAAAATAAAAAATAAAAT
33000441 TAAAATTGTGTTATGAATTTTTAAATTGTTGGGAT
131 TAAAATTGTGTTATGAATTTTTAAATTGTTGGGAT
* * *
33000476 TTTAAACTATA-TTTTTAAAGGATAAATAAGAAAACATATTACTT-AAATTAAATTTTAAATGAA
1 TTTAAACTATATTTTTTAAAGGAGAAAT-A-AAAACATATTATTTGAAA-T--A-TATAAA-GAA
* * * * *
33000539 AATTTTAACTTTAAACTAAATATTAAAATTAATAATTTTAAACTTATAATTTAAAAAAATAAAAA
59 AATTTTAAATTTAAACTAAATACTAAAATTAAAAAATTTAAACTTAGAATTTAAAAAAATAAAAA
33000604 ATAAAATTA
124 ATAAAATTA
33000613 TGTTACGGAT
Statistics
Matches: 114, Mismatches: 15, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
163 15 0.13
164 15 0.13
165 14 0.12
167 1 0.01
168 4 0.04
169 53 0.46
170 12 0.11
ACGTcount: A:0.51, C:0.04, G:0.06, T:0.39
Consensus pattern (165 bp):
TTTAAACTATATTTTTTAAAGGAGAAATAAAAACATATTATTTGAAATATATAAAGAAAATTTTA
AATTTAAACTAAATACTAAAATTAAAAAATTTAAACTTAGAATTTAAAAAAATAAAAAATAAAAT
TAAAATTGTGTTATGAATTTTTAAATTGTTGGGAT
Found at i:33000599 original size:27 final size:27
Alignment explanation
Indices: 33000548--33000600 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
33000538 AAATTTTAAC
*
33000548 TTTAAACTAAATATTAAAATTAATAAT
1 TTTAAACTAAATATTAAAATAAATAAT
33000575 TTTAAACTTATAAT-TTAAAA-AAATAA
1 TTTAAAC-TA-AATATTAAAATAAATAA
33000601 AAAATAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
27 12 0.52
28 8 0.35
29 3 0.13
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.40
Consensus pattern (27 bp):
TTTAAACTAAATATTAAAATAAATAAT
Found at i:33002281 original size:24 final size:24
Alignment explanation
Indices: 33002243--33002304 Score: 63
Period size: 24 Copynumber: 2.5 Consensus size: 24
33002233 ATATTTTTTT
*
33002243 AAAAATTATACATAAAAAATA-CTA
1 AAAAATTA-AAATAAAAAATATCTA
* *
33002267 AAAATATTAAAATAAATATTATCTA
1 AAAA-ATTAAAATAAAAAATATCTA
*
33002292 ACAAATTAAAATA
1 AAAAATTAAAATA
33002305 TATATTTATA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
24 22 0.69
25 10 0.31
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (24 bp):
AAAAATTAAAATAAAAAATATCTA
Found at i:33002487 original size:31 final size:31
Alignment explanation
Indices: 33002449--33002509 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
33002439 TCTTAAATGG
* * *
33002449 TAGCAAAATAGTGAA-AAGAAGAAGAAGAAAA
1 TAGCAAAAAAGT-AATAAAAAGAACAAGAAAA
33002480 TAGCAAAAAAGTAATAAAAAGAACAAGAAA
1 TAGCAAAAAAGTAATAAAAAGAACAAGAAA
33002510 GCAATAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 2 0.08
31 24 0.92
ACGTcount: A:0.67, C:0.05, G:0.18, T:0.10
Consensus pattern (31 bp):
TAGCAAAAAAGTAATAAAAAGAACAAGAAAA
Found at i:33003112 original size:29 final size:31
Alignment explanation
Indices: 33003080--33003144 Score: 89
Period size: 29 Copynumber: 2.2 Consensus size: 31
33003070 ACATTTTGCG
* * *
33003080 TATAAAATTGCACAA-AATC-AAAGTTCATA
1 TATAAAATTACACAATAAACTAAAATTCATA
33003109 TATAAAATTACACAATAAACTAAAATTCATA
1 TATAAAATTACACAATAAACTAAAATTCATA
33003140 TATAA
1 TATAA
33003145 TTTTGAGATT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
29 14 0.45
30 3 0.10
31 14 0.45
ACGTcount: A:0.55, C:0.12, G:0.03, T:0.29
Consensus pattern (31 bp):
TATAAAATTACACAATAAACTAAAATTCATA
Found at i:33006494 original size:4 final size:4
Alignment explanation
Indices: 33006487--33006543 Score: 105
Period size: 4 Copynumber: 14.2 Consensus size: 4
33006477 GTGTGTTGTT
*
33006487 TGTA TGTA TGTA TGTA TGTA TGTT TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
33006535 TGTA TGTA T
1 TGTA TGTA T
33006544 ATACGGATGG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
4 51 1.00
ACGTcount: A:0.23, C:0.00, G:0.25, T:0.53
Consensus pattern (4 bp):
TGTA
Found at i:33009400 original size:20 final size:20
Alignment explanation
Indices: 33009375--33009413 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
33009365 GGAGTCACAC
*
33009375 GCCCATGTGGTTTGGGACAT
1 GCCCATATGGTTTGGGACAT
33009395 GCCCATATGGTTTGGGACA
1 GCCCATATGGTTTGGGACA
33009414 CGCCTGTGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.18, C:0.21, G:0.33, T:0.28
Consensus pattern (20 bp):
GCCCATATGGTTTGGGACAT
Found at i:33012069 original size:4 final size:4
Alignment explanation
Indices: 33012060--33012280 Score: 171
Period size: 4 Copynumber: 56.2 Consensus size: 4
33012050 ACAGGATTTT
* *
33012060 TGTA TGTA TGTA TGTA TGTA TGTA TATA TGTA TGTA TGTA TGTA TATA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
* * ** * * * **
33012108 TATA TGTA TGCA TGTA TACA TGTA --TA TATA TGTA TGCA TGCA TACA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
* * * * * * * * * * *
33012154 TGCA TATA TGAA TGCA TATA TTTA TGTA TGGA TGCA TGCA TGCA TGCA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
* * *
33012202 TATA TGTA TGTA TG-- TGTG TGTA TGTA TGTA TGTA TATA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
* *
33012248 TGTA TGTA TGTA TGTA TGTA TGCA TGCA TGTA T
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA T
33012281 ATTTGTGTGT
Statistics
Matches: 180, Mismatches: 33, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
2 4 0.02
4 176 0.98
ACGTcount: A:0.29, C:0.06, G:0.21, T:0.44
Consensus pattern (4 bp):
TGTA
Found at i:33012133 original size:26 final size:26
Alignment explanation
Indices: 33012082--33012162 Score: 103
Period size: 26 Copynumber: 3.2 Consensus size: 26
33012072 TGTATGTATG
* * *
33012082 TATATATGTATGTATGTAT--GTATA
1 TATATATGTATGCATGTATACATGTA
33012106 TATATATGTATGCATGTATACATGTA
1 TATATATGTATGCATGTATACATGTA
* *
33012132 TATATATGTATGCATGCATACATGCA
1 TATATATGTATGCATGTATACATGTA
33012158 TATAT
1 TATAT
33012163 GAATGCATAT
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
24 18 0.36
26 32 0.64
ACGTcount: A:0.35, C:0.07, G:0.15, T:0.43
Consensus pattern (26 bp):
TATATATGTATGCATGTATACATGTA
Found at i:33017006 original size:17 final size:17
Alignment explanation
Indices: 33016984--33017077 Score: 56
Period size: 17 Copynumber: 5.5 Consensus size: 17
33016974 ATTTTAATAG
33016984 TTTAATATTAAATTTAA
1 TTTAATATTAAATTTAA
33017001 TTTAATACTT--ATCTTAA
1 TTTAATA-TTAAAT-TTAA
* ** *
33017018 --TAGTATTTTA-TTGA
1 TTTAATATTAAATTTAA
33017032 TTTAATATTAAAGTGATT-A
1 TTTAATATTAAA-T--TTAA
33017051 TCTTAATATTAAATTTAA
1 T-TTAATATTAAATTTAA
33017069 TTTAATATT
1 TTTAATATT
33017078 GATCTTGTAG
Statistics
Matches: 60, Mismatches: 5, Indels: 24
0.67 0.06 0.27
Matches are distributed among these distances:
14 5 0.08
15 4 0.07
16 10 0.17
17 21 0.35
18 4 0.07
19 3 0.05
20 13 0.22
ACGTcount: A:0.39, C:0.03, G:0.04, T:0.53
Consensus pattern (17 bp):
TTTAATATTAAATTTAA
Found at i:33019470 original size:70 final size:71
Alignment explanation
Indices: 33019337--33019480 Score: 202
Period size: 70 Copynumber: 2.0 Consensus size: 71
33019327 AATGTTTTTA
*
33019337 AATAAAACTTAGAAAAAAATTACTTAATACATAAAATACTACTTAAAACATGAACATACTTTAAA
1 AATAAAACTTAGAAAAAAATTACTTAATACATAAAATACTACTTAAAACATGAAAATACTTT-AA
*
33019402 AGTAATT
65 AGAAATT
* * * **
33019409 AATAAAACTT-G-AAAAAATTACTTAATACATAAAATATTACTTCAAGCATGAAAATGTTTTAAA
1 AATAAAACTTAGAAAAAAATTACTTAATACATAAAATACTACTTAAAACATGAAAATACTTTAAA
