Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D07
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: 56457815
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1765025 characters in sequence are not A, C, G, or T
File 117 of 189
Found at i:32905569 original size:23 final size:23
Alignment explanation
Indices: 32905543--32905615 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
32905533 AGTGCCACAT
*
32905543 TGATCTGTAGCCGAAGCTACCAC
1 TGATATGTAGCCGAAGCTACCAC
*
32905566 TGATATGTAGCCGTAGCTACCAC
1 TGATATGTAGCCGAAGCTACCAC
*
32905589 TGAAATGTAGCCGAAGCTACCAC
1 TGATATGTAGCCGAAGCTACCAC
32905612 TGAT
1 TGAT
32905616 CAATAACACT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.29, C:0.26, G:0.22, T:0.23
Consensus pattern (23 bp):
TGATATGTAGCCGAAGCTACCAC
Found at i:32905715 original size:8 final size:8
Alignment explanation
Indices: 32905702--32905730 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
32905692 ACCCGGGACT
32905702 CACTGTAA
1 CACTGTAA
32905710 CACTGTAA
1 CACTGTAA
32905718 CACTGTAA
1 CACTGTAA
32905726 CACTG
1 CACTG
32905731 GTCTCTAGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.34, C:0.28, G:0.14, T:0.24
Consensus pattern (8 bp):
CACTGTAA
Found at i:32905875 original size:18 final size:17
Alignment explanation
Indices: 32905849--32905887 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
32905839 ATTTTCCTTC
32905849 CACATTC-AATATTAATT
1 CACATTCAAATA-TAATT
32905866 CACATATCAAATATAATT
1 CACAT-TCAAATATAATT
32905884 CACA
1 CACA
32905888 ATTTATACAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 11 0.55
19 4 0.20
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
CACATTCAAATATAATT
Found at i:32917469 original size:81 final size:81
Alignment explanation
Indices: 32917329--32917595 Score: 338
Period size: 81 Copynumber: 3.3 Consensus size: 81
32917319 GTAAAATAAA
* * * *
32917329 AAATACCC-CTATAGGGTAAAATGACCAAAATACCCCCATAAGGTAAAATGATCGAAATACCCCA
1 AAATACCCTC-ATAGGGTAAAATGACCGAAATACCCCCATAAGGTAGAATGACCGAAATACCCCC
* *
32917393 ATAAGGTAAAATGACTG
65 ATAGGGTAAAATGATTG
* * * * * * * *
32917410 AAATACACTCATAGGGTAACATGACTGAAATACCCCCATAGGGTAGAATTAGCGGAATACCCCCT
1 AAATACCCTCATAGGGTAAAATGACCGAAATACCCCCATAAGGTAGAATGACCGAAATACCCCCA
* *
32917475 TAGGGTAGACTGATTG
66 TAGGGTAAAATGATTG
* * *
32917491 AAATACCCTCATAGGGTAGAATGACCGAAATACCCCCATACGATAGAATGACCGAAATACCCCCA
1 AAATACCCTCATAGGGTAAAATGACCGAAATACCCCCATAAGGTAGAATGACCGAAATACCCCCA
32917556 TAGGGTAAAATGATTG
66 TAGGGTAAAATGATTG
*
32917572 AAATACCCCCATAGGGTAAAATGA
1 AAATACCCTCATAGGGTAAAATGA
32917596 TTGTTATACC
Statistics
Matches: 156, Mismatches: 29, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
81 155 0.99
82 1 0.01
ACGTcount: A:0.40, C:0.22, G:0.18, T:0.19
Consensus pattern (81 bp):
AAATACCCTCATAGGGTAAAATGACCGAAATACCCCCATAAGGTAGAATGACCGAAATACCCCCA
TAGGGTAAAATGATTG
Found at i:32917605 original size:27 final size:27
Alignment explanation
Indices: 32917329--32917595 Score: 291
Period size: 27 Copynumber: 9.9 Consensus size: 27
32917319 GTAAAATAAA
* *
32917329 AAATACCCCTATAGGGTAAAATGACCA
1 AAATACCCCCATAGGGTAAAATGACCG
* *
32917356 AAATACCCCCATAAGGTAAAATGATCG
1 AAATACCCCCATAGGGTAAAATGACCG
* * *
32917383 AAATACCCCAATAAGGTAAAATGACTG
1 AAATACCCCCATAGGGTAAAATGACCG
* * * *
32917410 AAATACACTCATAGGGTAACATGACTG
1 AAATACCCCCATAGGGTAAAATGACCG
* * *
32917437 AAATACCCCCATAGGGTAGAATTAGCG
1 AAATACCCCCATAGGGTAAAATGACCG
* * * * **
32917464 GAATACCCCCTTAGGGTAGACTGATTG
1 AAATACCCCCATAGGGTAAAATGACCG
* *
32917491 AAATACCCTCATAGGGTAGAATGACCG
1 AAATACCCCCATAGGGTAAAATGACCG
* * *
32917518 AAATACCCCCATACGATAGAATGACCG
1 AAATACCCCCATAGGGTAAAATGACCG
**
32917545 AAATACCCCCATAGGGTAAAATGATTG
1 AAATACCCCCATAGGGTAAAATGACCG
32917572 AAATACCCCCATAGGGTAAAATGA
1 AAATACCCCCATAGGGTAAAATGA
32917596 TTGTTATACC
Statistics
Matches: 201, Mismatches: 39, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 201 1.00
ACGTcount: A:0.40, C:0.22, G:0.18, T:0.19
Consensus pattern (27 bp):
AAATACCCCCATAGGGTAAAATGACCG
Found at i:32919367 original size:50 final size:52
Alignment explanation
Indices: 32919313--32919461 Score: 142
Period size: 56 Copynumber: 2.8 Consensus size: 52
32919303 TCTCATATTC
* * *
32919313 GTGCCCATGTCATGTCCTAGACATGGTCTTACGGGGGGCCTCTC-ATCTC-G
1 GTGCCAATGTCATGTCCTAGACATGGTCTTACAGGGGACCTCTCAATCTCAG
* * *
32919363 GTGCCAACG-CTATGTCCCAGACATGGTCTTACATGGGACCTCTCATAATCTCAATG
1 GTGCCAATGTC-ATGTCCTAGACATGGTCTTACAGGGGACCTCTC--AATCTC-A-G
* * * *
32919419 ATGCCAATGTCATGTCCTATACATGGTCTTACATGGGATCTCT
1 GTGCCAATGTCATGTCCTAGACATGGTCTTACAGGGGACCTCT
32919462 TTACCCAAAT
Statistics
Matches: 80, Mismatches: 11, Indels: 10
0.79 0.11 0.10
Matches are distributed among these distances:
49 1 0.01
50 36 0.45
53 5 0.06
56 37 0.46
57 1 0.01
ACGTcount: A:0.21, C:0.28, G:0.22, T:0.30
Consensus pattern (52 bp):
GTGCCAATGTCATGTCCTAGACATGGTCTTACAGGGGACCTCTCAATCTCAG
Found at i:32923866 original size:146 final size:146
Alignment explanation
Indices: 32923602--32923893 Score: 469
Period size: 146 Copynumber: 2.0 Consensus size: 146
32923592 CCATATGAGC
32923602 GTGTGGGCCCACTTGGGCCGAGTAATGGGCCTTGGGCCCATTTACACTATTATGACCATTTAGGT
1 GTGTGGGCCCACTTGGGCCGAGTAATGGGCCTTGGGCCCATTTACACTATTATGACCATTTAGGT
* * ** *
32923667 TATCTGAGTCACTGGAGCTGACTGAGGACCTTTCGAGAGGTCCATATCTACACCTAGACCCCAAA
66 TACCTGAGTCACTCGAGCTGACACAGGACCTTTCAAGAGGTCCATATCTACACCTAGACCCCAAA
32923732 ATAGGTAAAATGACAA
131 ATAGGTAAAATGACAA
*
32923748 GTGTGGGCCCACTTGGGCCGAGTAATGGGCCTTGGGCCCATTTACACTGTTATGACCATTTAGGT
1 GTGTGGGCCCACTTGGGCCGAGTAATGGGCCTTGGGCCCATTTACACTATTATGACCATTTAGGT
* * ** *
32923813 TACCTGAGTCGCTCGAGGC-GACACCGGACCTTTCAAGAGGTTGATATTTACACCTAGACCCCAA
66 TACCTGAGTCACTCGA-GCTGACACAGGACCTTTCAAGAGGTCCATATCTACACCTAGACCCCAA
32923877 AATAGGTAAAATGACAA
130 AATAGGTAAAATGACAA
32923894 AAATACCCCC
Statistics
Matches: 134, Mismatches: 11, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
146 132 0.99
147 2 0.01
ACGTcount: A:0.26, C:0.24, G:0.25, T:0.25
Consensus pattern (146 bp):
GTGTGGGCCCACTTGGGCCGAGTAATGGGCCTTGGGCCCATTTACACTATTATGACCATTTAGGT
TACCTGAGTCACTCGAGCTGACACAGGACCTTTCAAGAGGTCCATATCTACACCTAGACCCCAAA
ATAGGTAAAATGACAA
Found at i:32923912 original size:27 final size:27
Alignment explanation
Indices: 32923881--32924372 Score: 500
Period size: 27 Copynumber: 18.3 Consensus size: 27
32923871 CCCCAAAATA
**
32923881 GGTAAAATGACAAAAATACCCCCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
* * *
32923908 GGTAAAATGACCAAAATACCCTCATAA
1 GGTAAAATGACCGAAATACCCCCATAG
* *
32923935 GGTAAAATGACTGAAATACCCCCATAA
1 GGTAAAATGACCGAAATACCCCCATAG
* **
32923962 GGTAAAATGACTGAAATACGTCCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
***
32923989 GGTAAAATGATTAAAATACCCCCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
* *
32924016 GGTAGAATAACCGAAATACCCCCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
* * * *
32924043 GGCAGAATGATCGAAATACCCTCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
* *
32924070 GATAGAATGACCGAAATACCCCCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
* * *
32924097 GGTAGAATGACCGAAATACCTCCATTG
1 GGTAAAATGACCGAAATACCCCCATAG
* ***
32924124 GGTAGAATGACCGAAATATTACCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
* * *
32924151 GGTAAAATGATCGAAATACGCCCAAAG
1 GGTAAAATGACCGAAATACCCCCATAG
* * *
32924178 GGTAAAATGATCAAAATACTCCCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
* * *
32924205 GGTAGAATGATCGAAATA-CCCTATAG
1 GGTAAAATGACCGAAATACCCCCATAG
* * *
32924231 GGTAGAATGATCGAAATACCCTCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
* * *
32924258 GGTAGAATGACCAAAATACCCCTATAG
1 GGTAAAATGACCGAAATACCCCCATAG
* ** * *
32924285 GGTAAAATAACTAAAATAGCCCTATAG
1 GGTAAAATGACCGAAATACCCCCATAG
** * *
32924312 GGTAAAATGACTAAAATACACCAATAG
1 GGTAAAATGACCGAAATACCCCCATAG
*
32924339 GGTAAAATGACTGAAATACCCCCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
32924366 GGTAAAA
1 GGTAAAA
32924373 GGACTGTTAT
Statistics
Matches: 401, Mismatches: 63, Indels: 2
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 0.06
27 377 0.94
ACGTcount: A:0.43, C:0.20, G:0.18, T:0.19
Consensus pattern (27 bp):
GGTAAAATGACCGAAATACCCCCATAG
Found at i:32926357 original size:26 final size:27
Alignment explanation
Indices: 32926323--32926377 Score: 94
Period size: 26 Copynumber: 2.1 Consensus size: 27
32926313 AAAAGGAATG
32926323 CATTAAAAAAAATCAATTTTTATGTGA
1 CATTAAAAAAAATCAATTTTTATGTGA
*
32926350 CATT-AAAAAAATCATTTTTTATGTGA
1 CATTAAAAAAAATCAATTTTTATGTGA
32926376 CA
1 CA
32926378 ATTTTTTTCC
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
26 23 0.85
27 4 0.15
ACGTcount: A:0.45, C:0.09, G:0.07, T:0.38
Consensus pattern (27 bp):
CATTAAAAAAAATCAATTTTTATGTGA
Found at i:32926493 original size:5 final size:6
Alignment explanation
Indices: 32926476--32926502 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
32926466 ATATTCTAAA
32926476 TATTTT TATTTT TATTTT TATTTT TAT
1 TATTTT TATTTT TATTTT TATTTT TAT
32926503 AATTTTCAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (6 bp):
TATTTT
Found at i:32928472 original size:32 final size:34
Alignment explanation
Indices: 32928436--32928501 Score: 91
Period size: 34 Copynumber: 2.0 Consensus size: 34
32928426 TTTATACCAA
32928436 AAAATAAATAATA-TTT-AAGAAACTTTTTATCT
1 AAAATAAATAATATTTTAAAGAAACTTTTTATCT
* * *
32928468 AAAATAAATATTATTTTAAAGATATTTTTTATCT
1 AAAATAAATAATATTTTAAAGAAACTTTTTATCT
32928502 CTTAAACCGC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 12 0.41
33 3 0.10
34 14 0.48
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (34 bp):
AAAATAAATAATATTTTAAAGAAACTTTTTATCT
Found at i:32933469 original size:33 final size:33
Alignment explanation
Indices: 32933432--32933498 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
32933422 GATACATTTG
*
32933432 AGGCCAATTTGACTAAGTGTCGAACGGAACTAC
1 AGGCCAATTTGACTAAGTGTCGAACAGAACTAC
32933465 AGGCCAATTTGACTAAGTGTCGAACAGAACTAC
1 AGGCCAATTTGACTAAGTGTCGAACAGAACTAC
32933498 A
1 A
32933499 AGAGAACATT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.36, C:0.21, G:0.22, T:0.21
Consensus pattern (33 bp):
AGGCCAATTTGACTAAGTGTCGAACAGAACTAC
Found at i:32934843 original size:14 final size:14
Alignment explanation
Indices: 32934824--32934852 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
32934814 ACCTTGTGGA
32934824 CTCTCTTGATTTGC
1 CTCTCTTGATTTGC
32934838 CTCTCTTGATTTGC
1 CTCTCTTGATTTGC
32934852 C
1 C
32934853 ATGTAGAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.07, C:0.31, G:0.14, T:0.48
Consensus pattern (14 bp):
CTCTCTTGATTTGC
Found at i:32941378 original size:28 final size:28
Alignment explanation
Indices: 32941316--32941379 Score: 83
Period size: 28 Copynumber: 2.3 Consensus size: 28
32941306 AAAATTCAAT
*
32941316 GGCCATATTGCAACGGTCAGATTCCAAC
1 GGCCATATTGCAACGATCAGATTCCAAC
* * * *
32941344 AGTCATATTGTAACGATCAGATTCTAAC
1 GGCCATATTGCAACGATCAGATTCCAAC
32941372 GGCCATAT
1 GGCCATAT
32941380 CATTGGGAAA
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (28 bp):
GGCCATATTGCAACGATCAGATTCCAAC
Found at i:32961508 original size:12 final size:13
Alignment explanation
Indices: 32961491--32961519 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
32961481 CTCATGCATG
32961491 AATAAATAAA-GC
1 AATAAATAAATGC
32961503 AATAAATAAATGC
1 AATAAATAAATGC
32961516 AATA
1 AATA
32961520 GTTATTCCCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.66, C:0.07, G:0.07, T:0.21
Consensus pattern (13 bp):
AATAAATAAATGC
