Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: 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: 58101237
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1550000 characters in sequence are not A, C, G, or T
File 116 of 199
Found at i:33053426 original size:20 final size:20
Alignment explanation
Indices: 33053401--33053440 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
33053391 AATATTTTCC
*
33053401 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
33053421 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
33053441 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:33053446 original size:34 final size:35
Alignment explanation
Indices: 33053389--33053455 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
33053379 CAAACACCAG
*
33053389 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
33053424 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
33053456 CATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:33053462 original size:14 final size:14
Alignment explanation
Indices: 33053424--33053463 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
33053414 ACAGAAAAGT
*
33053424 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
33053438 AAATCATTTTACGG
1 AAAACATTTTACAG
33053452 AAAACATTTTAC
1 AAAACATTTTAC
33053464 TGCCAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:33084306 original size:18 final size:17
Alignment explanation
Indices: 33084273--33084314 Score: 61
Period size: 16 Copynumber: 2.5 Consensus size: 17
33084263 ATGTGATATC
33084273 TATTTATA-TTTATGAA
1 TATTTATATTTTATGAA
33084289 TATTTATATTTATATGAA
1 TATTTATATTT-TATGAA
33084307 TA-TTATAT
1 TATTTATAT
33084315 GTTGCCTTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.33
17 8 0.33
18 8 0.33
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (17 bp):
TATTTATATTTTATGAA
Found at i:33095409 original size:23 final size:23
Alignment explanation
Indices: 33095383--33095428 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
33095373 CAAATTCTTG
33095383 TCATTAATAAAAAATGCTGCAAA
1 TCATTAATAAAAAATGCTGCAAA
33095406 TCATTAATAAAAAATGCTGCAAA
1 TCATTAATAAAAAATGCTGCAAA
33095429 CTTTATTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.52, C:0.13, G:0.09, T:0.26
Consensus pattern (23 bp):
TCATTAATAAAAAATGCTGCAAA
Found at i:33097163 original size:42 final size:41
Alignment explanation
Indices: 33097108--33097236 Score: 159
Period size: 42 Copynumber: 3.1 Consensus size: 41
33097098 TTACAAACAA
* *
33097108 AAACGCCGTTAAAGAACATGTTCTTTAGCGGCGTTTTTCTAC
1 AAACGCCG-TAAAGAACATGTTCTTTAGTGGCGTTTTTATAC
* * *
33097150 AAGCGCCGCTAAAGAACATGTTCTTTAGTGGCATTTTTTTAC
1 AAACGCCG-TAAAGAACATGTTCTTTAGTGGCGTTTTTATAC
* * *
33097192 AAACACCGTGAAAGAACATCTTCTTTAGTGGCGCTTTTATAC
1 AAACGCCGT-AAAGAACATGTTCTTTAGTGGCGTTTTTATAC
33097234 AAA
1 AAA
33097237 AACGCCACTA
Statistics
Matches: 75, Mismatches: 11, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
41 1 0.01
42 74 0.99
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (41 bp):
AAACGCCGTAAAGAACATGTTCTTTAGTGGCGTTTTTATAC
Found at i:33097621 original size:21 final size:21
Alignment explanation
Indices: 33097553--33097623 Score: 97
Period size: 21 Copynumber: 3.4 Consensus size: 21
33097543 TTTTGCTCTG
*
33097553 CTCTGCTTCTCTCGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
*
33097574 CTCCGCTTCCCTCGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
* * *
33097595 CGCTGCTTCCCTCGCTTCCGC
1 CTCTGCTTCCCTCGCTGCAGC
33097616 CTCTGCTT
1 CTCTGCTT
33097624 TAAGTTGTAG
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.03, C:0.48, G:0.18, T:0.31
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCAGC
Found at i:33103149 original size:51 final size:51
Alignment explanation
Indices: 33103094--33103366 Score: 377
Period size: 51 Copynumber: 5.5 Consensus size: 51
33103084 AAATGTATTA
*
33103094 TGTAAGTTAAATGTATTATGAAAGTTGTAAGTTATTATGTATTATGTAAGT
1 TGTAAGTTAAATGTATTATGTAAGTTGTAAGTTATTATGTATTATGTAAGT
*
33103145 TGTAAGTTAAATGTATTGTGTAAGTTGTAAGTTATTATGTATTATGTAAGT
1 TGTAAGTTAAATGTATTATGTAAGTTGTAAGTTATTATGTATTATGTAAGT
*
33103196 TGTAAGTTAAATGTATTATGTAAGTTGTAAGTTA-AATGTATTATGTAAGT
1 TGTAAGTTAAATGTATTATGTAAGTTGTAAGTTATTATGTATTATGTAAGT
* * *
33103246 TGTAAGTTATTATGTATTATGTAAGTTGTAAGTTA-AATGTATTGTGTAAGT
1 TGTAAGTTA-AATGTATTATGTAAGTTGTAAGTTATTATGTATTATGTAAGT
*
33103297 TGTAAGTTATTATGTATTATGTAAG-T-T--G-TATTATGTATTATGTAAGT
1 TGTAAGTTA-AATGTATTATGTAAGTTGTAAGTTATTATGTATTATGTAAGT
* *
33103344 TATTA-TT--ATGTATTATGTAAGTT
1 TGTAAGTTAAATGTATTATGTAAGTT
33103367 AATGTATTAT
Statistics
Matches: 209, Mismatches: 10, Indels: 13
0.90 0.04 0.06
Matches are distributed among these distances:
43 14 0.07
44 1 0.00
46 4 0.02
47 18 0.09
49 1 0.00
50 25 0.12
51 146 0.70
ACGTcount: A:0.33, C:0.00, G:0.20, T:0.48
Consensus pattern (51 bp):
TGTAAGTTAAATGTATTATGTAAGTTGTAAGTTATTATGTATTATGTAAGT
Found at i:33103295 original size:127 final size:123
Alignment explanation
Indices: 33103094--33103366 Score: 462
Period size: 127 Copynumber: 2.2 Consensus size: 123
33103084 AAATGTATTA
*
33103094 TGTAAGTTAAATGTATTATGAAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTAAATGT
1 TGTAAGTTAAATGTATTATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTAAATGT
33103159 ATTGTGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTAAATGTATTATGTAAGT
66 ATTGTGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGT-A-TT--ATGTATTATGTAAGT
33103221 TGTAAGTTAAATGTATTATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTAAATGT
1 TGTAAGTTAAATGTATTATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTAAATGT
33103286 ATTGTGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTATTATGTATTATGTAAGT
66 ATTGTGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTATTATGTATTATGTAAGT
* *
33103344 TATTA-TT--ATGTATTATGTAAGTT
1 TGTAAGTTAAATGTATTATGTAAGTT
33103367 AATGTATTAT
Statistics
Matches: 143, Mismatches: 3, Indels: 7
0.93 0.02 0.05
Matches are distributed among these distances:
120 16 0.11
122 2 0.01
123 18 0.13
125 2 0.01
126 1 0.01
127 104 0.73
ACGTcount: A:0.33, C:0.00, G:0.20, T:0.48
Consensus pattern (123 bp):
TGTAAGTTAAATGTATTATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTAAATGT
ATTGTGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTATTATGTATTATGTAAGT
Found at i:33103330 original size:21 final size:19
Alignment explanation
Indices: 33103297--33103403 Score: 121
Period size: 21 Copynumber: 5.5 Consensus size: 19
33103287 TTGTGTAAGT
33103297 TGTAAGTTATTATGTATTA
1 TGTAAGTTATTATGTATTA
33103316 TGTAAGTTGTATTATGTATTA
1 TGTAAG-T-TATTATGTATTA
33103337 TGTAAGTTATTATTATGTATTA
1 TGTAAG---TTATTATGTATTA
33103359 TGTAAGTTA--ATGTATTA
1 TGTAAGTTATTATGTATTA
* *
33103376 TGTAATTTA-AATGTATTA
1 TGTAAGTTATTATGTATTA
*
33103394 TGTAGGTTAT
1 TGTAAGTTAT
33103404 GTAGGTTATG
Statistics
Matches: 78, Mismatches: 4, Indels: 12
0.83 0.04 0.13
Matches are distributed among these distances:
17 16 0.21
18 15 0.19
19 9 0.12
20 1 0.01
21 18 0.23
22 18 0.23
23 1 0.01
ACGTcount: A:0.32, C:0.00, G:0.17, T:0.51
Consensus pattern (19 bp):
TGTAAGTTATTATGTATTA
Found at i:33103397 original size:7 final size:7
Alignment explanation
Indices: 33103304--33103379 Score: 75
Period size: 7 Copynumber: 10.3 Consensus size: 7
33103294 AGTTGTAAGT
33103304 TATTATG
1 TATTATG
33103311 TATTATG
1 TATTATG
*
33103318 TAAGT-TG
1 T-ATTATG
33103325 TATTATG
1 TATTATG
33103332 TATTATG
1 TATTATG
33103339 TAAGTTAT-
1 T-A-TTATG
33103347 TATTATG
1 TATTATG
33103354 TATTATG
1 TATTATG
33103361 TAAGTTAATG
1 T-A-TT-ATG
33103371 TATTATG
1 TATTATG
33103378 TA
1 TA
33103380 ATTTAAATGT
Statistics
Matches: 59, Mismatches: 2, Indels: 16
0.77 0.03 0.21
Matches are distributed among these distances:
6 6 0.10
7 35 0.59
8 7 0.12
9 7 0.12
10 4 0.07
ACGTcount: A:0.32, C:0.00, G:0.16, T:0.53
Consensus pattern (7 bp):
TATTATG
Found at i:33103893 original size:13 final size:13
Alignment explanation
Indices: 33103852--33103885 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
33103842 TAAATTTTAG
33103852 TAAGTAATGTATT
1 TAAGTAATGTATT
*
33103865 TAAGTAACGTATT
1 TAAGTAATGTATT
33103878 TAAGTAAT
1 TAAGTAAT
33103886 AAATTTAAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.41, C:0.03, G:0.15, T:0.41
Consensus pattern (13 bp):
TAAGTAATGTATT
Found at i:33103911 original size:40 final size:40
Alignment explanation
Indices: 33103865--33104118 Score: 248
Period size: 40 Copynumber: 6.5 Consensus size: 40
33103855 GTAATGTATT
* *
33103865 TAAGTAACGTATTTAAGTAATAAATTTAAACAAATTTTAG
1 TAAGTAATGTATTTTAGTAATAAATTTAAACAAATTTTAG
* *
33103905 TAAGTAATGTATTTTAGTAACAAATTTTAACAAATTTTAG
1 TAAGTAATGTATTTTAGTAATAAATTTAAACAAATTTTAG
*
33103945 TAAGTAATGTATTTTAGTAATAAATTTAATCAAATTTTAG
1 TAAGTAATGTATTTTAGTAATAAATTTAAACAAATTTTAG
*
33103985 TAAGTAATTTATTTTAGTAAGTAATGTATTTTAGTAACAAA-TTTA-
1 TAAGTAATGTATTTTAGTAA-TAA---A-TTTA--AACAAATTTTAG
* *
33104030 -AA-CAA---ATTTTAGTAAGT-AATGT------ATTTTAG
1 TAAGTAATGTATTTTAGTAA-TAAATTTAAACAAATTTTAG
*
33104059 TAAGTAATGTATTTTAGTAATAAATTTAATCAAATTTTAG
1 TAAGTAATGTATTTTAGTAATAAATTTAAACAAATTTTAG
*
33104099 TAAGTAATTTATTTTAGTAA
1 TAAGTAATGTATTTTAGTAA
33104119 GTAATGTATT
Statistics
Matches: 179, Mismatches: 14, Indels: 42
0.76 0.06 0.18
Matches are distributed among these distances:
27 1 0.01
28 4 0.02
30 2 0.01
31 2 0.01
33 1 0.01
34 14 0.08
35 2 0.01
36 1 0.01
39 1 0.01
40 130 0.73
41 3 0.02
43 2 0.01
44 3 0.02
45 4 0.02
46 4 0.02
47 5 0.03
ACGTcount: A:0.43, C:0.03, G:0.11, T:0.44
Consensus pattern (40 bp):
TAAGTAATGTATTTTAGTAATAAATTTAAACAAATTTTAG
Found at i:33103999 original size:57 final size:57
Alignment explanation
Indices: 33103938--33104175 Score: 431
Period size: 57 Copynumber: 4.2 Consensus size: 57
33103928 ATTTTAACAA
* *
33103938 ATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAATCAAATTTTAGTAAGTAATTT
1 ATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAAACAAATTTTAGTAAGTAATGT
*
33103995 ATTTTAGTAAGTAATGTATTTTAGTAACAAATTTAAACAAATTTTAGTAAGTAATGT
1 ATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAAACAAATTTTAGTAAGTAATGT
* *
33104052 ATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAATCAAATTTTAGTAAGTAATTT
1 ATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAAACAAATTTTAGTAAGTAATGT
33104109 ATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAAACAAATTTTAGTAAGTAATGT
1 ATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAAACAAATTTTAGTAAGTAATGT
33104166 ATTTTAGTAA
1 ATTTTAGTAA
33104176 TAAATTTAAA
Statistics
Matches: 173, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
57 173 1.00
ACGTcount: A:0.41, C:0.02, G:0.11, T:0.45
Consensus pattern (57 bp):
ATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAAACAAATTTTAGTAAGTAATGT
Found at i:33104096 original size:97 final size:97
Alignment explanation
Indices: 33103843--33104215 Score: 393
Period size: 97 Copynumber: 3.9 Consensus size: 97
33103833 ATATATACTT
* *
33103843 AAATTTTAGTAAGTAATGTA--TT--TAAGTAACGTATTTAAGTAATAAATTTAAACAAATTTTA
1 AAATTTTAGTAAGTAATGTATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAAACAAATTTTA
*
33103904 GTAAGTAATGTATTTTAGTAACAAATTTTAAC
66 GTAAGTAATGTATTTTAGTAACAAATTTAAAC
* * * *
33103936 AAATTTTAGTAAGTAATGTATTTTAGTAA-TAA---A-TTTAATCA-AATTTTAGTAAGTAATTT
1 AAATTTTAGTAAGTAATGTATTTTAGTAAGTAATGTATTTTAGTAATAAATTTA--AA-CAA---
33103995 ATTTTAGTAAGTAATGTATTTTAGTAACAAATTTAAAC
60 ATTTTAGTAAGTAATGTATTTTAGTAACAAATTTAAAC
*
33104033 AAATTTTAGTAAGTAATGTATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAATCAAATTTTA
1 AAATTTTAGTAAGTAATGTATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAAACAAATTTTA
* * *
33104098 GTAAGTAATTTATTTTAGTAAGTAATGTATTTTAGTAAT
66 GTAAGTAATGTATTTTAGTAA-CAA---A-TTTA--AAC
*
33104137 AAA-TTTA--AA-CAA---ATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAAACAAATTTTA
1 AAATTTTAGTAAGTAATGTATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAAACAAATTTTA
*
33104195 GTAAGTAATTTATTTTAGTAA
66 GTAAGTAATGTATTTTAGTAA
33104216 GTAATGTATT
Statistics
Matches: 241, Mismatches: 16, Indels: 42
0.81 0.05 0.14
Matches are distributed among these distances:
91 6 0.02
92 5 0.02
93 23 0.10
94 2 0.01
95 2 0.01
96 3 0.01
97 161 0.67
98 5 0.02
100 4 0.02
101 5 0.02
102 10 0.04
103 10 0.04
104 5 0.02
ACGTcount: A:0.43, C:0.03, G:0.11, T:0.44
Consensus pattern (97 bp):
AAATTTTAGTAAGTAATGTATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAAACAAATTTTA
GTAAGTAATGTATTTTAGTAACAAATTTAAAC
Found at i:33104152 original size:23 final size:23
Alignment explanation
Indices: 33104126--33104206 Score: 79
Period size: 23 Copynumber: 3.8 Consensus size: 23
33104116 TAAGTAATGT
33104126 ATTTTAGTAA-TAAATTTAAACAA
1 ATTTTAGTAAGT-AATTTAAACAA
*
33104149 ATTTTAGTAAGTAATGT------
1 ATTTTAGTAAGTAATTTAAACAA
33104166 ATTTTAGTAA-TAAATTTAAACAA
1 ATTTTAGTAAGT-AATTTAAACAA
33104189 ATTTTAGTAAGTAATTTA
1 ATTTTAGTAAGTAATTTA
33104207 TTTTAGTAAG
Statistics
Matches: 47, Mismatches: 2, Indels: 18
0.70 0.03 0.27
Matches are distributed among these distances:
16 1 0.02
17 14 0.30
23 30 0.64
24 2 0.04
ACGTcount: A:0.46, C:0.02, G:0.09, T:0.43
Consensus pattern (23 bp):
ATTTTAGTAAGTAATTTAAACAA
Found at i:33104153 original size:40 final size:40
Alignment explanation
Indices: 33104109--33104215 Score: 205
Period size: 40 Copynumber: 2.7 Consensus size: 40
33104099 TAAGTAATTT
33104109 ATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAAACAA
1 ATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAAACAA
33104149 ATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAAACAA
1 ATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAAACAA
*
33104189 ATTTTAGTAAGTAATTTATTTTAGTAA
1 ATTTTAGTAAGTAATGTATTTTAGTAA
33104216 GTAATGTATT
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
40 66 1.00
ACGTcount: A:0.43, C:0.02, G:0.10, T:0.45
Consensus pattern (40 bp):
ATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAAACAA
Found at i:33104216 original size:97 final size:97
Alignment explanation
Indices: 33104052--33104241 Score: 371
Period size: 97 Copynumber: 2.0 Consensus size: 97
33104042 TAAGTAATGT
*
33104052 ATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAATCAAATTTTAGTAAGTAATTTATTTTAGT
1 ATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAAACAAATTTTAGTAAGTAATTTATTTTAGT
33104117 AAGTAATGTATTTTAGTAATAAATTTAAACAA
66 AAGTAATGTATTTTAGTAATAAATTTAAACAA
33104149 ATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAAACAAATTTTAGTAAGTAATTTATTTTAGT
1 ATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAAACAAATTTTAGTAAGTAATTTATTTTAGT
33104214 AAGTAATGTATTTTAGTAATAAATTTAA
66 AAGTAATGTATTTTAGTAATAAATTTAA
33104242 CATTCAATCG
Statistics
Matches: 92, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
97 92 1.00
ACGTcount: A:0.42, C:0.02, G:0.11, T:0.46
Consensus pattern (97 bp):
ATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAAACAAATTTTAGTAAGTAATTTATTTTAGT
AAGTAATGTATTTTAGTAATAAATTTAAACAA
Found at i:33105720 original size:7 final size:7
Alignment explanation
Indices: 33105708--33105738 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
33105698 GTTTTAACCT
33105708 AAACCGC
1 AAACCGC
33105715 AAACCGC
1 AAACCGC
33105722 AAACCGC
1 AAACCGC
*
33105729 AAACCCC
1 AAACCGC
33105736 AAA
1 AAA
33105739 ATCTAATCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.48, C:0.42, G:0.10, T:0.00
Consensus pattern (7 bp):
AAACCGC
Found at i:33106496 original size:84 final size:88
Alignment explanation
Indices: 33106383--33106561 Score: 294
Period size: 84 Copynumber: 2.1 Consensus size: 88
33106373 ACATTTTCGA
*
33106383 CGTTTTCCTAAAAAACGCCACTAAATATTACAGCTGTGAACAGAAACGACACCGTTTT-CGTGGT
1 CGTTTTCCTAAAAAACGCCACTAAATATTACAGCTGTGAACAGAAACGACACCATTTTGCGTGGT
*
33106447 CT-G-GAATTGCATTATTTGTGG
66 CTAGAGAATTGCATTATTTCTGG
33106468 CGTTTTCCT-AAAAACGCCACTAAATATTACAGCTGTGAACAGAAACGACACCATTTTGCGTGGT
1 CGTTTTCCTAAAAAACGCCACTAAATATTACAGCTGTGAACAGAAACGACACCATTTTGCGTGGT
*
33106532 CTAGAATAATTGCATTATTTCTGG
66 CTAG-AGAATTGCATTATTTCTGG
33106556 CGTTTT
1 CGTTTT
33106562 AAGCACAAAT
Statistics
Matches: 87, Mismatches: 3, Indels: 5
0.92 0.03 0.05
Matches are distributed among these distances:
84 47 0.54
85 17 0.20
86 1 0.01
88 22 0.25
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (88 bp):
CGTTTTCCTAAAAAACGCCACTAAATATTACAGCTGTGAACAGAAACGACACCATTTTGCGTGGT
CTAGAGAATTGCATTATTTCTGG
Found at i:33109219 original size:110 final size:111
Alignment explanation
Indices: 33109062--33109294 Score: 416
Period size: 111 Copynumber: 2.1 Consensus size: 111
33109052 AACACCTAGA
33109062 TAGCGGCGCTTTACAAAAACGCCACTAATTCCCCCCCAAAGGACACAAAACGG-ACCGTCTGGGT
1 TAGCGGCGCTTTACAAAAACGCCACTAATTCCCCCCCAAAGGACACAAAACGGCACCGTCTGGGT
*
33109126 GTATTATTTGCGGTGTTTTTTATAAACGCTGCTAATGTTCACTCTT
66 GTATTACTTGCGGTGTTTTTTATAAACGCTGCTAATGTTCACTCTT
*
33109172 TAGCGGCGCTTTACAAAAAACGCCACTAATT-CCCCCCAAAGGCCACAAAACGGCACCGTCTGGG
1 TAGCGGCGCTTTAC-AAAAACGCCACTAATTCCCCCCCAAAGGACACAAAACGGCACCGTCTGGG
33109236 TGTATTACTTGCGGTGTTTTTTATAAACGCTGCTAATGTTCACTCTT
65 TGTATTACTTGCGGTGTTTTTTATAAACGCTGCTAATGTTCACTCTT
*
33109283 TAACGGCGCTTT
1 TAGCGGCGCTTT
33109295 TCCTTTAACG
Statistics
Matches: 118, Mismatches: 3, Indels: 3
0.95 0.02 0.02
Matches are distributed among these distances:
110 35 0.30
111 83 0.70
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (111 bp):
TAGCGGCGCTTTACAAAAACGCCACTAATTCCCCCCCAAAGGACACAAAACGGCACCGTCTGGGT
GTATTACTTGCGGTGTTTTTTATAAACGCTGCTAATGTTCACTCTT
Found at i:33109319 original size:40 final size:40
Alignment explanation
Indices: 33109259--33109375 Score: 144
Period size: 40 Copynumber: 2.9 Consensus size: 40
33109249 GTGTTTTTTA
** * *
33109259 TAAACGCTGCTAATGTTCACTCTTTAACGGCGCTTTTCCT
1 TAAACGCCACTAATGCTCACTCTTTAACAGCGCTTTTCCT
* * *
33109299 TTAACGCCACTAATGCTCACTCTTTAGCAGTGCTTTTCCT
1 TAAACGCCACTAATGCTCACTCTTTAACAGCGCTTTTCCT
* * *
33109339 TAAACGCCGCTAATGCTCACTCTTTAGCAGCGTTTTT
1 TAAACGCCACTAATGCTCACTCTTTAACAGCGCTTTT
33109376 GCTCCAAACG
Statistics
Matches: 66, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 66 1.00
ACGTcount: A:0.21, C:0.28, G:0.15, T:0.37
Consensus pattern (40 bp):
TAAACGCCACTAATGCTCACTCTTTAACAGCGCTTTTCCT
Found at i:33119169 original size:16 final size:16
Alignment explanation
Indices: 33119148--33119179 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
33119138 TAGATGCATA
33119148 ATCTCATCGATCCATC
1 ATCTCATCGATCCATC
33119164 ATCTCATCGATCCATC
1 ATCTCATCGATCCATC
33119180 TTTCTTTTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.38, G:0.06, T:0.31
Consensus pattern (16 bp):
ATCTCATCGATCCATC
Found at i:33126509 original size:17 final size:16
Alignment explanation
Indices: 33126465--33126510 Score: 51
Period size: 17 Copynumber: 2.9 Consensus size: 16
33126455 TTGAAAAAGA
33126465 ATTATAACTATTTAAAT
1 ATTATAA-TATTTAAAT
*
33126482 A--ATATTATTTAAAT
1 ATTATAATATTTAAAT
33126496 AGTTATAATATTTAA
1 A-TTATAATATTTAA
33126511 TGAATAATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
14 10 0.42
15 3 0.12
17 11 0.46
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (16 bp):
ATTATAATATTTAAAT
Found at i:33128600 original size:19 final size:19
Alignment explanation
Indices: 33128578--33128614 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
33128568 TCTTTTCCAC
* *
33128578 ATTTTAATAAATTTTTCAT
1 ATTTAAATAAATATTTCAT
33128597 ATTTAAATAAATATTTCA
1 ATTTAAATAAATATTTCA
33128615 AAATTTGTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.51
Consensus pattern (19 bp):
ATTTAAATAAATATTTCAT
Found at i:33132554 original size:23 final size:23
Alignment explanation
Indices: 33132528--33132571 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
33132518 GGTTTTTTCT
33132528 TAGATTGGGTATTGTCGTATTTA
1 TAGATTGGGTATTGTCGTATTTA
33132551 TAGATTGGGTATTGTCGTATT
1 TAGATTGGGTATTGTCGTATT
33132572 CTTCACATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.20, C:0.05, G:0.27, T:0.48
Consensus pattern (23 bp):
TAGATTGGGTATTGTCGTATTTA
Found at i:33132647 original size:43 final size:44
Alignment explanation
Indices: 33132586--33132677 Score: 125
Period size: 43 Copynumber: 2.1 Consensus size: 44
33132576 ACATTAAGGT
* *
33132586 TAAAGAACATGATCTTTAGCGGCGTTTATTTT-T-TTAGCGCCGC
1 TAAAGAACATGATCTTTAGCGGCATTT-TTTTCTGTAAGCGCCGC
*
33132629 TAAAGAACATGATTTTTAGCGGCATTTTTTTCTGTAAGCGCCGC
1 TAAAGAACATGATCTTTAGCGGCATTTTTTTCTGTAAGCGCCGC
*
33132673 AAAAG
1 TAAAG
33132678 TTAGCGACGT
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
42 4 0.09
43 26 0.60
44 13 0.30
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.35
Consensus pattern (44 bp):
TAAAGAACATGATCTTTAGCGGCATTTTTTTCTGTAAGCGCCGC
Found at i:33132868 original size:24 final size:24
Alignment explanation
Indices: 33132841--33132892 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 24
33132831 AAAAATAAAA
33132841 ATAAAAA-TTAACCTTT-CAAATGTT
1 ATAAAAACTTAA--TTTCCAAATGTT
33132865 ATAAAAACTTTAATTTCCAAATGTT
1 ATAAAAAC-TTAATTTCCAAATGTT
33132890 ATA
1 ATA
33132893 TATGAGATCA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
24 10 0.40
25 11 0.44
26 4 0.16
ACGTcount: A:0.46, C:0.12, G:0.04, T:0.38
Consensus pattern (24 bp):
ATAAAAACTTAATTTCCAAATGTT
Found at i:33141252 original size:41 final size:41
Alignment explanation
Indices: 33141195--33141277 Score: 139
Period size: 41 Copynumber: 2.0 Consensus size: 41
33141185 AAGGGTAAGG
*
33141195 TATGAGATTAAGATCCTCAATGTAAGAAGGCCTTTAACCAA
1 TATGAGATTAAGATCCTCAATGTAAGAAGACCTTTAACCAA
* *
33141236 TATGAGATTGAGATCCTCAATGTGAGAAGACCTTTAACCAA
1 TATGAGATTAAGATCCTCAATGTAAGAAGACCTTTAACCAA
33141277 T
1 T
33141278 TGAAGCAAGT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.37, C:0.17, G:0.18, T:0.28
Consensus pattern (41 bp):
TATGAGATTAAGATCCTCAATGTAAGAAGACCTTTAACCAA
Found at i:33152896 original size:16 final size:17
Alignment explanation
Indices: 33152856--33152900 Score: 62
Period size: 16 Copynumber: 2.9 Consensus size: 17
33152846 TACATTATTT
33152856 ATTAAATTAA-TTT-AA
1 ATTAAATTAATTTTCAA
33152871 A-TAAATTAATTTTCAA
1 ATTAAATTAATTTTCAA
33152887 ATTAAA-TAATTTTC
1 ATTAAATTAATTTTC
33152901 TCAACCAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 8 0.30
15 4 0.15
16 11 0.41
17 4 0.15
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (17 bp):
ATTAAATTAATTTTCAA
Found at i:33153138 original size:63 final size:64
Alignment explanation
Indices: 33153063--33153189 Score: 159
Period size: 63 Copynumber: 2.0 Consensus size: 64
33153053 ATTTTTTAGG
* * * *
33153063 TCATTTTTATTTTCATTTTGGAGAAAACCACATTTATTTCCAAATAATTT-C-ATTTCTCCATTT
1 TCATTTTCATTTTCATCTTGGAGAAAACCACAATCATTTCCAAAT-ATTTCCTATTTCTCCATTT
* ** *
33153126 TCATTTTCATTTTTATCTTGGAGAAAACCTTAATCATTTCCAAATGTTTCCTATTTCTCCATTT
1 TCATTTTCATTTTCATCTTGGAGAAAACCACAATCATTTCCAAATATTTCCTATTTCTCCATTT
33153190 CACCATTTCT
Statistics
Matches: 54, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
62 3 0.06
63 39 0.72
64 12 0.22
ACGTcount: A:0.27, C:0.19, G:0.06, T:0.49
Consensus pattern (64 bp):
TCATTTTCATTTTCATCTTGGAGAAAACCACAATCATTTCCAAATATTTCCTATTTCTCCATTT
Found at i:33161416 original size:39 final size:40
Alignment explanation
Indices: 33161299--33161483 Score: 209
Period size: 40 Copynumber: 4.7 Consensus size: 40
33161289 GCTACTCGTT
*
33161299 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
33161339 CAATTGCCTTCGGGACTT-GACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAG-CCCGGATTTAGTAACTCGCA
* *
33161379 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
** * * * *
33161418 CAAATGCCTTC-GGATCTTAGTTCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
33161459 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
33161484 CATCATTCAA
Statistics
Matches: 123, Mismatches: 15, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