33019472 GAAATT
66 GAAATT
33019478 AAT
1 AAT
33019481 TCATTTAAAA
Statistics
Matches: 65, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
69 11 0.17
70 43 0.66
71 1 0.02
72 10 0.15
ACGTcount: A:0.54, C:0.10, G:0.06, T:0.31
Consensus pattern (71 bp):
AATAAAACTTAGAAAAAAATTACTTAATACATAAAATACTACTTAAAACATGAAAATACTTTAAA
GAAATT
Found at i:33027992 original size:6 final size:6
Alignment explanation
Indices: 33027970--33027994 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
33027960 TATAAGTATA
33027970 AAATTT AAATTT AAATTT AAATTT A
1 AAATTT AAATTT AAATTT AAATTT A
33027995 TTAATTAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (6 bp):
AAATTT
Found at i:33028484 original size:17 final size:18
Alignment explanation
Indices: 33028464--33028509 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 18
33028454 ATTTTTAAAA
33028464 AAAATAAAAAACT-TATG
1 AAAATAAAAAACTCTATG
*
33028481 AAAA-ATAAAAACTCTTTG
1 AAAATA-AAAAACTCTATG
*
33028499 AAATTAAAAAA
1 AAAATAAAAAA
33028510 AAATACAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
16 1 0.04
17 11 0.46
18 11 0.46
19 1 0.04
ACGTcount: A:0.65, C:0.07, G:0.04, T:0.24
Consensus pattern (18 bp):
AAAATAAAAAACTCTATG
Found at i:33036757 original size:43 final size:43
Alignment explanation
Indices: 33036692--33036775 Score: 102
Period size: 43 Copynumber: 2.0 Consensus size: 43
33036682 AAACAAACTA
* *
33036692 AACATAAAAATTTCACAAAAATTTAAATATT-ACTAACAATTTG
1 AACATAAAAATTTCACAAAAATTAAAAT-TTCAATAACAATTTG
33036735 AACATAAAAA-TTC-CAAGCAAATTAAAATTTCAATAACAATT
1 AACATAAAAATTTCACAA--AAATTAAAATTTCAATAACAATT
33036776 CCAGACAACT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
41 3 0.08
42 5 0.14
43 28 0.78
ACGTcount: A:0.55, C:0.13, G:0.02, T:0.30
Consensus pattern (43 bp):
AACATAAAAATTTCACAAAAATTAAAATTTCAATAACAATTTG
Found at i:33037972 original size:15 final size:15
Alignment explanation
Indices: 33037952--33037981 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
33037942 CAAGAATGGG
33037952 TTTACAAGTAACGAA
1 TTTACAAGTAACGAA
33037967 TTTACAAGTAACGAA
1 TTTACAAGTAACGAA
33037982 ACCAACCAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.13, G:0.13, T:0.27
Consensus pattern (15 bp):
TTTACAAGTAACGAA
Found at i:33040082 original size:22 final size:22
Alignment explanation
Indices: 33040055--33040096 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
33040045 TTAACCCAAA
33040055 TCAATTACCCAAATAATTAAAC
1 TCAATTACCCAAATAATTAAAC
* *
33040077 TCAATTACCCCATTAATTAA
1 TCAATTACCCAAATAATTAA
33040097 TCAAGATTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.45, C:0.24, G:0.00, T:0.31
Consensus pattern (22 bp):
TCAATTACCCAAATAATTAAAC
Found at i:33041104 original size:12 final size:12
Alignment explanation
Indices: 33041087--33041112 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
33041077 TCACTGATGG
33041087 TGATGAGATGAT
1 TGATGAGATGAT
33041099 TGATGAGATGAT
1 TGATGAGATGAT
33041111 TG
1 TG
33041113 TCCATCTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.00, G:0.35, T:0.35
Consensus pattern (12 bp):
TGATGAGATGAT
Found at i:33042441 original size:25 final size:25
Alignment explanation
Indices: 33042420--33042466 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
33042410 TTTTATATTA
33042420 ATATTAATATTAAATAAATATAATT
1 ATATTAATATTAAATAAATATAATT
33042445 ATATTAATATTAAATAAA-ATAA
1 ATATTAATATTAAATAAATATAA
33042467 AAATCCCGCA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 4 0.18
25 18 0.82
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (25 bp):
ATATTAATATTAAATAAATATAATT
Found at i:33051262 original size:31 final size:31
Alignment explanation
Indices: 33051224--33051289 Score: 114
Period size: 31 Copynumber: 2.1 Consensus size: 31
33051214 GTTAAAATGG
*
33051224 GCCCATGCAGCCTGCTTATGTGGCCCCAGAC
1 GCCCATGCAGCCTGCCTATGTGGCCCCAGAC
*
33051255 GCCCATGCAGCCTGCCTGTGTGGCCCCAGAC
1 GCCCATGCAGCCTGCCTATGTGGCCCCAGAC
33051286 GCCC
1 GCCC
33051290 GTATGGCCCA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.14, C:0.42, G:0.27, T:0.17
Consensus pattern (31 bp):
GCCCATGCAGCCTGCCTATGTGGCCCCAGAC
Found at i:33059550 original size:18 final size:18
Alignment explanation
Indices: 33059527--33059562 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
33059517 ATAAAATAAA
33059527 AAAATTAA-AATATATATT
1 AAAATTAAGAAT-TATATT
33059545 AAAATTAAGAATTATATT
1 AAAATTAAGAATTATATT
33059563 TTTTGAAGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.82
19 3 0.18
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (18 bp):
AAAATTAAGAATTATATT
Found at i:33066195 original size:20 final size:20
Alignment explanation
Indices: 33066170--33066207 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
33066160 CTCTTTGCCA
33066170 TTTCTTTCTT-TCTTTTTCTT
1 TTTCTTT-TTCTCTTTTTCTT
33066190 TTTCTTTTTCTCTTTTTC
1 TTTCTTTTTCTCTTTTTC
33066208 CCAAACACCC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 2 0.12
20 15 0.88
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (20 bp):
TTTCTTTTTCTCTTTTTCTT
Found at i:33069001 original size:29 final size:29
Alignment explanation
Indices: 33068961--33069049 Score: 81
Period size: 29 Copynumber: 2.9 Consensus size: 29
33068951 AATGTATGTG
*
33068961 TATATACAATATATATGTGGGTTTTGTTA
1 TATATATAATATATATGTGGGTTTTGTTA
* *
33068990 TATATATAATATATAAATGCGTGGGTCTTGATA
1 TATATATAATATAT--AT--GTGGGTTTTGTTA
* *
33069023 TATA-ATATATATGTATATGGGTTTTGT
1 TATATATA-ATATATATGTGGGTTTTGT
33069050 AGTGCTTGTG
Statistics
Matches: 48, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
29 21 0.44
31 4 0.08
32 3 0.06
33 20 0.42
ACGTcount: A:0.33, C:0.03, G:0.18, T:0.46
Consensus pattern (29 bp):
TATATATAATATATATGTGGGTTTTGTTA
Found at i:33080598 original size:47 final size:48
Alignment explanation
Indices: 33080535--33080630 Score: 149
Period size: 47 Copynumber: 2.0 Consensus size: 48
33080525 AAACAAAATA
* *
33080535 TTGTTGACAAATTCAACTAGCTGAAGAT-TTTATTGTTGTAAAAACAT
1 TTGTTGACAAATTCAACTAGCTGAAGATGGTTATTGTGGTAAAAACAT
* *
33080582 TTGTTGACAAATTCAACTAGTTGAAGATGGTTATTGTGGTAAGAACAT
1 TTGTTGACAAATTCAACTAGCTGAAGATGGTTATTGTGGTAAAAACAT
33080630 T
1 T
33080631 GACTTGGTAT
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
47 27 0.61
48 17 0.39
ACGTcount: A:0.34, C:0.09, G:0.19, T:0.38
Consensus pattern (48 bp):
TTGTTGACAAATTCAACTAGCTGAAGATGGTTATTGTGGTAAAAACAT
Found at i:33081128 original size:29 final size:29
Alignment explanation
Indices: 33081086--33081144 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
33081076 CACGCTCGTG
33081086 TGCCATGGCCATGGGAAAACTAGGAAGGT
1 TGCCATGGCCATGGGAAAACTAGGAAGGT
33081115 TGCCATGGCCATGGGAAAACTAGGAAGGT
1 TGCCATGGCCATGGGAAAACTAGGAAGGT
33081144 T
1 T
33081145 ACTAACTCGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.31, C:0.17, G:0.34, T:0.19
Consensus pattern (29 bp):
TGCCATGGCCATGGGAAAACTAGGAAGGT
Found at i:33086127 original size:26 final size:27
Alignment explanation
Indices: 33086067--33086119 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