Found at i:32963171 original size:24 final size:23
Alignment explanation
Indices: 32963144--32963200 Score: 78
Period size: 23 Copynumber: 2.4 Consensus size: 23
32963134 GTACGATGAG
32963144 AAATAAAAAAAATCTAAAAAAACT
1 AAATAAAAAAAATCT-AAAAAACT
** *
32963168 AAATAACTAAAATCTAAATAACT
1 AAATAAAAAAAATCTAAAAAACT
32963191 AAATAAAAAA
1 AAATAAAAAA
32963201 CTAAAATTAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
23 15 0.54
24 13 0.46
ACGTcount: A:0.72, C:0.09, G:0.00, T:0.19
Consensus pattern (23 bp):
AAATAAAAAAAATCTAAAAAACT
Found at i:32963175 original size:8 final size:8
Alignment explanation
Indices: 32963164--32963196 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
32963154 AATCTAAAAA
32963164 AACTAAAT
1 AACTAAAT
32963172 AACTAAA-
1 AACTAAAT
*
32963179 ATCTAAAT
1 AACTAAAT
32963187 AACTAAAT
1 AACTAAAT
32963195 AA
1 AA
32963197 AAAACTAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
7 6 0.27
8 16 0.73
ACGTcount: A:0.64, C:0.12, G:0.00, T:0.24
Consensus pattern (8 bp):
AACTAAAT
Found at i:32963194 original size:23 final size:24
Alignment explanation
Indices: 32963152--32963226 Score: 75
Period size: 27 Copynumber: 3.1 Consensus size: 24
32963142 AGAAATAAAA
32963152 AAAATCTAAAAAAACTAAATAACT
1 AAAATCTAAAAAAACTAAATAACT
* *
32963176 AAAATCTAAATAACTAAATAAAAAACT
1 AAAATCTAAA-AA--AACTAAATAACT
*
32963203 AAAAT-T-AAAACACT-AATAACT
1 AAAATCTAAAAAAACTAAATAACT
32963224 AAA
1 AAA
32963227 TAAAATCACA
Statistics
Matches: 43, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
21 9 0.21
22 2 0.05
24 12 0.28
25 4 0.09
26 1 0.02
27 15 0.35
ACGTcount: A:0.67, C:0.12, G:0.00, T:0.21
Consensus pattern (24 bp):
AAAATCTAAAAAAACTAAATAACT
Found at i:32971212 original size:3 final size:3
Alignment explanation
Indices: 32971199--32971228 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
32971189 TAGCTATGAA
*
32971199 AAT AGT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
32971229 TTTTCATTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:32971834 original size:16 final size:16
Alignment explanation
Indices: 32971793--32971831 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
32971783 TTATTTGTTT
32971793 ATTAAAT-TAAT--TA
1 ATTAAATATAATAATA
32971806 ATTAAATATAATAATA
1 ATTAAATATAATAATA
32971822 ATTAAA-ATAA
1 ATTAAATATAA
32971832 ATATCTATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 7 0.30
14 4 0.17
15 4 0.17
16 8 0.35
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
ATTAAATATAATAATA
Found at i:32971955 original size:14 final size:17
Alignment explanation
Indices: 32971936--32971973 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 17
32971926 ATTTATTTCT
32971936 TAATATAA-T-ATTT-A
1 TAATATAATTAATTTAA
32971950 TAATATAATTAATTTAA
1 TAATATAATTAATTTAA
32971967 TAATATA
1 TAATATA
32971974 CTTTATAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 8 0.38
15 1 0.05
16 4 0.19
17 8 0.38
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
TAATATAATTAATTTAA
Found at i:32971991 original size:11 final size:11
Alignment explanation
Indices: 32971953--32971991 Score: 51
Period size: 12 Copynumber: 3.4 Consensus size: 11
32971943 ATATTTATAA
32971953 TATAATTAATT
1 TATAATTAATT
*
32971964 TAATAATATACTT
1 T-ATAAT-TAATT
32971977 TATAATTAATT
1 TATAATTAATT
32971988 TATA
1 TATA
32971992 TATTTATATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
11 9 0.38
12 10 0.42
13 5 0.21
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (11 bp):
TATAATTAATT
Found at i:32973417 original size:6 final size:6
Alignment explanation
Indices: 32973406--32973447 Score: 50
Period size: 6 Copynumber: 7.0 Consensus size: 6
32973396 GGTTAGTTTA
**
32973406 ATTTTT ATTTTT ATTTTT -CCTTT ATTTTT ATTTTAT ATTTTT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTT-T ATTTTT
32973448 CTCTTTCCCA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
5 3 0.10
6 21 0.70
7 6 0.20
ACGTcount: A:0.17, C:0.05, G:0.00, T:0.79
Consensus pattern (6 bp):
ATTTTT
Found at i:32973434 original size:24 final size:25
Alignment explanation
Indices: 32973406--32973453 Score: 82
Period size: 23 Copynumber: 2.0 Consensus size: 25
32973396 GGTTAGTTTA
32973406 ATTTTTATTTT-TATTTTTC-CTTT
1 ATTTTTATTTTATATTTTTCTCTTT
32973429 ATTTTTATTTTATATTTTTCTCTTT
1 ATTTTTATTTTATATTTTTCTCTTT
32973454 CCCAAAAACC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 11 0.48
24 8 0.35
25 4 0.17
ACGTcount: A:0.15, C:0.08, G:0.00, T:0.77
Consensus pattern (25 bp):
ATTTTTATTTTATATTTTTCTCTTT
Found at i:32974841 original size:18 final size:20
Alignment explanation
Indices: 32974802--32974841 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
32974792 ATAGACTATC
32974802 TTTTAATTATCGGTTATATA
1 TTTTAATTATCGGTTATATA
*
32974822 TTTTAATTCT-GGTT-TATA
1 TTTTAATTATCGGTTATATA
32974840 TT
1 TT
32974842 GAGAGTTTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 6 0.32
19 4 0.21
20 9 0.47
ACGTcount: A:0.25, C:0.05, G:0.10, T:0.60
Consensus pattern (20 bp):
TTTTAATTATCGGTTATATA
Found at i:32978146 original size:87 final size:87
Alignment explanation
Indices: 32978000--32978599 Score: 848
Period size: 87 Copynumber: 6.9 Consensus size: 87
32977990 ACTTCAATCT
*
32978000 GCTCCACTGCAACCGATGGAGGCAAGGCCTT-GTTTTCGATCTGCTTTGCTGTTAATGCAGGAAG
1 GCTCCACTGCAACCGATGGAGGCAAGG-CTTCGTTTTCGATCTGCTTCGCTGTTAATGCAGGAAG
* *
32978064 ACAAGATCTGCTATCTTTAATCA
65 GCAAGATCTGCTATCTTTAACCA
* * * *
32978087 GCTCCACTACATCCGATGGAGGCAAGGCTTCGTTTTCGATCTGCTTCACTATTAATGCA-GAAGG
1 GCTCCACTGCAACCGATGGAGGCAAGGCTTCGTTTTCGATCTGCTTCGCTGTTAATGCAGGAAGG
* *
32978151 CAAGATCTGCTATCTTCAACCG
66 CAAGATCTGCTATCTTTAACCA
* * * * *
32978173 GCTCTATTGAAACCGATGGAGGCAAGGCTTCGTTTTCG-TCTGCTTCGCTGTTAATGTAGGAATG
1 GCTCCACTGCAACCGATGGAGGCAAGGCTTCGTTTTCGATCTGCTTCGCTGTTAATGCAGGAAGG
* *
32978237 AAAGATCTGTTATCTTTAACCA
66 CAAGATCTGCTATCTTTAACCA
* ** * *
32978259 GCTCCACTGCAACCGATGGAGGCAAGGCTTCATTTTTTATCTGCTTCGTTGTTAATGTAGGAAGG
1 GCTCCACTGCAACCGATGGAGGCAAGGCTTCGTTTTCGATCTGCTTCGCTGTTAATGCAGGAAGG
32978324 CAAGATCTGCTATCTTTAACCA
66 CAAGATCTGCTATCTTTAACCA
* *
32978346 GCTCCACTGCAATCGATGGAGGCAAGGCTTCGTTTTCGATCTGCTTCACTGTTAATGCAGGAAGG
1 GCTCCACTGCAACCGATGGAGGCAAGGCTTCGTTTTCGATCTGCTTCGCTGTTAATGCAGGAAGG
* *
32978411 CAAGATCTACTATCTTTGACCA
66 CAAGATCTGCTATCTTTAACCA
* * *
32978433 GCTCCACTGCAACTGATGGAGGCAAGGCTTCGTTTTCAATCTGCTTTGCTGTTAATGCAGGAAGG
1 GCTCCACTGCAACCGATGGAGGCAAGGCTTCGTTTTCGATCTGCTTCGCTGTTAATGCAGGAAGG
*
32978498 CAAGATCTACT-TCTTTAACCA
66 CAAGATCTGCTATCTTTAACCA
* * * * *
32978519 GCTCCACTACAACCGATGGAGGCAAGACTTTGTTTTTGATCTGCTTCGCTGTCAATGCAGGAAGG
1 GCTCCACTGCAACCGATGGAGGCAAGGCTTCGTTTTCGATCTGCTTCGCTGTTAATGCAGGAAGG
*
32978584 CAAGATCTGTTATCTT
66 CAAGATCTGCTATCTT
32978600 CACTGATTTG
Statistics
Matches: 452, Mismatches: 57, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
85 17 0.04
86 188 0.42
87 247 0.55
ACGTcount: A:0.24, C:0.23, G:0.23, T:0.30
Consensus pattern (87 bp):
GCTCCACTGCAACCGATGGAGGCAAGGCTTCGTTTTCGATCTGCTTCGCTGTTAATGCAGGAAGG
CAAGATCTGCTATCTTTAACCA
Found at i:32978365 original size:173 final size:174
Alignment explanation
Indices: 32978000--32978599 Score: 832
Period size: 173 Copynumber: 3.5 Consensus size: 174
32977990 ACTTCAATCT
*
32978000 GCTCCACTGCAACCGATGGAGGCAAGGCCTT-GTTTTCGATCTGCTTTGCTGTTAATGCAGGAA-
1 GCTCCACTGCAACCGATGGAGGCAAGG-CTTCGTTTTCGATCTGCTTCGCTGTTAATGCAGGAAG
* * * *
32978063 GACAAGATCTGCTATCTTTAATCAGCTCCACTACATCCGATGGAGGCAAGGCTTCGTTTTCGATC
65 GA-AAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTCGTTTTCAATC
* * * *
32978128 TGCTTCACTATTAATGCA-GAAGGCAAGATCTGCTATCTTCAACCG
129 TGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTATCTTTAACCA
* * * * *
32978173 GCTCTATTGAAACCGATGGAGGCAAGGCTTCGTTTTCG-TCTGCTTCGCTGTTAATGTAGGAATG
1 GCTCCACTGCAACCGATGGAGGCAAGGCTTCGTTTTCGATCTGCTTCGCTGTTAATGCAGGAAGG
* * **
32978237 AAAGATCTGTTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTCATTTTTTATCTG
66 AAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTCGTTTTCAATCTG
* *
32978302 CTTCGTTGTTAATGTAGGAAGGCAAGATCTGCTATCTTTAACCA
131 CTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTATCTTTAACCA
* *
32978346 GCTCCACTGCAATCGATGGAGGCAAGGCTTCGTTTTCGATCTGCTTCACTGTTAATGCAGGAAGG
1 GCTCCACTGCAACCGATGGAGGCAAGGCTTCGTTTTCGATCTGCTTCGCTGTTAATGCAGGAAGG
* * * *
32978411 CAAGATCTACTATCTTTGACCAGCTCCACTGCAACTGATGGAGGCAAGGCTTCGTTTTCAATCTG
66 AAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTCGTTTTCAATCTG
* *
32978476 CTTTGCTGTTAATGCAGGAAGGCAAGATCTACT-TCTTTAACCA
131 CTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTATCTTTAACCA
* * * * *
32978519 GCTCCACTACAACCGATGGAGGCAAGACTTTGTTTTTGATCTGCTTCGCTGTCAATGCAGGAAGG
1 GCTCCACTGCAACCGATGGAGGCAAGGCTTCGTTTTCGATCTGCTTCGCTGTTAATGCAGGAAGG
* *
32978584 CAAGATCTGTTATCTT
66 AAAGATCTGCTATCTT
32978600 CACTGATTTG
Statistics
Matches: 377, Mismatches: 46, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
172 94 0.25
173 174 0.46
174 109 0.29
ACGTcount: A:0.24, C:0.23, G:0.23, T:0.30
Consensus pattern (174 bp):
GCTCCACTGCAACCGATGGAGGCAAGGCTTCGTTTTCGATCTGCTTCGCTGTTAATGCAGGAAGG
AAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTCGTTTTCAATCTG
CTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTATCTTTAACCA
Found at i:32978458 original size:44 final size:43
Alignment explanation
Indices: 32978321--32978458 Score: 113
Period size: 44 Copynumber: 3.2 Consensus size: 43
32978311 TAATGTAGGA
* *
32978321 AGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAATCGATGG
1 AGGCAAGATCTACTATCTTTGACCAGCTCCACTGCAAT-GATGG
* * * * * * *
32978365 AGGCAAG-GCTTCGT-T-TTCGATCTGCTTCACTGTTAATGCA-GG
1 AGGCAAGATCTAC-TATCTTTGACCAGCTCCACTG-CAATG-ATGG
32978407 AAGGCAAGATCTACTATCTTTGACCAGCTCCACTGCAACTGATGG
1 -AGGCAAGATCTACTATCTTTGACCAGCTCCACTGCAA-TGATGG
32978452 AGGCAAG
1 AGGCAAG
32978459 GCTTCGTTTT
Statistics
Matches: 70, Mismatches: 15, Indels: 18
0.68 0.15 0.17
Matches are distributed among these distances:
42 15 0.21
43 16 0.23
44 22 0.31
45 17 0.24
ACGTcount: A:0.26, C:0.25, G:0.23, T:0.26
Consensus pattern (43 bp):
AGGCAAGATCTACTATCTTTGACCAGCTCCACTGCAATGATGG
Found at i:32979841 original size:7 final size:7
Alignment explanation
Indices: 32979831--32979884 Score: 94
Period size: 7 Copynumber: 8.0 Consensus size: 7
32979821 TTTTACTTTT
32979831 TCATTTC
1 TCATTTC
32979838 TCATTTC
1 TCATTTC
32979845 TCATTTC
1 TCATTTC
32979852 TCATTTC
1 TCATTTC
32979859 TCATTTC
1 TCATTTC
32979866 TCATTT-
1 TCATTTC
32979872 TCATTT-
1 TCATTTC
32979878 TCATTTC
1 TCATTTC
32979885 ATTTTTTTTT
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
6 12 0.26
7 34 0.74
ACGTcount: A:0.15, C:0.26, G:0.00, T:0.59
Consensus pattern (7 bp):
TCATTTC
Found at i:32980872 original size:41 final size:41
Alignment explanation
Indices: 32980792--32980869 Score: 131
Period size: 40 Copynumber: 1.9 Consensus size: 41
32980782 TCATTTTCAT
*
32980792 TTTGACTTTGATTTTTTATTTTTCTTTTTCTTCTTTTTGAC
1 TTTGACTTTGATTTTTGATTTTTCTTTTTCTTCTTTTTGAC
*
32980833 TTTGATTTTGA-TTTTGATTTTTCTTTTTCTTCTTTTT
1 TTTGACTTTGATTTTTGATTTTTCTTTTTCTTCTTTTT
32980870 TGAATTGGAT
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
40 25 0.71
41 10 0.29
ACGTcount: A:0.09, C:0.10, G:0.08, T:0.73
Consensus pattern (41 bp):
TTTGACTTTGATTTTTGATTTTTCTTTTTCTTCTTTTTGAC
Found at i:32985724 original size:108 final size:108
Alignment explanation
Indices: 32985535--32985750 Score: 423
Period size: 108 Copynumber: 2.0 Consensus size: 108
32985525 CGGGTCGGGT
*
32985535 CACCTGCGCGGGTTATATGGCCAATACGTCGCCATTTTGAGGCCACTAGGAAAGGCTTCAAACGG
