Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold219
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: 770726
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.33
File 1 of 5
Found at i:402 original size:23 final size:25
Alignment explanation
Indices: 357--402 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
347 AAAAATACAT
* *
357 TTATATATTTATTTTTATCTATTAG
1 TTATATATTAATTTTTATATATTAG
382 TTATA-ATTAATTTTT-TATATT
1 TTATATATTAATTTTTATATATT
403 TCATAAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 5 0.26
24 9 0.47
25 5 0.26
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.65
Consensus pattern (25 bp):
TTATATATTAATTTTTATATATTAG
Found at i:1294 original size:17 final size:16
Alignment explanation
Indices: 1263--1302 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
1253 CACCAAAAGA
*
1263 TATAAAAATAATTTAT
1 TATATAAATAATTTAT
1279 TATATAAATCAATTTAT
1 TATATAAAT-AATTTAT
*
1296 TAAATAA
1 TATATAA
1303 TTTATTCTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 8 0.38
17 13 0.62
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (16 bp):
TATATAAATAATTTAT
Found at i:2195 original size:20 final size:20
Alignment explanation
Indices: 2153--2196 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
2143 ATTTTTTATT
*
2153 ATATTTATACATTAAAATTA
1 ATATTTATACATTAAAATGA
*
2173 ATATTTTTAGCATTAAAA-GA
1 ATATTTATA-CATTAAAATGA
2193 ATAT
1 ATAT
2197 AAAATTAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.48, C:0.05, G:0.05, T:0.43
Consensus pattern (20 bp):
ATATTTATACATTAAAATGA
Found at i:2229 original size:15 final size:16
Alignment explanation
Indices: 2199--2241 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
2189 AAGAATATAA
2199 AATTAATTTATTAAAT
1 AATTAATTTATTAAAT
*
2215 AATTTATTT-TTAAAT
1 AATTAATTTATTAAAT
*
2230 AA-TAATATATTA
1 AATTAATTTATTA
2242 TTATCAATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
14 4 0.17
15 11 0.48
16 8 0.35
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
AATTAATTTATTAAAT
Found at i:5686 original size:20 final size:20
Alignment explanation
Indices: 5639--5688 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
5629 AGAGTTAAGT
* *
5639 AAAAAAGAAAGAAAGAAGAT
1 AAAAAAGAAAGAAAGAAAAA
* *
5659 GAAGAAGAAAGAAAGAAAAA
1 AAAAAAGAAAGAAAGAAAAA
5679 AAAAAAGAAA
1 AAAAAAGAAA
5689 AAATATGAAA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (20 bp):
AAAAAAGAAAGAAAGAAAAA
Found at i:6878 original size:105 final size:105
Alignment explanation
Indices: 6696--6908 Score: 426
Period size: 105 Copynumber: 2.0 Consensus size: 105
6686 AGCGATTTGC
6696 ATTCTGGTCGGGCCGTTTTGGACCACTAGATGATTTTTCAAAATTTTCCAAACATTTTTCCTAAA
1 ATTCTGGTCGGGCCGTTTTGGACCACTAGATGATTTTTCAAAATTTTCCAAACATTTTTCCTAAA
6761 AACTCCATGAAATTACCTTTCCGAAAAGGTATAGTTTGTA
66 AACTCCATGAAATTACCTTTCCGAAAAGGTATAGTTTGTA
6801 ATTCTGGTCGGGCCGTTTTGGACCACTAGATGATTTTTCAAAATTTTCCAAACATTTTTCCTAAA
1 ATTCTGGTCGGGCCGTTTTGGACCACTAGATGATTTTTCAAAATTTTCCAAACATTTTTCCTAAA
6866 AACTCCATGAAATTACCTTTCCGAAAAGGTATAGTTTGTA
66 AACTCCATGAAATTACCTTTCCGAAAAGGTATAGTTTGTA
6906 ATT
1 ATT
6909 TTTCGATACC
Statistics
Matches: 108, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
105 108 1.00
ACGTcount: A:0.30, C:0.19, G:0.15, T:0.37
Consensus pattern (105 bp):
ATTCTGGTCGGGCCGTTTTGGACCACTAGATGATTTTTCAAAATTTTCCAAACATTTTTCCTAAA
AACTCCATGAAATTACCTTTCCGAAAAGGTATAGTTTGTA
Found at i:10206 original size:15 final size:15
Alignment explanation
Indices: 10186--10225 Score: 80
Period size: 15 Copynumber: 2.7 Consensus size: 15
10176 AGCATCACCA
10186 ATCGACCCCATAACT
1 ATCGACCCCATAACT
10201 ATCGACCCCATAACT
1 ATCGACCCCATAACT
10216 ATCGACCCCA
1 ATCGACCCCA
10226 AGGGCCAAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.33, C:0.42, G:0.07, T:0.17
Consensus pattern (15 bp):
ATCGACCCCATAACT
Found at i:12314 original size:36 final size:35
Alignment explanation
Indices: 12234--12314 Score: 85
Period size: 36 Copynumber: 2.3 Consensus size: 35
12224 TCAAAATGAC
* *
12234 AAAAAAAAAAGTCAAAAGCAAAAGCACAAAAAATG
1 AAAACAAAAAGTCAAAAGCAAAAGCACAAAAAAAG
* *
12269 AAAAGAAAAAGTGCAAAAGCAAAA-TA-AAAAAAGAG
1 AAAACAAAAAGT-CAAAAGCAAAAGCACAAAAAA-AG
12304 AACAACAAAAA
1 AA-AACAAAAA
12315 TAAAAAAAAC
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
34 6 0.15
35 15 0.38
36 18 0.46
ACGTcount: A:0.73, C:0.10, G:0.12, T:0.05
Consensus pattern (35 bp):
AAAACAAAAAGTCAAAAGCAAAAGCACAAAAAAAG
Found at i:13720 original size:27 final size:27
Alignment explanation
Indices: 13642--14729 Score: 1718
Period size: 27 Copynumber: 40.0 Consensus size: 27
13632 GTGGCATTTT
*
13642 CTTTTAAAGTCCACAACTCTGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
*
13670 CTTTTAAAGTCCACAACTTCGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
* *
13698 CTTTTTAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
13725 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
13752 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
13779 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
13806 CTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
*
13834 CTTTTAAGACCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
13861 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* * *
13888 TTTTTAAGTCCATAACTCCGTGGCATCT
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
*
13916 CTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
13943 CTTTTAAAGTCCACAACTCCGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
13971 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
13998 CTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
*
14026 CTTTTAAGACCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
14053 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
14080 CTTTTAAGTCCATAACTCCGTGGCATCT
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
*
14108 CTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
14135 CTTTTAAAGTCCACAACTCCATGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
* *
14163 CTTTTTAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
14190 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
14217 CTTTTAAGACCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
14244 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
14271 CTTTTAAGTCCATAACTCCGTGGCATCT
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
*
14299 CTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
14326 CTTTTAAAGTCCACAA-----TGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
* *