33086057 CAAAATTGAT
* *
33086067 AAATGACTGTTATGCCCCTATGAGGTA
1 AAATGACTCTTATGCCCCTATGAGATA
*
33086094 AAATGACTCTTATGCCCTTATGAGAT
1 AAATGACTCTTATGCCCCTATGAGAT
33086120 GTATGACTGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32
Consensus pattern (27 bp):
AAATGACTCTTATGCCCCTATGAGATA
Found at i:33086286 original size:66 final size:66
Alignment explanation
Indices: 33086180--33086311 Score: 255
Period size: 66 Copynumber: 2.0 Consensus size: 66
33086170 TATTATGATA
*
33086180 TGTTGCATGGGGATGGGTTATTATGATTGGAGAAAGTGTACTGTACTGGTAGCTCTGCTGTAATT
1 TGTTGCATGGGGATGGGTTATTATGATTGGAGAAAGTGTACTGTACTGGTAGCTCTGCTATAATT
33086245 T
66 T
33086246 TGTTGCATGGGGATGGGTTATTATGATTGGAGAAAGTGTACTGTACTGGTAGCTCTGCTATAATT
1 TGTTGCATGGGGATGGGTTATTATGATTGGAGAAAGTGTACTGTACTGGTAGCTCTGCTATAATT
33086311 T
66 T
33086312 CTATTTAGTG
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
66 65 1.00
ACGTcount: A:0.22, C:0.09, G:0.31, T:0.38
Consensus pattern (66 bp):
TGTTGCATGGGGATGGGTTATTATGATTGGAGAAAGTGTACTGTACTGGTAGCTCTGCTATAATT
T
Found at i:33097818 original size:15 final size:16
Alignment explanation
Indices: 33097792--33097837 Score: 51
Period size: 15 Copynumber: 3.0 Consensus size: 16
33097782 CGAATTTTAG
*
33097792 AAATTTATAAATA-AA
1 AAATTTAAAAATATAA
*
33097807 ATATTTAAAAATATAA
1 AAATTTAAAAATATAA
*
33097823 AAATTCAAAAA-ATAA
1 AAATTTAAAAATATAA
33097838 TGAATCAATG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
15 15 0.58
16 11 0.42
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.30
Consensus pattern (16 bp):
AAATTTAAAAATATAA
Found at i:33102850 original size:14 final size:14
Alignment explanation
Indices: 33102831--33102861 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
33102821 TTTAAAGAAA
33102831 AATCTTATAGTACC
1 AATCTTATAGTACC
*
33102845 AATCTTATAGTGCC
1 AATCTTATAGTACC
33102859 AAT
1 AAT
33102862 TAAAATAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.35, C:0.19, G:0.10, T:0.35
Consensus pattern (14 bp):
AATCTTATAGTACC
Found at i:33114556 original size:14 final size:15
Alignment explanation
Indices: 33114537--33114574 Score: 53
Period size: 14 Copynumber: 2.6 Consensus size: 15
33114527 GTTTGCCAGT
33114537 AAAATATTTTTC-GA
1 AAAATATTTTTCTGA
33114551 AAAATA-TTTTCTGA
1 AAAATATTTTTCTGA
33114565 AAAATGATTT
1 AAAAT-ATTT
33114575 ACTTTTCCAG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
13 5 0.24
14 13 0.62
15 1 0.05
16 2 0.10
ACGTcount: A:0.45, C:0.05, G:0.08, T:0.42
Consensus pattern (15 bp):
AAAATATTTTTCTGA
Found at i:33122728 original size:26 final size:26
Alignment explanation
Indices: 33122698--33122753 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
33122688 GACCCTGTGA
33122698 AGAGGAATGAGATTTGCCTGAGAAAG
1 AGAGGAATGAGATTTGCCTGAGAAAG
33122724 AGAGGAATGAGATTTGCCTGAGAAAG
1 AGAGGAATGAGATTTGCCTGAGAAAG
33122750 AGAG
1 AGAG
33122754 AAAGAAGATG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.39, C:0.07, G:0.36, T:0.18
Consensus pattern (26 bp):
AGAGGAATGAGATTTGCCTGAGAAAG
Found at i:33132130 original size:20 final size:20
Alignment explanation
Indices: 33132105--33132142 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
33132095 TTATTATTTT
*
33132105 TTGAAAGTTGAGTGACTAAA
1 TTGAAAATTGAGTGACTAAA
33132125 TTGAAAATTGAGTGACTA
1 TTGAAAATTGAGTGACTA
33132143 TTGGTGTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.39, C:0.05, G:0.24, T:0.32
Consensus pattern (20 bp):
TTGAAAATTGAGTGACTAAA
Found at i:33135037 original size:25 final size:23
Alignment explanation
Indices: 33135008--33135073 Score: 71
Period size: 25 Copynumber: 2.7 Consensus size: 23
33134998 TACAATATTC
33135008 TATTTTTATAATTTTTAATATCTTA
1 TATTTTTATAATTTTT-ATAT-TTA
*
33135033 TATTTATATAATTTTCTATATTTA
1 TATTTTTATAATTTT-TATATTTA
33135057 TACTTTTCT-TAATTTTT
1 TA-TTTT-TATAATTTTT
33135074 TTGATAATTT
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
24 6 0.17
25 28 0.78
26 2 0.06
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (23 bp):
TATTTTTATAATTTTTATATTTA
Found at i:33136287 original size:188 final size:189
Alignment explanation
Indices: 33135969--33136317 Score: 540
Period size: 188 Copynumber: 1.9 Consensus size: 189
33135959 ATTTGGTGCC
* * * *
33135969 TAATTTCATCTAAGTACATTTATGATTTTTTTCGAATAGATTGGTTAATAAAATTATTCATGAAT
1 TAATTTCATCTAAGTACACTTATGAATTTTTTCGAACAGATCGGTTAATAAAATTATTCATGAAT
* *
33136034 TACATTAATACTTTGTATATTGCCCTCACATGGTCTTTGCACAAAAAAAAAAAGGAAGCAAATGT
66 TACATTAATACTTTGTATATTACCCTCACATGGTCTTTGCACAAAAAAAAAAAGAAAGCAAATGT
*
33136099 TGCTCATTGGTTGTCTAATGTTTAACTAATATTAATCGGTATTATTACCTTAAGTGTAG
131 TACTCATTGGTTGTCTAATGTTTAACTAATATTAATCGGTATTATTACCTTAAGTGTAG
* *
33136158 TAATTTCCTCTAAGTACACTTAT-AATTTTTTCGAGCAGATCGGTTAATAAAATTATTCATGAAT
1 TAATTTCATCTAAGTACACTTATGAATTTTTTCGAACAGATCGGTTAATAAAATTATTCATGAAT
* * * *
33136222 TACATTAATACTTTGTATATTATCC-CACATGGTTTTTGCACACAAAATAAAATGAAAGCAAATG
66 TACATTAATACTTTGTATATTACCCTCACATGGTCTTTGCACA-AAAAAAAAAAGAAAGCAAATG
* *
33136286 TTACTTATTGGTTGTCTAATGTTTAATTAATA
130 TTACTCATTGGTTGTCTAATGTTTAACTAATA
33136318 CTAAGCGATA
Statistics
Matches: 144, Mismatches: 15, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
187 16 0.11
188 107 0.74
189 21 0.15
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.40
Consensus pattern (189 bp):
TAATTTCATCTAAGTACACTTATGAATTTTTTCGAACAGATCGGTTAATAAAATTATTCATGAAT
TACATTAATACTTTGTATATTACCCTCACATGGTCTTTGCACAAAAAAAAAAAGAAAGCAAATGT
TACTCATTGGTTGTCTAATGTTTAACTAATATTAATCGGTATTATTACCTTAAGTGTAG
Found at i:33136633 original size:18 final size:18
Alignment explanation
Indices: 33136607--33136662 Score: 94
Period size: 18 Copynumber: 3.1 Consensus size: 18
33136597 ATTGTTTCTC
*
33136607 AAAAGTGCTTTTGGGCAA
1 AAAATTGCTTTTGGGCAA
33136625 AAAATTGCTTTTGGGCAA
1 AAAATTGCTTTTGGGCAA
*
33136643 AAAATTGCTTTTGAGCAA
1 AAAATTGCTTTTGGGCAA
33136661 AA
1 AA
33136663 GCTAAAATTT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 36 1.00
ACGTcount: A:0.38, C:0.11, G:0.21, T:0.30
Consensus pattern (18 bp):
AAAATTGCTTTTGGGCAA
Found at i:33137510 original size:13 final size:12
Alignment explanation
Indices: 33137476--33137511 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
33137466 AGGTTTCTTA
*
33137476 AAATGGAAATGG
1 AAATAGAAATGG
33137488 AAATAGAAATGG
1 AAATAGAAATGG
33137500 AAATAAGAAATG
1 AAAT-AGAAATG
33137512 ATATATTTGC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 15 0.68
13 7 0.32
ACGTcount: A:0.58, C:0.00, G:0.25, T:0.17
Consensus pattern (12 bp):
AAATAGAAATGG
Found at i:33146251 original size:46 final size:47
Alignment explanation
Indices: 33146184--33146312 Score: 179
Period size: 46 Copynumber: 2.8 Consensus size: 47
33146174 GTGCGAATAA
* * * *
33146184 TACCTTGATTTGGCTACGGGCCATGGTATAGGTATTTTGTGA-GAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCTGGGATAAGT
*
33146230 TACCTTGATTTGGCTATGGGCCATGGTATAGGTACTCTGGGATAAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCTGGGATAAGT
* * *