1 CACCTGCGCGGGTTATATGGCCAATACGTCACCATTTTGAGGCCACTAGGAAAGGCTTCAAACGG
32985600 CATCGTTTTTCTCGTTATAAAATACAAAAAAACCTAAATCAGC
66 CATCGTTTTTCTCGTTATAAAATACAAAAAAACCTAAATCAGC
32985643 CACCTGCGCGGGTTATATGGCCAATACGTCACCATTTTGAGGCCACTAGGAAAGGCTTCAAACGG
1 CACCTGCGCGGGTTATATGGCCAATACGTCACCATTTTGAGGCCACTAGGAAAGGCTTCAAACGG
32985708 CATCGTTTTTCTCGTTATAAAATACAAAAAAACCTAAATCAGC
66 CATCGTTTTTCTCGTTATAAAATACAAAAAAACCTAAATCAGC
32985751 AGCCCTCTAT
Statistics
Matches: 107, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
108 107 1.00
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.25
Consensus pattern (108 bp):
CACCTGCGCGGGTTATATGGCCAATACGTCACCATTTTGAGGCCACTAGGAAAGGCTTCAAACGG
CATCGTTTTTCTCGTTATAAAATACAAAAAAACCTAAATCAGC
Found at i:32988079 original size:39 final size:40
Alignment explanation
Indices: 32987963--32988171 Score: 305
Period size: 40 Copynumber: 5.3 Consensus size: 40
32987953 GGACTAAGAT
* * * **
32987963 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
32988003 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
32988043 CCGAAGGCATTCGTGCGAGTT-TTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
32988082 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
* ** * * *
32988122 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
32988161 CCGAAGGCATT
1 CCGAAGGCATT
32988172 TGAACGAGGA
Statistics
Matches: 157, Mismatches: 11, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
39 72 0.46
40 85 0.54
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
Found at i:32988192 original size:79 final size:79
Alignment explanation
Indices: 32987963--32988171 Score: 330
Period size: 79 Copynumber: 2.6 Consensus size: 79
32987953 GGACTAAGAT
* *
32987963 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTA
1 CCGAAGG-CATTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTA
32988028 AATCCGGGTTAAGTC
65 AATCCGGGTTAAGTC
*
32988043 CCGAAGGCATTCGTGCGAGTT-TTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTA
1 CCGAAGGCATT-GTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTA
32988107 AATCCGGGTTAAGTC
65 AATCCGGGTTAAGTC
* * * *
32988122 CCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 CCGAAGGCATTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATT
32988172 TGAACGAGGA
Statistics
Matches: 119, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
78 8 0.07
79 96 0.81
80 15 0.13
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
ATCCGGGTTAAGTC
Found at i:32996025 original size:39 final size:40
Alignment explanation
Indices: 32995847--32996105 Score: 282
Period size: 40 Copynumber: 6.6 Consensus size: 40
32995837 TTGAATGCTG
* * * * *
32995847 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAG-TGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTG-TTAAA
* * * * **
32995887 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTGTTAAA
32995927 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
32995967 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
32996007 TCC-GGTTAAGTCCCGAAGGCATTC-TGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
* **
32996045 TCC-GGTT-AGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
* * *
32996082 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
32996106 TGAACGAGGA
Statistics
Matches: 194, Mismatches: 18, Indels: 15
0.85 0.08 0.07
Matches are distributed among these distances:
37 28 0.14
38 24 0.12
39 36 0.19
40 97 0.50
41 9 0.05
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
Found at i:32996125 original size:115 final size:119
Alignment explanation
Indices: 32995883--32996140 Score: 292
Period size: 115 Copynumber: 2.2 Consensus size: 119
32995873 GCTAAGTGAA
* *
32995883 TATATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGG
1 TATATCCGG-TTAAG-TCCCGAAGGCCATTCTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGG
** * * ** ** *
32995947 CATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGT
64 CATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGC
* * **
32996003 TAAATCCGGTTAAGTCCCGAAGG-CATTCTGCGAGTTGTTAAATCC-GGTT-AGTCCCGAAGGCA
1 TATATCCGGTTAAGTCCCGAAGGCCATTCTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCA
* * *
32996065 TT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGC
66 TTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGC
*
32996118 TATATCCGGTTAAATCCCGAAGG
1 TATATCCGGTTAAGTCCCGAAGG
32996141 TACGTGATTT
Statistics
Matches: 117, Mismatches: 20, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
115 60 0.51
116 15 0.13
117 4 0.03
118 18 0.15
119 12 0.10
120 8 0.07
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (119 bp):
TATATCCGGTTAAGTCCCGAAGGCCATTCTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCA
TTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGC
Found at i:33002318 original size:6 final size:6
Alignment explanation
Indices: 33002309--33002478 Score: 187
Period size: 6 Copynumber: 27.8 Consensus size: 6
33002299 TTTAATTTGA
* *
33002309 ATTTTT ATTTTT ATTTTT ACTTTT ATTTTT ATTTTT ATTTTT ATTTTC
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT
* * * * * * * *
33002357 ATTTTC ATTTTC ATTTTC ATTTTC ATTTTC ATTTTC ATTTTC ATTTTC
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT
* * * *
33002405 ATTTTC ATTTTC ATTTTC ATTTTC ATTTTT ATTTTT ATTTTT ATTTTT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT
33002453 ATTTTTTT ATTTTT ATTTTAT ATTTT
1 A--TTTTT ATTTTT ATTTT-T ATTTT
33002479 AAATTTTTCT
Statistics
Matches: 157, Mismatches: 4, Indels: 5
0.95 0.02 0.03
Matches are distributed among these distances:
6 145 0.92
7 6 0.04
8 6 0.04
ACGTcount: A:0.17, C:0.08, G:0.00, T:0.75
Consensus pattern (6 bp):
ATTTTT
Found at i:33003660 original size:29 final size:29
Alignment explanation
Indices: 33003388--33003660 Score: 181
Period size: 29 Copynumber: 9.3 Consensus size: 29
33003378 TAGAATATCA
* * *
33003388 ACGATCATCGATCAATGAAAAGGGATAGTT
1 ACGACCATCGA-CTATGAAAAGGGATGGTT
** * * *
33003418 TTGACCATCAACTATGAAAAGAGATGGTG
1 ACGACCATCGACTATGAAAAGGGATGGTT
* *
33003447 ATGACCATCGTAC-ATTGAAAA-GGATAGTT
1 ACGACCATCG-ACTA-TGAAAAGGGATGGTT
* * *
33003476 TCGACTATCGACTATGAAAAGGGATAGTT
1 ACGACCATCGACTATGAAAAGGGATGGTT
** * ** * *
33003505 TTGACTATTAACTATGAAAATGGATAGTT
1 ACGACCATCGACTATGAAAAGGGATGGTT
* * * * * *
33003534 TCGACTATCGATTATAAAAAGGAATGGTC
1 ACGACCATCGACTATGAAAAGGGATGGTT
* * *
33003563 ACGACCATCAACTATGGAAAGGGATGGTG
1 ACGACCATCGACTATGAAAAGGGATGGTT
* * * *
33003592 ACGACCATCAATTAATGGAAAGGGATGGTG
1 ACGACCATCGACT-ATGAAAAGGGATGGTT
* *
33003622 ACAACCATCGGCTATGAAAAGGGATGGTT
1 ACGACCATCGACTATGAAAAGGGATGGTT
33003651 ACGACCATCG
1 ACGACCATCG
33003661 TTAGTACACT
Statistics
Matches: 193, Mismatches: 45, Indels: 11
0.78 0.18 0.04
Matches are distributed among these distances:
28 8 0.04
29 145 0.75
30 40 0.21
ACGTcount: A:0.37, C:0.15, G:0.24, T:0.25
Consensus pattern (29 bp):
ACGACCATCGACTATGAAAAGGGATGGTT
Found at i:33018488 original size:50 final size:50
Alignment explanation
Indices: 33018378--33018776 Score: 471
Period size: 50 Copynumber: 7.8 Consensus size: 50
33018368 ATTTGGCTAA
*
33018378 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTGAGATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CC--GAGAT---G
* * *
33018434 AGAGGTCCCATGTAAGACAATGTTTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
*
33018484 AGAGGTCCCATGTAAGACCATGTCTAGGACATGG-AGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCA-TTGGCACCGAGATG
** * * *
33018534 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACTGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** *
33018584 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** *
33018635 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACC-AGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * * *
33018684 AGAGTTTCCC-CGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATG
1 AGAG-GTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * *
33018734 AGAACATCTCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
33018777 TGTTATGATC
Statistics
Matches: 300, Mismatches: 36, Indels: 19
0.85 0.10 0.05
Matches are distributed among these distances:
49 43 0.14
50 139 0.46
51 73 0.24
53 5 0.02
55 2 0.01
56 38 0.13
ACGTcount: A:0.26, C:0.23, G:0.30, T:0.21
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:33018630 original size:101 final size:100
Alignment explanation
Indices: 33018382--33018769 Score: 458
Period size: 101 Copynumber: 3.8 Consensus size: 100
33018372 GGCTAAAGAG
*
33018382 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTGAGATCACGAGAGGTCCCATGT
1 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CC--GAGAT---GAGAGGTCCCACGT
* * * * *
33018447 AAGACAATGTTTGGGACATGGCGTTGGCACCGAGATGAG-AG
60 AAGACCATGTCTGGGACATGGCATGGGCA-CGAGATGAGAAC
* * *
33018488 GTCCCATGTAAGACCATGTCTAGGACATGG-AGTTGGCACCGAGATGAGAGGTCCCCCGTAAGAC
1 ATCCCATGTAAGACCATGTCTGGGACATGGCA-TTGGCACCGAGATGAGAGGTCCCACGTAAGAC
*
33018552 CATGTCTGGGACATGGCATGGGCACTGATATGAGAAC
65 CATGTCTGGGACATGGCATGGGCAC-GAGATGAGAAC
* *
33018589 ATCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCCCGTAAGACC
1 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCACGTAAGACC
* **
33018654 ATGTCTGGGACATGGCATGGGCACCAGATGAGAGT
66 ATGTCTGGGACATGGCATGGGCACGAGATGAGAAC
* * * * ** * *
33018689 TTCCC-CGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAACATCTCATGTAAGAC
1 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAG-AGGTCCCACGTAAGAC
33018753 CATGTCTGGGACATGGC
65 CATGTCTGGGACATGGC
33018770 TTTGGCATGT
Statistics
Matches: 250, Mismatches: 27, Indels: 16
0.85 0.09 0.05
Matches are distributed among these distances:
99 39 0.16
100 83 0.33
101 86 0.34
103 5 0.02
105 3 0.01
106 34 0.14
ACGTcount: A:0.26, C:0.23, G:0.30, T:0.21
Consensus pattern (100 bp):
ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCACGTAAGACC
ATGTCTGGGACATGGCATGGGCACGAGATGAGAAC
Found at i:33018753 original size:150 final size:151
Alignment explanation
Indices: 33018389--33018776 Score: 564
Period size: 150 Copynumber: 2.5 Consensus size: 151
33018379 GAGATCCCAT
* * * ** *
33018389 GTAAGACCATGTCTGGGACATGGCATTGGCATCCTTGAGATCACGAGAGGTCCCATGTAAGACAA
1 GTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GATATGA-GA-ACATCCCATGTAAGACCA
* *
33018454 TGTTTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCATGTAAGACCATGTCTAGGACATGGA
61 TGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCACGTAAGACCATGTCTAGGACATGGA
*
33018519 GTTGGCACCGAGATGAGAGGTCCCCC
126 GTGGGCACCGAGATGAGAGGTCCCCC
*
33018545 GTAAGACCATGTCTGGGACATGGCATGGGCACTGATATGAGAACATCCCATGTAAGACCATGTCT
1 GTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAACATCCCATGTAAGACCATGTCT
* *
33018610 GGGACATGGCGTTGGCACCGAGATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCA-TGG
66 GGGACATGGCGTTGGCACCGAGATGAGAGGTCCCACGTAAGACCATGTCTAGGACATGG-AGTGG
* *
33018674 GCACC-AGATGAGAGTTTCCCC
130 GCACCGAGATGAGAGGTCCCCC
*
33018695 GTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAACATCTCATGTAAGACCATGTCT
1 GTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAACATCCCATGTAAGACCATGTCT
*
33018760 GGGACATGGCTTTGGCA
66 GGGACATGGCGTTGGCA
33018777 TGTTATGATC
Statistics
Matches: 214, Mismatches: 17, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
150 93 0.43
151 82 0.38
152 3 0.01
153 5 0.02
155 1 0.00
156 30 0.14
ACGTcount: A:0.26, C:0.22, G:0.31, T:0.21
Consensus pattern (151 bp):
GTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAACATCCCATGTAAGACCATGTCT
GGGACATGGCGTTGGCACCGAGATGAGAGGTCCCACGTAAGACCATGTCTAGGACATGGAGTGGG
CACCGAGATGAGAGGTCCCCC
Found at i:33021017 original size:21 final size:21
Alignment explanation
Indices: 33020988--33021047 Score: 102
Period size: 21 Copynumber: 2.9 Consensus size: 21
33020978 CAAACACGCC
33020988 AACAGAAGCTCATAAGAGCTA
1 AACAGAAGCTCATAAGAGCTA
*
33021009 AACAAAAGCTCATAAGAGCTA
1 AACAGAAGCTCATAAGAGCTA
*
33021030 AACAGAAGCTCAAAAGAG
1 AACAGAAGCTCATAAGAG
33021048 TCGATCCACC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.52, C:0.18, G:0.18, T:0.12
Consensus pattern (21 bp):
AACAGAAGCTCATAAGAGCTA
Found at i:33025090 original size:14 final size:14
Alignment explanation
Indices: 33025067--33025101 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
33025057 TAGACATGGT
*
33025067 TAATGTCATGCCAG
1 TAATGCCATGCCAG
33025081 TAATGCCATGCCAG
1 TAATGCCATGCCAG
33025095 TAATGCC
1 TAATGCC
33025102 TTGTACATAG
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:0.29, C:0.26, G:0.20, T:0.26
Consensus pattern (14 bp):
TAATGCCATGCCAG
Found at i:33029083 original size:13 final size:13
Alignment explanation
Indices: 33029043--33029107 Score: 70
Period size: 13 Copynumber: 5.5 Consensus size: 13
33029033 CTATTTTTCT
33029043 TAAATATTATCAC
1 TAAATATTATCAC
*
33029056 TACATA--ATC-C
1 TAAATATTATCAC
33029066 TAAATATTATCAC
1 TAAATATTATCAC
*
33029079 TAAATA--AT-TC
1 TAAATATTATCAC
33029089 TAAATATTATCAC
1 TAAATATTATCAC
33029102 TAAATA
1 TAAATA
33029108 ATTCAAAATT
Statistics
Matches: 42, Mismatches: 4, Indels: 12
0.72 0.07 0.21
Matches are distributed among these distances:
10 13 0.31
11 5 0.12
12 5 0.12
13 19 0.45
ACGTcount: A:0.48, C:0.15, G:0.00, T:0.37
Consensus pattern (13 bp):
TAAATATTATCAC
Found at i:33029110 original size:23 final size:23
Alignment explanation
Indices: 33029043--33029116 Score: 121
Period size: 23 Copynumber: 3.2 Consensus size: 23
33029033 CTATTTTTCT
* *
33029043 TAAATATTATCACTACATAATCC
1 TAAATATTATCACTAAATAATTC
33029066 TAAATATTATCACTAAATAATTC
1 TAAATATTATCACTAAATAATTC
33029089 TAAATATTATCACTAAATAATTC
1 TAAATATTATCACTAAATAATTC
*
33029112 AAAAT
1 TAAAT
33029117 TTAAAAATCA
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 48 1.00
ACGTcount: A:0.49, C:0.15, G:0.00, T:0.36
Consensus pattern (23 bp):
TAAATATTATCACTAAATAATTC
Found at i:33029968 original size:30 final size:30
Alignment explanation
Indices: 33029907--33029968 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 30
33029897 TTTAACGGCC
* ***
33029907 ATATTACAACGGTTAGATTCCAATGTTCAT
1 ATATTACAACAGTTAGATTCCAATAACCAT
*
33029937 ATATTGCAACAGTTAGATTCCAATAACCAT
1 ATATTACAACAGTTAGATTCCAATAACCAT
33029967 AT
1 AT
33029969 TGCAATGGAC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.37, C:0.18, G:0.11, T:0.34
Consensus pattern (30 bp):
ATATTACAACAGTTAGATTCCAATAACCAT
Found at i:33029982 original size:28 final size:28
Alignment explanation
Indices: 33029937--33030025 Score: 97
Period size: 28 Copynumber: 3.2 Consensus size: 28
33029927 CAATGTTCAT
** *
33029937 ATATTGCAACAGTTAGATTCCAATAACC
1 ATATTGCAACAGACAGATTCCAATGACC
** *
33029965 ATATTGCAATGGACAGATTCCAATGATC
1 ATATTGCAACAGACAGATTCCAATGACC
* * *
33029993 ATATTGTAACAGTCAAATTCCAATGACC
1 ATATTGCAACAGACAGATTCCAATGACC
33030021 ATATT
1 ATATT
33030026 TTTGCAATAC
Statistics
Matches: 49, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
28 49 1.00
ACGTcount: A:0.38, C:0.19, G:0.12, T:0.30
Consensus pattern (28 bp):
ATATTGCAACAGACAGATTCCAATGACC
Found at i:33031085 original size:19 final size:18
Alignment explanation
Indices: 33031061--33031096 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
33031051 TAATAAATTA
*
33031061 TTTAATATTAAAATTTTAT
1 TTTAATAAT-AAATTTTAT
33031080 TTTAATAATAAATTTTA
1 TTTAATAATAAATTTTA
33031097 ACATTAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TTTAATAATAAATTTTAT
Found at i:33031337 original size:17 final size:18
Alignment explanation
Indices: 33031315--33031358 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
33031305 ATTAAGTCTA
*
33031315 TATAAAATATTAT-TTAT
1 TATAAAATATCATCTTAT
33031332 TATAAAATATCATCTTAT
1 TATAAAATATCATCTTAT
33031350 TATAAAATA
1 TATAAAATA
33031359 AATTTAGATT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
17 12 0.48
18 13 0.52
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (18 bp):
TATAAAATATCATCTTAT
Found at i:33031614 original size:23 final size:24
Alignment explanation
Indices: 33031588--33031641 Score: 58
Period size: 22 Copynumber: 2.3 Consensus size: 24
33031578 TATATGAATA
** * *
33031588 AATTATTTATTTTACAATAATTT-
1 AATTATTTACCTTAAAAAAATTTC
33031611 AATT-TTTACCTTAAAAAAATTTC
1 AATTATTTACCTTAAAAAAATTTC
33031634 AATTATTT
1 AATTATTT
33031642 TTATTTTTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
22 14 0.56
23 8 0.32
24 3 0.12
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.52
Consensus pattern (24 bp):
AATTATTTACCTTAAAAAAATTTC
Found at i:33032446 original size:2 final size:2
Alignment explanation
Indices: 33032441--33032482 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
33032431 CTATTTCCAA
33032441 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
33032483 TTTAATTCGG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:33043671 original size:27 final size:27
Alignment explanation
Indices: 33043632--33043688 Score: 62
Period size: 27 Copynumber: 2.1 Consensus size: 27
33043622 AAACAAGCAA
33043632 AAAGAAAAAAAAACAAGGAA-GTAAAAG
1 AAAGAAAAAAAAACAAGGAATG-AAAAG
* * * *
33043659 AAAGAAGAGAAAAGAATGAATGAAAAG
1 AAAGAAAAAAAAACAAGGAATGAAAAG
33043686 AAA
1 AAA
33043689 AGAGGAAGAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
27 24 0.96
28 1 0.04
ACGTcount: A:0.72, C:0.02, G:0.21, T:0.05
Consensus pattern (27 bp):
AAAGAAAAAAAAACAAGGAATGAAAAG
Found at i:33045644 original size:22 final size:22
Alignment explanation
Indices: 33045618--33045661 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
33045608 GAAAATAATC
*
33045618 AAAATTAATCAAAATTTGACAT
1 AAAATTAATCAAAATTTAACAT
*
33045640 AAAATTAATTAAAATTTAACAT
1 AAAATTAATCAAAATTTAACAT
33045662 GTTCATATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.57, C:0.07, G:0.02, T:0.34
Consensus pattern (22 bp):
AAAATTAATCAAAATTTAACAT
Found at i:33048110 original size:43 final size:43
Alignment explanation
Indices: 33048056--33048143 Score: 158
Period size: 43 Copynumber: 2.0 Consensus size: 43
33048046 GTTAATTATG
33048056 AACTCGTATATAATCACATATTTATAACAAGCATCTTTATGCT
1 AACTCGTATATAATCACATATTTATAACAAGCATCTTTATGCT
* *
33048099 AACTCGTATATAATCACATATTTATAACGAGCATTTTTATGCT
1 AACTCGTATATAATCACATATTTATAACAAGCATCTTTATGCT
33048142 AA
1 AA
33048144 GTTCACTACT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.38, C:0.17, G:0.08, T:0.38
Consensus pattern (43 bp):
AACTCGTATATAATCACATATTTATAACAAGCATCTTTATGCT
Found at i:33050102 original size:76 final size:75
Alignment explanation
Indices: 33049976--33050224 Score: 261
Period size: 76 Copynumber: 3.3 Consensus size: 75
33049966 AACACATTAG
* * ** * * **
33049976 TTTCTCTAAATTGAATGACTACGACAAATTATGCAAAATATGTTAAGAATTGAGACATCACGTAA
1 TTTCTTTAAATTGAATCACTATAACAAACTATG-AAAATATGTTATGAATTGAGACATCACACAA
33050041 ATACAATATTT
65 ATACAATATTT
* *
33050052 TTTCTTTAAACTGAATCACTATAACAAACTATGTAAAATATGTTATGAATTGAGACATGACACAA
1 TTTCTTTAAATTGAATCACTATAACAAACTATG-AAAATATGTTATGAATTGAGACATCACACAA
*
33050117 ATTCAATATTT
65 ATACAATATTT
* * * * *
33050128 TCTTCTTTTAAGTTGAATCACTATAACAAACTATG-CAA-ATGTTATGAACTGAGACATGAGACA
1 T-TTC-TTTAAATTGAATCACTATAACAAACTATGAAAATATGTTATGAATTGAGACATCACACA
* *
33050191 AATATACTA-TT
64 AATACAATATTT
* *
33050202 TTTCTTCAAATCGAATCACTATA
1 TTTCTTTAAATTGAATCACTATA
33050225 TGAAACTCTA
Statistics
Matches: 148, Mismatches: 23, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
72 16 0.11
73 3 0.02
74 3 0.02
75 29 0.20
76 67 0.45
77 3 0.02
78 27 0.18
ACGTcount: A:0.41, C:0.14, G:0.10, T:0.35
Consensus pattern (75 bp):
TTTCTTTAAATTGAATCACTATAACAAACTATGAAAATATGTTATGAATTGAGACATCACACAAA
TACAATATTT
Found at i:33054927 original size:53 final size:48
Alignment explanation
Indices: 33054811--33054927 Score: 135
Period size: 48 Copynumber: 2.3 Consensus size: 48
33054801 GATTTCTTGC
* *
33054811 AATTTGTTTAGTATAGGGTTACTTACCATTCTAAGATTTTTATTTTTT
1 AATTTGTTTAGTATAGGCTTACTTACCATTCTAAGATTTTTATTTTGT
* * *
33054859 AATTTGTGTAGTATAGGCTTACTTACCATTTTAAGGTTTCCTTATAATGTTGT
1 AATTTGTTTAGTATAGGCTTACTTACCATTCTAAGATTT--TTAT--T-TTGT
*
33054912 AATTTGTTTAATATAG
1 AATTTGTTTAGTATAG
33054928 ATTATGGATA
Statistics
Matches: 57, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
48 35 0.61
50 4 0.07
52 1 0.02
53 17 0.30
ACGTcount: A:0.26, C:0.09, G:0.15, T:0.50
Consensus pattern (48 bp):
AATTTGTTTAGTATAGGCTTACTTACCATTCTAAGATTTTTATTTTGT
Found at i:33055270 original size:31 final size:31
Alignment explanation
Indices: 33055231--33055301 Score: 90
Period size: 31 Copynumber: 2.3 Consensus size: 31
33055221 AAAATTTACA
* **
33055231 ATTT-AGTCATTAAATTATTTGAAAGTTTTC
1 ATTTAAGTCATTAAACTATTCAAAAGTTTTC
* *
33055261 ATTTAAGTCATTGAACTATTCAAAAGTTTTT
1 ATTTAAGTCATTAAACTATTCAAAAGTTTTC
33055292 ATTTAAGTCA
1 ATTTAAGTCA
33055302 CTGGATTATT
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
30 4 0.11
31 31 0.89
ACGTcount: A:0.35, C:0.08, G:0.10, T:0.46
Consensus pattern (31 bp):
ATTTAAGTCATTAAACTATTCAAAAGTTTTC
Found at i:33058897 original size:28 final size:28
Alignment explanation
Indices: 33058834--33058987 Score: 256
Period size: 28 Copynumber: 5.5 Consensus size: 28
33058824 ATATTAAGTC
* *
33058834 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
* *
33058861 CACACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
33058889 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
33058917 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
33058945 CTCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
33058973 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
33058988 GTACAATTTA
Statistics
Matches: 120, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
27 21 0.17
28 99 0.82
ACGTcount: A:0.34, C:0.29, G:0.10, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:33062946 original size:82 final size:82
Alignment explanation
Indices: 33062834--33063095 Score: 368
Period size: 82 Copynumber: 3.2 Consensus size: 82
33062824 ACTTACCTAT
* * *
33062834 AAAACGCCGCTAAAAGCTAGAGCATTAGTGGCGCTCAGATAAAAACGCCACTAAAGATACTAACA
1 AAAACGCCGCTAAAGGCCAGAGCATTAGTGGCGCTCAGATAAAAACGCCACTAAAGATACGAACA
33062899 TTAGCGACGCTTAGAAA
66 TTAGCGACGCTTAGAAA
* *
33062916 AAAACGCCGCTAAAGGCCAGAGAATTAGTGGCGCTCAGATAAAAACGCCACTAAAGATACGAGCA
1 AAAACGCCGCTAAAGGCCAGAGCATTAGTGGCGCTCAGATAAAAACGCCACTAAAGATACGAACA
*
33062981 TTAGC-AGCGCTTAGAGA
66 TTAGCGA-CGCTTAGAAA
* * *
33062998 AAAACGCCACTAAAGGCCAGAGCATTAGTGGCGCTCAGATAAAAACGCCGCTAAAGAT-CGGACC
1 AAAACGCCGCTAAAGGCCAGAGCATTAGTGGCGCTCAGATAAAAACGCCACTAAAGATAC-GAAC
* *
33063062 ATTAGCGGCGC-TAAAATA
65 ATTAGCGACGCTTAGAA-A
*
33063080 AAAACGCCGTTAAAGG
1 AAAACGCCGCTAAAGG
33063096 TTTAAAAATC
Statistics
Matches: 161, Mismatches: 15, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
81 5 0.03
82 156 0.97
ACGTcount: A:0.40, C:0.23, G:0.23, T:0.15
Consensus pattern (82 bp):
AAAACGCCGCTAAAGGCCAGAGCATTAGTGGCGCTCAGATAAAAACGCCACTAAAGATACGAACA
TTAGCGACGCTTAGAAA
Found at i:33063066 original size:123 final size:122
Alignment explanation
Indices: 33062834--33063087 Score: 278
Period size: 123 Copynumber: 2.1 Consensus size: 122