38 2 0.02
39 33 0.27
40 75 0.61
41 13 0.11
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:33161444 original size:79 final size:82
Alignment explanation
Indices: 33161299--33161483 Score: 213
Period size: 79 Copynumber: 2.3 Consensus size: 82
33161289 GCTACTCGTT
* * *
33161299 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGACTTGACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTGACCCG
* *
33161363 GATTTAGTAAC-TCGCA
66 GATATAGTAACTTAGCA
* **
33161379 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTC-GGATCTT-AGTT
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGA-CTTGA-CC
* *
33161440 CGGATATGGTCACTTAGCA
64 CGGATATAGTAACTTAGCA
33161459 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
33161484 CATCATTCAA
Statistics
Matches: 90, Mismatches: 10, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
78 4 0.04
79 52 0.58
80 34 0.38
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTGACCCG
GATATAGTAACTTAGCA
Found at i:33165132 original size:28 final size:28
Alignment explanation
Indices: 33165094--33165275 Score: 303
Period size: 28 Copynumber: 6.5 Consensus size: 28
33165084 TAAATTGTAC
*
33165094 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
33165122 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
33165150 AGCACTAAGTGTGCGAATTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
33165178 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
33165206 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
33165234 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
33165261 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
33165276 GACTTAATAT
Statistics
Matches: 149, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
27 24 0.16
28 125 0.84
ACGTcount: A:0.26, C:0.13, G:0.28, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATGT
Found at i:33180356 original size:79 final size:82
Alignment explanation
Indices: 33180245--33180429 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
33180235 GCTACTCGTT
* * *
33180245 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
33180308 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
33180325 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
33180388 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
33180405 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
33180430 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:33180429 original size:40 final size:40
Alignment explanation
Indices: 33180226--33180429 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
33180216 CGGAATTTAA
** *
33180226 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
33180266 CCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
33180306 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
33180345 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
33180385 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
33180425 CCGGA
1 CCGGA
33180430 CATCATTCAA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 92 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:33182804 original size:44 final size:44
Alignment explanation
Indices: 33182741--33182830 Score: 171
Period size: 44 Copynumber: 2.0 Consensus size: 44
33182731 TCACATGGCC
33182741 TTACCACACGATCGTGTGACCTCTGTTTTCTAATTTTTACATCT
1 TTACCACACGATCGTGTGACCTCTGTTTTCTAATTTTTACATCT
*
33182785 TTACCACATGATCGTGTGACCTCTGTTTTCTAATTTTTACATCT
1 TTACCACACGATCGTGTGACCTCTGTTTTCTAATTTTTACATCT
33182829 TT
1 TT
33182831 TTCTTAAATT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.20, C:0.23, G:0.11, T:0.46
Consensus pattern (44 bp):
TTACCACACGATCGTGTGACCTCTGTTTTCTAATTTTTACATCT
Found at i:33187996 original size:39 final size:40
Alignment explanation
Indices: 33187901--33188162 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
33187891 TTGAATGATG
*
33187901 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
33187939 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
*
33187980 TCCGGGCTAAG-CCCGAAGGCATTTGTGTGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
33188019 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
33188058 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
33188097 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
33188136 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
33188163 AACGAGGAGC
Statistics
Matches: 203, Mismatches: 11, Indels: 17
0.88 0.05 0.07
Matches are distributed among these distances:
39 132 0.65
40 59 0.29
41 11 0.05
42 1 0.00
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:33193390 original size:12 final size:12
Alignment explanation
Indices: 33193357--33193396 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
33193347 CAAGCGAGTT
*
33193357 ACACGGCCTAGC
1 ACACGGCCTGGC
*
33193369 ATACGGCCTGGC
1 ACACGGCCTGGC
*
33193381 ACACGGCCTGAC
1 ACACGGCCTGGC
33193393 ACAC
1 ACAC
33193397 TGGCGTGTGT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.25, C:0.40, G:0.25, T:0.10
Consensus pattern (12 bp):
ACACGGCCTGGC
Found at i:33193465 original size:54 final size:54
Alignment explanation
Indices: 33193374--33193479 Score: 149
Period size: 54 Copynumber: 2.0 Consensus size: 54
33193364 CTAGCATACG
* * *
33193374 GCCTGGCACACGGCCTGACACACTGGCGTGTGTGGCAACTAAGAGAGTTACATA
1 GCCTAGCACACGGCCTGACACACAGGCGTGTGGGGCAACTAAGAGAGTTACATA
* * * *
33193428 GCCTAGCACACGGCTTGGCACACAGGCGTGTGGGGCAACTCAGTGAGTTACA
1 GCCTAGCACACGGCCTGACACACAGGCGTGTGGGGCAACTAAGAGAGTTACA
33193480 CGAGTGACGA
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 45 1.00
ACGTcount: A:0.25, C:0.26, G:0.31, T:0.18
Consensus pattern (54 bp):
GCCTAGCACACGGCCTGACACACAGGCGTGTGGGGCAACTAAGAGAGTTACATA
Found at i:33201973 original size:19 final size:18
Alignment explanation
Indices: 33201942--33201977 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
33201932 TAACTACAAA
33201942 AAAAAATATCAAAAATTC
1 AAAAAATATCAAAAATTC
*
33201960 AAAAAATTTGCAAAAATT
1 AAAAAATAT-CAAAAATT
33201978 TTGAAAAAAT
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:0.64, C:0.08, G:0.03, T:0.25
Consensus pattern (18 bp):
AAAAAATATCAAAAATTC
Found at i:33207575 original size:18 final size:18
Alignment explanation
Indices: 33207539--33207576 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
33207529 CATTTCAACG
**
33207539 TTGTATGATGACAGTATT
1 TTGTATGATGACAAAATT
33207557 TTGTATGATGACAAAATT
1 TTGTATGATGACAAAATT
33207575 TT
1 TT
33207577 ATCGAAGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.32, C:0.05, G:0.18, T:0.45
Consensus pattern (18 bp):
TTGTATGATGACAAAATT
Found at i:33218743 original size:39 final size:39
Alignment explanation
Indices: 33218700--33218918 Score: 325
Period size: 39 Copynumber: 5.6 Consensus size: 39
33218690 CATATTCACT
* * *
33218700 TTTAAGCGTATATCACATTACACATATAATCACATAACA
1 TTTAAGCATATATCACAATACTCATATAATCACATAACA
33218739 TTTAAGCATATATCACAATACTCATATAATCACATAAC-
1 TTTAAGCATATATCACAATACTCATATAATCACATAACA
* *
33218777 TTTCAAAG-ATATATCACAATACTCATTTAATCACATAGCA
1 TTT--AAGCATATATCACAATACTCATATAATCACATAACA
*
33218817 TTTAAGCATATATCATAATACTCATATAATCACATAACA
1 TTTAAGCATATATCACAATACTCATATAATCACATAACA
* * *
33218856 TTCAAGCATATATCATAATACTTATATAATCACATAACA
1 TTTAAGCATATATCACAATACTCATATAATCACATAACA
33218895 TTTAAGCATATATCACAATACTCA
1 TTTAAGCATATATCACAATACTCA
33218919 AAAATATGTT
Statistics
Matches: 163, Mismatches: 13, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
38 6 0.04
39 151 0.93
40 6 0.04
ACGTcount: A:0.44, C:0.20, G:0.04, T:0.32
Consensus pattern (39 bp):
TTTAAGCATATATCACAATACTCATATAATCACATAACA
Found at i:33222048 original size:21 final size:19
Alignment explanation
Indices: 33222024--33222079 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 19
33222014 CTCTCTCAAC
*
33222024 AAAAAATTTCAAAATAATTTT
1 AAAAAATTTCAAAAT-A-TTA
*
33222045 AAAAAATTTTAAAATATTA
1 AAAAAATTTCAAAATATTA
33222064 ATAAAAATTTCAAAAT
1 A-AAAAATTTCAAAAT
33222080 TTATATTTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 3 0.10
20 14 0.45
21 14 0.45
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.36
Consensus pattern (19 bp):
AAAAAATTTCAAAATATTA
Found at i:33222052 original size:10 final size:10
Alignment explanation
Indices: 33222024--33222058 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
33222014 CTCTCTCAAC
*
33222024 AAAAAATTTC
1 AAAAAATTTT
33222034 AAAATAATTTT
1 AAAA-AATTTT
33222045 AAAAAATTTT
1 AAAAAATTTT
33222055 AAAA
1 AAAA
33222059 TATTAATAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 14 0.61
11 9 0.39
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (10 bp):
AAAAAATTTT
Found at i:33227501 original size:23 final size:23
Alignment explanation
Indices: 33227474--33227519 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
33227464 CTTTCTTATT
* *
33227474 ATAGTAATTTTCGGGGTATTACA
1 ATAGTAATTTTCGAGATATTACA
33227497 ATAGTAATTTTCGAGATATTACA
1 ATAGTAATTTTCGAGATATTACA
33227520 GCTAGACATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.35, C:0.09, G:0.17, T:0.39
Consensus pattern (23 bp):
ATAGTAATTTTCGAGATATTACA
Found at i:33229864 original size:196 final size:196
Alignment explanation
Indices: 33229530--33229925 Score: 639
Period size: 196 Copynumber: 2.0 Consensus size: 196
33229520 ATGTTTAATA
* ** *
33229530 TGTCAAAGCAGAAACTTACTATTTCTTCCTTCGCAATATGCCAATACTTTTGTTAAAACAAAGTG
1 TGTCAAAGCAGAAACTCACTATTTCTTCCACCGCAATATGCCAATACTTTTGCTAAAACAAAGTG
* * *
33229595 GAGTAGCTGTCCACTCTAAAAGCCTTTAAAGGTGCTATATTCTTTACTGCCGTTGTGATTTCTTC
66 GAGTAGCTGCCCACACCAAAAGCCTTTAAAGGTGCTATATTCTTTACTGCCGTTGTGATTTCTTC
33229660 AATTCGAAATTCCTCTATTAACGCCCTGTTCATATTTTCGTTAATACAATTGGTAATCCCTGATA
131 AATTCGAAATTCCTCTATTAACGCCCTGTTCATATTTTCGTTAATACAATTGGTAATCCCTGATA
33229725 G
196 G
* *
33229726 TGTCAAAGCAGAAACTCGCTATTTCTTCCACCGCAATATGCCAATATTTTTGCTAAAACAAAGTG
1 TGTCAAAGCAGAAACTCACTATTTCTTCCACCGCAATATGCCAATACTTTTGCTAAAACAAAGTG
* * * *
33229791 GGGTAGTTGCCCACACCAGAAGCCTTTAAAGGTGCTATATTCTTTACTGCCTTTGTGATTTCTTC
66 GAGTAGCTGCCCACACCAAAAGCCTTTAAAGGTGCTATATTCTTTACTGCCGTTGTGATTTCTTC
* * * *
33229856 AATTCGAAATTCTTCTGTTAACGCCCTGTTCATATTTTTGTTAATACAATTGGTAATCCTTGATA
131 AATTCGAAATTCCTCTATTAACGCCCTGTTCATATTTTCGTTAATACAATTGGTAATCCCTGATA
33229921 G
196 G
33229922 TGTC
1 TGTC
33229926 CTCTCATCAT
Statistics
Matches: 183, Mismatches: 17, Indels: 0
0.92 0.09 0.00
Matches are distributed among these distances:
196 183 1.00
ACGTcount: A:0.27, C:0.21, G:0.15, T:0.37
Consensus pattern (196 bp):
TGTCAAAGCAGAAACTCACTATTTCTTCCACCGCAATATGCCAATACTTTTGCTAAAACAAAGTG
GAGTAGCTGCCCACACCAAAAGCCTTTAAAGGTGCTATATTCTTTACTGCCGTTGTGATTTCTTC
AATTCGAAATTCCTCTATTAACGCCCTGTTCATATTTTCGTTAATACAATTGGTAATCCCTGATA
G
Found at i:33233016 original size:17 final size:18
Alignment explanation
Indices: 33232969--33233017 Score: 57
Period size: 17 Copynumber: 2.8 Consensus size: 18
33232959 GGAATAAATA
* *
33232969 TTTCAATGACATAATAAT
1 TTTCAATAACATATTAAT
*
33232987 TTT-AATAATATATTAAT
1 TTTCAATAACATATTAAT
33233004 TTTCAAT-ACATATT
1 TTTCAATAACATATT
33233018 TTAGTCATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
17 20 0.77
18 6 0.23
ACGTcount: A:0.43, C:0.08, G:0.02, T:0.47
Consensus pattern (18 bp):
TTTCAATAACATATTAAT
Found at i:33235031 original size:28 final size:28
Alignment explanation
Indices: 33234987--33235054 Score: 84
Period size: 28 Copynumber: 2.4 Consensus size: 28
33234977 CCTATGCAGT
* *
33234987 AACAGT-ACAGTGTGGGCCTTAGCCCAA
1 AACAGTAACAGTGCGGGCCCTAGCCCAA
*
33235014 AACAGTAACAGTGCGGGCCCTAGCCCAG
1 AACAGTAACAGTGCGGGCCCTAGCCCAA
*
33235042 TACAGTAATCAGT
1 AACAGTAA-CAGT
33235055 ACAGTGCAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 6 0.17
28 25 0.71
29 4 0.11
ACGTcount: A:0.31, C:0.26, G:0.25, T:0.18
Consensus pattern (28 bp):
AACAGTAACAGTGCGGGCCCTAGCCCAA
Found at i:33235435 original size:27 final size:26
Alignment explanation
Indices: 33235405--33235628 Score: 198