33146277 TATCTTGATTTGGCTACGGGACATGGTATAGATACT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACT
33146313 TATCAAATGT
Statistics
Matches: 73, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
46 38 0.52
47 35 0.48
ACGTcount: A:0.22, C:0.14, G:0.29, T:0.36
Consensus pattern (47 bp):
TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCTGGGATAAGT
Found at i:33147349 original size:18 final size:18
Alignment explanation
Indices: 33147326--33147369 Score: 79
Period size: 18 Copynumber: 2.4 Consensus size: 18
33147316 AACCAATATG
33147326 TCAATCATAATTTGCATT
1 TCAATCATAATTTGCATT
33147344 TCAATCATAATTTGCATT
1 TCAATCATAATTTGCATT
33147362 TCACATCA
1 TCA-ATCA
33147370 CAAATATGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 21 0.84
19 4 0.16
ACGTcount: A:0.34, C:0.20, G:0.05, T:0.41
Consensus pattern (18 bp):
TCAATCATAATTTGCATT
Found at i:33148812 original size:43 final size:44
Alignment explanation
Indices: 33148757--33148886 Score: 137
Period size: 43 Copynumber: 3.0 Consensus size: 44
33148747 ATATCATACA
* *
33148757 ATGCCAACGTCCCAGACGTGGTCTTACAT-GTAATCATATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATCGTAAACACATATCG
* *
33148800 ATGCC-ACTGTCCCAGAAAG-GGTTTTAC-TCGTAAACACATATCG
1 ATGCCAAC-GTCCCAG-ACGTGGTCTTACATCGTAAACACATATCG
* *
33148843 ATGCCAACATCCCAGACGTGGTCTTACA-C-AAGAACACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATCGTA-AACACATATCG
33148886 A
1 A
33148887 AAATCCTATT
Statistics
Matches: 72, Mismatches: 8, Indels: 14
0.77 0.09 0.15
Matches are distributed among these distances:
42 6 0.08
43 62 0.86
44 4 0.06
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.24
Consensus pattern (44 bp):
ATGCCAACGTCCCAGACGTGGTCTTACATCGTAAACACATATCG
Found at i:33149119 original size:10 final size:9
Alignment explanation
Indices: 33149103--33149148 Score: 51
Period size: 10 Copynumber: 5.1 Consensus size: 9
33149093 ACTAAACCCC
33149103 TAAACCCAT
1 TAAACCCAT
33149112 TAAAACCC-T
1 T-AAACCCAT
33149121 T-AACCCAT
1 TAAACCCAT
*
33149129 CAAACCCACT
1 TAAACCCA-T
33149139 TAAACCCAT
1 TAAACCCAT
33149148 T
1 T
33149149 TATATCAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
7 5 0.16
8 1 0.03
9 11 0.35
10 14 0.45
ACGTcount: A:0.41, C:0.37, G:0.00, T:0.22
Consensus pattern (9 bp):
TAAACCCAT
Found at i:33149120 original size:17 final size:17
Alignment explanation
Indices: 33149095--33149148 Score: 63
Period size: 17 Copynumber: 3.1 Consensus size: 17
33149085 ACATTACAAC
33149095 TAAACCCCTAAACCCAT
1 TAAACCCCTAAACCCAT
* *
33149112 TAAAACCCTTAACCCAT
1 TAAACCCCTAAACCCAT
*
33149129 CAAACCCACTTAAACCCAT
1 TAAACCC-C-TAAACCCAT
33149148 T
1 T
33149149 TATATCAAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
17 20 0.69
18 1 0.03
19 8 0.28
ACGTcount: A:0.41, C:0.39, G:0.00, T:0.20
Consensus pattern (17 bp):
TAAACCCCTAAACCCAT
Found at i:33150182 original size:3 final size:3
Alignment explanation
Indices: 33150174--33150254 Score: 53
Period size: 3 Copynumber: 27.0 Consensus size: 3
33150164 CTTTATTAAA
* * * *
33150174 TAT TAT TAT TAT TAT TAT T-T CTAA TAT TAT TAAG T-T TAT CAA TAT
1 TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT T-AT TAT TAT TAT TAT
*
33150219 TAT TAT TAT T-T TAT ATAT TAG TAT ATAT T-T TAT TAT
1 TAT TAT TAT TAT TAT -TAT TAT TAT -TAT TAT TAT TAT
33150255 ATATATATTG
Statistics
Matches: 60, Mismatches: 10, Indels: 16
0.70 0.12 0.19
Matches are distributed among these distances:
2 6 0.10
3 46 0.77
4 8 0.13
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:33150203 original size:18 final size:17
Alignment explanation
Indices: 33150180--33150250 Score: 65
Period size: 18 Copynumber: 3.9 Consensus size: 17
33150170 TAAATATTAT
33150180 TATTATTATTATTTCTAA
1 TATTATTATTATTT-TAA
33150198 TATTATTA--AGTTTATCAA
1 TATTATTATTA-TTT-T-AA
33150216 TATTATTATTATTTTATA
1 TATTATTATTATTTTA-A
*
33150234 TATTAGTATATATTTTA
1 TATTATTAT-TATTTTA
33150251 TTATATATAT
Statistics
Matches: 45, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
16 1 0.02
17 5 0.11
18 28 0.62
19 10 0.22
20 1 0.02
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.59
Consensus pattern (17 bp):
TATTATTATTATTTTAA
Found at i:33150541 original size:33 final size:33
Alignment explanation
Indices: 33150504--33150579 Score: 82
Period size: 33 Copynumber: 2.3 Consensus size: 33
33150494 TACATAGTCT
* * *
33150504 TATTT-TTATTACTTTATTTCAATATTTTTGTTA
1 TATTTATTATTAC-GTATTTCAATATATTTATTA
* * *
33150537 TATTTGTTTTTTCGTATTTCAATATATTTATTA
1 TATTTATTATTACGTATTTCAATATATTTATTA
33150570 TATTTATTAT
1 TATTTATTAT
33150580 ATAGTAGTGT
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
33 30 0.86
34 5 0.14
ACGTcount: A:0.25, C:0.05, G:0.04, T:0.66
Consensus pattern (33 bp):
TATTTATTATTACGTATTTCAATATATTTATTA
Found at i:33150547 original size:118 final size:116
Alignment explanation
Indices: 33150270--33150548 Score: 289
Period size: 118 Copynumber: 2.4 Consensus size: 116
33150260 TATTGTAGTG
* * * * *
33150270 TTTTCTATTACTTCATTTTTATATTTTGTTATATTTGCTTTTTTTGCATTACAATATTTTTATAT
1 TTTT-TATTACTTTATTTTAATATTTTGTTATATTTGTTTTTTTTACATTACAATATTTATATAT
* * *
33150335 ATGAGTGTATATGTTTTTATGTACGTATATGTATATATATTTATATAGCCTTA
65 ATGAGTGTATATCTTTTTATATAC-TATATGTATATATATTTACATAGCCTTA
* * * ** *
33150388 TTTTTATCATTTTATTTTAATATTTTATTATACGTGCTTTTTTGTTACTATTATTAATA-TTATA
1 TTTTTATTACTTTATTTTAATATTTTGTTATATTTG-TTTTTT-TTAC-ATTA-CAATATTTATA
*
33150452 TA-AT-AGTGTATA-CTTTTTATCATA-TATATGTATATATATTTGTACATAGTCTTA
62 TATATGAGTGTATATCTTTTTAT-ATACTATATGTATATATA-TT-TACATAGCCTTA
*
33150506 TTTTTATTACTTTATTTCAATATTTTTGTTATATTTGTTTTTT
1 TTTTTATTACTTTATTTTAATA-TTTTGTTATATTTGTTTTTT
33150549 CGTATTTCAA
Statistics
Matches: 132, Mismatches: 21, Indels: 16
0.78 0.12 0.09
Matches are distributed among these distances:
116 14 0.11
117 34 0.26
118 54 0.41
119 16 0.12
120 10 0.08
121 4 0.03
ACGTcount: A:0.26, C:0.07, G:0.08, T:0.59
Consensus pattern (116 bp):
TTTTTATTACTTTATTTTAATATTTTGTTATATTTGTTTTTTTTACATTACAATATTTATATATA
TGAGTGTATATCTTTTTATATACTATATGTATATATATTTACATAGCCTTA
Found at i:33150683 original size:22 final size:22
Alignment explanation
Indices: 33150652--33150720 Score: 68
Period size: 22 Copynumber: 3.2 Consensus size: 22
33150642 TTTAATTACT
33150652 TTATTATTTTTATTATATTTTA
1 TTATTATTTTTATTATATTTTA
* * *
33150674 TTATTCTTTTTTTTGTATTTTA
1 TTATTATTTTTATTATATTTTA
* ** *
33150696 ATATTATTACTATTAT-TATTA
1 TTATTATTTTTATTATATTTTA
33150717 TTAT
1 TTAT
33150721 CATTGTTAAT
Statistics
Matches: 36, Mismatches: 11, Indels: 1
0.75 0.23 0.02
Matches are distributed among these distances:
21 7 0.19
22 29 0.81
ACGTcount: A:0.26, C:0.03, G:0.01, T:0.70
Consensus pattern (22 bp):
TTATTATTTTTATTATATTTTA
Found at i:33150771 original size:14 final size:13
Alignment explanation
Indices: 33150747--33150793 Score: 62
Period size: 12 Copynumber: 3.7 Consensus size: 13
33150737 AATATTTTTG
*
33150747 TTATATGTATGTA
1 TTATATATATGTA
33150760 TGTATATATATGTA
1 T-TATATATATGTA
33150774 -TATATATATGTA