14349 CTTTTTAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
14376 TTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
14403 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
14430 CTTTTAAGTCCACAACTCTGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
*
14458 CTTTTAAGACCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
**
14485 CTTTTAAGTCCACAACTCCGTGGCATT
1 CTTTTAAGTCCACAACTCCGTGGCACC
14512 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
14539 TTTTTAAGTCCACAACTCCGTAGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
14566 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
14593 CTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
* *
14621 CTTTTAAGACCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
14648 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
14675 CTTTTAAGTCCACAACTCCGTGGCATC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* **
14702 CTTTTAAATCCACAACTTTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
14729 C
1 C
14730 ATTTCAAAGC
Statistics
Matches: 981, Mismatches: 64, Indels: 31
0.91 0.06 0.03
Matches are distributed among these distances:
22 9 0.01
23 12 0.01
27 695 0.71
28 265 0.27
ACGTcount: A:0.23, C:0.34, G:0.14, T:0.28
Consensus pattern (27 bp):
CTTTTAAGTCCACAACTCCGTGGCACC
Found at i:13877 original size:82 final size:81
Alignment explanation
Indices: 13642--14729 Score: 1718
Period size: 82 Copynumber: 13.3 Consensus size: 81
13632 GTGGCATTTT
* * *
13642 CTTTTAAAGTCCACAACTCTGTGGCACCCTTTTAAAGTCCACAACTTCGTGGCACCCTTTTTAGT
1 CTTTT-AAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGT
*
13707 CCACAACTCTGTGGCACC
64 CCACAACTCCGTGGCACC
13725 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
13790 ACAACTCCGTGGCACC
66 ACAACTCCGTGGCACC
*
13806 CTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAGACCACAACTCCGTGGCACCCTTTTAAGTC
1 CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
13871 CACAACTCCGTGGCACC
65 CACAACTCCGTGGCACC
* * * *
13888 TTTTTAAGTCCATAACTCCGTGGCATCTCTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAAGT
1 CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGT
13953 CCACAACTCCGTGGCACC
64 CCACAACTCCGTGGCACC
*
13971 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAGAC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTC
14036 CACAACTCCGTGGCACC
65 CACAACTCCGTGGCACC
* *
14053 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCATAACTCCGTGGCATCTCTTTTAAGTC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTC
*
14118 CACAACTCTGTGGCACC
65 CACAACTCCGTGGCACC
* * *
14135 CTTTTAAAGTCCACAACTCCATGGCACCCTTTTTAGTCCACAACTCTGTGGCACCCTTTTAAGTC
1 CTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
14200 CACAACTCCGTGGCACC
65 CACAACTCCGTGGCACC
*
14217 CTTTTAAGACCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
* *
14282 ATAACTCCGTGGCATCT
66 ACAACTCCGTGGCA-CC
* *
14299 CTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAAGTCCACAA-----TGGCACCCTTTTTAGTC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTC
*
14359 CACAACTCTGTGGCACC
65 CACAACTCCGTGGCACC
*
14376 TTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
*
14441 ACAACTCTGTGGCATCC
66 ACAACTCCGTGGCA-CC
* **
14458 CTTTTAAGACCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATTCTTTTAAGTCC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
14523 ACAACTCCGTGGCACC
66 ACAACTCCGTGGCACC
* *
14539 TTTTTAAGTCCACAACTCCGTAGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
14604 ACAACTCCGTGGCATCC
66 ACAACTCCGTGGCA-CC
* *
14621 CTTTTAAGACCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
*
14686 ACAACTCCGTGGCATC
66 ACAACTCCGTGGCACC
* **
14702 CTTTTAAATCCACAACTTTGTGGCACCC
1 CTTTTAAGTCCACAACTCCGTGGCACCC
14730 ATTTCAAAGC
Statistics
Matches: 934, Mismatches: 58, Indels: 28
0.92 0.06 0.03
Matches are distributed among these distances:
76 10 0.01
77 31 0.03
78 29 0.03
81 273 0.29
82 481 0.51
83 110 0.12
ACGTcount: A:0.23, C:0.34, G:0.14, T:0.28
Consensus pattern (81 bp):
CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
ACAACTCCGTGGCACC
Found at i:14361 original size:22 final size:23
Alignment explanation
Indices: 14319--14363 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
14309 CACAACTCTG
14319 TGGCACCCTTTTAAAGTCCACAA
1 TGGCACCCTTTTAAAGTCCACAA
*
14342 TGGCACCCTTTT-TAGTCCACAA
1 TGGCACCCTTTTAAAGTCCACAA
14364 CTCTGTGGCA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 9 0.43
23 12 0.57
ACGTcount: A:0.27, C:0.31, G:0.13, T:0.29
Consensus pattern (23 bp):
TGGCACCCTTTTAAAGTCCACAA
Found at i:14767 original size:32 final size:32
Alignment explanation
Indices: 14721--15025 Score: 495
Period size: 32 Copynumber: 9.6 Consensus size: 32
14711 CCACAACTTT
14721 GTGGC-ACCCATTTCAAAGCCCACACAAGTCG
1 GTGGCAACCCATTTCAAAGCCCACACAAGTCG
14752 GTGGCAACCCATTTCAAAGCCCACACAAGTCG
1 GTGGCAACCCATTTCAAAGCCCACACAAGTCG
14784 GTGGCAACCCATTTCAAAGCCCACACAAGTCG
1 GTGGCAACCCATTTCAAAGCCCACACAAGTCG
*
14816 GTGGCAACCCATTCCAAAGCCCACACAAGTCG
1 GTGGCAACCCATTTCAAAGCCCACACAAGTCG
*
14848 GTGGCAACTCATTTCAAAGCCCACACAAGTCG
1 GTGGCAACCCATTTCAAAGCCCACACAAGTCG
*
14880 GTGGCAACCCATTTAAAAGCCCACACAAGTCG
1 GTGGCAACCCATTTCAAAGCCCACACAAGTCG
*
14912 GTGGCAACCCATTCCAAAGCCCACACAAGTCG
1 GTGGCAACCCATTTCAAAGCCCACACAAGTCG
* *
14944 GTGGCAACTCATTTCAAAGCCCACACAAGTCC
1 GTGGCAACCCATTTCAAAGCCCACACAAGTCG
* ** * *
14976 GTGGCAACCCATTTAAAAGCCCATGCAGGTCA
1 GTGGCAACCCATTTCAAAGCCCACACAAGTCG
*
15008 GTGGCAACCCTTTTCAAA
1 GTGGCAACCCATTTCAAA
15026 TCACCATTTT
Statistics
Matches: 255, Mismatches: 18, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
31 5 0.02
32 250 0.98
ACGTcount: A:0.31, C:0.33, G:0.19, T:0.17
Consensus pattern (32 bp):
GTGGCAACCCATTTCAAAGCCCACACAAGTCG
Found at i:27307 original size:52 final size:52
Alignment explanation
Indices: 27222--27346 Score: 223
Period size: 52 Copynumber: 2.4 Consensus size: 52
27212 ATATGAAAAG
*
27222 TTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
* *
27274 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATGCATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
27326 TTGCCTGCATGTATCGATACA
1 TTGCCTGCATGTATCGATACA
27347 AAGATAAGTG
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 70 1.00
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.35
Consensus pattern (52 bp):
TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
Found at i:27359 original size:52 final size:52
Alignment explanation
Indices: 27222--27366 Score: 215
Period size: 52 Copynumber: 2.8 Consensus size: 52