33062824 ACTTACCTAT
* * ** * *
33062834 AAAACGCCGCTAAAAGCTAGAGCATTAGTGGCGCTCAGATAAAAACGCCACTAAAGATACTAACA
1 AAAACGCCACTAAAAGATAGAGCATTAGCAGCGCTCAGAGAAAAACGCCACTAAAGA-ACCAACA
* * * * * *
33062899 TTAGCGACGCTTAGAAAAAAACGCCGCTAAAGGCCAGAGAATTAGTGGCGCTCAGATA
65 TTAGCGACGCTCAGAAAAAAACGCCGCTAAAGACCAGACAATTAGCGGCGCTAAAATA
* *
33062957 AAAACGCCACT-AAAGATACGAGCATTAGCAGCGCTTAGAGAAAAACGCCACTAAAG-GCCAGAG
1 AAAACGCCACTAAAAGATA-GAGCATTAGCAGCGCTCAGAGAAAAACGCCACTAAAGAACCA-A-
* * * * * *
33063020 CATTAGTGGCGCTCAGATAAAAACGCCGCTAAAGATCGGACCATTAGCGGCGCTAAAATA
63 CATTAGCGACGCTCAGAAAAAAACGCCGCTAAAGACCAGACAATTAGCGGCGCTAAAATA
33063080 AAAACGCC
1 AAAACGCC
33063088 GTTAAAGGTT
Statistics
Matches: 108, Mismatches: 20, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
121 2 0.02
122 7 0.06
123 99 0.92
ACGTcount: A:0.40, C:0.23, G:0.22, T:0.15
Consensus pattern (122 bp):
AAAACGCCACTAAAAGATAGAGCATTAGCAGCGCTCAGAGAAAAACGCCACTAAAGAACCAACAT
TAGCGACGCTCAGAAAAAAACGCCGCTAAAGACCAGACAATTAGCGGCGCTAAAATA
Found at i:33063088 original size:41 final size:41
Alignment explanation
Indices: 33062834--33063094 Score: 251
Period size: 41 Copynumber: 6.4 Consensus size: 41
33062824 ACTTACCTAT
* *
33062834 AAAACGCCGCTAAA-AGCTAGAGCATTAGTGGCGCTCAGATA
1 AAAACGCCGCTAAAGATC-AGAGCATTAGCGGCGCTCAGATA
* * * *
33062875 AAAACGCCACTAAAGATACTA-A-CATTAGCGACGCTTAGAAA
1 AAAACGCCGCTAAAGAT-C-AGAGCATTAGCGGCGCTCAGATA
** * *
33062916 AAAACGCCGCTAAAGGCCAGAGAATTAGTGGCGCTCAGATA
1 AAAACGCCGCTAAAGATCAGAGCATTAGCGGCGCTCAGATA
* * * *
33062957 AAAACGCCACTAAAGAT-ACGAGCATTAGCAGCGCTTAGAGA
1 AAAACGCCGCTAAAGATCA-GAGCATTAGCGGCGCTCAGATA
* ** *
33062998 AAAACGCCACTAAAGGCCAGAGCATTAGTGGCGCTCAGATA
1 AAAACGCCGCTAAAGATCAGAGCATTAGCGGCGCTCAGATA
* * * *
33063039 AAAACGCCGCTAAAGATCGGACCATTAGCGGCGCTAAAATA
1 AAAACGCCGCTAAAGATCAGAGCATTAGCGGCGCTCAGATA
*
33063080 AAAACGCCGTTAAAG
1 AAAACGCCGCTAAAG
33063095 GTTTAAAAAT
Statistics
Matches: 177, Mismatches: 37, Indels: 12
0.78 0.16 0.05
Matches are distributed among these distances:
39 1 0.01
40 3 0.02
41 167 0.94
42 3 0.02
43 3 0.02
ACGTcount: A:0.40, C:0.23, G:0.22, T:0.15
Consensus pattern (41 bp):
AAAACGCCGCTAAAGATCAGAGCATTAGCGGCGCTCAGATA
Found at i:33068493 original size:15 final size:15
Alignment explanation
Indices: 33068465--33068501 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
33068455 TACTAGTGCC
* *
33068465 CCACCCCCTTCAAGA
1 CCACCACCTCCAAGA
33068480 CCACCACCTCCAAGA
1 CCACCACCTCCAAGA
33068495 CCACCAC
1 CCACCAC
33068502 GAGTTTCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.30, C:0.57, G:0.05, T:0.08
Consensus pattern (15 bp):
CCACCACCTCCAAGA
Found at i:33071067 original size:13 final size:14
Alignment explanation
Indices: 33071042--33071068 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
33071032 GCTATCTTTC
33071042 TTTCCCTTTTTTTT
1 TTTCCCTTTTTTTT
33071056 TTTCCCTTTTTTT
1 TTTCCCTTTTTTT
33071069 GGCTATATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (14 bp):
TTTCCCTTTTTTTT
Found at i:33076932 original size:349 final size:347
Alignment explanation
Indices: 33076293--33076957 Score: 1260
Period size: 347 Copynumber: 1.9 Consensus size: 347
33076283 AAATTTAGTT
*
33076293 TATATATATATGTCAGGGCATTTTTATAAATATTTCAAAACGAAATATATTTACTTTAAATCTAA
1 TATATATATATGTCAGGGCATTTTTATAAATATTTCAAAACGAAATAGATTTACTTTAAATCTAA
33076358 TCCCGATTTAGCCTAATTATTTTTATAATTTCACTCGAATTAATTCGACTTAAATTCGTTTTTTC
66 TCCCGATTTAGCCTAATTATTTTTATAATTTCACTCGAATTAATTCGACTTAAATTCGTTTTTTC
*
33076423 AAAACAAAAAAAATCTGACCATAATAAATTGGGTGGAATCAAAACCTATCGGATTTAAATTTTTT
131 AAAAAAAAAAAAATCTGACCATAATAAATTGGGTGGAATCAAAACCTATCGGATTTAAATTTTTT
*
33076488 TTTGCGAACCCTAAAATAGAAGAGAGTGAAACTAATTCATGATTGCGGGTTTATTCTGCTGGTTA
196 TTTGCGAACCCTAAAATAGAAGAGAGTGAAACTAATTCACGATTGCGGGTTTATTCTGCTGGTTA
33076553 ATTTCAATCAATTTCTCGGGCAAATTACCAATAAAAGCC-CATTTATTTTCAAAATTTAGTTTTG
261 ATTTCAATCAATTTCTCGGGCAAATTACCAATAAAAGCCTC-TTTATTTTCAAAATTTAGTTTTG
33076617 AAAACAAAAATTTAGTTTATATA
325 AAAACAAAAATTTAGTTTATATA
*
33076640 TATATATATATGTTAGGGCATTTTTATAAATATTTCAAAACGAAATAGATTTACTTTAAATCTAA
1 TATATATATATGTCAGGGCATTTTTATAAATATTTCAAAACGAAATAGATTTACTTTAAATCTAA
33076705 TCCCGATTTAGCCTAATTATTTTTATAATTTCACTCGAATTAATTCGACTTAAATTCGTTTTTTC
66 TCCCGATTTAGCCTAATTATTTTTATAATTTCACTCGAATTAATTCGACTTAAATTCGTTTTTTC
33076770 AAAATAAAAAAAAATCTGACCATAATAAATTGGGTGGAATCAAAACCTATCGGATTTAAATTTTT
131 AAAA-AAAAAAAAATCTGACCATAATAAATTGGGTGGAATCAAAACCTATCGGATTTAAATTTTT
33076835 TTTTCGCGAACCCTAAAATAGAAGAGAGTGAAACTAATTCACGATTGCGGGTTTATTCTGCTGGT
195 TTTT-GCGAACCCTAAAATAGAAGAGAGTGAAACTAATTCACGATTGCGGGTTTATTCTGCTGGT
33076900 TAATTTCAATCAATTTCTCGGGCAAATTACCAATAAAAGCCTCTTTATTTTCAAAATT
259 TAATTTCAATCAATTTCTCGGGCAAATTACCAATAAAAGCCTCTTTATTTTCAAAATT
33076958 ACCGAAATGG
Statistics
Matches: 311, Mismatches: 4, Indels: 4
0.97 0.01 0.01
Matches are distributed among these distances:
347 132 0.42
348 63 0.20
349 115 0.37
350 1 0.00
ACGTcount: A:0.37, C:0.14, G:0.12, T:0.38
Consensus pattern (347 bp):
TATATATATATGTCAGGGCATTTTTATAAATATTTCAAAACGAAATAGATTTACTTTAAATCTAA
TCCCGATTTAGCCTAATTATTTTTATAATTTCACTCGAATTAATTCGACTTAAATTCGTTTTTTC
AAAAAAAAAAAAATCTGACCATAATAAATTGGGTGGAATCAAAACCTATCGGATTTAAATTTTTT
TTTGCGAACCCTAAAATAGAAGAGAGTGAAACTAATTCACGATTGCGGGTTTATTCTGCTGGTTA
ATTTCAATCAATTTCTCGGGCAAATTACCAATAAAAGCCTCTTTATTTTCAAAATTTAGTTTTGA
AAACAAAAATTTAGTTTATATA
Found at i:33077671 original size:24 final size:21
Alignment explanation
Indices: 33077624--33077673 Score: 55
Period size: 21 Copynumber: 2.2 Consensus size: 21
33077614 CTACTAATGT
*
33077624 GTTCACACAACAATTAAAAGG
1 GTTCACACAAAAATTAAAAGG
*
33077645 GTTCACACTAAAACATTAAAGATG
1 GTTCACAC-AAAA-ATTAAA-AGG
33077669 GTTCA
1 GTTCA
33077674 TGAATTCGGC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 8 0.33
22 3 0.12
23 6 0.25
24 7 0.29
ACGTcount: A:0.44, C:0.18, G:0.14, T:0.24
Consensus pattern (21 bp):
GTTCACACAAAAATTAAAAGG
Found at i:33079003 original size:96 final size:97
Alignment explanation
Indices: 33078855--33079284 Score: 465
Period size: 96 Copynumber: 4.6 Consensus size: 97
33078845 GGTTAGGGTT
* * * * *
33078855 TTAGGGTTTTAGAT-TTTAAGG-TTTTAAG-GAAAAATTAAATAAATAAGGGTTTAGAGTTTCTT
1 TTAGGG-TTTAG-TGTTTATGGTTTTTAAGAAAAAAATCAAATAAATTAGGGTTTAGAGTTACTT
* * *
33078917 AATTAAATTAATTATAAATTTTTAAAAAA-TAGA
64 GAGTAAATTAATTATAAATTTTAAAAAAATTAGA
*
33078950 TTAGGGTTTAGTGTTGATGGTTTTTAAGAAAAAAATCAAATAAATTAGGGTTTAG-GATTACTTG
1 TTAGGGTTTAGTGTTTATGGTTTTTAAGAAAAAAATCAAATAAATTAGGGTTTAGAG-TTACTTG
*
33079014 AGTAAATTAATTATAAATTTTTAAAAAATTAGA
65 AGTAAATTAATTATAAATTTTAAAAAAATTAGA
* * * *
33079047 TTAGGATTTAGTGTTTA-GGGTTTTAAGAGAAAAATCAAATAAATTAGGGTTTAGGGTTACTTGA
1 TTAGGGTTTAGTGTTTATGGTTTTTAAGAAAAAAATCAAATAAATTAGGGTTTAGAGTTACTTGA
*
33079111 TTAAATTAATTATAAAATTTTAAAAAAATTAGA
66 GTAAATTAATTAT-AAATTTTAAAAAAATTAGA
* * * *
33079144 TTAGGG--T--T-TTTAAGG-----AA-AAATCAAAT-AAAT---T-AGGGTTTGGGGTTACTTG
1 TTAGGGTTTAGTGTTTATGGTTTTTAAGAAA-AAAATCAAATAAATTAGGGTTTAGAGTTACTTG
33079193 AGTAAATTAATTATAAATTTTAAAAAAATTAGA
65 AGTAAATTAATTATAAATTTTAAAAAAATTAGA
* *
33079226 TTAGGGTTTAGTGTTTATGGTTTTTAAG-TAAAAATTAAATAAATTAGGGTTTAGAGTTA
1 TTAGGGTTTAGTGTTTATGGTTTTTAAGAAAAAAATCAAATAAATTAGGGTTTAGAGTTA
33079285 ATTAAATTAT
Statistics
Matches: 286, Mismatches: 24, Indels: 49
0.80 0.07 0.14
Matches are distributed among these distances:
82 25 0.09
83 30 0.10
84 2 0.01
86 1 0.00
87 12 0.04
88 6 0.02
91 4 0.01
92 11 0.04
93 4 0.01
94 10 0.03
95 16 0.06
96 122 0.43
97 43 0.15
ACGTcount: A:0.41, C:0.02, G:0.18, T:0.40
Consensus pattern (97 bp):
TTAGGGTTTAGTGTTTATGGTTTTTAAGAAAAAAATCAAATAAATTAGGGTTTAGAGTTACTTGA
GTAAATTAATTATAAATTTTAAAAAAATTAGA
Found at i:33079151 original size:83 final size:81
Alignment explanation
Indices: 33079061--33079234 Score: 303
Period size: 83 Copynumber: 2.1 Consensus size: 81
33079051 GATTTAGTGT
*
33079061 TTAGGGTTTTAAGAGAAAAATCAAATAAATTAGGGTTTAGGGTTACTTGATTAAATTAATTATAA
1 TTAGGGTTTTAAG-GAAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTAT-A
33079126 AATTTTAAAAAAATTAGA
64 AATTTTAAAAAAATTAGA
*
33079144 TTAGGGTTTTTAAGGAAAAATCAAATAAATTAGGGTTTGGGGTTACTTGAGTAAATTAATTATAA
1 TTAGGG-TTTTAAGGAAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAA
33079209 ATTTTAAAAAAATTAGA
65 ATTTTAAAAAAATTAGA
33079226 TTAGGGTTT
1 TTAGGGTTT
33079235 AGTGTTTATG
Statistics
Matches: 88, Mismatches: 2, Indels: 4
0.94 0.02 0.04
Matches are distributed among these distances:
81 3 0.03
82 25 0.28
83 53 0.60
84 7 0.08
ACGTcount: A:0.43, C:0.02, G:0.18, T:0.37
Consensus pattern (81 bp):
TTAGGGTTTTAAGGAAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAA
TTTTAAAAAAATTAGA
Found at i:33079195 original size:179 final size:186
Alignment explanation
Indices: 33078869--33079289 Score: 579
Period size: 179 Copynumber: 2.3 Consensus size: 186
33078859 GGTTTTAGAT
* * *
33078869 TTTAAGGTTTTAAGGAAAAATTAAATAAATAAGGGTTTAGAGTTTCTTAATTAAATTAATTATAA
1 TTTAGGGTTTTAAGGAAAAATTAAATAAATTAGGGTTTAGAGTTACTTAATTAAATTAATTATAA
* *
33078934 ATTTTTAAAAAATAGATTAGGGTTTAGTGTTGATGGTTTTTAAGAAAAAAATCAAATAAATTAGG
66 AATTTTAAAAAATAGATTA-GG--TA--GTTGAGGGTTTTTAAGAAAAAAATCAAATAAATTAGG
*
33078999 GTTTAGGATTACTTGAGTAAATTAATTATAAATTTTTAAAAAATTAGATTAGGATTTAGTG
126 GTTTAGGATTACTTGAGTAAATTAATTATAAATTTTAAAAAAATTAGATTAGGATTTAGTG
* * *
33079060 TTTAGGGTTTTAAGAGAAAAATCAAATAAATTAGGGTTTAGGGTTACTTGATTAAATTAATTATA
1 TTTAGGGTTTTAAG-GAAAAATTAAATAAATTAGGGTTTAGAGTTACTTAATTAAATTAATTATA
*
33079125 AAATTTT-AAAAA-A-ATTA-G-A-TT-AGGGTTTTTAAG-GAAAAATCAAATAAATTAGGGTTT
65 AAATTTTAAAAAATAGATTAGGTAGTTGAGGGTTTTTAAGAAAAAAATCAAATAAATTAGGGTTT
* * *
33079182 GGGGTTACTTGAGTAAATTAATTATAAATTTTAAAAAAATTAGATTAGGGTTTAGTG
130 AGGATTACTTGAGTAAATTAATTATAAATTTTAAAAAAATTAGATTAGGATTTAGTG
* * *
33079239 TTTATGGTTTTTAAGTAAAAATTAAATAAATTAGGGTTTAGAGTTAATTAA
1 TTTA-GGGTTTTAAGGAAAAATTAAATAAATTAGGGTTTAGAGTTACTTAA
33079290 ATTATTTGTT
Statistics
Matches: 209, Mismatches: 19, Indels: 16
0.86 0.08 0.07
Matches are distributed among these distances:
179 111 0.53
180 20 0.10
181 2 0.01
184 1 0.00
187 1 0.00
189 4 0.02
190 1 0.00
191 18 0.09
192 51 0.24
ACGTcount: A:0.42, C:0.02, G:0.17, T:0.39
Consensus pattern (186 bp):
TTTAGGGTTTTAAGGAAAAATTAAATAAATTAGGGTTTAGAGTTACTTAATTAAATTAATTATAA
AATTTTAAAAAATAGATTAGGTAGTTGAGGGTTTTTAAGAAAAAAATCAAATAAATTAGGGTTTA
GGATTACTTGAGTAAATTAATTATAAATTTTAAAAAAATTAGATTAGGATTTAGTG
Found at i:33079561 original size:126 final size:125
Alignment explanation
Indices: 33079320--33079594 Score: 428
Period size: 126 Copynumber: 2.2 Consensus size: 125
33079310 AGCTTTCACA
* *
33079320 TGGAAGCTCTTTTGCTACAATAG-TTCTTGAAAAAATAATTTTGAGAAGATGTTTCTGCAAATAG
1 TGGACGCTCTTTTGCTACAGTAGTTTCTTGAAAAAATAATTTTGAGAAGATGTTTCTGCAAATAG
* * * *
33079384 TGTCAAAAACGCTTTAAGCAGGATGTATTGTCAGGAAAAATACTGAAAGAAGCTCCCACG
66 TGTCAAAAACGCTTCAAGCAGGATGCAATGTCAGCAAAAATACTGAAAGAAGCTCCCACG
*
33079444 TGGACGCTCTTTTGCCACAGTAGTTTC-TGAAAAAATAATTTTGAGAAGATGTTTCTGAGCAAAT
1 TGGACGCTCTTTTGCTACAGTAGTTTCTTGAAAAAATAATTTTGAGAAGATGTTTCT--GCAAAT
* *
33079508 AGTGTCAAAAATGCTTCAAGCAGGATGCAATGTCAGCAAAAGTACTGAAAGAAGCTCCCACG
64 AGTGTCAAAAACGCTTCAAGCAGGATGCAATGTCAGCAAAAATACTGAAAGAAGCTCCCACG
*
33079570 TGGACGCTCTTTTACTACAGTAGTT
1 TGGACGCTCTTTTGCTACAGTAGTT
33079595 CCTATTTGGC
Statistics
Matches: 137, Mismatches: 11, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
124 49 0.36
125 3 0.02
126 85 0.62
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.29
Consensus pattern (125 bp):
TGGACGCTCTTTTGCTACAGTAGTTTCTTGAAAAAATAATTTTGAGAAGATGTTTCTGCAAATAG