1 TTATATATATGTA
33150786 TT-TATATA
1 TTATATATA
33150794 ATAGTATTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
12 18 0.58
13 2 0.06
14 11 0.35
ACGTcount: A:0.36, C:0.00, G:0.11, T:0.53
Consensus pattern (13 bp):
TTATATATATGTA
Found at i:33150800 original size:14 final size:16
Alignment explanation
Indices: 33150748--33150802 Score: 55
Period size: 14 Copynumber: 3.7 Consensus size: 16
33150738 ATATTTTTGT
* *
33150748 TATATGTATGTATGTA
1 TATATGTATTTATATA
*
33150764 TATA--TATGTATATA
1 TATATGTATTTATATA
33150778 TATATGTATTTATATA
1 TATATGTATTTATATA
33150794 -ATA-GTATTT
1 TATATGTATTT
33150803 TCGGTTACCT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
14 19 0.54
15 3 0.09
16 13 0.37
ACGTcount: A:0.36, C:0.00, G:0.11, T:0.53
Consensus pattern (16 bp):
TATATGTATTTATATA
Found at i:33151139 original size:23 final size:23
Alignment explanation
Indices: 33151112--33151168 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 23
33151102 ATCTTTTTAG
33151112 TATGTACATATTTTCAATACTAT
1 TATGTACATATTTTCAATACTAT
* * *
33151135 TATGTAAATACTTTTCATTCCTAT
1 TATGTACATA-TTTTCAATACTAT
33151159 TAT-TACATAT
1 TATGTACATAT
33151169 ATACTTTAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
22 1 0.03
23 14 0.48
24 14 0.48
ACGTcount: A:0.33, C:0.14, G:0.04, T:0.49
Consensus pattern (23 bp):
TATGTACATATTTTCAATACTAT
Found at i:33151151 original size:24 final size:23
Alignment explanation
Indices: 33151112--33151161 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
33151102 ATCTTTTTAG
*
33151112 TATGTACATATTTTCAATACTAT
1 TATGTAAATATTTTCAATACTAT
* *
33151135 TATGTAAATACTTTTCATTCCTAT
1 TATGTAAATA-TTTTCAATACTAT
33151159 TAT
1 TAT
33151162 TACATATATA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 9 0.39
24 14 0.61
ACGTcount: A:0.32, C:0.14, G:0.04, T:0.50
Consensus pattern (23 bp):
TATGTAAATATTTTCAATACTAT
Found at i:33153589 original size:26 final size:26
Alignment explanation
Indices: 33153560--33153667 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
33153550 TGGTACAAAT
33153560 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
33153586 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
33153612 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
33153638 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
33153664 TGAT
1 TGAT
33153668 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:33156212 original size:79 final size:81
Alignment explanation
Indices: 33156103--33156285 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
33156093 TACTCGTTCA
* *
33156103 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
33156166 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
**
33156183 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
* *
33156246 TATGGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
33156262 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
33156286 CATCATTCGA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 59 0.66
80 28 0.31
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:33156285 original size:40 final size:40
Alignment explanation
Indices: 33156082--33156285 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
33156072 CGGAATTTAA
** *
33156082 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
33156122 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
33156162 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
33156201 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
33156241 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
33156281 CCGGA
1 CCGGA
33156286 CATCATTCGA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:33157514 original size:55 final size:55
Alignment explanation
Indices: 33157413--33157587 Score: 332
Period size: 56 Copynumber: 3.1 Consensus size: 55
33157403 TATTAGTTTA
33157413 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATT-TTCCATTAACACAACATGTTTCATGACATGTT
33157469 TTGCCCATGCTTCTTATTTTATTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTCCATTAACACAACATGTTTCATGACATGTT
33157524 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTA-TTTTCCATTAACACAACATGTTTCATGACATGTT
33157580 TTGCCCAT
1 TTGCCCAT
33157588 CATCCCTTGT
Statistics
Matches: 118, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
55 53 0.45
56 65 0.55
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (55 bp):
TTGCCCATGCTTCTTATTTTATTTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:33163493 original size:79 final size:81
Alignment explanation
Indices: 33163384--33163566 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
33163374 TACTCGTTCA
* *
33163384 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
33163447 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
**
33163464 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
* *
33163527 TATGGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
33163543 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
33163567 CATCATTCGA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 59 0.66
80 28 0.31
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:33163566 original size:40 final size:40
Alignment explanation
Indices: 33163363--33163566 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
33163353 CGGAATTTAA
** *
33163363 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
33163403 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
33163443 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
33163482 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
33163522 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
33163562 CCGGA
1 CCGGA
33163567 CATCATTCGA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:33164779 original size:56 final size:56
Alignment explanation
Indices: 33164713--33164890 Score: 347
Period size: 56 Copynumber: 3.2 Consensus size: 56
33164703 TCTTCATTGT
33164713 TTTTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATG
1 TTTTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATG
33164769 TTTTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATG
1 TTTTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATG
*
33164825 TTTTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATG
1 TTTTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATG
33164881 TTTTGCCCAT
1 TTTTGCCCAT
33164891 CATCCCTTGT
Statistics
Matches: 121, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
56 121 1.00
ACGTcount: A:0.22, C:0.23, G:0.09, T:0.46
Consensus pattern (56 bp):
TTTTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATG
Found at i:33167087 original size:73 final size:72
Alignment explanation
Indices: 33166992--33167151 Score: 248
Period size: 73 Copynumber: 2.2 Consensus size: 72
33166982 TGATGTTTTT
33166992 ATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGT
1 ATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGT
33167057 AATTTCA
66 AATTTCA
* * * *
33167064 ATTTCTTTTTGTCAAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGG
1 ATTTCTGTTT-TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
*
33167129 TATTTTCA
65 TAATTTCA
*
33167137 ATGTCTGCTTTTCAA
1 ATTTCTG-TTTTCAA
33167152 TTTCTGCTTT
Statistics
Matches: 79, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
72 9 0.11
73 67 0.85
74 3 0.04
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.34
Consensus pattern (72 bp):
ATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGT
AATTTCA
Found at i:33167150 original size:14 final size:14
Alignment explanation
Indices: 33167131--33167165 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
33167121 CGCTGAGGTA
33167131 TTTTCAATGTCTGC
1 TTTTCAATGTCTGC
*
33167145 TTTTCAATTTCTGC
1 TTTTCAATGTCTGC
33167159 TTTTCAA
1 TTTTCAA
33167166 AAAAATCAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.17, C:0.20, G:0.09, T:0.54
Consensus pattern (14 bp):
TTTTCAATGTCTGC
Found at i:33167212 original size:89 final size:90
Alignment explanation
Indices: 33167077--33167478 Score: 421
Period size: 96 Copynumber: 4.4 Consensus size: 90
33167067 TCTTTTTGTC
* *
33167077 AAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGG-GCACG-CTGAGGTATTTTC-AAT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTACACGTC-GAGGTATTTTCAAAT
* *
33167139 GTCTGCTTTTCA-ATTTCTGCT-TTTCAA
65 -TCTG-TTTTCATATTTATG-TATTTAAA
* *
33167166 AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGG-ACACG-CTGAGGTATTTTCAAAT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTACACGTC-GAGGTATTTTCAAAT
* *
33167229 TCTGTTTTTATTTATTTATTTATATTAAA
65 TCTGTTTTCA--TATTTATGTAT-TTAAA
*
33167258 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTTACATGTCGAGGTATTTTCAAAT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG-TACACGTCGAGGTATTTTCAAAT
* *
33167323 TCTGTTTTTATTTATTTATTTATATTTAAAA
65 TCTGTTTTCA--TATTTA--TGTATTT-AAA
* *
33167354 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTTACATGTCGAGGTATTTTCAAAA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG-TACACGTCGAGGTATTTTCAAAT
* * *
33167419 TCTGCTTTTCA-AATTAAG--TTT-CA
65 TCTG-TTTTCATATTTATGTATTTAAA
* *
33167442 AAAAACCAACTCATATTGCGAGAGGTAAGTTGAGCCT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
33167479 TGGCTCATAT
Statistics
Matches: 280, Mismatches: 20, Indels: 27
0.86 0.06 0.08
Matches are distributed among these distances:
88 41 0.15
89 59 0.21
90 7 0.03
91 6 0.02
92 43 0.15
94 41 0.15
95 3 0.01
96 75 0.27
97 5 0.02
ACGTcount: A:0.30, C:0.15, G:0.19, T:0.35
Consensus pattern (90 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTACACGTCGAGGTATTTTCAAATT
CTGTTTTCATATTTATGTATTTAAA
Found at i:33167398 original size:96 final size:93
Alignment explanation
Indices: 33167077--33167427 Score: 441
Period size: 96 Copynumber: 3.8 Consensus size: 93
33167067 TCTTTTTGTC
* *
33167077 AAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTC-AATGT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAAAT-T
* * ** *
33167141 CTGCTTTTCA---ATTT-CTGCT-TTTCAA
65 CTG-TTTTTATTTATTTATTTATATTTAAA
* *
33167166 AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAAATTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAAATTC
33167231 TGTTTTTATTTATTTATTTATA-TTAAA
66 TGTTTTTATTTATTTATTTATATTTAAA
*
33167258 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTTACATG-TCGAGGTATTTTCAAA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG--ACACGCT-GAGGTATTTTCAAA
33167322 TTCTGTTTTTATTTATTTATTTATATTTAAAA
63 TTCTGTTTTTATTTATTTATTTATATTT-AAA
*
33167354 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTTACATG-TCGAGGTATTTTCAAA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG--ACACGCT-GAGGTATTTTCAAA
* *
33167418 ATCTGCTTTT
63 TTCTGTTTTT
33167428 CAAATTAAGT
Statistics
Matches: 237, Mismatches: 14, Indels: 15
0.89 0.05 0.06
Matches are distributed among these distances:
88 5 0.02
89 59 0.25
90 3 0.01
91 4 0.02
92 45 0.19
93 1 0.00
94 43 0.18
95 2 0.01
96 75 0.32
ACGTcount: A:0.29, C:0.15, G:0.19, T:0.37
Consensus pattern (93 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAAATTC
TGTTTTTATTTATTTATTTATATTTAAA
Found at i:33167504 original size:184 final size:184
Alignment explanation
Indices: 33167164--33167516 Score: 439
Period size: 184 Copynumber: 1.9 Consensus size: 184
33167154 TCTGCTTTTC
*
33167164 AAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAAAT
1 AAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAAAA
* * *
33167229 TCTGTTTTTATTTATTTATTTATATTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
66 TCTGTTTTCA--TA--TATTTATATTAAAAAAAACCAACTCATATTGCGAGAGGTAAGTTGAGCC
* *
33167294 TCGGGTTACATGTCGAGGTATTTTCAAATTCTGTTTTTATTTATTTATTTATATTTAA
127 TCGGCTCACATGTCGAGGTATTTTCAAATTCTGTTTTTATTTATTTATTTATATTTAA
* * *
33167352 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTTACATG-TCGAGGTATTTTCA
1 AAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGG--ACACGCT-GAGGTATTTTCA
**
33167416 AAATCTGCTTTTCA-A-A-TTA-AGTTTCAAAAAACCAACTCATATTGCGAGAGGTAAGTTGAGC
63 AAATCTG-TTTTCATATATTTATA-TTAAAAAAAACCAACTCATATTGCGAGAGGTAAGTTGAGC
* * * *
33167477 CTTGGCTCATATG-CTGAGTTATTTTCAATTTCTGTTTTTA
126 CTCGGCTCACATGTC-GAGGTATTTTCAAATTCTGTTTTTA
33167517 ATGTCTGTTT
Statistics
Matches: 144, Mismatches: 15, Indels: 16
0.82 0.09 0.09
Matches are distributed among these distances:
183 2 0.01
184 71 0.49
185 1 0.01
188 42 0.29
189 1 0.01
190 22 0.15
191 5 0.03
ACGTcount: A:0.31, C:0.14, G:0.18, T:0.37
Consensus pattern (184 bp):
AAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAAAA
TCTGTTTTCATATATTTATATTAAAAAAAACCAACTCATATTGCGAGAGGTAAGTTGAGCCTCGG
CTCACATGTCGAGGTATTTTCAAATTCTGTTTTTATTTATTTATTTATATTTAA
Found at i:33168082 original size:17 final size:17
Alignment explanation
Indices: 33168057--33168090 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
33168047 ATATTACAAC
*
33168057 TAAACCCCTAAACCCAT
1 TAAAACCCTAAACCCAT
*
33168074 TAAAACCCTTAACCCAT
1 TAAAACCCTAAACCCAT
33168091 CAGACCCACT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.41, C:0.38, G:0.00, T:0.21
Consensus pattern (17 bp):
TAAAACCCTAAACCCAT
Found at i:33168734 original size:28 final size:28
Alignment explanation
Indices: 33168690--33168753 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 28
33168680 ACCTGCAGAG
33168690 AAAAAAAAGAAGAGAAAGAA-AATTTAA
1 AAAAAAAAGAAGAGAAAGAAGAATTTAA
33168717 AAAAAAAAGCAA-AGGAAAGAATGAATTTAA
1 AAAAAAAAG-AAGA-GAAAGAA-GAATTTAA
33168747 AAAAAAA
1 AAAAAAA
33168754 CAATCTGACT
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
27 10 0.30
28 9 0.27
30 14 0.42
ACGTcount: A:0.73, C:0.02, G:0.14, T:0.11
Consensus pattern (28 bp):
AAAAAAAAGAAGAGAAAGAAGAATTTAA
Found at i:33169191 original size:18 final size:18
Alignment explanation
Indices: 33169168--33169242 Score: 75
Period size: 18 Copynumber: 4.2 Consensus size: 18
33169158 TATTAAATAT
*
33169168 TATTATTATTATTTCTAA
1 TATTATTATTATTTATAA
33169186 TATTATTA--AGTTTATCAA
1 TATTATTATTA-TTTAT-AA
33169204 TATTATTATTATTTAT-A
1 TATTATTATTATTTATAA