27212 ATATGAAAAG
27222 TTGCCTGCATGTATCGATACATTTAAT-AGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA-TTAATAAGTGTATCGATACATCTGGGCAAAT
* *
27274 TTGCCTGCATGTATCGATACATTTTATAA-TGTATCGATGCATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA-TTAATAAGTGTATCGATACATCTGGGCAAAT
*
27326 TTGCCTGCATGTATCGATACA-AAGATAAGTGTATCGATACA
1 TTGCCTGCATGTATCGATACATTA-ATAAGTGTATCGATACA
27367 ATGTATCGAT
Statistics
Matches: 85, Mismatches: 5, Indels: 6
0.89 0.05 0.06
Matches are distributed among these distances:
51 4 0.05
52 80 0.94
53 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (52 bp):
TTGCCTGCATGTATCGATACATTAATAAGTGTATCGATACATCTGGGCAAAT
Found at i:27373 original size:13 final size:13
Alignment explanation
Indices: 27355--27379 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
27345 CAAAGATAAG
27355 TGTATCGATACAA
1 TGTATCGATACAA
27368 TGTATCGATACA
1 TGTATCGATACA
27380 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:27459 original size:13 final size:13
Alignment explanation
Indices: 27441--27465 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
27431 ACAAAACTTA
27441 TGTATCGATACAT
1 TGTATCGATACAT
27454 TGTATCGATACA
1 TGTATCGATACA
27466 ACACTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:27461 original size:32 final size:33
Alignment explanation
Indices: 27420--27485 Score: 116
Period size: 32 Copynumber: 2.0 Consensus size: 33
27410 AGTAGCTTAA
27420 ATTGTATCGATACAAAAC-TTATGTATCGATAC
1 ATTGTATCGATACAAAACTTTATGTATCGATAC
*
27452 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAAAACTTTATGTATCGATAC
27485 A
1 A
27486 AATCGTTGAA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 17 0.53
33 15 0.47
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.35
Consensus pattern (33 bp):
ATTGTATCGATACAAAACTTTATGTATCGATAC
Found at i:28265 original size:53 final size:53
Alignment explanation
Indices: 28208--28746 Score: 158
Period size: 49 Copynumber: 10.3 Consensus size: 53
28198 ATATGCGGCT
* * *
28208 AGCGATATTGGGCTTGAAGATGAAAAAAAAAGACAATGTGCTGATTCATGGCC
1 AGCGATATTGGGCTTAAAGATGAAAAAAAAAGACAATATGCTGATTCAAGGCC
* * * *** *
28261 AGCGACATTGGGTTTTAAAGATG-ATAAAGGTGCCAATATGCTGATTCAAGGCC
1 AGCGATATTGGG-CTTAAAGATGAAAAAAAAAGACAATATGCTGATTCAAGGCC
* * ** * *
28314 AGCAATATTGGACTTAAAGATGAAAATGAGATAAGTGAAAAAGATGCCAATATGTTGATTCACGG
1 AGCGATATTGGGCTT-AA-A-G---ATGA-A-AA---AAAAAGA-CA--ATATGCTGATTCAAGG
28379 CC
52 CC
* * * * *
28381 AACGATATT-GGCTTAAAGATGAGAAAAAGGATGTCAATGTGCTGATTCAAGGCC
1 AGCGATATTGGGCTTAAAGATGA-AAAAA-AAAGACAATATGCTGATTCAAGGCC
* * ** * *** *
28435 AGCTACATTGAACTTAAAGATG-GAAAAGGTGCCAATATGCTGATTCAAGGCC
1 AGCGATATTGGGCTTAAAGATGAAAAAAAAAGACAATATGCTGATTCAAGGCC
* * * * *
28487 AGCTATATTGGACTTAAAG--G--------TGCCAATGTGCTGATTCAAGGCC
1 AGCGATATTGGGCTTAAAGATGAAAAAAAAAGACAATATGCTGATTCAAGGCC
* * * ** *
28530 AGCTACATTGGACTT-AA-A-G-AAAAAAGTGCCAATATGCTGATTCAAGGCC
1 AGCGATATTGGGCTTAAAGATGAAAAAAAAAGACAATATGCTGATTCAAGGCC
** * * *** * * *
28579 AGTTATATTGGACTTAAAGGTG----AAGGTGCCAATGTGCTGATTCAAGGCT
1 AGCGATATTGGGCTTAAAGATGAAAAAAAAAGACAATATGCTGATTCAAGGCC
* * * * *** *
28628 AGCGACATTGGACATAAAGATG-ACAAAGGCGCCAATATGCTGATTCAAGGCC
1 AGCGATATTGGGCTTAAAGATGAAAAAAAAAGACAATATGCTGATTCAAGGCC
* *** *
28680 AGCGATATTGGACTTAAAGAT----AAAGGTGCCAATATGCTGATTCAAGGCC
1 AGCGATATTGGGCTTAAAGATGAAAAAAAAAGACAATATGCTGATTCAAGGCC
*
28729 AGCGATATTGGACTTAAA
1 AGCGATATTGGGCTTAAA
28747 AGTGCCAATG
Statistics
Matches: 389, Mismatches: 65, Indels: 68
0.75 0.12 0.13
Matches are distributed among these distances:
42 3 0.01
43 36 0.09
49 121 0.31
50 3 0.01
52 85 0.22
53 49 0.13
54 30 0.08
55 11 0.03
56 2 0.01
57 2 0.01
58 3 0.01
59 2 0.01
60 7 0.02
61 1 0.00
63 1 0.00
64 4 0.01
65 2 0.01
66 4 0.01
67 23 0.06
ACGTcount: A:0.36, C:0.15, G:0.25, T:0.24
Consensus pattern (53 bp):
AGCGATATTGGGCTTAAAGATGAAAAAAAAAGACAATATGCTGATTCAAGGCC
Found at i:28578 original size:49 final size:49
Alignment explanation
Indices: 28353--28839 Score: 523
Period size: 49 Copynumber: 10.0 Consensus size: 49
28343 GATAAGTGAA
* * * * *
28353 AAAGATGCCAATATGTTGATTCACGGCCAACGATATTGG-CTTAAAGAT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAT
* * * *
28401 GAGAAAAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGAT
1 -----AAAGG-TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAT
28456 GGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGAC-T-----T
1 ---AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAT
* * *
28502 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAA
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAT
* * *
28551 AAAAGTGCCAATATGCTGATTCAAGGCCAGTTATATTGGACTTAAAGGT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAT
* * * * * *
28600 GAAGGTGCCAATGTGCTGATTCAAGGCTAGCGACATTGGACATAAAGAT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAT
* *
28649 GACAAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT
1 ---AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAT
*
28701 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A-
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAT
* *
28745 AAA-GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAT
* *
28793 GAAGGTTCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG
28840 GGGTTGCCAT
Statistics
Matches: 371, Mismatches: 46, Indels: 38
0.82 0.10 0.08
Matches are distributed among these distances:
43 75 0.20
44 4 0.01
45 1 0.00
46 1 0.00
47 1 0.00
48 2 0.01
49 165 0.44
51 1 0.00
52 75 0.20
53 11 0.03
54 26 0.07
55 9 0.02
ACGTcount: A:0.34, C:0.17, G:0.24, T:0.25
Consensus pattern (49 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAT
Found at i:28594 original size:92 final size:94
Alignment explanation
Indices: 28405--28839 Score: 465
Period size: 92 Copynumber: 4.5 Consensus size: 94
28395 AAAGATGAGA
* * *
28405 AAAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCAA
1 AAAAGG-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA--GAAAAAGTGCCAA
28470 TATGCTGATTCAAGGCCAGCTATATTGGACTT
63 TATGCTGATTCAAGGCCAGCTATATTGGACTT
28502 -AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA-AAAAAGTGCCAATAT
1 AAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAGAAAAAGTGCCAATAT
*
28565 GCTGATTCAAGGCCAGTTATATTGGACTT
66 GCTGATTCAAGGCCAGCTATATTGGACTT
* * * * *
28594 AAAGGTGAAGGTGCCAATGTGCTGATTCAAGGCTAGCGACATTGGACATAAAGATGACAAAGGCG
1 -AA----AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA-GA-AAAAGTG
*
28659 CCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