Period size: 27 Copynumber: 8.3 Consensus size: 26
33235395 TATAATAGTT
*
33235405 ATTTTACCCTATGGGGGTATTTCAATC
1 ATTTTACCCT-TGGGGGTATTTCGATC
33235432 ATTTTACCCTTCGGGGGTATTTCGATC
1 ATTTTACCCTT-GGGGGTATTTCGATC
33235459 ATTTTACCCTTCGGGGGTATTTCGATC
1 ATTTTACCCTT-GGGGGTATTTCGATC
** *
33235486 ATTTTACCCTTCATGGGTATTTCGGTC
1 ATTTTACCCTT-GGGGGTATTTCGATC
* * * *
33235513 ATTTTACCCTTTAGGGGCATTTTGGTC
1 ATTTTACCC-TTGGGGGTATTTCGATC
** * * *
33235540 ATTTTACCCTTCAAGGGTATTTTGGTT
1 ATTTTACCCTT-GGGGGTATTTCGATC
* *
33235567 ATTTTACCTTTTGAGGGTATTTCGATC
1 ATTTTACC-CTTGGGGGTATTTCGATC
* * * *
33235594 ATTTTACCATTCGAGGGTATTTTGGTC
1 ATTTTACCCTT-GGGGGTATTTCGATC
33235621 A-TTTACCC
1 ATTTTACCC
33235629 ACGAATCGCA
Statistics
Matches: 173, Mismatches: 19, Indels: 11
0.85 0.09 0.05
Matches are distributed among these distances:
26 11 0.06
27 158 0.91
28 4 0.02
ACGTcount: A:0.17, C:0.19, G:0.20, T:0.44
Consensus pattern (26 bp):
ATTTTACCCTTGGGGGTATTTCGATC
Found at i:33235463 original size:54 final size:54
Alignment explanation
Indices: 33235405--33235628 Score: 279
Period size: 54 Copynumber: 4.2 Consensus size: 54
33235395 TATAATAGTT
* * ** *
33235405 ATTTTACCCTATGGGGGTATTTCAATCATTTTACCCTTCGGGGGTATTTCGATC
1 ATTTTACCCTTTGGGGGTATTTCGATCATTTTACCCTTCAAGGGTATTTCGGTC
* *
33235459 ATTTTACCCTTCGGGGGTATTTCGATCATTTTACCCTTCATGGGTATTTCGGTC
1 ATTTTACCCTTTGGGGGTATTTCGATCATTTTACCCTTCAAGGGTATTTCGGTC
* * * * * *
33235513 ATTTTACCCTTTAGGGGCATTTTGGTCATTTTACCCTTCAAGGGTATTTTGGTT
1 ATTTTACCCTTTGGGGGTATTTCGATCATTTTACCCTTCAAGGGTATTTCGGTC
* * * * *
33235567 ATTTTACCTTTTGAGGGTATTTCGATCATTTTACCATTCGAGGGTATTTTGGTC
1 ATTTTACCCTTTGGGGGTATTTCGATCATTTTACCCTTCAAGGGTATTTCGGTC
33235621 A-TTTACCC
1 ATTTTACCC
33235629 ACGAATCGCA
Statistics
Matches: 146, Mismatches: 24, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
53 6 0.04
54 140 0.96
ACGTcount: A:0.17, C:0.19, G:0.20, T:0.44
Consensus pattern (54 bp):
ATTTTACCCTTTGGGGGTATTTCGATCATTTTACCCTTCAAGGGTATTTCGGTC
Found at i:33235515 original size:81 final size:81
Alignment explanation
Indices: 33235419--33235628 Score: 253
Period size: 81 Copynumber: 2.6 Consensus size: 81
33235409 TACCCTATGG
* * * **
33235419 GGGTATTTCAATCATTTTACCCTTCGGGGGTATTTCGATCATTTTACCCTTCGGGGGTATTTCGA
1 GGGTATTTCGATCATTTTACCCTTCGGGGGTATTTTGGTCATTTTACCCTTCAAGGGTATTTCGA
33235484 TCATTTTACC-CTTCA
66 TCATTTTACCTCTTCA
* ** * *
33235499 TGGGTATTTCGGTCATTTTACCCTTTAGGGGCATTTTGGTCATTTTACCCTTCAAGGGTATTTTG
1 -GGGTATTTCGATCATTTTACCCTTCGGGGGTATTTTGGTCATTTTACCCTTCAAGGGTATTTCG
* * * *
33235564 GTTATTTTACCTTTTGA
65 ATCATTTTACCTCTTCA
* *
33235581 GGGTATTTCGATCATTTTACCATTCGAGGGTATTTTGGTCA-TTTACCC
1 GGGTATTTCGATCATTTTACCCTTCGGGGGTATTTTGGTCATTTTACCC
33235629 ACGAATCGCA
Statistics
Matches: 108, Mismatches: 20, Indels: 3
0.82 0.15 0.02
Matches are distributed among these distances:
80 7 0.06
81 98 0.91
82 3 0.03
ACGTcount: A:0.17, C:0.19, G:0.20, T:0.44
Consensus pattern (81 bp):
GGGTATTTCGATCATTTTACCCTTCGGGGGTATTTTGGTCATTTTACCCTTCAAGGGTATTTCGA
TCATTTTACCTCTTCA
Found at i:33240188 original size:25 final size:25
Alignment explanation
Indices: 33240158--33240218 Score: 72
Period size: 25 Copynumber: 2.4 Consensus size: 25
33240148 TTTTGTCAAA
33240158 AATTTAATTAATAT-AAAATATTA-AT
1 AATTTAATTAAT-TGAAAA-ATTAGAT
*
33240183 AATTTAATAAATTGAAAAATTAGAT
1 AATTTAATTAATTGAAAAATTAGAT
*
33240208 AATTAAATTAA
1 AATTTAATTAA
33240219 AATTTAGGAG
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
24 5 0.16
25 26 0.84
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.39
Consensus pattern (25 bp):
AATTTAATTAATTGAAAAATTAGAT
Found at i:33240794 original size:16 final size:15
Alignment explanation
Indices: 33240768--33240814 Score: 58
Period size: 16 Copynumber: 3.0 Consensus size: 15
33240758 TAAATAAAGC
*
33240768 TAATAATAATTAATA
1 TAATTATAATTAATA
*
33240783 TATATTATAATTGATA
1 TA-ATTATAATTAATA
33240799 TAATTATATATTAATA
1 TAATTATA-ATTAATA
33240815 ATTATCATCT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
15 8 0.30
16 19 0.70
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (15 bp):
TAATTATAATTAATA
Found at i:33247822 original size:18 final size:19
Alignment explanation
Indices: 33247796--33247832 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
33247786 AATTCTAGAA
33247796 TGGAAAGAAGAGA-GAAAG
1 TGGAAAGAAGAGAGGAAAG
*
33247814 TGGAGAGAAGAGAGGAAAG
1 TGGAAAGAAGAGAGGAAAG
33247833 ATGTGAATGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.51, C:0.00, G:0.43, T:0.05
Consensus pattern (19 bp):
TGGAAAGAAGAGAGGAAAG
Found at i:33251981 original size:13 final size:13
Alignment explanation
Indices: 33251963--33251996 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
33251953 TATGGCAATT
33251963 GTGTTTATTTAGA
1 GTGTTTATTTAGA
33251976 GTGTTTATTTAGA
1 GTGTTTATTTAGA
*
33251989 ATGTTTAT
1 GTGTTTAT
33251997 ATATGAATTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.24, C:0.00, G:0.21, T:0.56
Consensus pattern (13 bp):
GTGTTTATTTAGA
Found at i:33254499 original size:76 final size:76
Alignment explanation
Indices: 33254368--33254564 Score: 227
Period size: 76 Copynumber: 2.6 Consensus size: 76
33254358 AAATGAGTGA
* ** * *
33254368 TTGATATCGTTGGTTTATCCGACTATTAATGGGCGCAAATCTTTGTTCGTATATCCAACTAGTAT
1 TTGATATCATTGGTTTATCCGACTAGCAATGGGCGCAAATCATTGTTCGTATATCCAACTAGTAC
*
33254433 TGGGCACACAT
66 TAGGCACACAT
* * * *
33254444 TTGATATCATCT-GTTTATCCGACTAGCATTGCGCGCAAATCATTG-TCGGTTTATCCCACTAGT
1 TTGATATCAT-TGGTTTATCCGACTAGCAATGGGCGCAAATCATTGTTC-GTATATCCAACTAGT
*
33254507 GCTAGGCACACAT
64 ACTAGGCACACAT
* ** *
33254520 TTGATATCATTGGTTTATTCGACTAGCGCTGGGCGCAAAACATTG
1 TTGATATCATTGGTTTATCCGACTAGCAATGGGCGCAAATCATTG
33254565 CTATGATTTA
Statistics
Matches: 102, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
75 3 0.03
76 98 0.96
77 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.35
Consensus pattern (76 bp):
TTGATATCATTGGTTTATCCGACTAGCAATGGGCGCAAATCATTGTTCGTATATCCAACTAGTAC
TAGGCACACAT
Found at i:33258302 original size:40 final size:40
Alignment explanation
Indices: 33258258--33258370 Score: 108
Period size: 36 Copynumber: 2.9 Consensus size: 40
33258248 AGCACGGTGA
*
33258258 TAGGCACACATTTGATATCGTCAGTTTATCCAACTAGCGT
1 TAGGCACACATTTGATATCGTCAGTTTATCCAACTAGCGC
* * * *
33258298 TAGGCGCA-A-CTCAT-T-GTCAGTTTATCCAACTAGTGC
1 TAGGCACACATTTGATATCGTCAGTTTATCCAACTAGCGC
* * * * *
33258334 TAAGCACACATTTGATACCTTCAATTTATCCGACTAG
1 TAGGCACACATTTGATATCGTCAGTTTATCCAACTAG
33258371 TGCTGGGTGC
Statistics
Matches: 56, Mismatches: 13, Indels: 8
0.73 0.17 0.10
Matches are distributed among these distances:
36 25 0.45
37 2 0.04
38 6 0.11
39 1 0.02
40 22 0.39
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.32
Consensus pattern (40 bp):
TAGGCACACATTTGATATCGTCAGTTTATCCAACTAGCGC
Found at i:33258373 original size:40 final size:40
Alignment explanation
Indices: 33258318--33258446 Score: 115
Period size: 40 Copynumber: 3.3 Consensus size: 40
33258308 TCATTGTCAG
* *
33258318 TTTATCCAACTAGTGCTAAGCACACATTTGATACCTTCAA
1 TTTATCCGACTAGTGCTAAGCACACATTTGATACCTTCGA
** ** * * *
33258358 TTTATCCGACTAGTGCTGGGTGCA-A-CTCAT---TGTCGG
1 TTTATCCGACTAGTGCTAAGCACACATTTGATACCT-TCGA
**
33258394 TTTATCTTACTAGTGCTAAGCACACATTTGATACCTTCGA
1 TTTATCCGACTAGTGCTAAGCACACATTTGATACCTTCGA
33258434 TTTATCCGACTAG
1 TTTATCCGACTAG
33258447 AGTTGGGCGC
Statistics
Matches: 63, Mismatches: 20, Indels: 12
0.66 0.21 0.13
Matches are distributed among these distances:
35 1 0.02
36 20 0.32
37 1 0.02
38 6 0.10
39 1 0.02
40 33 0.52
41 1 0.02
ACGTcount: A:0.26, C:0.23, G:0.16, T:0.35
Consensus pattern (40 bp):
TTTATCCGACTAGTGCTAAGCACACATTTGATACCTTCGA
Found at i:33258387 original size:76 final size:76
Alignment explanation
Indices: 33258261--33258446 Score: 264
Period size: 76 Copynumber: 2.4 Consensus size: 76
33258251 ACGGTGATAG
* * * * *
33258261 GCACACATTTGATATCGTCAGTTTATCCAACTAGCGTTAGGCGCAACTCATTGTCAGTTTATCCA
1 GCACACATTTGATACCTTCAATTTATCCGACTAGCGCTAGGCGCAACTCATTGTCAGTTTATCCA
33258326 ACTAGTGCTAA
66 ACTAGTGCTAA
* * * * **
33258337 GCACACATTTGATACCTTCAATTTATCCGACTAGTGCTGGGTGCAACTCATTGTCGGTTTATCTT
1 GCACACATTTGATACCTTCAATTTATCCGACTAGCGCTAGGCGCAACTCATTGTCAGTTTATCCA
33258402 ACTAGTGCTAA
66 ACTAGTGCTAA
*
33258413 GCACACATTTGATACCTTCGATTTATCCGACTAG
1 GCACACATTTGATACCTTCAATTTATCCGACTAG
33258447 AGTTGGGCGC
Statistics
Matches: 98, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
76 98 1.00
ACGTcount: A:0.26, C:0.24, G:0.17, T:0.33
Consensus pattern (76 bp):
GCACACATTTGATACCTTCAATTTATCCGACTAGCGCTAGGCGCAACTCATTGTCAGTTTATCCA
ACTAGTGCTAA
Found at i:33261302 original size:14 final size:14
Alignment explanation
Indices: 33261283--33261314 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
33261273 ACAATTTTGA
*
33261283 TTCTCAATTTCTTG
1 TTCTCAATTGCTTG
33261297 TTCTCAATTGCTTG
1 TTCTCAATTGCTTG
33261311 TTCT
1 TTCT
33261315 TAATGTTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.12, C:0.22, G:0.09, T:0.56
Consensus pattern (14 bp):
TTCTCAATTGCTTG
Found at i:33261367 original size:28 final size:28
Alignment explanation
Indices: 33261311--33261368 Score: 71
Period size: 28 Copynumber: 2.1 Consensus size: 28
33261301 CAATTGCTTG
* **
33261311 TTCTTAATGTTTTATTCTTAATTGTCAA
1 TTCTTAATGTTTTATTCTAAATTCCCAA
* *
33261339 TTCTTGATTTTTTATTCTAAATTCCCAA
1 TTCTTAATGTTTTATTCTAAATTCCCAA
33261367 TT
1 TT
33261369 TTTTTTAAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.24, C:0.14, G:0.05, T:0.57
Consensus pattern (28 bp):
TTCTTAATGTTTTATTCTAAATTCCCAA
Found at i:33261563 original size:50 final size:52
Alignment explanation
Indices: 33261482--33261579 Score: 155
Period size: 50 Copynumber: 1.9 Consensus size: 52
33261472 TGACAAATGG
** *
33261482 TAAGAAAATATTATTAAATTATTTAGTTTTAATTAGTTAATTATTATGATGT
1 TAAGAAAATATTATTAAATTATTTAAATTTAAATAGTTAATTATTATGATGT
33261534 TAAGAAAAT-TTATTAAA-TATTTAAATTTAAATAGTTAATTATTATG
1 TAAGAAAATATTATTAAATTATTTAAATTTAAATAGTTAATTATTATG
33261580 CGGTTTAGAT
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
50 26 0.60
51 8 0.19
52 9 0.21
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (52 bp):
TAAGAAAATATTATTAAATTATTTAAATTTAAATAGTTAATTATTATGATGT
Found at i:33268968 original size:49 final size:49
Alignment explanation
Indices: 33268809--33268949 Score: 201
Period size: 49 Copynumber: 2.9 Consensus size: 49
33268799 CGAACAACTT
* * * *
33268809 GGGATGACAGAATAATCAAATACTAAAAGCCATCATTCTTGGGCAACCC
1 GGGATGGCAGAATAAACAAATACTAAAAGTCATCATTGTTGGGCAACCC
* * *
33268858 GGGATGGTAGAATAAACAAATACTAAAAATCATCATTGTCGGGCAACCC
1 GGGATGGCAGAATAAACAAATACTAAAAGTCATCATTGTTGGGCAACCC
* *
33268907 GAGATGGCAGAATAAACAAATACTAAAAGTCATCGTTGTTGGG
1 GGGATGGCAGAATAAACAAATACTAAAAGTCATCATTGTTGGG
33268950 TAAATTGGGA
Statistics
Matches: 80, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
49 80 1.00
ACGTcount: A:0.40, C:0.18, G:0.21, T:0.21
Consensus pattern (49 bp):
GGGATGGCAGAATAAACAAATACTAAAAGTCATCATTGTTGGGCAACCC
Found at i:33274560 original size:18 final size:18
Alignment explanation
Indices: 33274537--33274573 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
33274527 TTTATATAAC
*
33274537 AATCCCAGAAGGATTTAG
1 AATCCCAGAAGGATATAG
*
33274555 AATCCCTGAAGGATATAG
1 AATCCCAGAAGGATATAG
33274573 A
1 A
33274574 GTTTCCCAGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.41, C:0.16, G:0.22, T:0.22
Consensus pattern (18 bp):
AATCCCAGAAGGATATAG
Found at i:33279223 original size:15 final size:16
Alignment explanation
Indices: 33279192--33279229 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
33279182 GAATATTACA
*
33279192 TTATTACATCTAATAT
1 TTATTACATCCAATAT
33279208 TTATTA-ATCCAATAT
1 TTATTACATCCAATAT
33279223 TATATTA
1 T-TATTA
33279230 GAGACTTTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 9 0.45
16 11 0.55
ACGTcount: A:0.39, C:0.11, G:0.00, T:0.50
Consensus pattern (16 bp):
TTATTACATCCAATAT