* *
33169221 TATTAGTATATATTTATTA
1 TATTATTAT-TATTTATAA
33169240 TAT
1 TAT
33169243 ATATATTGTA
Statistics
Matches: 49, Mismatches: 2, Indels: 11
0.79 0.03 0.18
Matches are distributed among these distances:
16 1 0.02
17 13 0.27
18 25 0.51
19 9 0.18
20 1 0.02
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.59
Consensus pattern (18 bp):
TATTATTATTATTTATAA
Found at i:33169215 original size:15 final size:16
Alignment explanation
Indices: 33169171--33169225 Score: 51
Period size: 15 Copynumber: 3.3 Consensus size: 16
33169161 TAAATATTAT
33169171 TATTATTATT-TCTAA
1 TATTATTATTATCTAA
33169186 TATTATTAAGTTTATC-AA
1 TATTATT-A--TTATCTAA
*
33169204 TATTATTATTATTTATA
1 TATTATTATTATCTA-A
33169221 TATTA
1 TATTA
33169226 GTATATATTT
Statistics
Matches: 33, Mismatches: 1, Indels: 10
0.75 0.02 0.23
Matches are distributed among these distances:
15 11 0.33
16 2 0.06
17 7 0.21
18 11 0.33
19 2 0.06
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.58
Consensus pattern (16 bp):
TATTATTATTATCTAA
Found at i:33169528 original size:32 final size:33
Alignment explanation
Indices: 33169492--33169566 Score: 82
Period size: 33 Copynumber: 2.3 Consensus size: 33
33169482 TACATAGTCT
* *
33169492 TATTT-TTATTACTTTATTTCAATAT-TTTGTTA
1 TATTTATTATTAC-GTATTTCAATATATTTATTA
* * *
33169524 TATTTGTTTTTTCGTATTTCAATATATTTATTA
1 TATTTATTATTACGTATTTCAATATATTTATTA
33169557 TATTTATTAT
1 TATTTATTAT
33169567 ATAGTAGTGT
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
32 16 0.46
33 19 0.54
ACGTcount: A:0.25, C:0.05, G:0.04, T:0.65
Consensus pattern (33 bp):
TATTTATTATTACGTATTTCAATATATTTATTA
Found at i:33169535 original size:121 final size:115
Alignment explanation
Indices: 33169256--33169535 Score: 280
Period size: 121 Copynumber: 2.4 Consensus size: 115
33169246 TATTGTAGTG
* * *
33169256 TTTTCTATTACTTCATTTTTATATTTTGTTATATTTGCTTTTTTGCATTACAATATTTTTATATA
1 TTTT-TATTACTTTATTTTAATATTTTGTTATATTTGCTTTTTTG-ATTACAATATTTATATATA
* * * *
33169321 TGAGTGTATATGTTTTTATGTACGTATATGTATATATATTTATATAGCCTTA
64 TGAGTGTATATGTTTTTATATACGTATATATAGATATATTTACATAGCCTTA
* * * ** *
33169373 TTTTTATCATTTTATTTTAATATTTTATTATACGTGCTTTTTTG-TTACTATTATTAATATATAT
1 TTTTTATTACTTTATTTTAATATTTTGTTATATTTGCTTTTTTGATTAC-AATATT--TATATAT
* * *
33169437 AAT-AGTGTATACTTTTTATCATATATATGTATATATAGATAT-TTGTACATAGTCTTA
63 -ATGAGTGTATA-TGTTT-T--TATATACGTATATATAGATATATT-TACATAGCCTTA
*
33169494 TTTTTATTACTTTATTTCAATATTTTGTTATATTTG-TTTTTT
1 TTTTTATTACTTTATTTTAATATTTTGTTATATTTGCTTTTTT
33169536 CGTATTTCAA
Statistics
Matches: 132, Mismatches: 22, Indels: 15
0.78 0.13 0.09
Matches are distributed among these distances:
114 4 0.03
115 5 0.04
116 33 0.25
117 18 0.14
118 6 0.05
119 1 0.01
120 8 0.06
121 57 0.43
ACGTcount: A:0.27, C:0.07, G:0.08, T:0.59
Consensus pattern (115 bp):
TTTTTATTACTTTATTTTAATATTTTGTTATATTTGCTTTTTTGATTACAATATTTATATATATG
AGTGTATATGTTTTTATATACGTATATATAGATATATTTACATAGCCTTA
Found at i:33169622 original size:23 final size:22
Alignment explanation
Indices: 33169555--33169622 Score: 64
Period size: 23 Copynumber: 2.9 Consensus size: 22
33169545 ATATATTTAT
*
33169555 TATATTTATTATATAGTAGTGTA
1 TATATTTATTATATAGTA-TATA
* *
33169578 TATTTTTATTACCTATGTGTATATA
1 TATATTTATTA--TAT-AGTATATA
33169603 TATATTTATATATATAGTAT
1 TATATTTAT-TATATAGTAT
33169623 GCTTTTTAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
23 14 0.39
24 3 0.08
25 14 0.39
26 5 0.14
ACGTcount: A:0.34, C:0.03, G:0.09, T:0.54
Consensus pattern (22 bp):
TATATTTATTATATAGTATATA
Found at i:33169678 original size:23 final size:23
Alignment explanation
Indices: 33169643--33169686 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
33169633 TACTTTATTA
*
33169643 TTTTTATTATATTTTATTATTCT
1 TTTTTATTATATTTTAATATTCT
* *
33169666 TTTTTTTTGTATTTTAATATT
1 TTTTTATTATATTTTAATATT
33169687 ATTACTATTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.75
Consensus pattern (23 bp):
TTTTTATTATATTTTAATATTCT
Found at i:33169748 original size:14 final size:14
Alignment explanation
Indices: 33169729--33169764 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
33169719 TGAATATTTT
*
33169729 TGTATATGTATGTA
1 TGTATATATATGTA
33169743 TGTATATATATGTA
1 TGTATATATATGTA
*
33169757 TTTATATA
1 TGTATATA
33169765 ATAGTATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.53
Consensus pattern (14 bp):
TGTATATATATGTA
Found at i:33169771 original size:14 final size:14
Alignment explanation
Indices: 33169731--33169773 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
33169721 AATATTTTTG
* *
33169731 TATATGTATGTATG
1 TATATATATGTATT
33169745 TATATATATGTATT
1 TATATATATGTATT
33169759 TATATA-ATAGTATT
1 TATATATAT-GTATT
33169773 T
1 T
33169774 TCAGTTACCT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
13 2 0.08
14 24 0.92
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (14 bp):
TATATATATGTATT
Found at i:33170165 original size:23 final size:23
Alignment explanation
Indices: 33170138--33170194 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 23
33170128 ATCTTTTTAG
33170138 TATGTACATATTTTCAATACTAT
1 TATGTACATATTTTCAATACTAT
* * *
33170161 TATGTAAATACTTTTCATTCCTAT
1 TATGTACATA-TTTTCAATACTAT
33170185 TAT-TACATAT
1 TATGTACATAT
33170195 ATACTTTAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
22 1 0.03
23 14 0.48
24 14 0.48
ACGTcount: A:0.33, C:0.14, G:0.04, T:0.49
Consensus pattern (23 bp):
TATGTACATATTTTCAATACTAT
Found at i:33170177 original size:24 final size:23
Alignment explanation
Indices: 33170138--33170187 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
33170128 ATCTTTTTAG
*
33170138 TATGTACATATTTTCAATACTAT
1 TATGTAAATATTTTCAATACTAT
* *
33170161 TATGTAAATACTTTTCATTCCTAT
1 TATGTAAATA-TTTTCAATACTAT
33170185 TAT
1 TAT
33170188 TACATATATA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 9 0.39
24 14 0.61
ACGTcount: A:0.32, C:0.14, G:0.04, T:0.50
Consensus pattern (23 bp):
TATGTAAATATTTTCAATACTAT
Found at i:33171217 original size:27 final size:26
Alignment explanation
Indices: 33171169--33171310 Score: 152
Period size: 27 Copynumber: 5.5 Consensus size: 26
33171159 AGCGGGCTGC
* *
33171169 CAGATATTGTGAC-GAAGTCACCAGAT
1 CAGATATTGTGGCAG-AGCCACCAGAT
*
33171195 ACAGATATTGTGGTAGAGCCACCAGAT
1 -CAGATATTGTGGCAGAGCCACCAGAT
33171222 ---ATA-TGTGGCAGAGCCACCAGAT
1 CAGATATTGTGGCAGAGCCACCAGAT
*
33171244 CAGATAATTGTGGCATAGCCACCAGGA-
1 CAGAT-ATTGTGGCAGAGCCACCA-GAT
33171271 CAGATATATGTGGCAGAGCCACCAGAT
1 CAGATAT-TGTGGCAGAGCCACCAGAT
33171298 CAGATAATTGTGG
1 CAGAT-ATTGTGG
33171311 TAGCCACCAG
Statistics
Matches: 99, Mismatches: 6, Indels: 20
0.79 0.05 0.16
Matches are distributed among these distances:
22 18 0.18
23 3 0.03
25 2 0.02
26 5 0.05
27 66 0.67
28 5 0.05
ACGTcount: A:0.33, C:0.20, G:0.26, T:0.21
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAT
Found at i:33171243 original size:49 final size:48
Alignment explanation
Indices: 33171187--33171320 Score: 173
Period size: 54 Copynumber: 2.7 Consensus size: 48