TGTCAAAAACGCTTCAAGCAGGATGCAATGTCAGCAAAAATACTGAAAGAAGCTCCCACG
Found at i:33092545 original size:15 final size:15
Alignment explanation
Indices: 33092527--33092563 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
33092517 AAATAATTAA
*
33092527 TTTTAATATTTATAT
1 TTTTAATATTTAAAT
*
33092542 TTTTAAAATTTAAAT
1 TTTTAATATTTAAAT
33092557 TTTTAAT
1 TTTTAAT
33092564 CTTGATTCAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
TTTTAATATTTAAAT
Found at i:33093326 original size:17 final size:16
Alignment explanation
Indices: 33093294--33093334 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
33093284 TCAGGTGGGC
33093294 TTGGATTAAGTTTTTT
1 TTGGATTAAGTTTTTT
* *
33093310 TTGGATTTAGATTTTT
1 TTGGATTAAGTTTTTT
*
33093326 TTAGATTAA
1 TTGGATTAA
33093335 AACTTTTTGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.17, T:0.59
Consensus pattern (16 bp):
TTGGATTAAGTTTTTT
Found at i:33095891 original size:40 final size:40
Alignment explanation
Indices: 33095836--33095922 Score: 156
Period size: 40 Copynumber: 2.2 Consensus size: 40
33095826 CTAAGTGCCT
33095836 AACCAATATGCCATCATTTGACACCACAAATCATACACTA
1 AACCAATATGCCATCATTTGACACCACAAATCATACACTA
*
33095876 AACCAATATGCCATCATTTGGCACCACAAATCATACACTA
1 AACCAATATGCCATCATTTGACACCACAAATCATACACTA
*
33095916 AATCAAT
1 AACCAAT
33095923 CCAATTTCAA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 45 1.00
ACGTcount: A:0.43, C:0.29, G:0.06, T:0.23
Consensus pattern (40 bp):
AACCAATATGCCATCATTTGACACCACAAATCATACACTA
Found at i:33106055 original size:13 final size:13
Alignment explanation
Indices: 33106037--33106061 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
33106027 GATCGAGTCC
33106037 ATAAATATTATTA
1 ATAAATATTATTA
33106050 ATAAATATTATT
1 ATAAATATTATT
33106062 GATTTAATTA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
ATAAATATTATTA
Found at i:33114474 original size:13 final size:13
Alignment explanation
Indices: 33114458--33114482 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
33114448 TTTCTATTCA
33114458 TAACATATTTTCT
1 TAACATATTTTCT
33114471 TAACATATTTTC
1 TAACATATTTTC
33114483 AATTTATTCA
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:0.16, G:0.00, T:0.52
Consensus pattern (13 bp):
TAACATATTTTCT
Found at i:33115294 original size:95 final size:95
Alignment explanation
Indices: 33115129--33115321 Score: 298
Period size: 95 Copynumber: 2.0 Consensus size: 95
33115119 ATATCAACTC
* * **
33115129 TGTAAATATTCCTATTTTATATTTACGAACTTGGTTTACGGTTTATGGAAATGGGGTTCTAAAAT
1 TGTAAATATTCCTATTTTATACTTACGAACTTGGTTTACGGTTTACGGAAATGAAGTTCTAAAAT
*
33115194 CATATTTTTCAACACCACTAAAAATCGAGT
66 AATATTTTTCAACACCACTAAAAATCGAGT
* *
33115224 TGTAAATATTCCTATTTTATACTTAC-AGACTTGGTTTACGGTTTACGGAAATGAAGTTTTGAAA
1 TGTAAATATTCCTATTTTATACTTACGA-ACTTGGTTTACGGTTTACGGAAATGAAGTTCTAAAA
*
33115288 TAATATTTTTCAACACCACTGAAAATCGAGT
65 TAATATTTTTCAACACCACTAAAAATCGAGT
33115319 TGT
1 TGT
33115322 TACAAATCAA
Statistics
Matches: 89, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
94 1 0.01
95 88 0.99
ACGTcount: A:0.33, C:0.13, G:0.15, T:0.39
Consensus pattern (95 bp):
TGTAAATATTCCTATTTTATACTTACGAACTTGGTTTACGGTTTACGGAAATGAAGTTCTAAAAT
AATATTTTTCAACACCACTAAAAATCGAGT
Found at i:33115845 original size:17 final size:17
Alignment explanation
Indices: 33115816--33115848 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
33115806 TTAAATTGTA
33115816 GTTTGAAAAAACAAAAC
1 GTTTGAAAAAACAAAAC
33115833 GTTT-AAAAGAACAAAA
1 GTTTGAAAA-AACAAAA
33115849 AAAATTATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.61, C:0.09, G:0.12, T:0.18
Consensus pattern (17 bp):
GTTTGAAAAAACAAAAC
Found at i:33117840 original size:32 final size:32
Alignment explanation
Indices: 33117804--33117864 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 32
33117794 TCTTTTTACC
* *
33117804 ATTTTAGAATAATCATGAATGTAGTTTACTAT
1 ATTTTAGAATAACCATAAATGTAGTTTACTAT
* *
33117836 ATTTTAGAGTGACCATAAATGTAGTTTAC
1 ATTTTAGAATAACCATAAATGTAGTTTAC
33117865 CCTAATTTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.36, C:0.08, G:0.15, T:0.41
Consensus pattern (32 bp):
ATTTTAGAATAACCATAAATGTAGTTTACTAT
Found at i:33122395 original size:22 final size:21
Alignment explanation
Indices: 33122367--33122430 Score: 67
Period size: 22 Copynumber: 3.0 Consensus size: 21
33122357 AGAGAATATT
*
33122367 TACTATTCATGCTAGAGAATC
1 TACTATTCATGCCAGAGAATC
*
33122388 ATACTATTTC-TGCCAGAGATTTC
1 -TACTA-TTCATGCCAGAGA-ATC
*
33122411 TACTGTTCATGCCAGAGAAT
1 TACTATTCATGCCAGAGAAT
33122431 ATTTCCTGTT
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
21 4 0.11
22 26 0.74
23 5 0.14
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.34
Consensus pattern (21 bp):
TACTATTCATGCCAGAGAATC
Found at i:33126255 original size:15 final size:15
Alignment explanation
Indices: 33126235--33126270 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
33126225 ATGTTGTATG
33126235 TAATTCGTCTATTTA
1 TAATTCGTCTATTTA
*
33126250 TAATTCGTCTATTTG
1 TAATTCGTCTATTTA
33126265 TAATTC
1 TAATTC
33126271 ATCTGTTTCG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.25, C:0.14, G:0.08, T:0.53
Consensus pattern (15 bp):
TAATTCGTCTATTTA
Found at i:33129886 original size:9 final size:9
Alignment explanation
Indices: 33129870--33130140 Score: 124
Period size: 9 Copynumber: 29.0 Consensus size: 9
33129860 CGGTCCAATT
33129870 TAATTTTTA
1 TAATTTTTA
*
33129879 TGATTTTTA
1 TAATTTTTA
33129888 TAATTTTTA
1 TAATTTTTA
* *
33129897 TAAGTCTATA
1 TAA-TTTTTA
*
33129907 TCAATTTTAA
1 T-AATTTTTA
*
33129917 TATTTTTTTA
1 TA-ATTTTTA
33129927 TAAATTTTTA
1 T-AATTTTTA
*
33129937 CAATTTTTA
1 TAATTTTTA
*
33129946 TTATTTTTAA
1 TAATTTTT-A
* *
33129956 GAATTTTAA
1 TAATTTTTA
*
33129965 TACTTTTTA
1 TAATTTTTA
* *
33129974 AAAATTTTA
1 TAATTTTTA
*
33129983 -AATATTTAAAA
1 TAAT-TTT--TA
* *
33129994 TAAGTTTAA
1 TAATTTTTA
33130003 TTAATTTTATA
1 -TAATTTT-TA
*
33130014 AAATTTTTA
1 TAATTTTTA
33130023 TAATTTTT-
1 TAATTTTTA
*
33130031 TAATATTTA
1 TAATTTTTA
*
33130040 TAAGTTTTCA
1 TAA-TTTTTA
33130050 TAATTTTTTTA
1 TAA--TTTTTA
*
33130061 TAATTTTAA
1 TAATTTTTA
*
33130070 TAAGTTTATA
1 TAA-TTTTTA
*
33130080 TCAATTTATA
1 T-AATTTTTA
* *
33130090 TTAGTTTTA
1 TAATTTTTA
33130099 -ATATTTTT-
1 TA-ATTTTTA
33130107 TAA-TTTT-
1 TAATTTTTA
33130114 TAATTTTT-
1 TAATTTTTA
33130122 TAATTTTTTA
1 TAA-TTTTTA
*
33130132 TGATTTTTA
1 TAATTTTTA
33130141 ATCATTATTT
Statistics
Matches: 198, Mismatches: 43, Indels: 42
0.70 0.15 0.15
Matches are distributed among these distances:
7 7 0.04
8 17 0.09
9 94 0.47
10 60 0.30
11 18 0.09
12 2 0.01
ACGTcount: A:0.35, C:0.02, G:0.03, T:0.60
Consensus pattern (9 bp):
TAATTTTTA
Found at i:33129960 original size:19 final size:18
Alignment explanation
Indices: 33129930--33130030 Score: 62
Period size: 19 Copynumber: 5.3 Consensus size: 18
33129920 TTTTTTATAA
*
33129930 ATTTTTACAATTTTTATT
1 ATTTTTAAAATTTTTATT
*
33129948 ATTTTTAAGAA-TTTTAAT
1 ATTTTTAA-AATTTTTATT
* *
33129966 ACTTTTTAAAAATTTTA-A
1 A-TTTTTAAAATTTTTATT
* *
33129984 ATATTTAAAATAAGTTTAATT
1 ATTTTTAAAAT---TTTTATT
*
33130005 AATTTTATAAAATTTTTATA
1 -ATTTT-TAAAATTTTTATT
33130025 ATTTTT
1 ATTTTT
33130031 TAATATTTAT
Statistics
Matches: 64, Mismatches: 10, Indels: 18
0.70 0.11 0.20
Matches are distributed among these distances:
17 8 0.12
18 18 0.28
19 19 0.30
20 9 0.14
22 4 0.06
23 6 0.09
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (18 bp):
ATTTTTAAAATTTTTATT
Found at i:33130078 original size:38 final size:37
Alignment explanation
Indices: 33129923--33130079 Score: 110
Period size: 38 Copynumber: 4.2 Consensus size: 37
33129913 TTAATATTTT
* * * *
33129923 TTTATAAATTTT-TACAATTTTTATTATTTTTAAGAAT
1 TTTAT-AATTTTATAAAATTTTTATAATTTTTAATAAG
* * *
33129960 TTTAATACTTTT-TAAAAATTTTA-AATATTTAAAATAAG
1 TTT-ATAATTTTATAAAATTTTTATAAT-TTT-TAATAAG
33129998 TTTAATTAATTTTATAAAATTTTTATAATTTTTTAAT-A-
1 TTT-A-TAATTTTATAAAATTTTTATAA-TTTTTAATAAG
**
33130036 TTTATAAGTTTTCATAATTTTTTTATAA-TTTTAATAAG
1 TTTATAA-TTTT-ATAAAATTTTTATAATTTTTAATAAG
33130074 TTTATA
1 TTTATA
33130080 TCAATTTATA
Statistics
Matches: 97, Mismatches: 12, Indels: 21
0.75 0.09 0.16
Matches are distributed among these distances:
36 12 0.12
37 26 0.27
38 33 0.34
39 7 0.07
40 13 0.13
41 5 0.05
42 1 0.01
ACGTcount: A:0.39, C:0.02, G:0.03, T:0.57
Consensus pattern (37 bp):
TTTATAATTTTATAAAATTTTTATAATTTTTAATAAG
Found at i:33130112 original size:8 final size:8
Alignment explanation
Indices: 33130101--33130131 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
33130091 TAGTTTTAAT
33130101 ATTTTTTA
1 ATTTTTTA
33130109 A-TTTTTA
1 ATTTTTTA
33130116 ATTTTTTA
1 ATTTTTTA
33130124 ATTTTTTA
1 ATTTTTTA
33130132 TGATTTTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 7 0.32
8 15 0.68
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (8 bp):
ATTTTTTA
Found at i:33130121 original size:15 final size:15
Alignment explanation
Indices: 33130101--33130129 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
33130091 TAGTTTTAAT
33130101 ATTTTTTAATTTTTA
1 ATTTTTTAATTTTTA
33130116 ATTTTTTAATTTTT
1 ATTTTTTAATTTTT
33130130 TATGATTTTT
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:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (15 bp):
ATTTTTTAATTTTTA
Found at i:33130123 original size:25 final size:25
Alignment explanation
Indices: 33130094--33130142 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
33130084 TTTATATTAG
33130094 TTTTAATATTTTT-TAATTTTTAATT
1 TTTTAAT-TTTTTATAATTTTTAATT
*
33130119 TTTTAATTTTTTATGATTTTTAAT
1 TTTTAATTTTTTATAATTTTTAAT
33130143 CATTATTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 5 0.23
25 17 0.77
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (25 bp):
TTTTAATTTTTTATAATTTTTAATT
Found at i:33130952 original size:202 final size:201
Alignment explanation
Indices: 33130620--33131155 Score: 738
Period size: 201 Copynumber: 2.7 Consensus size: 201
33130610 AATGTTGAAA
* * * * * *
33130620 ATTTTTAACTCTATAAACAGGCAGGCTTAAGAGACTGAAAAGTGTAAGAAAAAAATTAGTAAAAA
1 ATTTTTAACTCTATAAACAAGCAGTCTTAAGAGACTGATAAGTATGAGAAAATAATTAGTAAAAA
* * * * * *
33130685 -AACTGTGGTTGTTATTATTTTGCAACTATCACTTGCTTATAATACGTAACTATAAAAACTTACT
66 GTAC-CTGG-AGTTGTTATTTTACAACTATCACTTGCTTATAATACATAACTATAAAAACTTACT
* *
33130749 AAATCTTTTTCATTTATCATTTAATAGAAAATATATACTCCACTTAATACATTGGATTATTATTT
129 AAATCTTTTTCATTTATCATTTAATAAAAAATATATACTCCACTTAATACATTGGAATATTATTT
33130814 GATACACAC
194 GAT-CACAC
**
33130823 ATTTTTAACTCTATAAACAAATAGTCTTAAGAGACTGATAAGTATGAGAAAATAATTAGTAAAAA
1 ATTTTTAACTCTATAAACAAGCAGTCTTAAGAGACTGATAAGTATGAGAAAATAATTAGTAAAAA
* *
33130888 GTACCTGGAGTTGTTATTTTACAACGATCACTTGTTTATAATACATAACTATAAAAACTTACTAA
66 GTACCTGGAGTTGTTATTTTACAACTATCACTTGCTTATAATACATAACTATAAAAACTTACTAA
* *
33130953 ATCTTTTTTATTTATCATTTAATAAAAAATATATACTCCACTTAATACATTTGAATATTATTTGA
131 ATCTTTTTCATTTATCATTTAATAAAAAATATATACTCCACTTAATACATTGGAATATTATTTGA
*
33131018 TTACAC
196 TCACAC
*
33131024 ATTTTTAACTCTATAAACAAGCGGAT-TTAAGAGACTGATAAGTATGAGAAAATAATTAGTAAAA
1 ATTTTTAACTCTATAAACAAGCAG-TCTTAAGAGACTGATAAGTATGAGAAAATAATTAGTAAAA
** * * * * *
33131088 AGTATTTGGGGTTGTTATTTCACAA-TAGTCACTTACTTATAATTCATAACTATAAATACTTA-T
65 AGTACCTGGAGTTGTTATTTTACAACTA-TCACTTGCTTATAATACATAACTATAAAAACTTACT
33131151 AAATC
129 AAATC
33131156 GAAGTAGGGC
Statistics
Matches: 297, Mismatches: 33, Indels: 9
0.88 0.10 0.03
Matches are distributed among these distances:
200 7 0.02
201 114 0.38
202 114 0.38
203 60 0.20
204 2 0.01
ACGTcount: A:0.41, C:0.12, G:0.10, T:0.37