Found at i:33281647 original size:19 final size:20
Alignment explanation
Indices: 33281612--33281649 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
33281602 ATAGTGAGAA
*
33281612 TATATTTTCTAAGAATAAAT
1 TATATCTTCTAAGAATAAAT
33281632 TATATCTTCT-AGAATAAA
1 TATATCTTCTAAGAATAAA
33281650 AATTCTACCG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.45, C:0.08, G:0.05, T:0.42
Consensus pattern (20 bp):
TATATCTTCTAAGAATAAAT
Found at i:33282573 original size:464 final size:464
Alignment explanation
Indices: 33281705--33282613 Score: 1613
Period size: 464 Copynumber: 2.0 Consensus size: 464
33281695 GATGGAATGC
* *
33281705 GCAAGTATACACAGTCACTATTAACTAATAAGTGAGTAAAAAGAGTATAGTCTCCATAGGGACTG
1 GCAAGTATACACAGTCACTATCAACGAATAAGTGAGTAAAAAGAGTATAGTCTCCATAGGGACTG
33281770 TATTGATAAACAACAATTGTAAAATTAATGTTTGACAAGTTGGTTATGAAAATAAAATATTTGAT
66 TATTGATAAACAACAATTGTAAAATTAATGTTTGACAAGTTGGTTATGAAAATAAAATATTTGAT
*
33281835 GGTGATAAATGTCCAAATTAAATTGACAACTAATATGCAAATGAAATAGAATAAAATGCAATGGA
131 GGTGATAAATGTCCAAATTAAATTGACAACTAATATGCAAATGAAATAAAATAAAATGCAATGGA
33281900 ATGTTTAACAACAATTCACAAGATTTAACAACAATAACATGATTAAGCTAGAACAATTACAACTC
196 ATGTTTAACAACAATTCACAAGATTTAACAACAATAACATGATTAAGCTAGAACAATTACAACTC
* * *
33281965 TTAATTCGATTCATTCATCATTATGCTTAGCAAACGTTCCGAAAAAATTTCATGGCAACTCGATT
261 TTAATTCAATTCATTCATCATCATGCTTAGCAAACGTTCCGAAAAAATTTCATGGCAACCCGATT
33282030 ATTTATGAACTTGAAATCTAAAATCATAAGCTCTTTCGAGATCATATATTTATCACTTAGAAAAA
326 ATTTATGAACTTGAAATCTAAAATCATAAGCTCTTTCGAGATCATATATTTATCACTTAGAAAAA
33282095 CATGCATATTTTTATGTCAACATTTAACGGATTTATTAGAATTTATGCAAAGTAATAGGACAGGT
391 CATGCATATTTTTATGTCAACATTTAACGGATTTATTAGAATTTATGCAAAGTAATAGGACAGGT
33282160 CAAGAATAT
456 CAAGAATAT
* *
33282169 GCAAGTATACACAGTCACTATCAAGGAATAAGTGAGTAAAAGGAGTATAGTCTCCATAGGGACTG
1 GCAAGTATACACAGTCACTATCAACGAATAAGTGAGTAAAAAGAGTATAGTCTCCATAGGGACTG
* *
33282234 TATTGATAAACAACAGTTGTAAAATTAATGTTTTACAAGTTGGTTATGAAAATAAAATATTTGAT
66 TATTGATAAACAACAATTGTAAAATTAATGTTTGACAAGTTGGTTATGAAAATAAAATATTTGAT
*
33282299 GGTGATAAATGTCCTAATTAAATTGACAACTAATATGCAAAT-AAGATAAAATAAAATGCAATGG
131 GGTGATAAATGTCCAAATTAAATTGACAACTAATATGCAAATGAA-ATAAAATAAAATGCAATGG
* * *
33282363 AATGTTTAGCAGCAATTGACAAGATTTAACAACAATAACATGATTAAGCTAGAACAATTACAACT
195 AATGTTTAACAACAATTCACAAGATTTAACAACAATAACATGATTAAGCTAGAACAATTACAACT
* * **
33282428 CTTAATTCAATTCATTCATCATCATGCTTAGCGAACGTTTCGAAAATTTTTCATGGCAACCCGAT
260 CTTAATTCAATTCATTCATCATCATGCTTAGCAAACGTTCCGAAAAAATTTCATGGCAACCCGAT
*
33282493 TATTTATGAACTTGAAATCTAAAATCATAAGCTCTTTCGAGATCTTATATTTATCACTTAGAAAA
325 TATTTATGAACTTGAAATCTAAAATCATAAGCTCTTTCGAGATCATATATTTATCACTTAGAAAA
**
33282558 ATGTGCATATTTTTATGTCAACATTTAACGGATTTATTAGAATTTATGCAAAGTAA
390 ACATGCATATTTTTATGTCAACATTTAACGGATTTATTAGAATTTATGCAAAGTAA
33282614 CATGGACAAG
Statistics
Matches: 423, Mismatches: 21, Indels: 2
0.95 0.05 0.00
Matches are distributed among these distances:
463 2 0.00
464 421 1.00
ACGTcount: A:0.41, C:0.13, G:0.14, T:0.32
Consensus pattern (464 bp):
GCAAGTATACACAGTCACTATCAACGAATAAGTGAGTAAAAAGAGTATAGTCTCCATAGGGACTG
TATTGATAAACAACAATTGTAAAATTAATGTTTGACAAGTTGGTTATGAAAATAAAATATTTGAT
GGTGATAAATGTCCAAATTAAATTGACAACTAATATGCAAATGAAATAAAATAAAATGCAATGGA
ATGTTTAACAACAATTCACAAGATTTAACAACAATAACATGATTAAGCTAGAACAATTACAACTC
TTAATTCAATTCATTCATCATCATGCTTAGCAAACGTTCCGAAAAAATTTCATGGCAACCCGATT
ATTTATGAACTTGAAATCTAAAATCATAAGCTCTTTCGAGATCATATATTTATCACTTAGAAAAA
CATGCATATTTTTATGTCAACATTTAACGGATTTATTAGAATTTATGCAAAGTAATAGGACAGGT
CAAGAATAT
Found at i:33297162 original size:19 final size:19
Alignment explanation
Indices: 33297121--33297162 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
33297111 TTATTAAAAC
*
33297121 TTAATTAACCATAATTTAT
1 TTAATTAACCATAATTTAA
*
33297140 TTAATTAAACCTTAA-TTAA
1 TTAATT-AACCATAATTTAA
33297159 TTAA
1 TTAA
33297163 AAGTTTATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.45, C:0.10, G:0.00, T:0.45
Consensus pattern (19 bp):
TTAATTAACCATAATTTAA
Found at i:33300825 original size:75 final size:76
Alignment explanation
Indices: 33300663--33300834 Score: 240
Period size: 75 Copynumber: 2.3 Consensus size: 76
33300653 CTTACTTTTC
* * ***
33300663 ATTAATAAGGGAATAATCCTATATTCTTTTAGAAAGAATATAATTCCTTTTTTTCTAACTTTTTG
1 ATTAATAAGGGAATAATCCTAAATTCTTTTAGAAAGAATATAATTCC-TATTTTCTAACTTTCCA
* *
33300728 TTTGCCTTCTTT
65 TTTGCATTCTCT
*
33300740 ATTAATAAGGGAATAATCCTAAATTCTTTTGGGAAAGAATATAATT-C-ATTTTCTAACTTTCCA
1 ATTAATAAGGGAATAATCCTAAATTCTTTT-AGAAAGAATATAATTCCTATTTTCTAACTTTCCA
33300803 TTTGCATTCTCT
65 TTTGCATTCTCT
33300815 ATTAATAAGGGAATAATCCT
1 ATTAATAAGGGAATAATCCT
33300835 GGTTTTCCTT
Statistics
Matches: 86, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
75 42 0.49
77 30 0.35
78 14 0.16
ACGTcount: A:0.33, C:0.13, G:0.10, T:0.44
Consensus pattern (76 bp):
ATTAATAAGGGAATAATCCTAAATTCTTTTAGAAAGAATATAATTCCTATTTTCTAACTTTCCAT
TTGCATTCTCT
Found at i:33305774 original size:27 final size:27
Alignment explanation
Indices: 33305744--33305797 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
33305734 TGTTTAGGTA
33305744 AATAAACTTTAGGATTCTGATTTATTT
1 AATAAACTTTAGGATTCTGATTTATTT
33305771 AATAAACTTTAGGATTCTGATTTATTT
1 AATAAACTTTAGGATTCTGATTTATTT
33305798 CAGATTTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.33, C:0.07, G:0.11, T:0.48
Consensus pattern (27 bp):
AATAAACTTTAGGATTCTGATTTATTT
Found at i:33318678 original size:19 final size:20
Alignment explanation
Indices: 33318654--33318693 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
33318644 GAAAATATTC
*
33318654 TGAATTAGCTTTTTG-AAAT
1 TGAATTAGCTGTTTGCAAAT
*
33318673 TGAATTTGCTGTTTGCAAAT
1 TGAATTAGCTGTTTGCAAAT
33318693 T
1 T
33318694 ACTTCATTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.28, C:0.07, G:0.17, T:0.47
Consensus pattern (20 bp):
TGAATTAGCTGTTTGCAAAT
Found at i:33330323 original size:15 final size:14
Alignment explanation
Indices: 33330303--33330336 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 14
33330293 GATAAGTGAA
33330303 ATGAAAGTGATGGTT
1 ATGAAAG-GATGGTT
33330318 ATGAAAAGGATGGTT
1 ATG-AAAGGATGGTT
33330333 ATGA
1 ATGA
33330337 GGTGTGAGGC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
14 1 0.06
15 13 0.72
16 4 0.22
ACGTcount: A:0.38, C:0.00, G:0.32, T:0.29
Consensus pattern (14 bp):
ATGAAAGGATGGTT
Found at i:33332270 original size:21 final size:21
Alignment explanation
Indices: 33332246--33332286 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
33332236 CTCACGCAAA
33332246 TTCTC-CTCCTCCTCTTTTTTC
1 TTCTCTCTCCTCCT-TTTTTTC
*
33332267 TTCTCTCTCCTTCTTTTTTT
1 TTCTCTCTCCTCCTTTTTTT
33332287 GGGTAGATCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (21 bp):
TTCTCTCTCCTCCTTTTTTTC
Found at i:33334844 original size:20 final size:20
Alignment explanation
Indices: 33334819--33334859 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
33334809 GACTTATATC
33334819 TCATATAGCATCATCAAACA
1 TCATATAGCATCATCAAACA
33334839 TCATATAGCATCATCAAACA
1 TCATATAGCATCATCAAACA
33334859 T
1 T
33334860 TCTTACTTGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.44, C:0.24, G:0.05, T:0.27
Consensus pattern (20 bp):
TCATATAGCATCATCAAACA
Found at i:33339621 original size:94 final size:94
Alignment explanation
Indices: 33339498--33339780 Score: 277
Period size: 104 Copynumber: 2.9 Consensus size: 94
33339488 AAGTGATGCT
*
33339498 TGGTAGGAAATACTGATTTTGGGTTAATTCCTACCTAAATAACTTCCTAGGGTTGTCAATCCTAG
1 TGGTAGGCAATACTGA-TTTGGGTTAATTCCTACCTAAATAACTTCCTAGGGTTGTCAATCCTAG
*
33339563 GGTTTAATTGCAATCAATCAGGT-TTTCA-A
65 GGTTTAATTGCAATCAATCA-CTATTTCATA
* * * *
33339592 -GGATAGGCAATACTGATTTCAGGTTAATTCAC-ACCTATATGACTTCCTAGGATTGTCAATCCT
1 TGG-TAGGCAATACTGATTT-GGGTTAATTC-CTACCTAAATAACTTCCTAGGGTTGTCAATCCT
* * ** * *
33339655 AGGGTTTACGTTCTTCCTTCCCTAACCACTAATTTGATA
63 AGGGTTTA--AT-TGCAAT--C-AATCACT-ATTTCATA
*
33339694 CTTGGTAGGCAATACTAATCTTGGGTTAATTCCTACCTAAATAACTTCCTAGGGTTGTCAATCCT
1 --TGGTAGGCAATACTGAT-TTGGGTTAATTCCTACCTAAATAACTTCCTAGGGTTGTCAATCCT
*
33339759 AGGGTTTAATTGCACTCAATCA
63 AGGGTTTAATTGCAATCAATCA
33339781 AATCTAACCA
Statistics
Matches: 150, Mismatches: 22, Indels: 30
0.74 0.11 0.15
Matches are distributed among these distances:
93 5 0.03
94 57 0.38
95 1 0.01
96 1 0.01
97 3 0.02
98 4 0.03
99 3 0.02
100 4 0.03
101 7 0.05
102 2 0.01
103 1 0.01
104 58 0.39
105 4 0.03
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.35
Consensus pattern (94 bp):
TGGTAGGCAATACTGATTTGGGTTAATTCCTACCTAAATAACTTCCTAGGGTTGTCAATCCTAGG
GTTTAATTGCAATCAATCACTATTTCATA
Found at i:33340312 original size:20 final size:21
Alignment explanation
Indices: 33340265--33340312 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
33340255 ACCAGAAGTT
*
33340265 ATGTTGCAACATAGGCCTACG
1 ATGTTGCAACATAGGCATACG
* *
33340286 GTGTTGCAACATAGG-ATCCG
1 ATGTTGCAACATAGGCATACG
33340306 ATGTTGC
1 ATGTTGC
33340313 GATATAGTAG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
20 9 0.39
21 14 0.61
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (21 bp):
ATGTTGCAACATAGGCATACG
Found at i:33343214 original size:20 final size:20
Alignment explanation
Indices: 33343189--33343227 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
33343179 TATCATGATC
33343189 TTTACTTACTCT-CTTACTTG
1 TTTACTTACT-TACTTACTTG
33343209 TTTACTTACTTACTTACTT
1 TTTACTTACTTACTTACTT
33343228 AAATAACTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.18, C:0.23, G:0.03, T:0.56
Consensus pattern (20 bp):
TTTACTTACTTACTTACTTG
Found at i:33343494 original size:50 final size:50
Alignment explanation
Indices: 33343421--33343564 Score: 164
Period size: 50 Copynumber: 2.9 Consensus size: 50
33343411 TCCTGTACTA
* * * * * **
33343421 CCAATGCCATATCTCATATATGGTCTTACATGGGAGTTCTCATATCGGTG
1 CCAACGCCATGTCTCAAACATGGTCTTACGTGGGACCTCTCATATCGGTG
* * * * *
33343471 CCCATGCCATGT-TCTAGACATGGTCTTACGGGGGACCTCTCATCTCGGTG
1 CCAACGCCATGTCTC-AAACATGGTCTTACGTGGGACCTCTCATATCGGTG
33343521 CCAACGCCATGTCTCAAACATGGTCTTACGTGGGACCTCTCATA
1 CCAACGCCATGTCTCAAACATGGTCTTACGTGGGACCTCTCATA
33343565 ATCTCAATAA
Statistics
Matches: 78, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
49 2 0.03
50 74 0.95
51 2 0.03
ACGTcount: A:0.22, C:0.28, G:0.22, T:0.29
Consensus pattern (50 bp):
CCAACGCCATGTCTCAAACATGGTCTTACGTGGGACCTCTCATATCGGTG
Found at i:33347832 original size:40 final size:40
Alignment explanation
Indices: 33347788--33347980 Score: 241
Period size: 40 Copynumber: 4.9 Consensus size: 40
33347778 GCTCCTCGTT
* *
33347788 CAAATGCCTTCGAAACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGAACTTAGCCCGGATT-TAGT-ATCTCGCA
* * *
33347828 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGAACTTAGCCCGGATTTAGTATCTCGCA
* *
33347868 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGAACTTAGCCCGGATTTAGTATCTCGCA
* *
33347908 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGAACTTAGCCCGGATTTAGTATCTCGCA
* *
33347948 C-AATGCCTTC-GATCTTAGTCCGGATTTAGTATC
1 CAAATGCCTTCGGAACTTAGCCCGGATTTAGTATC
33347981 CAGCTTGTTA
Statistics
Matches: 139, Mismatches: 12, Indels: 6
0.89 0.08 0.04
Matches are distributed among these distances:
38 23 0.17
39 10 0.07
40 104 0.75
41 2 0.01
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (40 bp):
CAAATGCCTTCGGAACTTAGCCCGGATTTAGTATCTCGCA
Found at i:33348830 original size:39 final size:39
Alignment explanation
Indices: 33348787--33348917 Score: 203
Period size: 39 Copynumber: 3.3 Consensus size: 39
33348777 GGACTAAGAT
33348787 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
33348826 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
* *
33348865 CCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTC
1 CCGAAGGCATTTGTGCGAGA-TACTAAT-TCCGGGCTAAG-C
33348905 CCGAAGGCATTTG
1 CCGAAGGCATTTG
33348918 AACGAGGAGC
Statistics
Matches: 87, Mismatches: 2, Indels: 5
0.93 0.02 0.05
Matches are distributed among these distances:
38 3 0.03
39 70 0.80
40 14 0.16