59 CCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
* * *
28695 AAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT-------AAAAGTGCC
1 ----A-AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAGAAAAAGTGCC
* *
28753 AATGTGCTGATTCAAGGCCAGCTACATTGGACTT
61 AATATGCTGATTCAAGGCCAGCTATATTGGACTT
* * *
28787 AAAGATGAAGGTTCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG
1 --A-A--AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAG
28840 GGGTTGCCAT
Statistics
Matches: 294, Mismatches: 25, Indels: 39
0.82 0.07 0.11
Matches are distributed among these distances:
90 3 0.01
92 120 0.41
94 1 0.00
95 41 0.14
96 5 0.02
98 44 0.15
100 1 0.00
101 77 0.26
104 1 0.00
105 1 0.00
ACGTcount: A:0.34, C:0.17, G:0.24, T:0.25
Consensus pattern (94 bp):
AAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAGAAAAAGTGCCAATAT
GCTGATTCAAGGCCAGCTATATTGGACTT
Found at i:28692 original size:193 final size:189
Alignment explanation
Indices: 28352--28839 Score: 588
Period size: 193 Copynumber: 2.5 Consensus size: 189
28342 AGATAAGTGA
* * * * * *
28352 AAAAGATGCCAATATGTTGATTCACGGCCAACGATATTGG-CTTAAAGATGAGAAAAAGGATGTC
1 AAAAG-TGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT--G---AAGG-TGCC
* *
28416 AATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCAATATGCTGATTC
59 AATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGCGCCAATATGCTGATTC
* * *
28481 AAGGCCAGCTATATTGGAC-T-TAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACT
124 AAGGCCAGCGATATTGGACTTATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACT
28544 T
189 T
* * *
28545 AAAGAAAAAAGTGCCAATATGCTGATTCAAGGCCAGTTATATTGGACTTAAAGGTGAAGGTGCCA
1 ------AAAAGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCA
* * *
28610 ATGTGCTGATTCAAGGCTAGCGACATTGGACATAAAGAT-GACAAAGGCGCCAATATGCTGATTC
60 ATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGGA-AAAGGCGCCAATATGCTGATTC
*
28674 AAGGCCAGCGATATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTG
124 AAGGCCAGCGATATTGGACTT----ATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTG
28739 GACTT
185 GACTT
* * *
28744 AAAAGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTTCCAATATGC
1 AAAAGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGTGC
*
28809 TGATTCAAGGCCAGCTATATTGGACTTAAAG
66 TGATTCAAGGCCAGCTACATTGGACTTAAAG
28840 GGGTTGCCAT
Statistics
Matches: 255, Mismatches: 26, Indels: 22
0.84 0.09 0.07
Matches are distributed among these distances:
192 2 0.01
193 164 0.64
194 5 0.02
197 1 0.00
198 29 0.11
199 54 0.21
ACGTcount: A:0.34, C:0.17, G:0.24, T:0.25
Consensus pattern (189 bp):
AAAAGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGTGC
TGATTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGCGCCAATATGCTGATTCAAGGCCA
GCGATATTGGACTTATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTT
Found at i:28879 original size:32 final size:33
Alignment explanation
Indices: 28841--28904 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 33
28831 GACTTAAAGG
*
28841 GGTTGCCATCGACTTGTGTGGGC-TTTGAAAAA
1 GGTTGCCACCGACTTGTGTGGGCTTTTGAAAAA
28873 GGTTGCCACCGACTTGTGTGGGCTTTTGAAAA
1 GGTTGCCACCGACTTGTGTGGGCTTTTGAAAA
28905 GGAGAAATAT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 22 0.73
33 8 0.27
ACGTcount: A:0.20, C:0.17, G:0.31, T:0.31
Consensus pattern (33 bp):
GGTTGCCACCGACTTGTGTGGGCTTTTGAAAAA
Found at i:28940 original size:34 final size:32
Alignment explanation
Indices: 28913--29475 Score: 258
Period size: 32 Copynumber: 17.7 Consensus size: 32
28903 AAGGAGAAAT
*
28913 ATGCCACGGAGTTGTAGACTTAAAAAG----G
1 ATGCCACGGAGTTGTGGACTTAAAAAGAAAAG
* * *
28941 -TGCCACAGAATTGTGGACTTAAAAGGGAAAAAG
1 ATGCCACGGAGTTGTGGACTTAAAA-AG-AAAAG
* * *
28974 AGTGCCACAGAGTTGTGGGCTTTGAAAAG--AAG
1 A-TGCCACGGAGTTGTGGAC-TTAAAAAGAAAAG
* *
29006 ATGCCACGGAGTTGTGGACTTTGAAAGGAACAAG
1 ATGCCACGGAGTTGTGGAC-TTAAAAAGAA-AAG
* *
29040 GTGCCACAGG-GTCGTGGACTTAAAAAGAAAAG
1 ATGCCAC-GGAGTTGTGGACTTAAAAAGAAAAG
* * * *
29072 GTGCCACGGAGTGGTGGGCTTTGAAAAGAAAAAG
1 ATGCCACGGAGTTGTGGAC-TTAAAAAG-AAAAG
* *
29106 GTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAG
1 ATGCCACGGAGTTGTGGAC-TTAAAAAG-AAAAG
* * *
29140 GTGCCACGGAGTTGTGGACTTAAAAGGAACAAA
1 ATGCCACGGAGTTGTGGACTTAAAAAGAA-AAG
*
29173 ATGCCACGGGGTTGTGGACTT-AAAAG----G
1 ATGCCACGGAGTTGTGGACTTAAAAAGAAAAG
* * * * **
29200 GTGCCACGAAGTTATGGGCTTTAAAGGGAAAAAG
1 ATGCCACGGAGTTGTGGAC-TTAAAAAG-AAAAG
* *
29234 AGTGCCACGGAGTTGTGGGCTTTAAAAG----G
1 A-TGCCACGGAGTTGTGGACTTAAAAAGAAAAG
* * *
29263 GTGCCACGAAGTTGTGGACTTAGAAGGGAAAAAAAG
1 ATGCCACGGAGTTGTGGACTTA-AA---AAGAAAAG
* * **
29299 -TACCACGGAGTTGTGGGCTT-TGAAGAAAAGG
1 ATGCCACGGAGTTGTGGACTTAAAAAGAAAA-G
* * ** *
29330 ATGCCACTGAGTCGTGGACTT-TGAAGAAAAA
1 ATGCCACGGAGTTGTGGACTTAAAAAGAAAAG
* * **
29361 ATGCCACTGAGTCGTGGACTT--TGAGACAAA-
1 ATGCCACGGAGTTGTGGACTTAAAAAGA-AAAG
* * *
29391 ATGCCACTGAGTCGTGGACTT-TAAAGAAAAGG
1 ATGCCACGGAGTTGTGGACTTAAAAAGAAAA-G
* * **
29423 ATGCCACTGAGTCGTGGACTT-TGAAGAAAAGG
1 ATGCCACGGAGTTGTGGACTTAAAAAGAAAA-G
* *
29455 ATGCCACTGAGTCGTGGACTT
1 ATGCCACGGAGTTGTGGACTT
29476 TGAGAAGAAA
Statistics
Matches: 435, Mismatches: 61, Indels: 74
0.76 0.11 0.13
Matches are distributed among these distances:
27 35 0.08
28 21 0.05
29 6 0.01
30 33 0.08
31 54 0.12
32 106 0.24
33 44 0.10
34 78 0.18
35 52 0.12
36 6 0.01
ACGTcount: A:0.33, C:0.14, G:0.32, T:0.21
Consensus pattern (32 bp):
ATGCCACGGAGTTGTGGACTTAAAAAGAAAAG
Found at i:29018 original size:31 final size:31
Alignment explanation
Indices: 28971--29544 Score: 264
Period size: 31 Copynumber: 18.0 Consensus size: 31
28961 AAAAGGGAAA
* *
28971 AAGAGTGCCACAGAGTTGTGGGCTTTGAAAAG
1 AAGA-TGCCACGGAGTTGTGGACTTTGAAAAG
*
29003 AAGATGCCACGGAGTTGTGGACTTTGAAAGGAAC
1 AAGATGCCACGGAGTTGTGGACTTTG-AA--AAG
* * *
29037 AAGGTGCCACAGG-GTCGTGGAC-TTAAAAAG
1 AAGATGCCAC-GGAGTTGTGGACTTTGAAAAG
* * *
29067 AAAAGGTGCCACGGAGTGGTGGGCTTTGAAAAG
1 --AAGATGCCACGGAGTTGTGGACTTTGAAAAG
* * *
29100 AAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAG
1 ---AAGATGCCACGGAGTTGTGGACTTTGAAAAG
* ** *
29134 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAC
1 ---AAGATGCCACGGAGTTGTGGACTTTGAA--AAG
* *
29170 AAAATGCCACGGGGTTGTGGAC-TT-AAAAG
1 AAGATGCCACGGAGTTGTGGACTTTGAAAAG
* * * * * *
29199 --GGTGCCACGAAGTTATGGGCTTTAAAGGGAAA
1 AAGATGCCACGGAGTTGTGGACTTTGAA---AAG
*
29231 AAGAGTGCCACGGAGTTGTGGGCTTT-AAAAG
1 AAGA-TGCCACGGAGTTGTGGACTTTGAAAAG
* * * *
29262 --GGTGCCACGAAGTTGTGGACTTAGAAGGGAAA
1 AAGATGCCACGGAGTTGTGGACTTTGAA---AAG