Consensus pattern (201 bp):
ATTTTTAACTCTATAAACAAGCAGTCTTAAGAGACTGATAAGTATGAGAAAATAATTAGTAAAAA
GTACCTGGAGTTGTTATTTTACAACTATCACTTGCTTATAATACATAACTATAAAAACTTACTAA
ATCTTTTTCATTTATCATTTAATAAAAAATATATACTCCACTTAATACATTGGAATATTATTTGA
TCACAC
Found at i:33131241 original size:19 final size:20
Alignment explanation
Indices: 33131219--33131256 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
33131209 GCACACAACG
*
33131219 CATA-CTGGCGCACGAAGTA
1 CATATCTGGCACACGAAGTA
33131238 CATATCTGGCACACGAAGT
1 CATATCTGGCACACGAAGT
33131257 GCATCCTGAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.32, C:0.26, G:0.24, T:0.18
Consensus pattern (20 bp):
CATATCTGGCACACGAAGTA
Found at i:33137916 original size:3 final size:3
Alignment explanation
Indices: 33137908--33137932 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
33137898 ATTTCAATTA
33137908 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
33137933 GAAGGAAACG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:33138629 original size:22 final size:22
Alignment explanation
Indices: 33138592--33138675 Score: 77
Period size: 22 Copynumber: 3.9 Consensus size: 22
33138582 CTTTGCTTAT
*
33138592 TTGAATCGATT-GTTTTGTTGA
1 TTGAATCGATTCTTTTTGTTGA
* *
33138613 TTGACTCGATTCTTTTTGTTGT
1 TTGAATCGATTCTTTTTGTTGA
* *
33138635 TTGAATCGA-T-TGTTTATT-A
1 TTGAATCGATTCTTTTTGTTGA
33138654 TTTGAATCGATTCTTTGTTGTT
1 -TTGAATCGATTCTTT-TTGTT
33138676 TAACTCGATT
Statistics
Matches: 49, Mismatches: 9, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
20 15 0.31
21 12 0.24
22 18 0.37
23 4 0.08
ACGTcount: A:0.17, C:0.08, G:0.19, T:0.56
Consensus pattern (22 bp):
TTGAATCGATTCTTTTTGTTGA
Found at i:33138643 original size:43 final size:43
Alignment explanation
Indices: 33138574--33138675 Score: 122
Period size: 42 Copynumber: 2.4 Consensus size: 43
33138564 ATTTGTTTTA
* * *
33138574 AATCGATTCTTTG--CTTATTTGAATCGATTGTTTTGTTGA-TTG
1 AATCGATTCTTTGTTGTTGTTTGAATCGATTG-TTTATT-ATTTG
*
33138616 ACTCGATTCTTT-TTGTTGTTTGAATCGATTGTTTATTATTTG
1 AATCGATTCTTTGTTGTTGTTTGAATCGATTGTTTATTATTTG
33138658 AATCGATTCTTTGTTGTT
1 AATCGATTCTTTGTTGTT
33138676 TAACTCGATT
Statistics
Matches: 51, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
41 1 0.02
42 30 0.59
43 20 0.39
ACGTcount: A:0.18, C:0.10, G:0.18, T:0.55
Consensus pattern (43 bp):
AATCGATTCTTTGTTGTTGTTTGAATCGATTGTTTATTATTTG
Found at i:33138683 original size:20 final size:20
Alignment explanation
Indices: 33138574--33138686 Score: 111
Period size: 20 Copynumber: 5.5 Consensus size: 20
33138564 ATTTGTTTTA
*
33138574 AATCGATTCTTTGCTTATTTG
1 AATCGATTCTTTG-TTGTTTG
* *
33138595 AATCGATTGTTTTGTTGATTG
1 AATCGATT-CTTTGTTGTTTG
*
33138616 ACTCGATTCTTTTTGTTGTTTG
1 AATCGATTC--TTTGTTGTTTG
* * *
33138638 AATCGATTGTTTATTATTTG
1 AATCGATTCTTTGTTGTTTG
33138658 AATCGATTCTTTGTTGTTT-
1 AATCGATTCTTTGTTGTTTG
33138677 AACTCGATTC
1 AA-TCGATTC
33138687 AAACGCCAAC
Statistics
Matches: 75, Mismatches: 13, Indels: 9
0.77 0.13 0.09
Matches are distributed among these distances:
19 2 0.03
20 32 0.43
21 20 0.27
22 21 0.28
ACGTcount: A:0.19, C:0.12, G:0.17, T:0.53
Consensus pattern (20 bp):
AATCGATTCTTTGTTGTTTG
Found at i:33138793 original size:21 final size:20
Alignment explanation
Indices: 33138768--33138824 Score: 60
Period size: 21 Copynumber: 2.8 Consensus size: 20
33138758 GTTTCTTTTG
33138768 AATCGATTTTTTGTTATCTTA
1 AATCGATTTTTTGTTAT-TTA
* ** *
33138789 AATCGATCTTTACTTATTTG
1 AATCGATTTTTTGTTATTTA
33138809 AATCGATTGTTTTGTT
1 AATCGATT-TTTTGTT
33138825 GATTGACTCA
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
20 9 0.32
21 19 0.68
ACGTcount: A:0.23, C:0.11, G:0.12, T:0.54
Consensus pattern (20 bp):
AATCGATTTTTTGTTATTTA
Found at i:33138852 original size:22 final size:22
Alignment explanation
Indices: 33138818--33138863 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
33138808 GAATCGATTG
* *
33138818 TTTTGTTGATTGACTCAATTCT
1 TTTTATTGATTGAATCAATTCT
* *
33138840 TTTTATTGTTTGAATCGATTCT
1 TTTTATTGATTGAATCAATTCT
33138862 TT
1 TT
33138864 GTTGTTTAAC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.17, C:0.11, G:0.13, T:0.59
Consensus pattern (22 bp):
TTTTATTGATTGAATCAATTCT
Found at i:33138870 original size:20 final size:20
Alignment explanation
Indices: 33138764--33138880 Score: 76
Period size: 20 Copynumber: 5.7 Consensus size: 20
33138754 TGTTGTTTCT
* *
33138764 TTTGAATCGATTTTTTGTTA
1 TTTGAATCGATTCTTTGTTG
* * *
33138784 TCTTAAATCGA-TCTTTACTTA
1 T-TTGAATCGATTCTTT-GTTG
*
33138805 TTTGAATCGATTGTTTTGTTG
1 TTTGAATCGATT-CTTTGTTG
* * * *
33138826 ATTGACTCAATTCTTTTTATTG
1 TTTGAATCGATTC--TTTGTTG
33138848 TTTGAATCGATTCTTTGTTG
1 TTTGAATCGATTCTTTGTTG
33138868 TTT-AACTCGATTC
1 TTTGAA-TCGATTC
33138881 AAAGGTCAAC
Statistics
Matches: 74, Mismatches: 16, Indels: 14
0.71 0.15 0.13
Matches are distributed among these distances:
19 2 0.03
20 29 0.39
21 24 0.32
22 19 0.26
ACGTcount: A:0.21, C:0.12, G:0.14, T:0.54
Consensus pattern (20 bp):
TTTGAATCGATTCTTTGTTG
Found at i:33139971 original size:4 final size:4
Alignment explanation
Indices: 33139962--33139993 Score: 64
Period size: 4 Copynumber: 8.0 Consensus size: 4
33139952 AAACAAGATA
33139962 CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT
1 CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT
33139994 GTATTTGCCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (4 bp):
CTTT
Found at i:33141851 original size:26 final size:24
Alignment explanation
Indices: 33141806--33141855 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 24
33141796 TTGTAAATCA
*
33141806 GAAAAATATCTTTAGAAATTTTCT
1 GAAAAATATCTTCAGAAATTTTCT
*
33141830 GAAATAATCTCTTCAGAGAATTTTCT
1 GAAA-AATATCTTCAGA-AATTTTCT
33141856 CTCTACAACT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 4 0.18
25 10 0.45
26 8 0.36
ACGTcount: A:0.38, C:0.12, G:0.10, T:0.40
Consensus pattern (24 bp):
GAAAAATATCTTCAGAAATTTTCT
Found at i:33143724 original size:43 final size:43
Alignment explanation
Indices: 33143651--33143785 Score: 134
Period size: 43 Copynumber: 3.2 Consensus size: 43
33143641 ATAGGATCTC
* * *
33143651 TGATATTTGTTTTTGTGTAAGACCAC-GTCTGGGACGTTGGTAT
1 TGATATGTGTTTATGTGTAAGACC-CTGTCTGGGACGTTGGCAT
*
33143694 TGACT-TGTGTTTATGTGTAAGACCCTGTCTGGGACAG-TAGCAT
1 TGA-TATGTGTTTATGTGTAAGACCCTGTCTGGGAC-GTTGGCAT
* * ** *
33143737 CGATATGTGATTACATGTAAGACCATGTCTGGGACGTTGGCAT
1 TGATATGTGTTTATGTGTAAGACCCTGTCTGGGACGTTGGCAT
33143780 TG-TATG
1 TGATATG
33143786 AGCTTTCTGA
Statistics
Matches: 76, Mismatches: 11, Indels: 11
0.78 0.11 0.11
Matches are distributed among these distances:
42 7 0.09
43 67 0.88
44 2 0.03
ACGTcount: A:0.21, C:0.14, G:0.28, T:0.36
Consensus pattern (43 bp):
TGATATGTGTTTATGTGTAAGACCCTGTCTGGGACGTTGGCAT
Found at i:33144903 original size:17 final size:18
Alignment explanation
Indices: 33144889--33144972 Score: 80
Period size: 19 Copynumber: 4.4 Consensus size: 18
33144879 ATAATCTTCG
33144889 AGGATATGCAATCTTAGA
1 AGGATATGCAATCTTAGA
*
33144907 TATGATATGCAATCTTAGA
1 -AGGATATGCAATCTTAGA
*
33144926 TATGATATATGCAATCTTAGA
1 -A-G-GATATGCAATCTTAGA
* *
33144947 TATGATATGTAATCTTAGA
1 -AGGATATGCAATCTTAGA
33144966 A-GATATG
1 AGGATATG
33144973 ATTTTGTAAT
Statistics
Matches: 57, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
17 6 0.11
18 1 0.02
19 33 0.58
21 17 0.30
ACGTcount: A:0.38, C:0.08, G:0.18, T:0.36
Consensus pattern (18 bp):
AGGATATGCAATCTTAGA
Found at i:33144915 original size:19 final size:19
Alignment explanation
Indices: 33144891--33144965 Score: 123
Period size: 19 Copynumber: 3.8 Consensus size: 19
33144881 AATCTTCGAG
33144891 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
33144910 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
33144929 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
*
33144950 GATATGTAATCTTAGA
1 GATATGCAATCTTAGA
33144966 AGATATGATT
Statistics
Matches: 53, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
19 34 0.64
21 19 0.36
ACGTcount: A:0.37, C:0.09, G:0.16, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:33144937 original size:21 final size:21
Alignment explanation
Indices: 33144892--33144954 Score: 112
Period size: 21 Copynumber: 3.1 Consensus size: 21
33144882 ATCTTCGAGG
33144892 ATATGCAATCTTAGATATG--
1 ATATGCAATCTTAGATATGAT
33144911 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
33144932 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
33144953 AT
1 AT
33144955 GTAATCTTAG
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
19 19 0.45
21 23 0.55
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.38
Consensus pattern (21 bp):
ATATGCAATCTTAGATATGAT
Found at i:33144984 original size:23 final size:22
Alignment explanation
Indices: 33144904--33144988 Score: 81
Period size: 21 Copynumber: 4.0 Consensus size: 22
33144894 ATGCAATCTT
*
33144904 AGATATGATATGCAATCTTAG-
1 AGATATGATATGTAATCTTAGA
* *
33144925 ATATGAT-ATATGCAATCTT---
1 AGAT-ATGATATGTAATCTTAGA
33144944 AGATATGATATGTAATCTTAGA
1 AGATATGATATGTAATCTTAGA
*
33144966 AGATATGATTTTGTAATCTTAGA
1 AGATATGA-TATGTAATCTTAGA
33144989 GATTTAATTT
Statistics
Matches: 54, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
18 2 0.04
19 14 0.26
21 15 0.28
22 10 0.19
23 13 0.24
ACGTcount: A:0.38, C:0.07, G:0.16, T:0.39
Consensus pattern (22 bp):
AGATATGATATGTAATCTTAGA
Found at i:33144998 original size:22 final size:23
Alignment explanation
Indices: 33144954--33144998 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
33144944 AGATATGATA
*
33144954 TGTAATCTTAGAAGATATGATTT
1 TGTAATCTTAGAAGATATAATTT
*
33144977 TGTAATCTTAG-AGATTTAATTT
1 TGTAATCTTAGAAGATATAATTT
33144999 GTAGATACCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.33, C:0.04, G:0.16, T:0.47
Consensus pattern (23 bp):
TGTAATCTTAGAAGATATAATTT
Found at i:33145188 original size:19 final size:21
Alignment explanation
Indices: 33145164--33145202 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
33145154 GGCTTACTGT
*
33145164 TTTTTTTCTT-TTT-CGATTA
1 TTTTTTACTTATTTACGATTA
33145183 TTTTTTACTTATTTACGATT
1 TTTTTTACTTATTTACGATT
33145203 TTGAAAAAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 3 0.18
21 5 0.29
ACGTcount: A:0.15, C:0.10, G:0.05, T:0.69
Consensus pattern (21 bp):
TTTTTTACTTATTTACGATTA
Found at i:33145620 original size:4 final size:4
Alignment explanation
Indices: 33145592--33145634 Score: 52
Period size: 4 Copynumber: 11.0 Consensus size: 4
33145582 AATTATTTCT
* * *
33145592 TTTA TTTT TTTA ATTA GTT- TTTA TTTA TTTA TTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
33145635 AAACAAATAT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
3 2 0.06
4 31 0.94
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:33145977 original size:98 final size:100
Alignment explanation
Indices: 33145825--33146027 Score: 365
Period size: 100 Copynumber: 2.0 Consensus size: 100
33145815 AAATGTTTTG
*
33145825 TTTATATCCATATGGATATTTATTCTTTTTAAAAAAAAGGGGTTC-AA-ATATATATATTTTTAA
1 TTTATATCCATATGGATATTTATTCTTTTTAAAAAAAAGGGGCTCAAATATATATATATTTTTAA
33145888 ATACCTATTTTATAATCTATATATGTTTATCTATT
66 ATACCTATTTTATAATCTATATATGTTTATCTATT
* *
33145923 TTTATATCCATATGGATATTTATTCTTTTTTAAAAAAGGGGGCTCAAATATATATATATTTTTAA
1 TTTATATCCATATGGATATTTATTCTTTTTAAAAAAAAGGGGCTCAAATATATATATATTTTTAA
33145988 ATACCTATTTTATAATCTATATATGTTTATCTATT
66 ATACCTATTTTATAATCTATATATGTTTATCTATT
33146023 TTTAT
1 TTTAT
33146028 TTATATTCAT
Statistics
Matches: 100, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
98 42 0.42