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.24
Consensus pattern (39 bp):
CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
Found at i:33355139 original size:527 final size:526
Alignment explanation
Indices: 33354147--33355204 Score: 1845
Period size: 527 Copynumber: 2.0 Consensus size: 526
33354137 ATTTGAGGTT
* * *
33354147 TACCTTCAGATTTTGGAGCAAATTGCATGAAGCTTTAGGCACCAAACTTAATGGTCAATCTGAGC
1 TACCTTCAAATTTTGGAGCAAATTGCATGAAGCTTTAGGCACCAAACTCAATGGTCAATCTAAGC
*
33354212 TAGTACTCCAAGTACTCGAAGACATGTTGTGTTTTTGCATAACTGAATTTGAGGGAAGCTGGGAA
66 TAGTACTCCAAGTACTCGAAGACATCTTGTGTTTTTGCATAACTGAATTTGAGGGAAGCTGGGAA
*
33354277 ATATTTTTACCGTGGTTAAATTTGCATTCAATAATAGCTATCAATCGAGCATCAAAATGGCACCT
131 ATATTTTTACCGTGGTGAAATTTGCATTCAATAATAGCTATCAATCGAGCATCAAAATGGCACCT
33354342 TACAAATATTTATATGGTCGTAAATGTCAAACTCATCTATGTTCGTTAGAATTGAGTGAAAGAAA
196 TACAAATATTTATATGGTCGTAAATGTCAAACTCATCTATGTTCGTTAGAATTGAGTGAAAGAAA
33354407 AATAGCAAGAAGAGACTTGATGCGAGAAACAAAAGATAAAGTTAGAATTATTAAAGATTCCTTAA
261 AATAGCAAGAAGAGACTTGATGCGAGAAACAAAAGATAAAGTTAGAATTATTAAAGATTCCTTAA
*
33354472 AAGTTGCATCTAGTAGACAAAAATCTTACACTGACCTAAAAATAAAGGGTATCGAGTTTAAAATT
326 AAGTTGCATCTAGTAGACAAAAATCTTACACTGACCTAAAAATAAAGAGTATCGAGTTTAAAATT
*
33354537 GGTGATAAAGTATTTCTAAAGGTTTCAACTTGGAAGAAAGTTCTGTGATTCGGTAGAAAAAGGAA
391 GGTGATAAAGTATTTCTAAAGGTTTCAACTTGGAAGAAAGTTCTGTGATTCGGTACAAAAAGGAA
*
33354602 GCACGGTCCAAGGTTCATTAGACCGTATGAAAGTCTC-AAAGCAATTGGGCCTACAGCATACCGT
456 GCACGGTCCAAGGTTCATTAGACAGTATGAAAGTCTCAAAAG-AATTGGGCCTACAGCATACCGT
33354666 TTAGCCC
520 TTAGCCC
33354673 TACCTTCAAATTTTGGAGCAAATTGCATGAAGCTTTAGGCACCAAACTCAATGGTCAATCTAAG-
1 TACCTTCAAATTTTGGAGCAAATTGCATGAAGCTTTAGGCACCAAACTCAATGGTCAATCTAAGC
* *
33354737 TGAGTACTCCAAGTACTCGAAGACATCTTGTGTTTTTGCGTAATTGAATTTGAGGGAAGCTGGG-
66 T-AGTACTCCAAGTACTCGAAGACATCTTGTGTTTTTGCATAACTGAATTTGAGGGAAGCTGGGA
* *
33354801 AATGATTTTTACCGATGGTGAAATTTGCATTCAATAATAGCTATCAATCTAGCATCAAAATGGTG
130 AAT-ATTTTTACCG-TGGTGAAATTTGCATTCAATAATAGCTATCAATCGAGCATCAAAATGG-C
* * * *
33354866 A-CTTACGAATATTTATATGGTCGTAAATTTCAAACTCCTCTATGTTGGTTAGAATTGAGTGAAA
192 ACCTTACAAATATTTATATGGTCGTAAATGTCAAACTCATCTATGTTCGTTAGAATTGAGTGAAA
* *
33354930 GAAAAATAGCAAGAATAGACTTGATGTGAGAAACAAAAGATAAAGTTAGAATTATTAAAGATTCC
257 GAAAAATAGCAAGAAGAGACTTGATGCGAGAAACAAAAGATAAAGTTAGAATTATTAAAGATTCC
*
33354995 TTAAAAGTTGCATCTAGTAGACAAAAATCTTACGCTGACCTAAAAATAAAGAGTATCGAGTTTAA
322 TTAAAAGTTGCATCTAGTAGACAAAAATCTTACACTGACCTAAAAATAAAGAGTATCGAGTTTAA
* *
33355060 AATTGGTGATAAAGTATTTCTAAAGGTTTCAACTTGGAAGAAAGTTCTGTGATTTGGTACAAAAG
387 AATTGGTGATAAAGTATTTCTAAAGGTTTCAACTTGGAAGAAAGTTCTGTGATTCGGTACAAAAA
*
33355125 GGAAGCACGGTCCAAGGTTCATTAGACAGTATGAAAGTCTCAAAAGAATTGGGCCTATAGCATAC
452 GGAAGCACGGTCCAAGGTTCATTAGACAGTATGAAAGTCTCAAAAGAATTGGGCCTACAGCATAC
33355190 CGTTTAGCCC
517 CGTTTAGCCC
33355200 TACCT
1 TACCT
33355205 CCAGAGTTGG
Statistics
Matches: 505, Mismatches: 22, Indels: 9
0.94 0.04 0.02
Matches are distributed among these distances:
525 4 0.01
526 130 0.26
527 366 0.72
528 5 0.01
ACGTcount: A:0.36, C:0.15, G:0.20, T:0.29
Consensus pattern (526 bp):
TACCTTCAAATTTTGGAGCAAATTGCATGAAGCTTTAGGCACCAAACTCAATGGTCAATCTAAGC
TAGTACTCCAAGTACTCGAAGACATCTTGTGTTTTTGCATAACTGAATTTGAGGGAAGCTGGGAA
ATATTTTTACCGTGGTGAAATTTGCATTCAATAATAGCTATCAATCGAGCATCAAAATGGCACCT
TACAAATATTTATATGGTCGTAAATGTCAAACTCATCTATGTTCGTTAGAATTGAGTGAAAGAAA
AATAGCAAGAAGAGACTTGATGCGAGAAACAAAAGATAAAGTTAGAATTATTAAAGATTCCTTAA
AAGTTGCATCTAGTAGACAAAAATCTTACACTGACCTAAAAATAAAGAGTATCGAGTTTAAAATT
GGTGATAAAGTATTTCTAAAGGTTTCAACTTGGAAGAAAGTTCTGTGATTCGGTACAAAAAGGAA
GCACGGTCCAAGGTTCATTAGACAGTATGAAAGTCTCAAAAGAATTGGGCCTACAGCATACCGTT
TAGCCC
Found at i:33356603 original size:30 final size:30
Alignment explanation
Indices: 33356539--33356610 Score: 85
Period size: 30 Copynumber: 2.4 Consensus size: 30
33356529 AGAATGTCAC
* * *
33356539 CTTGTGTGAGCAACTCTATCATGACGTCAG
1 CTTGTGTGAGCAACCCTATCATGACATCAA
33356569 CTTGTGTGAGCAACCCTGAT-AT-ACTATCAA
1 CTTGTGTGAGCAACCCT-ATCATGAC-ATCAA
33356599 CTTGTGTGAGCA
1 CTTGTGTGAGCA
33356611 TCTTATTTCA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
29 2 0.05
30 33 0.89
31 2 0.05
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.31
Consensus pattern (30 bp):
CTTGTGTGAGCAACCCTATCATGACATCAA
Found at i:33358760 original size:39 final size:39
Alignment explanation
Indices: 33358701--33358813 Score: 172
Period size: 39 Copynumber: 2.9 Consensus size: 39
33358691 TTTTAATTGT
* *
33358701 TGTGATATATACGAATATTGTGATATATGCTTAAATATTA
1 TGTGAT-TATATGAGTATTGTGATATATGCTTAAATATTA
*
33358741 TGTGATTATATGAGTATTGTGATATATGCTTAAATTTTA
1 TGTGATTATATGAGTATTGTGATATATGCTTAAATATTA
* *
33358780 TGTGATTATATGTGTAATGTGATATATGCTTAAA
1 TGTGATTATATGAGTATTGTGATATATGCTTAAA
33358814 AGTGAATATG
Statistics
Matches: 68, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 62 0.91
40 6 0.09
ACGTcount: A:0.34, C:0.04, G:0.18, T:0.45
Consensus pattern (39 bp):
TGTGATTATATGAGTATTGTGATATATGCTTAAATATTA
Found at i:33361610 original size:10 final size:10
Alignment explanation
Indices: 33361595--33361626 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
33361585 GTGAGTGTTT
33361595 TTTATATTTA
1 TTTATATTTA
33361605 TTTATATTTA
1 TTTATATTTA
33361615 TTT-TATTT-
1 TTTATATTTA
33361623 TTTA
1 TTTA
33361627 AAAAGGGGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 3 0.14
9 5 0.24
10 13 0.62
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (10 bp):
TTTATATTTA
Found at i:33365488 original size:22 final size:22
Alignment explanation
Indices: 33365463--33365505 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
33365453 AACTTAATTC
*
33365463 ACATTTATTGATTGAATGTAAT
1 ACATTTATTAATTGAATGTAAT
33365485 ACATTTATTAATTGAATGTAA
1 ACATTTATTAATTGAATGTAA
33365506 AGGAGCTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.40, C:0.05, G:0.12, T:0.44
Consensus pattern (22 bp):
ACATTTATTAATTGAATGTAAT
Found at i:33380347 original size:29 final size:27
Alignment explanation
Indices: 33380309--33380367 Score: 73
Period size: 29 Copynumber: 2.1 Consensus size: 27
33380299 ACTTATCTAC
* *
33380309 TTTTCTTAAATTGATACTTTTAATTTTTT
1 TTTTCCTAAATTGATA--TCTAATTTTTT
*
33380338 TTTTCCTAAATTGTTATCTAATTTTTT
1 TTTTCCTAAATTGATATCTAATTTTTT
33380365 TTT
1 TTT
33380368 CTTTCATTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
27 13 0.48
29 14 0.52
ACGTcount: A:0.22, C:0.08, G:0.03, T:0.66
Consensus pattern (27 bp):
TTTTCCTAAATTGATATCTAATTTTTT
Found at i:33381906 original size:264 final size:264
Alignment explanation
Indices: 33381436--33382228 Score: 1409
Period size: 264 Copynumber: 3.0 Consensus size: 264
33381426 CTTTTAAAAT
* * *
33381436 AATTTTAGGTCTGTGAATTTTGAGAAAAACAAGTTCGGGAGTCGGTTATGCACGAAGAAGAGTTA
1 AATTTTAGGTCTGCGAATTTTGAGAAAAACAAGTTCGGGAGTCGGTTACGCACGAGGAAGAGTTA
33381501 GCACCCTCGTGACGCCCAAAATTGGTACCGAATTGATTATTTAATATCTTAATGTCAAAATTTTA
66 GCACCCTCGTGACGCCCAAAATTGGTACCGAATTGATTATTTAATATCTTAATGTCAAAATTTTA
*
33381566 AAAAGGTTTTAAAATACGATCTTTTTATTTTGAATAAAATGAATTGAATGATAAAGCTTATTTAT
131 AAAAGATTTTAAAATACGATCTTTTTATTTTGAATAAAATGAATTGAATGATAAAGCTTATTTAT
33381631 TTCAAAGAAATAAATTGTCATACTCAGTAAGTTAGAGTGCAACATTTCGAATCCTCAAAATTAAG
196 TTCAAAGAAATAAATTGTCATACTCAGTAAGTTAGAGTGCAACATTTCGAATCCTCAAAATTAAG
33381696 TTTG
261 TTTG
*
33381700 AATTTTAGGTCTGCGAATTTTGAGAAAAACAAGTTTGGGAGTCGGTTACGCACGAGGAAGAGTTA
1 AATTTTAGGTCTGCGAATTTTGAGAAAAACAAGTTCGGGAGTCGGTTACGCACGAGGAAGAGTTA
*
33381765 GCACCCTCGTGACGCCCAAAATTGGTACCGAATTGATTATTTAATATCTTAATGTCGAAATTTTA
66 GCACCCTCGTGACGCCCAAAATTGGTACCGAATTGATTATTTAATATCTTAATGTCAAAATTTTA
*
33381830 AAAAGATTTTAAAATACGATCTTTTTATTTTGAATAAAATGAATTGAATGATAAAGTTTATTTAT
131 AAAAGATTTTAAAATACGATCTTTTTATTTTGAATAAAATGAATTGAATGATAAAGCTTATTTAT
33381895 TTCAAAGAAATAAATTGTCATACTCAGTAAGTTAGAGTGCAACATTTCGAATCCTCAAAATTAAG
196 TTCAAAGAAATAAATTGTCATACTCAGTAAGTTAGAGTGCAACATTTCGAATCCTCAAAATTAAG
33381960 TTTG
261 TTTG
*
33381964 AATTTTAGGTCTGCGAATTTTGAGAAAAACAAGTTCGAGAGTCGGTTACGCACGAGGAAGAGTTA
1 AATTTTAGGTCTGCGAATTTTGAGAAAAACAAGTTCGGGAGTCGGTTACGCACGAGGAAGAGTTA
* *
33382029 GCACCCTCGTGACGCCCAAAATTGGTACTGAATTG---A-TT-A-ATCTTAATGTCAAAATTTTG
66 GCACCCTCGTGACGCCCAAAATTGGTACCGAATTGATTATTTAATATCTTAATGTCAAAATTTTA
* * *
33382088 AAAAGTTTTTAAAATACGATCTTTTTATTTTGAATAAAATGAATTGGATGATAAAGCTCATTTAT
131 AAAAGATTTTAAAATACGATCTTTTTATTTTGAATAAAATGAATTGAATGATAAAGCTTATTTAT
*
33382153 TTCAAAGAAATAAATTGTCATACTCAGTAAGTTAGAGTGCAACATTTCGAATCCTCAAAATTAAA
196 TTCAAAGAAATAAATTGTCATACTCAGTAAGTTAGAGTGCAACATTTCGAATCCTCAAAATTAAG
33382218 TTTG
261 TTTG
*
33382222 ACTTTTA
1 AATTTTA
33382229 AAACCTATAC
Statistics
Matches: 511, Mismatches: 18, Indels: 6
0.96 0.03 0.01
Matches are distributed among these distances:
258 153 0.30
259 1 0.00
260 2 0.00
261 1 0.00
264 354 0.69
ACGTcount: A:0.36, C:0.12, G:0.17, T:0.34
Consensus pattern (264 bp):
AATTTTAGGTCTGCGAATTTTGAGAAAAACAAGTTCGGGAGTCGGTTACGCACGAGGAAGAGTTA
GCACCCTCGTGACGCCCAAAATTGGTACCGAATTGATTATTTAATATCTTAATGTCAAAATTTTA
AAAAGATTTTAAAATACGATCTTTTTATTTTGAATAAAATGAATTGAATGATAAAGCTTATTTAT
TTCAAAGAAATAAATTGTCATACTCAGTAAGTTAGAGTGCAACATTTCGAATCCTCAAAATTAAG
TTTG
Found at i:33384791 original size:100 final size:100
Alignment explanation
Indices: 33384669--33385542 Score: 1291
Period size: 100 Copynumber: 8.7 Consensus size: 100
33384659 TAACTCGTAA
* * * * * *
33384669 CTTTAAT-TTGTTTAACTGCAATGTCGGGGAAGTAAGATTCGCAGTTGTAGCTTCAATCTGTTCC
1 CTTTAATCTT-TTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCC
* * * * * *
33384733 ACTACACCGCTAGGGAAGTGAGATTTGCAGTTGTGG
65 ACTGCACCGCCAGGGAAGTAAGATTCGCTGTTGTAG
* * *
33384769 CTTTAATCTTTTTAACTGCAATGTCGAGGAAGCGAGATTCACCGATGTGACTTTAATCTGTTCCA
1 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCA
*
33384834 CTGCACCGCCAGGAAAGTAAGATTCGCTGTTGTAG
66 CTGCACCGCCAGGGAAGTAAGATTCGCTGTTGTAG
* * * **
33384869 CTTTTATATTTTTAACTGCAATGTCGGGTAAGCAAGATTCATTGATGTGGCTTTAATCTGTTCCA
1 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCA
*
33384934 CTGCACCGCCAGGGAAATAAGATTCGCTGTTGTAG
66 CTGCACCGCCAGGGAAGTAAGATTCGCTGTTGTAG
* *
33384969 CTTTAATCTTTTTAACTGCAATGTCGAGGAAGCAAGATTCACCGATGTGGCTTTAATCTGCTCCA
1 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCA
* * * * *
33385034 CTGTATCGCCTGGGGAGTAAGATTTGCTGTTGTAG
66 CTGCACCGCCAGGGAAGTAAGATTCGCTGTTGTAG
*
33385069 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCGAGATTCACCGATGTGGCTTTAATCTGTTCCA
1 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCA
*
33385134 CTGCACCGCCAGGGAAGTAAGATTCACTGTTGTAG
66 CTGCACCGCCAGGGAAGTAAGATTCGCTGTTGTAG
*
33385169 CTTTAATCTTTTTAACTGCAATGTCGGGTAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCA
1 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCA
* *
33385234 CTGCACCGCCAGGGAAATAAGATTCACTGTTGTAG
66 CTGCACCGCCAGGGAAGTAAGATTCGCTGTTGTAG
** *
33385269 CTTTAATCTTTTTAACTGCAATGTTTGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGCTCCA
1 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCA
* ** * * *
33385334 GTGCATTGCCTGGGGAGTAAGATTCGCTGTGGTAG
66 CTGCACCGCCAGGGAAGTAAGATTCGCTGTTGTAG
*
33385369 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAACCTGTTCCA
1 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCA
* ** *
33385434 CTACACTACCAGGGAAGTAAGATTCGCTGTGGTAG
66 CTGCACCGCCAGGGAAGTAAGATTCGCTGTTGTAG
*
33385469 CTTTAATCTTTTTAACTGCAATGTCGGAGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCA
1 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCA
33385534 CTGCACCGC
66 CTGCACCGC
33385543 TTGAGAAGTG
Statistics
Matches: 695, Mismatches: 78, Indels: 2
0.90 0.10 0.00
Matches are distributed among these distances:
100 693 1.00
101 2 0.00
ACGTcount: A:0.24, C:0.20, G:0.23, T:0.32
Consensus pattern (100 bp):
CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCA
CTGCACCGCCAGGGAAGTAAGATTCGCTGTTGTAG
Found at i:33386865 original size:7 final size:7
Alignment explanation
Indices: 33386853--33386894 Score: 59