* * *
29294 AAAAGTACCACGGAGTTGTGGGCTTTGAAGAA-
1 AAGA-TGCCACGGAGTTGTGGACTTTGAA-AAG
* *
29326 AAGGATGCCACTGAGTCGTGGACTTTGAAGAA-
1 AA-GATGCCACGGAGTTGTGGACTTTGAA-AAG
* * * *
29358 AAAATGCCACTGAGTCGTGGACTTTGAGACA-
1 AAGATGCCACGGAGTTGTGGACTTTGA-AAAG
* * *
29389 AA-ATGCCACTGAGTCGTGGACTTT-AAAGAA
1 AAGATGCCACGGAGTTGTGGACTTTGAAA-AG
* *
29419 AAGGATGCCACTGAGTCGTGGACTTTGAAGAA-
1 AA-GATGCCACGGAGTTGTGGACTTTGAA-AAG
* * *
29451 AAGGATGCCACTGAGTCGTGGACTTTGAGAAG
1 AA-GATGCCACGGAGTTGTGGACTTTGAAAAG
* * *
29483 AA-ATTGCCACTGAGTCGTGGACTTTGAGAAG
1 AAGA-TGCCACGGAGTTGTGGACTTTGAAAAG
* * *
29514 AA-ATTGCCACTGAGTCGTGGACTTTAAAAAG
1 AAGA-TGCCACGGAGTTGTGGACTTTGAAAAG
29545 GTATTTGAAG
Statistics
Matches: 453, Mismatches: 53, Indels: 73
0.78 0.09 0.13
Matches are distributed among these distances:
27 14 0.03
28 21 0.05
29 9 0.02
30 27 0.06
31 111 0.25
32 110 0.24
33 35 0.08
34 83 0.18
35 41 0.09
36 2 0.00
ACGTcount: A:0.33, C:0.14, G:0.32, T:0.21
Consensus pattern (31 bp):
AAGATGCCACGGAGTTGTGGACTTTGAAAAG
Found at i:29043 original size:100 final size:98
Alignment explanation
Indices: 28934--29507 Score: 365
Period size: 100 Copynumber: 5.9 Consensus size: 98
28924 TTGTAGACTT
* *
28934 AAAAAGGTGCCACAGAATTGTGGACTTAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTGA
1 AAAAAGGTGCCACAGAGTTGTGGACTTAAAA-GGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGA
* *
28999 AAAGAAGATGCCACGGAGTTGTGGACTTTGAAAGG
65 AAAGAAGGTGCCACGGAGTTGTGGGCTTT-AAAGG
* * * * *
29034 AACAAGGTGCCACAGGGTCGTGGACTTAAAAAG-AAAAG-GTGCCACGGAGTGGTGGGCTTTGAA
1 AAAAAGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAA
*
29097 AAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAG
66 AAG---AAGGTGCCACGGAGTTGTGGGCTTT-AAAGG
* * *
29134 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAACAAA-A-TGCCACGGGGTTGTGGAC-TT-A
1 AAAAAGGTGCCACAGAGTTGTGGACTTAAAAGGAA-AAAGAGTGCCACGGAGTTGTGGGCTTTGA
* *
29195 AAAG--GGTGCCACGAAGTTATGGGCTTTAAAGGG
65 AAAGAAGGTGCCACGGAGTTGTGGGCTTTAAA-GG
* * * * *
29228 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAA-G-----G-GTGCCACGAAGTTGTGGACTTAG
1 AAAAAG-GTGCCACAGAGTTGTGGAC-TTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTG
* * * *
29286 AAGGGAAAAAAAGTACCACGGAGTTGTGGGCTTTGAA-G
64 -A---AAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAGG
* * ** * * *
29324 -AAAAGGATGCCACTGAGTCGTGGACTTTGAA-GAAAAA-A-TGCCACTGAGTCGTGGACTTTGA
1 AAAAAGG-TGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGA
* * *
29385 GACAA-AA--TGCCACTGAGTCGTGGACTTTAAA-G
65 -A-AAGAAGGTGCCACGGAGTTGTGGGCTTTAAAGG
* * ** * * * *
29417 -AAAAGGATGCCACTGAGTCGTGGACTTTGAA-GAAAAGGA-TGCCACTGAGTCGTGGACTTTGA
1 AAAAAGG-TGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGA
* ** * * *
29479 GAAGAAATTGCCACTGAGTCGTGGACTTT
65 AAAGAAGGTGCCACGGAGTTGTGGGCTTT
29508 GAGAAGAAAT
Statistics
Matches: 395, Mismatches: 48, Indels: 67
0.77 0.09 0.13
Matches are distributed among these distances:
90 16 0.04
91 1 0.00
92 2 0.01
93 62 0.16
94 58 0.15
95 64 0.16
96 12 0.03
97 27 0.07
98 44 0.11
99 6 0.02
100 84 0.21
101 16 0.04
102 3 0.01
ACGTcount: A:0.33, C:0.14, G:0.32, T:0.21
Consensus pattern (98 bp):
AAAAAGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAA
AAGAAGGTGCCACGGAGTTGTGGGCTTTAAAGG
Found at i:29352 original size:32 final size:30
Alignment explanation
Indices: 29301--29538 Score: 311
Period size: 31 Copynumber: 7.6 Consensus size: 30
29291 AAAAAAAGTA
* * *
29301 CCACGGAGTTGTGGGCTTTGAAGAAAAGGATG
1 CCACTGAGTCGTGGACTTTGAAGAAAA--ATG
29333 CCACTGAGTCGTGGACTTTGAAGAAAAAATG
1 CCACTGAGTCGTGGACTTTGAAG-AAAAATG
29364 CCACTGAGTCGTGGACTTTG-AGACAAAATG
1 CCACTGAGTCGTGGACTTTGAAGA-AAAATG
*
29394 CCACTGAGTCGTGGACTTTAAAGAAAAGGATG
1 CCACTGAGTCGTGGACTTTGAAGAAAA--ATG
29426 CCACTGAGTCGTGGACTTTGAAGAAAAGGATG
1 CCACTGAGTCGTGGACTTTGAAGAAAA--ATG
29458 CCACTGAGTCGTGGACTTTG-AGAAGAAATTG
1 CCACTGAGTCGTGGACTTTGAAGAA-AAA-TG
29489 CCACTGAGTCGTGGACTTTG-AGAAGAAATTG
1 CCACTGAGTCGTGGACTTTGAAGAA-AAA-TG
29520 CCACTGAGTCGTGGACTTT
1 CCACTGAGTCGTGGACTTT
29539 AAAAAGGTAT
Statistics
Matches: 194, Mismatches: 5, Indels: 15
0.91 0.02 0.07
Matches are distributed among these distances:
29 1 0.01
30 31 0.16
31 82 0.42
32 76 0.39
33 4 0.02
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.24
Consensus pattern (30 bp):
CCACTGAGTCGTGGACTTTGAAGAAAAATG
Found at i:29360 original size:63 final size:64
Alignment explanation
Indices: 28914--29538 Score: 367
Period size: 63 Copynumber: 9.8 Consensus size: 64
28904 AGGAGAAATA
* * * * **
28914 TGCCACGGAGTTGTAGAC-TT--A-AAAAGG-TGCCACAGAATTGTGGACTTAAAAGGGAAAAAG
1 TGCCACGGAGTTGTGGACTTTGAAGAAAAGGATGCCACTGAGTCGTGGACTTTGAA-GG-AAAA-
28974 AG
63 AG
* * * *
28976 TGCCACAGAGTTGTGGGCTTTGAA-AAGAA-GATGCCACGGAGTTGTGGACTTTGAAAGGAACAA
1 TGCCACGGAGTTGTGGACTTTGAAGAA-AAGGATGCCACTGAGTCGTGGACTTTG-AAGGAA-AA
*
29039 GG
63 AG
* ** * * * *
29041 TGCCACAGG-GTCGTGGACTTAAAAAGAAAAGG-TGCCACGGAGTGGTGGGCTTTGAAAAGAAAA
1 TGCCAC-GGAGTTGTGGACTT-TGAAGAAAAGGATGCCACTGAGTCGTGGACTTTG-AAGGAAAA
29104 AGG
63 A-G
* * * * **
29107 TGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGG-TGCCACGGAGTTGTGGACTTAAAAGGAACA
1 TGCCACGGAGTTGTGGACTTT--GAAG-AAAAGGATGCCACTGAGTCGTGGACTTTGAAGGAA-A
*
29171 AAA
62 AAG
* * ** * *
29174 TGCCACGGGGTTGTGGAC-TT----AAAAGGGTGCCAC-GAAGTTATGGGCTTTAAAGGGAAAAA
1 TGCCACGGAGTTGTGGACTTTGAAGAAAAGGATGCCACTG-AGTCGTGGACTTTGAA-GG-AAAA
29233 GAG
63 -AG
* * * *
29236 TGCCACGGAGTTGTGGGCTTT----AAAAGGGTGCCAC-GAAGTTGTGGACTTAGAAGGGAAAAA
1 TGCCACGGAGTTGTGGACTTTGAAGAAAAGGATGCCACTG-AGTCGTGGACTTTGAA-GG--AAA
29296 AAG
62 AAG
* * *
29299 TACCACGGAGTTGTGGGCTTTGAAGAAAAGGATGCCACTGAGTCGTGGACTTTGAA-GAAAAAA
1 TGCCACGGAGTTGTGGACTTTGAAGAAAAGGATGCCACTGAGTCGTGGACTTTGAAGGAAAAAG
* * * *
29362 TGCCACTGAGTCGTGGACTTTG-AGACAAA--ATGCCACTGAGTCGTGGACTTT-AAAGAAAAGG
1 TGCCACGGAGTTGTGGACTTTGAAGA-AAAGGATGCCACTGAGTCGTGGACTTTGAAGGAAAAAG
* *
29423 ATGCCACTGAGTCGTGGACTTTGAAGAAAAGGATGCCACTGAGTCGTGGACTTTG-A-GAAGAAA
1 -TGCCACGGAGTTGTGGACTTTGAAGAAAAGGATGCCACTGAGTCGTGGACTTTGAAGGAA-AAA
*
29486 T
64 G
* *
29487 TGCCACTGAGTCGTGGACTTTG-AGAAGAA--ATTGCCACTGAGTCGTGGACTTT
1 TGCCACGGAGTTGTGGACTTTGAAGAA-AAGGA-TGCCACTGAGTCGTGGACTTT
29539 AAAAAGGTAT
Statistics
Matches: 473, Mismatches: 51, Indels: 78
0.79 0.08 0.13
Matches are distributed among these distances:
59 7 0.01
60 21 0.04
61 32 0.07
62 87 0.18
63 112 0.24
64 30 0.06
65 27 0.06
66 73 0.15
67 56 0.12
68 28 0.06
ACGTcount: A:0.32, C:0.15, G:0.32, T:0.21
Consensus pattern (64 bp):