33171177 GTGACGAAGT
33171187 CACCAGATACAGAT-ATTGTGGTAGAGCCACCAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGTA-AGCCACCAGATATATGTGGCAGAGC
*
33171236 CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGTA-AGCCA-C----CAGATATATGTGGCAGAGC
33171290 CACCAGATCAGATAATTGTGGT-AGCCACCAG
1 CACCAGATCAGATAATTGTGGTAAGCCACCAG
33171321 GACGCTTCCT
Statistics
Matches: 76, Mismatches: 3, Indels: 14
0.82 0.03 0.15
Matches are distributed among these distances:
47 3 0.04
48 5 0.07
49 21 0.28
50 1 0.01
51 1 0.01
52 5 0.07
54 40 0.53
ACGTcount: A:0.33, C:0.22, G:0.25, T:0.19
Consensus pattern (48 bp):
CACCAGATCAGATAATTGTGGTAAGCCACCAGATATATGTGGCAGAGC
Found at i:33171280 original size:54 final size:52
Alignment explanation
Indices: 33171217--33171323 Score: 196
Period size: 54 Copynumber: 2.0 Consensus size: 52
33171207 GTAGAGCCAC
33171217 CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGGA
1 CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGG--TAGCCACCAGGA
33171271 CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGTAGCCACCAGGA
1 CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGTAGCCACCAGGA
33171323 C
1 C
33171324 GCTTCCTCCA
Statistics
Matches: 53, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
52 13 0.25
54 40 0.75
ACGTcount: A:0.33, C:0.22, G:0.26, T:0.19
Consensus pattern (52 bp):
CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGTAGCCACCAGGA
Found at i:33178615 original size:24 final size:24
Alignment explanation
Indices: 33178587--33178633 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
33178577 ACCAATGAAC
*
33178587 CGGGGAATCAGCACTTAGCACCCT
1 CGGGGAATCAGCACATAGCACCCT
33178611 CGGGGAATCAGCACATAGCACCC
1 CGGGGAATCAGCACATAGCACCC
33178634 CCTTTTCACA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.28, C:0.34, G:0.26, T:0.13
Consensus pattern (24 bp):
CGGGGAATCAGCACATAGCACCCT
Found at i:33178795 original size:101 final size:103
Alignment explanation
Indices: 33178481--33178908 Score: 595
Period size: 100 Copynumber: 4.3 Consensus size: 103
33178471 TGCACCCCGC
33178481 TGAATC-GGGAATCAGCACTTAGCAACCCCTCGGGGAATCAG-ACATAGCAACCCCC-TTTCACA
1 TGAATCGGGGAATCAGCACTTAGCAA-CCCTCGGGGAATCAGCACATAGCAACCCCCTTTTCACA
*
33178543 TTTCAAAGATATGGTGGAT-ATCGCACTTAGCACCACCAA
65 TTTCAAAGATATGGTGGATCA-CGCACATAGCACCACCAA
*
33178582 TGAACCGGGGAATCAGCACTTAGC-ACCCTCGGGGAATCAGCACATAGC-ACCCCCTTTTCACA-
1 TGAATCGGGGAATCAGCACTTAGCAACCCTCGGGGAATCAGCACATAGCAACCCCCTTTTCACAT
33178644 TTCAAAGATATGGTGGATCACGCACATAG-A-CACCACA
66 TTCAAAGATATGGTGGATCACGCACATAGCACCACCA-A
*
33178681 TGAATCGGGGAATCA-CACTTAGCAACCCTCGGGGGAA-CAGCACATAGCAACCCCCTTTTTACA
1 TGAATCGGGGAATCAGCACTTAGCAACCCTC-GGGGAATCAGCACATAGCAACCCCCTTTTCACA
*
33178744 TTTCAAAGATAGGGT-GATCACCGCACATAGCACCA-CAA
65 TTTCAAAGATATGGTGGATCA-CGCACATAGCACCACCAA
** *
33178782 TGAATCGGGGAATCAGCACACAGCAACCCTCGGGGAATCAGCAC-TAGCAA-CCCCTTTTTACAT
1 TGAATCGGGGAATCAGCACTTAGCAACCCTCGGGGAATCAGCACATAGCAACCCCCTTTTCACAT
33178845 TTC-AAGATAT-GTGGATCACGCACA-AGCACCACCAA
66 TTCAAAGATATGGTGGATCACGCACATAGCACCACCAA
* **
33178880 TGAATCGGGGAATCAACACACAGCAACCC
1 TGAATCGGGGAATCAGCACTTAGCAACCC
33178909 CTTTATATAC
Statistics
Matches: 302, Mismatches: 9, Indels: 35
0.87 0.03 0.10
Matches are distributed among these distances:
97 7 0.02
98 52 0.17
99 44 0.15
100 87 0.29
101 71 0.24
102 39 0.13
103 2 0.01
ACGTcount: A:0.32, C:0.29, G:0.20, T:0.18
Consensus pattern (103 bp):
TGAATCGGGGAATCAGCACTTAGCAACCCTCGGGGAATCAGCACATAGCAACCCCCTTTTCACAT
TTCAAAGATATGGTGGATCACGCACATAGCACCACCAA
Found at i:33178836 original size:25 final size:25
Alignment explanation
Indices: 33178786--33178834 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
33178776 CCACAATGAA
33178786 TCGGGGAATCAGCACACAGCAACCC
1 TCGGGGAATCAGCACACAGCAACCC
*
33178811 TCGGGGAATCAGCAC-TAGCAACCC
1 TCGGGGAATCAGCACACAGCAACCC
33178835 CTTTTTACAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 8 0.35
25 15 0.65
ACGTcount: A:0.31, C:0.35, G:0.24, T:0.10
Consensus pattern (25 bp):
TCGGGGAATCAGCACACAGCAACCC
Found at i:33179267 original size:29 final size:29
Alignment explanation
Indices: 33179234--33179297 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
33179224 TAATCCACCA
33179234 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
33179263 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
33179293 CCCAA
1 CCCAA
33179298 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:33179271 original size:30 final size:30
Alignment explanation
Indices: 33179241--33179297 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
33179231 CCACCCAACT
33179241 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
33179270 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
33179298 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:33186370 original size:105 final size:105
Alignment explanation
Indices: 33186115--33186590 Score: 789
Period size: 105 Copynumber: 4.6 Consensus size: 105
33186105 TAACCGTTAT
* * **
33186115 TGGTGGATCTCGCACTTAGCACCACCGCTGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATCACGCACATAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
33186180 AATCAGCACATAGCAACCCCC-TTT--CATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
* * *
33186217 TGGTGGAT-ATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCGACCCCTCGGGG
1 TGGTGGATCA-CGCACATAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGG
33186281 GAATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
65 GAATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
*
33186322 TGGTGGATCACGCACATAGTACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATCACGCACATAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
33186387 AATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
**
33186427 TGGTGGATCACGCACATAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCTCGGGGG
1 TGGTGGATCACGCACATAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
*
33186492 AATCAGCACATAGCAACCCCCTTTTTACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
* **
33186532 TGGTGGATCATGCACATAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 TGGTGGATCACGCACATAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
33186591 TTATATACAA
Statistics
Matches: 355, Mismatches: 14, Indels: 7
0.94 0.04 0.02
Matches are distributed among these distances:
102 80 0.23
103 3 0.01
105 271 0.76
106 1 0.00
ACGTcount: A:0.30, C:0.30, G:0.21, T:0.19
Consensus pattern (105 bp):
TGGTGGATCACGCACATAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
AATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
Found at i:33186951 original size:29 final size:29
Alignment explanation
Indices: 33186918--33186981 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
33186908 TAATCCACCA
33186918 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
33186947 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
33186977 CCCAA
1 CCCAA
33186982 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Done.