Period size: 7 Copynumber: 6.0 Consensus size: 7
33386843 TTAGCCTCTC
33386853 CATTTTT
1 CATTTTT
33386860 CATTTTT
1 CATTTTT
33386867 CATTTTT
1 CATTTTT
*
33386874 TA-TTTT
1 CATTTTT
33386880 CATTTTT
1 CATTTTT
33386887 CCATTTTT
1 -CATTTTT
33386895 TTTGTTTCTC
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
6 5 0.16
7 19 0.61
8 7 0.23
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.71
Consensus pattern (7 bp):
CATTTTT
Found at i:33386879 original size:13 final size:14
Alignment explanation
Indices: 33386853--33386894 Score: 59
Period size: 13 Copynumber: 3.0 Consensus size: 14
33386843 TTAGCCTCTC
33386853 CATTTTTCATTTTT
1 CATTTTTCATTTTT
*
33386867 CATTTTTTA-TTTT
1 CATTTTTCATTTTT
33386880 CATTTTTCCATTTTT
1 CATTTTT-CATTTTT
33386895 TTTGTTTCTC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 11 0.46
14 9 0.38
15 4 0.17
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.71
Consensus pattern (14 bp):
CATTTTTCATTTTT
Found at i:33386881 original size:20 final size:21
Alignment explanation
Indices: 33386856--33386895 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
33386846 GCCTCTCCAT
33386856 TTTTCATTTTT-CATTTTTTA
1 TTTTCATTTTTCCATTTTTTA
33386876 TTTTCATTTTTCCATTTTTT
1 TTTTCATTTTTCCATTTTTT
33386896 TTGTTTCTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.75
Consensus pattern (21 bp):
TTTTCATTTTTCCATTTTTTA
Found at i:33394133 original size:119 final size:119
Alignment explanation
Indices: 33393922--33394157 Score: 463
Period size: 119 Copynumber: 2.0 Consensus size: 119
33393912 CCTCCGCGCC
33393922 ACATCACCACGCGTCCTCTCCATGTCACAGCTAGCCTCCGTACATCGTACCTGTGCAGCAAACGA
1 ACATCACCACGCGTCCTCTCCATGTCACAGCTAGCCTCCGTACATCGTACCTGTGCAGCAAACGA
*
33393987 ACAAATAACCATGCAGAAGAAAGAAAAGGACAAAAAAATAGAATAGCAAAATGT
66 ACAAACAACCATGCAGAAGAAAGAAAAGGACAAAAAAATAGAATAGCAAAATGT
33394041 ACATCACCACGCGTCCTCTCCATGTCACAGCTAGCCTCCGTACATCGTACCTGTGCAGCAAACGA
1 ACATCACCACGCGTCCTCTCCATGTCACAGCTAGCCTCCGTACATCGTACCTGTGCAGCAAACGA
33394106 ACAAACAACCATGCAGAAGAAAGAAAAGGACAAAAAAATAGAATAGCAAAAT
66 ACAAACAACCATGCAGAAGAAAGAAAAGGACAAAAAAATAGAATAGCAAAAT
33394158 AGCAGAGAAA
Statistics
Matches: 116, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
119 116 1.00
ACGTcount: A:0.42, C:0.27, G:0.17, T:0.15
Consensus pattern (119 bp):
ACATCACCACGCGTCCTCTCCATGTCACAGCTAGCCTCCGTACATCGTACCTGTGCAGCAAACGA
ACAAACAACCATGCAGAAGAAAGAAAAGGACAAAAAAATAGAATAGCAAAATGT
Found at i:33395836 original size:21 final size:21
Alignment explanation
Indices: 33395795--33395836 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
33395785 TTTTCTCAAA
* *
33395795 TCGAGTCGAGTGAGATGGAAT
1 TCGAGTCGAATGAGATCGAAT
33395816 TCGAGTCGAATCGA-ATCGAAT
1 TCGAGTCGAAT-GAGATCGAAT
33395837 ATATTTGTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.31, C:0.14, G:0.31, T:0.24
Consensus pattern (21 bp):
TCGAGTCGAATGAGATCGAAT
Found at i:33396517 original size:30 final size:31
Alignment explanation
Indices: 33396478--33396537 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
33396468 AGAGGTGAGA
*
33396478 TGGGAAGGGAATAAAAGTTTTAGGGGAAAAG
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
* *
33396509 TGGG-AGGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAA
33396538 TAAAAGGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.40, C:0.00, G:0.40, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
Found at i:33401021 original size:11 final size:10
Alignment explanation
Indices: 33400999--33401036 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
33400989 AAAAAATGAG
*
33400999 AGAAAAAGAA
1 AGAAAAAAAA
33401009 AGAAGAAAAAA
1 AGAA-AAAAAA
33401020 AG-AAAAAAA
1 AGAAAAAAAA
33401029 AGAAAAAA
1 AGAAAAAA
33401037 GGAAATCTGG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
9 8 0.32
10 10 0.40
11 7 0.28
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (10 bp):
AGAAAAAAAA
Found at i:33401034 original size:15 final size:16
Alignment explanation
Indices: 33400999--33401035 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
33400989 AAAAAATGAG
*
33400999 AGAAAAAGAAAGAAGA
1 AGAAAAAGAAAGAAAA
33401015 A-AAAAAGAAA-AAAA
1 AGAAAAAGAAAGAAAA
33401029 AGAAAAA
1 AGAAAAA
33401036 AGGAAATCTG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
14 4 0.21
15 14 0.74
16 1 0.05
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (16 bp):
AGAAAAAGAAAGAAAA
Found at i:33401941 original size:6 final size:6
Alignment explanation
Indices: 33401930--33401969 Score: 71
Period size: 6 Copynumber: 6.7 Consensus size: 6
33401920 TGAGTAAAAA
*
33401930 AAAATC AAAATC AAAATC AAAATC AAAATC AAAGTC AAAA
1 AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC AAAA
33401970 GAAAAAAAGA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.68, C:0.15, G:0.03, T:0.15
Consensus pattern (6 bp):
AAAATC
Found at i:33401975 original size:18 final size:18
Alignment explanation
Indices: 33401936--33401975 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
33401926 AAAAAAAATC
**
33401936 AAAATCAAAATCAAAATC
1 AAAATCAAAATCAAAAGA
*
33401954 AAAATCAAAGTCAAAAGA
1 AAAATCAAAATCAAAAGA
33401972 AAAA
1 AAAA
33401976 AAGAGAAATC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.70, C:0.12, G:0.05, T:0.12
Consensus pattern (18 bp):
AAAATCAAAATCAAAAGA
Found at i:33402886 original size:7 final size:7
Alignment explanation
Indices: 33402874--33402927 Score: 85
Period size: 7 Copynumber: 8.0 Consensus size: 7
33402864 TCTGAGTCAA
33402874 AAAAATG
1 AAAAATG
33402881 AAAAATG
1 AAAAATG
*
33402888 -AGAATG
1 AAAAATG
33402894 AAAAATG
1 AAAAATG
33402901 AAAAATG
1 AAAAATG
33402908 -AAAATG
1 AAAAATG
33402914 AAAAATG
1 AAAAATG
33402921 AAAAATG
1 AAAAATG
33402928 GAGAGGCTAA
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
6 11 0.26
7 32 0.74
ACGTcount: A:0.69, C:0.00, G:0.17, T:0.15
Consensus pattern (7 bp):
AAAAATG
Found at i:33402895 original size:13 final size:14
Alignment explanation
Indices: 33402874--33402927 Score: 85
Period size: 13 Copynumber: 4.0 Consensus size: 14
33402864 TCTGAGTCAA
33402874 AAAAATGAAAAATG
1 AAAAATGAAAAATG
*
33402888 -AGAATGAAAAATG
1 AAAAATGAAAAATG
33402901 AAAAATG-AAAATG
1 AAAAATGAAAAATG
33402914 AAAAATGAAAAATG
1 AAAAATGAAAAATG
33402928 GAGAGGCTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
13 25 0.69
14 11 0.31
ACGTcount: A:0.69, C:0.00, G:0.17, T:0.15
Consensus pattern (14 bp):
AAAAATGAAAAATG
Found at i:33402897 original size:20 final size:20
Alignment explanation
Indices: 33402874--33402927 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
33402864 TCTGAGTCAA
*
33402874 AAAAATGAAAAATGAGAATG
1 AAAAATGAAAAATGAAAATG
33402894 AAAAATGAAAAATGAAAATG
1 AAAAATGAAAAATGAAAATG
33402914 AAAAATGAAAAATG
1 AAAAATGAAAAATG
33402928 GAGAGGCTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.69, C:0.00, G:0.17, T:0.15
Consensus pattern (20 bp):
AAAAATGAAAAATGAAAATG
Found at i:33404397 original size:43 final size:44
Alignment explanation
Indices: 33404311--33404405 Score: 108
Period size: 43 Copynumber: 2.2 Consensus size: 44
33404301 AAGCAGTGGC
33404311 GGAGCAGACTGAGAAAACAAGTCTTATCCCCCTGAAGTCACAGT
1 GGAGCAGACTGAGAAAACAAGTCTTATCCCCCTGAAGTCACAGT
* * *
33404355 AGG-GCAGACTGAAGAAGA-AA-TCTTATCTCCCT-AAGATTACAGT
1 -GGAGCAGACTG-AGAAAACAAGTCTTATCCCCCTGAAG-TCACAGT
33404398 GGAGCAGA
1 GGAGCAGA
33404406 TGGAATCTAG
Statistics
Matches: 44, Mismatches: 3, Indels: 8
0.80 0.05 0.15
Matches are distributed among these distances:
42 5 0.11
43 22 0.50
44 10 0.23
45 7 0.16
ACGTcount: A:0.36, C:0.21, G:0.24, T:0.19
Consensus pattern (44 bp):
GGAGCAGACTGAGAAAACAAGTCTTATCCCCCTGAAGTCACAGT
Found at i:33404567 original size:44 final size:44
Alignment explanation
Indices: 33404502--33404586 Score: 125
Period size: 44 Copynumber: 1.9 Consensus size: 44
33404492 ATCGCATTAG
* *
33404502 ATTGAAGCCAGAAATCTTATCTCCCTTAGATTACAGCGGAGCAA
1 ATTGAAGCCAGAAATCCTATCTCCCTGAGATTACAGCGGAGCAA
* * *
33404546 ATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAG
1 ATTGAAGCCAGAAATCCTATCTCCCTGAGATTACAGCGGAG
33404587 TGGATTAAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 36 1.00
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (44 bp):
ATTGAAGCCAGAAATCCTATCTCCCTGAGATTACAGCGGAGCAA
Found at i:33404666 original size:142 final size:142
Alignment explanation
Indices: 33404370--33404785 Score: 656
Period size: 142 Copynumber: 2.9 Consensus size: 142
33404360 AGACTGAAGA
* * *
33404370 AGAAATCTTATCTCCCTAAGATTACAGTGGAGCAGATGGAATCTAGTAATCCTACCTCCCTGAGA
1 AGAAATCTTATCTCCCTAAGATTACAGCGGAGCAGATGGAAGCTAGTAATCCTATCTCCCTGAGA
33404435 TTACAGTGGAGCGGA-TAAAATAAAAGATCTTATCTCTCTGAGGTTACAGTAGAGTAGATCGCAT
66 TTACAGTGGAGCGGATTAAAATAAAAGATCTTATCTCTCTGAGGTTACAGTAGAGTAGATCGCAT
*
33404499 TAGATTGAAGCC
131 CAGATTGAAGCC
* * *
33404511 AGAAATCTTATCTCCCTTAGATTACAGCGGAGCAAATTGAAGCTAGTAATCCTATCTCCCTGAGA
1 AGAAATCTTATCTCCCTAAGATTACAGCGGAGCAGATGGAAGCTAGTAATCCTATCTCCCTGAGA
* * * *
33404576 TTACAGTGGAGTGGATTAAAATAAAGGATCTTACCTCTCTGAGGTTACAGTAGAGTAGATCACAT
66 TTACAGTGGAGCGGATTAAAATAAAAGATCTTATCTCTCTGAGGTTACAGTAGAGTAGATCGCAT
33404641 CAGATTGAA-CC
131 CAGATTGAAGCC
* * *
33404652 TAGAAATCTTATCTCCCTGAGATTACAACGGAGCAGATGGAAGCTAGTAATCCTATCTCCTTGAG
1 -AGAAATCTTATCTCCCTAAGATTACAGCGGAGCAGATGGAAGCTAGTAATCCTATCTCCCTGAG
* * *
33404717 ATTACAGTGGAGCGGATTAAAATAAAAGATTTTATCTCTCTAAAGTTACAGTAGAGTAGATCGCA
65 ATTACAGTGGAGCGGATTAAAATAAAAGATCTTATCTCTCTGAGGTTACAGTAGAGTAGATCGCA
33404782 TCAG
130 TCAG
33404786 GTCTTATCCC
Statistics
Matches: 250, Mismatches: 23, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
141 75 0.30
142 175 0.70
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.28
Consensus pattern (142 bp):
AGAAATCTTATCTCCCTAAGATTACAGCGGAGCAGATGGAAGCTAGTAATCCTATCTCCCTGAGA
TTACAGTGGAGCGGATTAAAATAAAAGATCTTATCTCTCTGAGGTTACAGTAGAGTAGATCGCAT
CAGATTGAAGCC
Found at i:33404933 original size:50 final size:50
Alignment explanation
Indices: 33404879--33405038 Score: 160
Period size: 50 Copynumber: 3.2 Consensus size: 50
33404869 GCCACAATGA
* *
33404879 CGAATCTTGCTTCCTCGACATTGCAGTTAAAAAGATTAAAGCTATAACAG
1 CGAATCTTACTTCCTCGACATTGCAGTTAAAAAGATTAAAGCTACAACAG
* ** *** * * * *
33404929 CGAATCTTACTT-CTCAAGCGGTGCAGCGGAACAGATTAAAGCCACATCGG
1 CGAATCTTACTTCCTCGA-CATTGCAGTTAAAAAGATTAAAGCTACAACAG
* * * *
33404979 TGAATCTTTCTTCCCCGACATTGCAGTTCAAAAGATTAAAGCTACAACAG
1 CGAATCTTACTTCCTCGACATTGCAGTTAAAAAGATTAAAGCTACAACAG
33405029 CGAATCTTAC
1 CGAATCTTAC
33405039 CTCCCAGGCG
Statistics
Matches: 81, Mismatches: 27, Indels: 4
0.72 0.24 0.04
Matches are distributed among these distances:
49 4 0.05
50 74 0.91
51 3 0.04
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.26
Consensus pattern (50 bp):
CGAATCTTACTTCCTCGACATTGCAGTTAAAAAGATTAAAGCTACAACAG
Found at i:33405005 original size:100 final size:100
Alignment explanation
Indices: 33404843--33405110 Score: 365
Period size: 100 Copynumber: 2.7 Consensus size: 100
33404833 TCTTATCTCC
* * * ** *
33404843 CAAGCGATGTAGTGGAACAGAATAAAGCCACAATGACGAATCTTGCTTCCTCGACATTGCAGTTA
1 CAAGCGATGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATTGCAGTTA
*
33404908 AAAAGATTAAAGCTATAACAGCGAATCTTACTTCT
66 AAAAGATTAAAGCTACAACAGCGAATCTTACTTCT
* * * * *
33404943 CAAGCGGTGCAGCGGAACAGATTAAAGCCACATCGGTGAATCTTTCTTCCCCGACATTGCAGTTC
1 CAAGCGATGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATTGCAGTTA
* *
33405008 AAAAGATTAAAGCTACAACAGCGAATCTTACCTCC
66 AAAAGATTAAAGCTACAACAGCGAATCTTACTTCT
* * **
33405043 CAGGCGATGCAGTGGAGCAGATTAAAGCCACATTGGTGAATCTTGCTTCCCCGACATTGCAGATT
1 CAAGCGATGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATTGCAG-TT
33405108 AAA
65 AAA
33405111 GCCACAGCGG
Statistics
Matches: 146, Mismatches: 21, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
100 142 0.97
101 4 0.03
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.24
Consensus pattern (100 bp):
CAAGCGATGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATTGCAGTTA
AAAAGATTAAAGCTACAACAGCGAATCTTACTTCT
Found at i:33405054 original size:50 final size:50
Alignment explanation
Indices: 33404900--33405475 Score: 149
Period size: 50 Copynumber: 11.8 Consensus size: 50
33404890 TCCTCGACAT
* * * *
33404900 TGCAGTTAAAAAGATTAAAGCTATAACAGCGAATCTTACTTCTCAAGCGG
1 TGCAGTTAAAAAGATTAAAGCTACAACAGCGAATCTTACTTCCCAGGCGA
*** * * * * * * * *
33404950 TGCAGCGGAACAGATTAAAGCCACATCGGTGAATCTTTCTTCCCCGAC-A
1 TGCAGTTAAAAAGATTAAAGCTACAACAGCGAATCTTACTTCCCAGGCGA
* *
33404999 TTGCAGTTCAAAAGATTAAAGCTACAACAGCGAATCTTACCTCCCAGGCGA
1 -TGCAGTTAAAAAGATTAAAGCTACAACAGCGAATCTTACTTCCCAGGCGA
** ** * *** * *
33405050 TGCAGTGGAGCAGATTAAAGCCACATTGGTGAATCTTGCTTCCC---CGA
1 TGCAGTTAAAAAGATTAAAGCTACAACAGCGAATCTTACTTCCCAGGCGA
** * * * * * **
33405097 --CA-TT--GCAGATTAAAGCCACAGCGGTGAATCCTACTTCCTTGGCGA
1 TGCAGTTAAAAAGATTAAAGCTACAACAGCGAATCTTACTTCCCAGGCGA
* ** * * * * * * *
33405142 TGCTGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGAC-A
1 TGCAGTTAAAAAGATTAAAGCTACAACAGCGAATCTTACTTCCCAGGCGA
* * * * * * *
33405191 TTGCAGTTAAAAAGACTAAAGCCACAGC-GACGAGTATTACTTCCCTGGCAA
1 -TGCAGTTAAAAAGATTAAAGCTACAACAG-CGAATCTTACTTCCCAGGCGA
* * * * * * *
33405242 TGCAGTGAAACAGATTAAAGCCACAACGGTGAATCTTGCTTTCCC-GAC-A
1 TGCAGTTAAAAAGATTAAAGCTACAACAGCGAATCTTAC-TTCCCAGGCGA
* * * * *
33405291 TTGCAGTTAAAAGGATTAAAG-TCACAA-TGACGAATCTCACTCTCTCA-GCCA
1 -TGCAGTTAAAAAGATTAAAGCT-ACAACAG-CGAATCTTACT-TCCCAGGCGA
* * * * * *
33405342 -GC-G-----CAGATTAAAGCCATAACAGTGAATCTTGCTTCTCC-GAC-A
1 TGCAGTTAAAAAGATTAAAGCTACAACAGCGAATCTTACTTC-CCAGGCGA
* * * *
33405384 TTGCAGTTAAAAAGATTAAAGCTACCACAGCGAATCTTACTTCTCAAGCGG
1 -TGCAGTTAAAAAGATTAAAGCTACAACAGCGAATCTTACTTCCCAGGCGA
** * * * **
33405435 TGCAGTGGAACAGATTGAAGCCACAATGGCGAATCTTACTT
1 TGCAGTTAAAAAGATTAAAGCTACAACAGCGAATCTTACTT
33405476 TCCAAAAGTT
Statistics
Matches: 379, Mismatches: 112, Indels: 70
0.68 0.20 0.12
Matches are distributed among these distances:
42 33 0.09
43 21 0.06
44 4 0.01
45 6 0.02
47 4 0.01
48 2 0.01
49 8 0.02
50 292 0.77
51 9 0.02
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.24
Consensus pattern (50 bp):
TGCAGTTAAAAAGATTAAAGCTACAACAGCGAATCTTACTTCCCAGGCGA
Found at i:33405123 original size:42 final size:42
Alignment explanation
Indices: 33405059--33405201 Score: 137
Period size: 42 Copynumber: 3.2 Consensus size: 42
33405049 ATGCAGTGGA
**
33405059 GCAGATTAAAGCCACATTGGTGAATCTTGCTTCCCCGACATT
1 GCAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATT
* * * *
33405101 GCAGATTAAAGCCACAGCGGTGAATCCTACTTCCTTGGCGATGC-TGT
1 GCAGATTAAAGCCACAACGGTGAATCTTGCTTCC---CCGA--CAT-T
33405148 GGAACAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATT
1 -G--CAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATT
33405193 GCAG-TTAAA
1 GCAGATTAAA
33405202 AAGACTAAAG
Statistics
Matches: 82, Mismatches: 9, Indels: 21
0.73 0.08 0.19
Matches are distributed among these distances:
41 5 0.06
42 33 0.40
44 1 0.01
45 5 0.06
46 2 0.02
47 5 0.06
48 1 0.01
50 30 0.37
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.25
Consensus pattern (42 bp):
GCAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATT
Found at i:33405173 original size:92 final size:92
Alignment explanation
Indices: 33405040--33405301 Score: 310
Period size: 100 Copynumber: 2.8 Consensus size: 92
33405030 GAATCTTACC
* * **
33405040 TCCCAGGCGATGCAGTGGAGCAGATTAAAGCCACATTGGTGAATCTTGCTTCCCCGACATTGCAG
1 TCCCTGGCGATGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATTGCAG
** *
33405105 ATTAAAGCCACAGCGGTGAATCCTACT
66 ATTAAAGCCACAGCGACGAATACTACT
* *
33405132 TCCTTGGCGATGCTGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATTGCAG
1 TCCCTGGCGATGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATTGC--
* * *
33405197 TTAAAAAGACTAAAGCCACAGCGACGAGTATTACT
64 ------AGATTAAAGCCACAGCGACGAATACTACT
* * *
33405232 TCCCTGGCAATGCAGTGAAACAGATTAAAGCCACAACGGTGAATCTTGCTTTCCCGACATTGCAG
1 TCCCTGGCGATGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATTGCAG
33405297 -TTAAA
66 ATTAAA
33405302 AGGATTAAAG
Statistics
Matches: 144, Mismatches: 18, Indels: 17
0.80 0.10 0.09
Matches are distributed among these distances:
91 4 0.03
92 59 0.41
100 81 0.56
ACGTcount: A:0.30, C:0.25, G:0.22, T:0.23
Consensus pattern (92 bp):
TCCCTGGCGATGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATTGCAG
ATTAAAGCCACAGCGACGAATACTACT
Found at i:33405247 original size:192 final size:191
Alignment explanation
Indices: 33404956--33405301 Score: 523
Period size: 192 Copynumber: 1.8 Consensus size: 191
33404946 GCGGTGCAGC
* * * *
33404956 GGAACAGATTAAAGCCACATCGGTGAATCTTTCTTCCCCGACATTGCAGTTCAAAAGATTAAAGC
1 GGAACAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGACTAAAGC
* * * * * **
33405021 TACAACAGCGAATCTTACCTCCCAGGCGATGCAGTGGAGCAGATTAAAGCCACATTGGTGAATCT
66 CACAACAGCGAATATTACCTCCCAGGCAATGCAGTGAAACAGATTAAAGCCACAACGGTGAATCT
33405086 TGCTTCCCCGACATTGCAGATTAAAGCCACAGCGGTGAATCCTACTTCCTTGGCGATGCTGT
131 TGCTTCCCCGACATTGCAG-TTAAAGCCACAGCGGTGAATCCTACTTCCTTGGCGATGCTGT
33405148 GGAACAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGACTAAAGC
1 GGAACAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGACTAAAGC
* * * *
33405213 CACAGC-GACGAGTATTACTTCCCTGGCAATGCAGTGAAACAGATTAAAGCCACAACGGTGAATC
66 CACAACAG-CGAATATTACCTCCCAGGCAATGCAGTGAAACAGATTAAAGCCACAACGGTGAATC
*
33405277 TTGCTTTCCCGACATTGCAGTTAAA
130 TTGCTTCCCCGACATTGCAGTTAAA
33405302 AGGATTAAAG
Statistics
Matches: 137, Mismatches: 16, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
191 6 0.04
192 131 0.96
ACGTcount: A:0.31, C:0.25, G:0.21, T:0.23
Consensus pattern (191 bp):
GGAACAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGACTAAAGC
CACAACAGCGAATATTACCTCCCAGGCAATGCAGTGAAACAGATTAAAGCCACAACGGTGAATCT
TGCTTCCCCGACATTGCAGTTAAAGCCACAGCGGTGAATCCTACTTCCTTGGCGATGCTGT
Found at i:33405280 original size:100 final size:98
Alignment explanation
Indices: 33405103--33405471 Score: 338
Period size: 100 Copynumber: 3.8 Consensus size: 98
33405093 CCGACATTGC
* ** ** * *
33405103 AGATTAAAGCCACAGCGGTGAATCCTACTTCCTTGGCGATGCTGTGGAACAGATTAAAGCCACAA
1 AGATTAAAGCCACAACGACGAATATTACTTCCCTGGC-ATGCAGT-GAACAGATTAAAGCCACAA
33405168 CGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAA
64 CGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAA
* * *
33405203 AGACTAAAGCCACAGCGACGAGTATTACTTCCCTGGCAATGCAGTGAAACAGATTAAAGCCACAA
1 AGATTAAAGCCACAACGACGAATATTACTTCCCTGGC-ATGCAGTG-AACAGATTAAAGCCACAA
*
33405268 CGGTGAATCTTGCTTTCCCGACATTGCAGTTAAAA
64 CGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAA
* * * * * * * *
33405303 GGATTAAAGTCACAATGACGAATCTCAC-TCTCT--CA-GCCAGCG--CAGATTAAAGCCATAAC
1 AGATTAAAGCCACAACGACGAATATTACTTCCCTGGCATG-CAGTGAACAGATTAAAGCCACAAC
* *
33405362 AGTGAATCTTGCTTCTCCGACATTGCAGTTAAAA
65 GGTGAATCTTGCTTCCCCGACATTGCAGTTAAAA
* * * * ** * *
33405396 AGATTAAAGCTACCAC-AGCGAATCTTACTTCTCAAGCGGTGCAGTGGAACAGATTGAAGCCACA
1 AGATTAAAGCCACAACGA-CGAATATTACTTCCCTGGC-ATGCAGT-GAACAGATTAAAGCCACA
* *
33405460 ATGGCGAATCTT
63 ACGGTGAATCTT
33405472 ACTTTCCAAA
Statistics
Matches: 220, Mismatches: 38, Indels: 22
0.79 0.14 0.08
Matches are distributed among these distances:
92 1 0.00
93 67 0.30
94 4 0.02
95 1 0.00
96 6 0.03
97 4 0.02
98 2 0.01
99 5 0.02
100 130 0.59
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.23
Consensus pattern (98 bp):
AGATTAAAGCCACAACGACGAATATTACTTCCCTGGCATGCAGTGAACAGATTAAAGCCACAACG
GTGAATCTTGCTTCCCCGACATTGCAGTTAAAA
Found at i:33410504 original size:9 final size:8
Alignment explanation
Indices: 33410489--33410513 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
33410479 CCAATTTTTT
33410489 TAAAAAAA
1 TAAAAAAA
33410497 TAAAAAAA
1 TAAAAAAA
33410505 TAAAAAAA
1 TAAAAAAA
33410513 T
1 T
33410514 TATTTTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (8 bp):
TAAAAAAA
Found at i:33410521 original size:30 final size:31
Alignment explanation
Indices: 33410481--33410543 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 31
33410471 AATAAACACC
*
33410481 AATTTTTTTAAAAA-AATAAAAAAATAAAAA
1 AATTATTTTAAAAATAATAAAAAAATAAAAA
* **
33410511 AATTATTTTAAAAATATTTTAAAAATAAAAA
1 AATTATTTTAAAAATAATAAAAAAATAAAAA
33410542 AA
1 AA
33410544 ATAAAAAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
30 13 0.46
31 15 0.54
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (31 bp):
AATTATTTTAAAAATAATAAAAAAATAAAAA
Found at i:33410525 original size:12 final size:12
Alignment explanation
Indices: 33410508--33410536 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
33410498 AAAAAAATAA
33410508 AAAAATTATTTT
1 AAAAATTATTTT
33410520 AAAAA-TATTTT
1 AAAAATTATTTT
33410531 AAAAAT
1 AAAAAT
33410537 AAAAAAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.69
12 5 0.31
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
AAAAATTATTTT
Found at i:33417166 original size:58 final size:59
Alignment explanation
Indices: 33417090--33417208 Score: 154
Period size: 58 Copynumber: 2.0 Consensus size: 59
33417080 TTGAAATTAG
* * * *
33417090 TTAAACTCCATAAAACCTTCGAGTTTACAGC-GAAATATCA-AAACTGCTTAATATACAC
1 TTAAACTACATAAAACCTTCGAGTTAACAGCAGAAA-ATCAGAAACTGCTTAAAACACAC
*
33417148 TTAAACTACA-AAGAACCTTCGAGTTAACAGCAGAAAATCAGATACTGCTTAAAACACAC
1 TTAAACTACATAA-AACCTTCGAGTTAACAGCAGAAAATCAGAAACTGCTTAAAACACAC
33417207 TT
1 TT
33417209 GATTCTGTTA
Statistics
Matches: 53, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
57 2 0.04
58 30 0.57
59 21 0.40
ACGTcount: A:0.43, C:0.22, G:0.10, T:0.25
Consensus pattern (59 bp):
TTAAACTACATAAAACCTTCGAGTTAACAGCAGAAAATCAGAAACTGCTTAAAACACAC
Found at i:33420482 original size:13 final size:13
Alignment explanation
Indices: 33420464--33420513 Score: 57
Period size: 13 Copynumber: 3.8 Consensus size: 13
33420454 CTTAAACTAA
33420464 ACTTTTCAAAAGT
1 ACTTTTCAAAAGT
* *
33420477 ACTTTTCCACAA-C
1 ACTTTT-CAAAAGT
*
33420490 ACTTTTTAAAAGT
1 ACTTTTCAAAAGT
33420503 ACTTTTCAAAA
1 ACTTTTCAAAA
33420514 AGCAATGCTA
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
12 3 0.10
13 22 0.76
14 4 0.14
ACGTcount: A:0.38, C:0.20, G:0.04, T:0.38
Consensus pattern (13 bp):
ACTTTTCAAAAGT
Found at i:33429421 original size:18 final size:18
Alignment explanation
Indices: 33429395--33429440 Score: 83
Period size: 18 Copynumber: 2.6 Consensus size: 18
33429385 TAATGCTTAA
*
33429395 AAAAACACTTCTGGCTCC
1 AAAAGCACTTCTGGCTCC
33429413 AAAAGCACTTCTGGCTCC
1 AAAAGCACTTCTGGCTCC
33429431 AAAAGCACTT
1 AAAAGCACTT
33429441 TTGGAAGAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.35, C:0.30, G:0.13, T:0.22
Consensus pattern (18 bp):
AAAAGCACTTCTGGCTCC
Found at i:33432957 original size:51 final size:51
Alignment explanation
Indices: 33432892--33433009 Score: 173
Period size: 51 Copynumber: 2.3 Consensus size: 51
33432882 TATTAGCAAG
* *
33432892 GAGTTCGCCAGTGTTTTGGTGGAGTTGATGATTATCAGAAGGATCGGTAAA
1 GAGTTCGCTAGTGTTTTGGTGGAGTTGATGACTATCAGAAGGATCGGTAAA
* * * * *
33432943 GAGTTTGCTGGTGTTTTGGTGGAGTTGATGACTGTTAGAAGGATCGGTAAG
1 GAGTTCGCTAGTGTTTTGGTGGAGTTGATGACTATCAGAAGGATCGGTAAA
33432994 GAGTTCGCTAGTGTTT
1 GAGTTCGCTAGTGTTT
33433010 GGGCGAACTA
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
51 58 1.00
ACGTcount: A:0.21, C:0.08, G:0.36, T:0.35
Consensus pattern (51 bp):
GAGTTCGCTAGTGTTTTGGTGGAGTTGATGACTATCAGAAGGATCGGTAAA
Found at i:33433153 original size:27 final size:27
Alignment explanation
Indices: 33433090--33433153 Score: 65
Period size: 27 Copynumber: 2.4 Consensus size: 27
33433080 TGGTTTGGTG
* *
33433090 AGTTGGGGTTCGCCAGTGTGTTTAGCA
1 AGTTGGGGTTCGCCAGTCTATTTAGCA
* ** * *
33433117 AGCTAAGGTTCTCCAGTCTATTTAGCT
1 AGTTGGGGTTCGCCAGTCTATTTAGCA
33433144 AGTTGGGGTT
1 AGTTGGGGTT
33433154 TGCTAGTTGT
Statistics
Matches: 27, Mismatches: 10, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.17, C:0.16, G:0.31, T:0.36
Consensus pattern (27 bp):
AGTTGGGGTTCGCCAGTCTATTTAGCA
Done.