TGCCACGGAGTTGTGGACTTTGAAGAAAAGGATGCCACTGAGTCGTGGACTTTGAAGGAAAAAG
Found at i:29460 original size:125 final size:126
Alignment explanation
Indices: 29301--29541 Score: 407
Period size: 125 Copynumber: 1.9 Consensus size: 126
29291 AAAAAAAGTA
* *
29301 CCACGGAGTTGTGGGCTTTGAAGAAAAGGATGCCACTGAGTCGTGGACTTTGAAGAA-AAAATGC
1 CCACGGAGTCGTGGACTTTGAAGAAAAGGATGCCACTGAGTCGTGGACTTTG-AGAAGAAAATGC
29365 CACTGAGTCGTGGACTTTGAGACA-AAA-TGCCACTGAGTCGTGGACTTTAAAGAAAAGGATG
65 CACTGAGTCGTGGACTTTGAGA-AGAAATTGCCACTGAGTCGTGGACTTTAAAGAAAAGGATG
* *
29426 CCACTGAGTCGTGGACTTTGAAGAAAAGGATGCCACTGAGTCGTGGACTTTGAGAAGAAATTGCC
1 CCACGGAGTCGTGGACTTTGAAGAAAAGGATGCCACTGAGTCGTGGACTTTGAGAAGAAAATGCC
29491 ACTGAGTCGTGGACTTTGAGAAGAAATTGCCACTGAGTCGTGGACTTTAAA
66 ACTGAGTCGTGGACTTTGAGAAGAAATTGCCACTGAGTCGTGGACTTTAAA
29542 AAGGTATTTG
Statistics
Matches: 109, Mismatches: 4, Indels: 5
0.92 0.03 0.04
Matches are distributed among these distances:
124 5 0.05
125 80 0.73
126 24 0.22
ACGTcount: A:0.31, C:0.17, G:0.29, T:0.24
Consensus pattern (126 bp):
CCACGGAGTCGTGGACTTTGAAGAAAAGGATGCCACTGAGTCGTGGACTTTGAGAAGAAAATGCC
ACTGAGTCGTGGACTTTGAGAAGAAATTGCCACTGAGTCGTGGACTTTAAAGAAAAGGATG
Found at i:30848 original size:19 final size:19
Alignment explanation
Indices: 30821--30869 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
30811 TGATTTTGCC
* * *
30821 TTTGCACTTTTTTTTTTGTT
1 TTTG-ACTTTTGTTTGTGTG
30841 TTTGACTTTTGTTTGTGTG
1 TTTGACTTTTGTTTGTGTG
30860 TTT-ACTTTTG
1 TTTGACTTTTG
30870 ACTGTTCTGG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
18 7 0.27
19 15 0.58
20 4 0.15
ACGTcount: A:0.06, C:0.08, G:0.16, T:0.69
Consensus pattern (19 bp):
TTTGACTTTTGTTTGTGTG
Found at i:35743 original size:51 final size:52
Alignment explanation
Indices: 35663--35783 Score: 156
Period size: 51 Copynumber: 2.3 Consensus size: 52
35653 GAGATAACAA
* * *
35663 CGGGGGTAGAGTATCCCCGATTATGGAAAAA-CGGTGTTTTAAAAAATAAAAT
1 CGGGGTTAGAGTATCCCCGATTATGGAAAAATCGATGTTTT-AAAAATAAAAC
* *
35715 CGGGGTTAGAGTATCCCCGATTAT-GAAAAATTGATGTTTTAGAAATAAAAC
1 CGGGGTTAGAGTATCCCCGATTATGGAAAAATCGATGTTTTAAAAATAAAAC
* *
35766 CGGGATTGGAGTATCCCC
1 CGGGGTTAGAGTATCCCC
35784 TCGGAAATAA
Statistics
Matches: 61, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
51 31 0.51
52 30 0.49
ACGTcount: A:0.35, C:0.14, G:0.25, T:0.26
Consensus pattern (52 bp):
CGGGGTTAGAGTATCCCCGATTATGGAAAAATCGATGTTTTAAAAATAAAAC
Found at i:35848 original size:79 final size:79
Alignment explanation
Indices: 35715--36064 Score: 601
Period size: 79 Copynumber: 4.4 Consensus size: 79
35705 AAAATAAAAT
* *
35715 CGGGGTTAGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGATTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
*
35780 CCCCTCGGAAATAA
66 CCCCTCGAAAATAA
* *
35794 CAGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
*
35859 CCCCTCGGAAATAA
66 CCCCTCGAAAATAA
* * * *
35873 TGGGGTTGGAGTATCCCCGATTGTGAAAAATTAATATTTTAGAAATAAAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
35938 CCCCTCGAAAATAA
66 CCCCTCGAAAATAA
*
35952 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAGCCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
36017 CCCCTCGAAAATAA
66 CCCCTCGAAAATAA
36031 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGA
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGA
36065 GAAACTTAAC
Statistics
Matches: 255, Mismatches: 16, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
79 255 1.00
ACGTcount: A:0.33, C:0.15, G:0.26, T:0.27
Consensus pattern (79 bp):
CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
CCCCTCGAAAATAA
Found at i:37335 original size:27 final size:27
Alignment explanation
Indices: 37282--37480 Score: 258
Period size: 27 Copynumber: 7.1 Consensus size: 27
37272 TTCCATCATT
*
37282 CCATGCCTTCA-TTTCTTATTCCATGC
1 CCATGCCTTCATTTTTTTATTCCATGC
*
37308 CAATGCCTTCATTTTTTTATTCCATGCCCATCATC
1 CCATGCCTTCATTTTTTTATTCCATG--------C
*
37343 CCATGCCTTCAATTTTTTATTCCATGC
1 CCATGCCTTCATTTTTTTATTCCATGC
*
37370 CCATACCTTCATTTTTTTATTCCATGC
1 CCATGCCTTCATTTTTTTATTCCATGC
37397 CCATGCCTTCATTTTTTTATTCCATGC
1 CCATGCCTTCATTTTTTTATTCCATGC
*
37424 CCATACCTTCA-TTTTTTATTCCATGC
1 CCATGCCTTCATTTTTTTATTCCATGC
*
37450 CCATGCCTTTATTTTTTTATTCCATGC
1 CCATGCCTTCATTTTTTTATTCCATGC
37477 CCAT
1 CCAT
37481 CATCCCGTGT
Statistics
Matches: 153, Mismatches: 10, Indels: 19
0.84 0.05 0.10
Matches are distributed among these distances:
26 34 0.22
27 94 0.61
35 25 0.16
ACGTcount: A:0.18, C:0.31, G:0.06, T:0.46
Consensus pattern (27 bp):
CCATGCCTTCATTTTTTTATTCCATGC
Found at i:37443 original size:53 final size:54
Alignment explanation
Indices: 37342--37480 Score: 253
Period size: 53 Copynumber: 2.6 Consensus size: 54
37332 TGCCCATCAT
*
37342 CCCATGCCTTCAATTTTTTATTCCATGCCCATACCTTCATTTTTTTATTCCATG
1 CCCATGCCTTCATTTTTTTATTCCATGCCCATACCTTCATTTTTTTATTCCATG
37396 CCCATGCCTTCATTTTTTTATTCCATGCCCATACCTTCA-TTTTTTATTCCATG
1 CCCATGCCTTCATTTTTTTATTCCATGCCCATACCTTCATTTTTTTATTCCATG
*
37449 CCCATGCCTTTATTTTTTTATTCCATGCCCAT
1 CCCATGCCTTCATTTTTTTATTCCATGCCCAT
37481 CATCCCGTGT
Statistics
Matches: 83, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
53 45 0.54
54 38 0.46
ACGTcount: A:0.17, C:0.30, G:0.06, T:0.47
Consensus pattern (54 bp):
CCCATGCCTTCATTTTTTTATTCCATGCCCATACCTTCATTTTTTTATTCCATG
Found at i:37493 original size:27 final size:27
Alignment explanation
Indices: 37355--37495 Score: 116
Period size: 27 Copynumber: 5.2 Consensus size: 27
37345 ATGCCTTCAA
37355 TTTTTTATTCCATGCCCAT-A-CCTTCAT
1 TTTTTTATTCCATGCCCATCATCC--CAT
* *
37382 TTTTTTATTCCATGCCCATGCCT-TCAT
1 TTTTTTATTCCATGCCCAT-CATCCCAT
37409 TTTTTTATTCCATGCCCAT-A-CCTTCA-
1 TTTTTTATTCCATGCCCATCATCC--CAT
* **
37435 TTTTTTATTCCATGCCCATGCCT-TTAT
1 TTTTTTATTCCATGCCCAT-CATCCCAT
*
37462 TTTTTTATTCCATGCCCATCATCCCGT
1 TTTTTTATTCCATGCCCATCATCCCAT
37489 GTTTTTT
1 -TTTTTT
37496 TTTTATTTCT
Statistics
Matches: 91, Mismatches: 11, Indels: 23
0.73 0.09 0.18
Matches are distributed among these distances:
26 22 0.24
27 63 0.69
28 6 0.07
ACGTcount: A:0.16, C:0.28, G:0.06, T:0.50
Consensus pattern (27 bp):
TTTTTTATTCCATGCCCATCATCCCAT
Found at i:37776 original size:170 final size:171
Alignment explanation
Indices: 37494--37827 Score: 546
Period size: 170 Copynumber: 2.0 Consensus size: 171
37484 CCCGTGTTTT
* *
37494 TTTTTTATTTCTTGATTTTTAAACCGAAAATTAACTCGATTAATTGCGACTTCTCCGAGCCTCCG
1 TTTTTTATTCCTTGATTTTCAAACCGAAAATTAACTCGATTAATTGCGACTTCTCCGAGCCTCCG
* * *
37559 AGAAAAGCTAAAAAAAAATATTGACTGATGCAATTTACTCTTATCCGAT-AAAATGAATATTCGG