99 2 0.02
100 56 0.56
ACGTcount: A:0.34, C:0.08, G:0.07, T:0.50
Consensus pattern (100 bp):
TTTATATCCATATGGATATTTATTCTTTTTAAAAAAAAGGGGCTCAAATATATATATATTTTTAA
ATACCTATTTTATAATCTATATATGTTTATCTATT
Found at i:33148601 original size:15 final size:15
Alignment explanation
Indices: 33148577--33148608 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
33148567 TATGCATGCA
*
33148577 AAATATAAAAGACAT
1 AAATACAAAAGACAT
33148592 AAATACAAAAGACAT
1 AAATACAAAAGACAT
33148607 AA
1 AA
33148609 TAGTGAAATG
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:0.69, C:0.09, G:0.06, T:0.16
Consensus pattern (15 bp):
AAATACAAAAGACAT
Found at i:33154000 original size:21 final size:22
Alignment explanation
Indices: 33153976--33154016 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
33153966 TAAAAAAAAA
*
33153976 TATAATTTTTA-AATATTTTTT
1 TATAAATTTTATAATATTTTTT
*
33153997 TATAAATTTTATATTATTTT
1 TATAAATTTTATAATATTTT
33154017 GTCACGTGTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (22 bp):
TATAAATTTTATAATATTTTTT
Found at i:33155180 original size:23 final size:24
Alignment explanation
Indices: 33155139--33155183 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
33155129 TTTAATACAG
33155139 TATTTTTATTTTCAGAAATTTAGT
1 TATTTTTATTTTCAGAAATTTAGT
*
33155163 TATTTTTATTTTTA-AAATTTA
1 TATTTTTATTTTCAGAAATTTA
33155184 AAAATTTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.62
Consensus pattern (24 bp):
TATTTTTATTTTCAGAAATTTAGT
Found at i:33155190 original size:23 final size:24
Alignment explanation
Indices: 33155140--33155190 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
33155130 TTAATACAGT
***
33155140 ATTTTTATTTTCAGAAATTTAGTT
1 ATTTTTATTTTCAGAAATTTAAAA
*
33155164 ATTTTTATTTTTA-AAATTTAAAA
1 ATTTTTATTTTCAGAAATTTAAAA
33155187 ATTT
1 ATTT
33155191 AATTATAATT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
23 11 0.48
24 12 0.52
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.59
Consensus pattern (24 bp):
ATTTTTATTTTCAGAAATTTAAAA
Found at i:33155607 original size:6 final size:6
Alignment explanation
Indices: 33155571--33155622 Score: 63
Period size: 6 Copynumber: 8.5 Consensus size: 6
33155561 ACAAAATTAT
33155571 ATTAAA ATATAAA A-TATAA ATCTAAA A-TAAA ATTAAA ATTAAA ATTAAA
1 ATTAAA AT-TAAA ATTA-AA AT-TAAA ATTAAA ATTAAA ATTAAA ATTAAA
33155620 ATT
1 ATT
33155623 TAGTTAATTG
Statistics
Matches: 41, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
5 7 0.17
6 24 0.59
7 8 0.20
8 2 0.05
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (6 bp):
ATTAAA
Found at i:33155622 original size:18 final size:19
Alignment explanation
Indices: 33155563--33155622 Score: 67
Period size: 18 Copynumber: 3.3 Consensus size: 19
33155553 ATATAGGGAC
33155563 AAAATTAT--ATTAAAATAT
1 AAAATTATAAATTAAAAT-T
33155581 AAAA-TATAAATCTAAAA-T
1 AAAATTATAAAT-TAAAATT
33155599 AAAATTA-AAATTAAAATT
1 AAAATTATAAATTAAAATT
33155617 AAAATT
1 AAAATT
33155623 TAGTTAATTG
Statistics
Matches: 37, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
17 8 0.22
18 20 0.54
19 4 0.11
20 5 0.14
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (19 bp):
AAAATTATAAATTAAAATT
Found at i:33160898 original size:9 final size:9
Alignment explanation
Indices: 33160869--33161002 Score: 57
Period size: 9 Copynumber: 14.9 Consensus size: 9
33160859 ATTTTAGAAG
33160869 TATAAAAA-
1 TATAAAAAT
* *
33160877 TATTAAACT
1 TATAAAAAT
33160886 TATAAAAAT
1 TATAAAAAT
*
33160895 TAT--ATA-
1 TATAAAAAT
33160901 TATAAAAAT
1 TATAAAAAT
33160910 TATAAAAAAAT
1 TAT--AAAAAT
33160921 TCATAAAAAAT
1 T-AT-AAAAAT
* *
33160932 AAGAAAAAT
1 TATAAAAAT
*
33160941 CTA-ATAAAT
1 -TATAAAAAT
33160950 TATAAAAATAT
1 TAT-AAAA-AT
* *
33160961 TATAATAAC
1 TATAAAAAT
*
33160970 TA-AAACAT
1 TATAAAAAT
*
33160978 T-TAAAAGT
1 TATAAAAAT
*
33160986 TATAAAAGT
1 TATAAAAAT
33160995 TATAAAAA
1 TATAAAAA
33161003 AAATTCATAA
Statistics
Matches: 94, Mismatches: 19, Indels: 25
0.68 0.14 0.18
Matches are distributed among these distances:
6 3 0.03
7 2 0.02
8 19 0.20
9 41 0.44
10 8 0.09
11 19 0.20
12 2 0.02
ACGTcount: A:0.63, C:0.04, G:0.02, T:0.31
Consensus pattern (9 bp):
TATAAAAAT
Found at i:33160913 original size:11 final size:10
Alignment explanation
Indices: 33160885--33160965 Score: 51
Period size: 11 Copynumber: 7.6 Consensus size: 10
33160875 AATATTAAAC
33160885 TTATAAAAATTA
1 TTATAAAAA--A
33160897 TATATATAAAAA
1 T-TATA-AAAAA
33160909 TTATAAAAAAA
1 TTAT-AAAAAA
33160920 TTCATAAAAAA
1 TT-ATAAAAAA
33160931 -TA-AGAAAAA
1 TTATA-AAAAA
* *
33160940 -TCTAATAAA
1 TTATAAAAAA
33160949 TTATAAAAATA
1 TTATAAAAA-A
33160960 TTATAA
1 TTATAA
33160966 TAACTAAAAC
Statistics
Matches: 57, Mismatches: 4, Indels: 17
0.73 0.05 0.22
Matches are distributed among these distances:
8 1 0.02
9 11 0.19
10 8 0.14
11 23 0.40
12 6 0.11
13 4 0.07
14 4 0.07
ACGTcount: A:0.64, C:0.02, G:0.01, T:0.32
Consensus pattern (10 bp):
TTATAAAAAA
Found at i:33160928 original size:21 final size:21
Alignment explanation
Indices: 33160902--33160965 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 21
33160892 AATTATATAT
33160902 ATAAAAATTATAAAAAAATTC
1 ATAAAAATTATAAAAAAATTC
33160923 ATAAAAA--ATAAGAAAAA-TC
1 ATAAAAATTATAA-AAAAATTC
*
33160942 -TAATAAATTATAAAAATATT-
1 ATAA-AAATTATAAAAAAATTC
33160962 ATAA
1 ATAA
33160966 TAACTAAAAC
Statistics
Matches: 36, Mismatches: 1, Indels: 12
0.73 0.02 0.24
Matches are distributed among these distances:
18 3 0.08
19 9 0.25
20 9 0.25
21 15 0.42
ACGTcount: A:0.67, C:0.03, G:0.02, T:0.28
Consensus pattern (21 bp):
ATAAAAATTATAAAAAAATTC
Found at i:33160966 original size:21 final size:21
Alignment explanation
Indices: 33160880--33160968 Score: 60
Period size: 21 Copynumber: 4.1 Consensus size: 21
33160870 ATAAAAATAT
33160880 TAAACTTATAAAAATTATATATATA
1 TAAA-TTATAAAAA-TAT-TATA-A
* *
33160905 AAAATTATAAAAAAATTCATAA
1 TAAATTATAAAAATATT-ATAA
* *
33160927 -AAA--ATAAGAAA-AATCTAA
1 TAAATTATAA-AAATATTATAA
33160945 TAAATTATAAAAATATTATAA
1 TAAATTATAAAAATATTATAA
33160966 TAA
1 TAA
33160969 CTAAAACATT
Statistics
Matches: 52, Mismatches: 6, Indels: 16
0.70 0.08 0.22
Matches are distributed among these distances:
18 3 0.06
19 9 0.17
20 6 0.12
21 15 0.29
22 2 0.04
23 5 0.10
24 9 0.17
25 3 0.06
ACGTcount: A:0.64, C:0.03, G:0.01, T:0.31
Consensus pattern (21 bp):
TAAATTATAAAAATATTATAA
Found at i:33161092 original size:16 final size:16
Alignment explanation
Indices: 33161071--33161102 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
33161061 ATTTTTTTAG
*
33161071 AAAATATAAAATATTA
1 AAAATATAAAAAATTA
33161087 AAAATATAAAAAATTA
1 AAAATATAAAAAATTA
33161103 TTTATTGGTT
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:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (16 bp):
AAAATATAAAAAATTA
Found at i:33163470 original size:30 final size:31
Alignment explanation
Indices: 33163428--33163502 Score: 98
Period size: 33 Copynumber: 2.4 Consensus size: 31
33163418 CGGATGGAGC
33163428 AACGGACGGAGACATCAACTCAACACATTGA
1 AACGGACGGAGACATCAACTCAACACATTGA
* * *
33163459 AACGGAGGAGACGACATCAATTCAACACCTTGA
1 AACGGACG-GA-GACATCAACTCAACACATTGA
33163492 AACGGA-GGAGA
1 AACGGACGGAGA
33163503 TGACGTATCA
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
30 2 0.05
31 9 0.23
32 3 0.08
33 25 0.64
ACGTcount: A:0.41, C:0.23, G:0.24, T:0.12
Consensus pattern (31 bp):
AACGGACGGAGACATCAACTCAACACATTGA
Found at i:33163476 original size:33 final size:33
Alignment explanation
Indices: 33163438--33163502 Score: 112
Period size: 33 Copynumber: 2.0 Consensus size: 33
33163428 AACGGACGGA
33163438 GACATCAACTCAACACATTGAAACGGAGGAGAC
1 GACATCAACTCAACACATTGAAACGGAGGAGAC
* *
33163471 GACATCAATTCAACACCTTGAAACGGAGGAGA
1 GACATCAACTCAACACATTGAAACGGAGGAGA
33163503 TGACGTATCA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.42, C:0.23, G:0.22, T:0.14
Consensus pattern (33 bp):
GACATCAACTCAACACATTGAAACGGAGGAGAC
Found at i:33166735 original size:30 final size:30
Alignment explanation
Indices: 33166699--33166978 Score: 207
Period size: 30 Copynumber: 9.4 Consensus size: 30
33166689 GGTTTTTACC
*
33166699 ATCCCTTTCCATAGTTCGATAGTCGAAGCT
1 ATCCCTTTTCATAGTTCGATAGTCGAAGCT
* * * * * *
33166729 ATCCCTTTCCATATTTTGATGGTCGTCA-CC
1 ATCCCTTTTCATAGTTCGATAGTCG-AAGCT
* *
33166759 ATCCCTTTTCATAG-TCGATGGTC-ATCA-CC
1 ATCCCTTTTCATAGTTCGATAGTCGA--AGCT
* *
33166788 ATCCCTTTTCATAATTTGATAGTCGAAGCT
1 ATCCCTTTTCATAGTTCGATAGTCGAAGCT
* * *
33166818 ATCCCTTTTCATAATTCGATAGCCGAAGTT
1 ATCCCTTTTCATAGTTCGATAGTCGAAGCT
* * * *
33166848 ATCCCTTTTCATAGTTTGATGGTCGTCA-CC
1 ATCCCTTTTCATAGTTCGATAGTCG-AAGCT
* * * *
33166878 ATCCTTTTTCATTGTT-GATGGTC-ATCA-CC
1 ATCCCTTTTCATAGTTCGATAGTCGA--AGCT
* * * * *
33166907 ATCCTTTTTCATAATTTGATAGCCGGAGCT
1 ATCCCTTTTCATAGTTCGATAGTCGAAGCT
33166937 ATCCCTTTTCATAGTTCGATAGTCGAAGCT
1 ATCCCTTTTCATAGTTCGATAGTCGAAGCT
33166967 ATCCCTTTTCAT
1 ATCCCTTTTCAT
33166979 TGGTCCATTG
Statistics
Matches: 201, Mismatches: 37, Indels: 24
0.77 0.14 0.09
Matches are distributed among these distances:
29 50 0.25
30 148 0.74
31 3 0.01
ACGTcount: A:0.21, C:0.25, G:0.14, T:0.39
Consensus pattern (30 bp):
ATCCCTTTTCATAGTTCGATAGTCGAAGCT
Found at i:33166852 original size:89 final size:89
Alignment explanation
Indices: 33166696--33166956 Score: 280
Period size: 89 Copynumber: 2.9 Consensus size: 89
33166686 GATGGTTTTT
* * * * * * * *
33166696 ACCATCCCTTTCCATAGTTCGATAGTCGAAGCTATCCCTTTCCATATTTTGATGGTCGTCA-CCA
1 ACCATCCCTTTTCATA-TTTGATAGTCGAAGCTATCCCTTTTCATAATTTGATAGCCG-AAGCTA
33166760 TCCCTTTTCATAG-TCGATGGTCATC
64 TCCCTTTTCATAGTTCGATGGTCATC
* *
33166785 ACCATCCCTTTTCATAATTTGATAGTCGAAGCTATCCCTTTTCATAATTCGATAGCCGAAGTTAT
1 ACCATCCCTTTTCAT-ATTTGATAGTCGAAGCTATCCCTTTTCATAATTTGATAGCCGAAGCTAT
* *
33166850 CCCTTTTCATAGTTTGATGGTCGTC
65 CCCTTTTCATAGTTCGATGGTCATC
* * * * *
33166875 ACCATCCTTTTTCAT-TGTTGATGGTC-ATCA-CCATCCTTTTTCATAATTTGATAGCCGGAGCT
1 ACCATCCCTTTTCATAT-TTGATAGTCGA--AGCTATCCCTTTTCATAATTTGATAGCCGAAGCT
33166937 ATCCCTTTTCATAGTTCGAT
63 ATCCCTTTTCATAGTTCGAT
33166957 AGTCGAAGCT
Statistics
Matches: 146, Mismatches: 20, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
88 3 0.02
89 117 0.80
90 26 0.18
ACGTcount: A:0.21, C:0.26, G:0.14, T:0.39
Consensus pattern (89 bp):
ACCATCCCTTTTCATATTTGATAGTCGAAGCTATCCCTTTTCATAATTTGATAGCCGAAGCTATC
CCTTTTCATAGTTCGATGGTCATC
Found at i:33166910 original size:119 final size:119
Alignment explanation
Indices: 33166699--33166978 Score: 452
Period size: 119 Copynumber: 2.4 Consensus size: 119
33166689 GGTTTTTACC
* * *
33166699 ATCCCTTTCCATAGTTCGATAGTCGAAGCTATCCCTTTCCATATTTTGATGGTCGTCACCATCCC
1 ATCCCTTTTCATAGTTCGATAGTCGAAGCTATCCCTTTTCATAGTTTGATGGTCGTCACCATCCC
*
33166764 TTTTCATAGTCGATGGTCATCACCATCCCTTTTCATAATTTGATAGTCGAAGCT
66 TTTTCATAGTCGATGGTCATCACCATCCCTTTTCATAATTTGATAGCCGAAGCT
* * * *
33166818 ATCCCTTTTCATAATTCGATAGCCGAAGTTATCCCTTTTCATAGTTTGATGGTCGTCACCATCCT
1 ATCCCTTTTCATAGTTCGATAGTCGAAGCTATCCCTTTTCATAGTTTGATGGTCGTCACCATCCC
* * * *
33166883 TTTTCATTGTTGATGGTCATCACCATCCTTTTTCATAATTTGATAGCCGGAGCT
66 TTTTCATAGTCGATGGTCATCACCATCCCTTTTCATAATTTGATAGCCGAAGCT
33166937 ATCCCTTTTCATAGTTCGATAGTCGAAGCTATCCCTTTTCAT
1 ATCCCTTTTCATAGTTCGATAGTCGAAGCTATCCCTTTTCAT
33166979 TGGTCCATTG
Statistics
Matches: 146, Mismatches: 15, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
119 146 1.00
ACGTcount: A:0.21, C:0.25, G:0.14, T:0.39
Consensus pattern (119 bp):
ATCCCTTTTCATAGTTCGATAGTCGAAGCTATCCCTTTTCATAGTTTGATGGTCGTCACCATCCC
TTTTCATAGTCGATGGTCATCACCATCCCTTTTCATAATTTGATAGCCGAAGCT
Done.