66 AGAAAAGCTAAAAAAAAACATCGACTGATGCAATGTACTCTTATCCGATAAAAATGAATATTCGG
* * *
37623 TTAGTTATGAAATCTCGGATATCTAAAATTTCAAACCTTCA
131 TCAATTATGAAATCTCGGATATCCAAAATTTCAAACCTTCA
*
37664 TTTTTTATTCCTTGATTTTCAAACTGAAAATTAACTCGATTAATTGCGACTTCTCCG-GACCTCC
1 TTTTTTATTCCTTGATTTTCAAACCGAAAATTAACTCGATTAATTGCGACTTCTCCGAG-CCTCC
*
37728 GAGAAAAGCTTAAAAAAAACATCGACTGATGCAATGTACTCTTATCCGATAAAAATGAATATTCG
65 GAGAAAAGCTAAAAAAAAACATCGACTGATGCAATGTACTCTTATCCGATAAAAATGAATATTCG
*
37793 GTCAATTATGAAATCTGGGATATCCAAAATTTCAA
130 GTCAATTATGAAATCTCGGATATCCAAAATTTCAA
37828 GAAAATGACC
Statistics
Matches: 151, Mismatches: 11, Indels: 3
0.92 0.07 0.02
Matches are distributed among these distances:
169 1 0.01
170 105 0.70
171 45 0.30
ACGTcount: A:0.36, C:0.18, G:0.13, T:0.34
Consensus pattern (171 bp):
TTTTTTATTCCTTGATTTTCAAACCGAAAATTAACTCGATTAATTGCGACTTCTCCGAGCCTCCG
AGAAAAGCTAAAAAAAAACATCGACTGATGCAATGTACTCTTATCCGATAAAAATGAATATTCGG
TCAATTATGAAATCTCGGATATCCAAAATTTCAAACCTTCA
Found at i:38540 original size:38 final size:37
Alignment explanation
Indices: 38439--38578 Score: 199
Period size: 37 Copynumber: 3.8 Consensus size: 37
38429 ACGAAATACA
* * * **
38439 TCCTGCTCTCTAAGGTCAAAAGAAAAAGGAAAGTGCG
1 TCCTGCTCTTTGAGGACAAAAGAAAAAATAAAGTGCG
*
38476 TCTTGCTCTTTGAGGACAAAAGAAAAAATAAAGTGCG
1 TCCTGCTCTTTGAGGACAAAAGAAAAAATAAAGTGCG
38513 TCCTGCTCTTTGAGGACAAAAGAAAAAAATAAAGTGCG
1 TCCTGCTCTTTGAGGACAAAAG-AAAAAATAAAGTGCG
* *
38551 TCCTGCTTTTTGAGGACAAAAGAGAAAA
1 TCCTGCTCTTTGAGGACAAAAGAAAAAA
38579 GAAGGAAAAA
Statistics
Matches: 93, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
37 57 0.61
38 36 0.39
ACGTcount: A:0.40, C:0.16, G:0.22, T:0.22
Consensus pattern (37 bp):
TCCTGCTCTTTGAGGACAAAAGAAAAAATAAAGTGCG
Found at i:38563 original size:75 final size:74
Alignment explanation
Indices: 38439--38578 Score: 199
Period size: 75 Copynumber: 1.9 Consensus size: 74
38429 ACGAAATACA
* * *
38439 TCCTGCTCTCTAAGGTCAAAAGAAAAAGGAAAGTGCGTCTTGCTCTTTGAGGACAAAAGAAAAAA
1 TCCTGCTCTCTAAGGACAAAAGAAAAAAGAAAGTGCGTCCTGCTCTTTGAGGACAAAAGAAAAAA
38504 TAAAGTGCG
66 TAAAGTGCG
* * * * *
38513 TCCTGCTCTTTGAGGACAAAAGAAAAAAATAAAGTGCGTCCTGCTTTTTGAGGACAAAAGAGAAA
1 TCCTGCTCTCTAAGGACAAAAG-AAAAAAGAAAGTGCGTCCTGCTCTTTGAGGACAAAAGAAAAA
38578 A
65 A
38579 GAAGGAAAAA
Statistics
Matches: 57, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
74 19 0.33
75 38 0.67
ACGTcount: A:0.40, C:0.16, G:0.22, T:0.22
Consensus pattern (74 bp):
TCCTGCTCTCTAAGGACAAAAGAAAAAAGAAAGTGCGTCCTGCTCTTTGAGGACAAAAGAAAAAA
TAAAGTGCG
Found at i:38844 original size:61 final size:60
Alignment explanation
Indices: 38754--38949 Score: 226
Period size: 61 Copynumber: 3.3 Consensus size: 60
38744 AAAGAAGTGT
* * * *
38754 GTCCAGCTCTTTGACGACTGAAAAGTGCCACCAACTCGTGTGGTCTTTGAAAAGAAAAGGC
1 GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTAGTGTGGGCTTTGAAAA-AAAAGGC
* * *
38815 GTCCTGCTCTTTGAGGACTG-GAAGATGCCACTAACTAGTGTGGGATTTGCAAAAAGAAA-GC
1 GTCCTGCTCTTTGAGGACTGAAAAG-TGCCACCAACTAGTGTGGGCTTTG-AAAAA-AAAGGC
* *
38876 ATCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT-----AAAAGGC
1 GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTAGTGTGGGCTTTGAAAAAAAAGGC
38931 GTCCTGCTCTTTGAGGACT
1 GTCCTGCTCTTTGAGGACT
38950 AAAGGGTGAA
Statistics
Matches: 117, Mismatches: 13, Indels: 16
0.80 0.09 0.11
Matches are distributed among these distances:
54 3 0.03
55 21 0.18
60 3 0.03
61 80 0.68
62 10 0.09
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (60 bp):
GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTAGTGTGGGCTTTGAAAAAAAAGGC
Found at i:39054 original size:55 final size:55
Alignment explanation
Indices: 38970--39265 Score: 343
Period size: 55 Copynumber: 5.3 Consensus size: 55
38960 AGGGGAGAGT
* *
38970 GTCCTGCTCTTTGAGGA-CTAGGAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
1 GTCCTGCTCTTTGAGGACCGA-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
*
39025 GTCCTGCTCTTTGAGGACCGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAAAGAAA
1 GTCCTGCTCTTTGAGGACCGAAAGGTGCCACCAACTTGTGTGGGCTTT---AAAAG-GA
* * *
39084 GCATCATGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGC
1 G--TCCTGCTCTTTGAGGACCGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
* *
39140 GTCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTAAAAGGCA
1 GTCCTGCTCTTTGAGGAC-CGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGG-A
* * * * *
39196 -TCCTACTCTTTGAGGA-CTAAAAGTGCCACCAACTTGTGTAGGC-TTAAAAGGC
1 GTCCTGCTCTTTGAGGACCGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
*
39248 GTCCTACTCTTTGAGGAC
1 GTCCTGCTCTTTGAGGAC
39266 TAAAGGGTGA
Statistics
Matches: 211, Mismatches: 17, Indels: 27
0.83 0.07 0.11
Matches are distributed among these distances:
53 27 0.13
54 35 0.17
55 88 0.42
56 5 0.02
57 5 0.02
58 5 0.02
59 2 0.01
60 27 0.13
61 17 0.08
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.27
Consensus pattern (55 bp):
GTCCTGCTCTTTGAGGACCGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
Found at i:39191 original size:27 final size:27
Alignment explanation
Indices: 39110--39191 Score: 65
Period size: 27 Copynumber: 3.0 Consensus size: 27
39100 GGACTGAAGG
39110 TGCCACCAACTTGTGTGGGCTTTAAAA
1 TGCCACCAACTTGTGTGGGCTTTAAAA
* ** ** * * * **
39137 GGCGTCCTGCTCTTTGAGGACTGGAAAA
1 TGCCACCAACT-TGTGTGGGCTTTAAAA
39165 TGCCACCAACTTGTGTGGGCTTTAAAA
1 TGCCACCAACTTGTGTGGGCTTTAAAA
39192 GGCATCCTAC
Statistics
Matches: 34, Mismatches: 20, Indels: 2
0.61 0.36 0.04
Matches are distributed among these distances:
27 17 0.50
28 17 0.50
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.28
Consensus pattern (27 bp):
TGCCACCAACTTGTGTGGGCTTTAAAA
Found at i:39216 original size:26 final size:26
Alignment explanation
Indices: 39187--39269 Score: 82
Period size: 26 Copynumber: 3.2 Consensus size: 26
39177 GTGTGGGCTT
39187 TAAAAGGCATCCTACTCTTTGAGGAC
1 TAAAAGGCATCCTACTCTTTGAGGAC
* *
39213 TAAAAGTGCCA-CCAACT-TGTGTAGG-C
1 TAAAAG-G-CATCCTACTCTTTG-AGGAC
*
39239 TTAAAAGGCGTCCTACTCTTTGAGGAC
1 -TAAAAGGCATCCTACTCTTTGAGGAC
39266 TAAA
1 TAAA
39270 GGGTGAGAGA
Statistics
Matches: 45, Mismatches: 5, Indels: 14
0.70 0.08 0.22
Matches are distributed among these distances:
25 1 0.02
26 23 0.51
27 19 0.42
28 2 0.04
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (26 bp):
TAAAAGGCATCCTACTCTTTGAGGAC
Found at i:39371 original size:56 final size:54
Alignment explanation
Indices: 39289--39421 Score: 194
Period size: 56 Copynumber: 2.4 Consensus size: 54
39279 AAAAGAATGT
**
39289 CCTGCTCTTTGAGGACTAGGGAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAA
1 CCTGCTCTTTGAGGACTAAAG-GTGCCACCAACTTGTGTGGGCTTTAAAAGGAG-A
* * *
39345 CCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGT
1 CCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGA
39400 CCTGCTCTTTGAGGACTAAAGG
1 CCTGCTCTTTGAGGACTAAAGG
39422 GCAAAAGGAG
Statistics
Matches: 71, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
54 5 0.07
55 17 0.24
56 47 0.66
57 2 0.03
ACGTcount: A:0.23, C:0.21, G:0.30, T:0.26
Consensus pattern (54 bp):
CCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGA
Found at i:39529 original size:99 final size:99
Alignment explanation
Indices: 39345--39590 Score: 371
Period size: 99 Copynumber: 2.5 Consensus size: 99
39335 AAAAGGAGAA
*
39345 CCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-----GA-AAGGCGTCCT
1 CCTGCTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTGT-GGCTTTAAAAGGAGAAGGCGTCCT
*
39403 GCTCTTTGAGGACTAAAGGGCAAAAGGAGAGAGTGT
64 GCTCTTTGAGGACTAAAGGGCAAAAGGAGAGAGCGT
*
39439 CCTGCTCTTTGAGGACTAGGGAGTGCCACCAACTTGTGTGGCTTTAAAAGGAGAAGGCGTCCTGC
1 CCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGCTTTAAAAGGAGAAGGCGTCCTGC
** *
39504 TCTTTGAGGACTAAAGGGTGAAAGGAGGGAGCGT
66 TCTTTGAGGACTAAAGGGCAAAAGGAGAGAGCGT
39538 CCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGCTTTAAAAGGAG
1 CCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGCTTTAAAAGGAG
39591 TCCTGCTCTT
Statistics
Matches: 138, Mismatches: 7, Indels: 9
0.90 0.05 0.06
Matches are distributed among these distances:
93 6 0.04
94 34 0.25
95 2 0.01
98 2 0.01
99 94 0.68
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.24
Consensus pattern (99 bp):
CCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGCTTTAAAAGGAGAAGGCGTCCTGC
TCTTTGAGGACTAAAGGGCAAAAGGAGAGAGCGT
Found at i:39555 original size:249 final size:241
Alignment explanation
Indices: 39196--39669 Score: 727
Period size: 249 Copynumber: 1.9 Consensus size: 241
39186 TTAAAAGGCA
39196 TCCTACTCTTTGAGGACTAAAAGTGCCACCAACTTGTGTAGGCTTAAAAGGCGTCCTACTCTTTG
1 TCCTACTCTTTGAGGACTAAAAGTGCCACCAACTTGTGTAGGCTTAAAAGGCGTCCTACTCTTTG
* * *
39261 AGGACTAAAGGGTGAGAGAAAAGAATGTCCTGCTCTTTGAGGACTAGGGAGTGCCACCAACTTGT
66 AGGACTAAAGGGTGAAAGAAAAGAACGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGT
39326 GTGGGCTTTAAAAGGAGAACCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT
131 GT-GGCTTTAAAAGGAG-ACCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT
*
39391 GAAAGGCGTCCTGCTCTTTGAGGACT-AAAGGGCAAAAGGAGAGAGTG
194 GAAAGGAGTCCTGCTCTTTGAGGACTGAAAGGGCAAAAGGAGAGAGTG
* **
39438 TCCTGCTCTTTGAGGACTAGGGAGTGCCACCAACTTGTGT-GGCTTTAAAAGGAGAAGGCGTCCT
1 TCCTACTCTTTGAGGACTA-AAAGTGCCACCAACTTGTGTAGGC-TT---A--A-AAGGCGTCCT
* * ** *
39502 GCTCTTTGAGGACTAAAGGGTGAAAGGAGGGAGCGTCCTGCTCTTTGAGGACTAGGAAGTGCCAC
58 ACTCTTTGAGGACTAAAGGGTGAAAGAAAAGAACGTCCTGCTCTTTGAGGACTAGGAAGTGCCAC
*
39567 CAACTTGTGTGGCTTTAAAAGGAGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTG
123 CAACTTGTGTGGCTTTAAAAGGAGACCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTG
39632 GGCTTTGAAAGGAGTCCTGCTCTTTGAGGACTGAAAGG
188 GGCTTTGAAAGGAGTCCTGCTCTTTGAGGACTGAAAGG
39670 TGCCACCAAC
Statistics
Matches: 210, Mismatches: 13, Indels: 12
0.89 0.06 0.05
Matches are distributed among these distances:
242 21 0.10
243 20 0.10
246 1 0.00
247 71 0.34
248 20 0.10
249 77 0.37
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (241 bp):
TCCTACTCTTTGAGGACTAAAAGTGCCACCAACTTGTGTAGGCTTAAAAGGCGTCCTACTCTTTG
AGGACTAAAGGGTGAAAGAAAAGAACGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGT
GTGGCTTTAAAAGGAGACCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGA
AAGGAGTCCTGCTCTTTGAGGACTGAAAGGGCAAAAGGAGAGAGTG
Found at i:39661 original size:55 final size:55
Alignment explanation
Indices: 39536--39723 Score: 319
Period size: 55 Copynumber: 3.5 Consensus size: 55
39526 AGGAGGGAGC
* *
39536 GTCCTGCTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTGT-GGCTTTAAAAGGA
1 GTCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGA
39590 GTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGA
1 GTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGA
*
39645 GTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGC
1 GTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGA
39700 GTCCTGCTCTTTGAGGACT-AAAGG
1 GTCCTGCTCTTTGAGGACTGAAAGG
39724 GCAAAAGGAG
Statistics
Matches: 129, Mismatches: 3, Indels: 4
0.95 0.02 0.03
Matches are distributed among these distances:
53 3 0.02
54 41 0.32
55 85 0.66
ACGTcount: A:0.22, C:0.21, G:0.30, T:0.28
Consensus pattern (55 bp):
GTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGA
Found at i:39669 original size:26 final size:26
Alignment explanation
Indices: 39584--39669 Score: 75
Period size: 26 Copynumber: 3.2 Consensus size: 26
39574 TGTGGCTTTA
39584 AAAGGAGTCCTGCTCTTTGAGGACTG
1 AAAGGAGTCCTGCTCTTTGAGGACTG
* ** * * *
39610 AAAGGTG-CCACCAACTTGTGTGGGCTTTG
1 AAAGGAGTCCTGC-TCTT-TGAGGAC--TG
39639 AAAGGAGTCCTGCTCTTTGAGGACTG
1 AAAGGAGTCCTGCTCTTTGAGGACTG
39665 AAAGG
1 AAAGG
39670 TGCCACCAAC
Statistics
Matches: 43, Mismatches: 12, Indels: 10
0.66 0.18 0.15
Matches are distributed among these distances:
25 3 0.07
26 16 0.37
27 5 0.12
28 5 0.12
29 11 0.26
30 3 0.07
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.26
Consensus pattern (26 bp):
AAAGGAGTCCTGCTCTTTGAGGACTG
Found at i:39745 original size:203 final size:205
Alignment explanation
Indices: 39437--39877 Score: 683
Period size: 203 Copynumber: 2.1 Consensus size: 205
39427 AGGAGAGAGT
**
39437 GTCCTGCTCTTTGAGGACTAGGGAGTGCCACCAACTTGTGTGGCTTTAAAAGGAGAAGGCGTCCT
1 GTCCTGCTCTTTGAGGACTAAAGAGTGCCACCAACTTGTGTGGCTTT---A-GAGAAGGCGTCCT
** *
39502 GCTCTTTGAGGACTAAAGGGTGAAAGGAGGGAGCGTCCTGCTCTTTGAGGACTAGGAAGTGCCAC
62 GCTCTTTGAGGACTAAAGGGCAAAAGGAGAGAGCGTCCTGCTCTTTGAGGACTAGGAAGTGCCAC
39567 CAACTTGTGT-GGCTTTAAAAGGAGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGT
127 CAACTTGTGTGGGCTTTAAAAGGAGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGT
*
39631 GGGCTTTGAAAGGA
192 GGGCTTTAAAAGGA
39645 GTCCTGCTCTTTGAGGACTGAAAG-GTGCCACCAACTTGTGTGGGCTTT-GA-AAGGCGTCCTGC
1 GTCCTGCTCTTTGAGGACT-AAAGAGTGCCACCAACTTGTGT-GGCTTTAGAGAAGGCGTCCTGC
*
39707 TCTTTGAGGACTAAAGGGCAAAAGGAGAGAGTGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCA
64 TCTTTGAGGACTAAAGGGCAAAAGGAGAGAGCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCA
39772 ACTTGTGTGGGCTTTAAAAGGAGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGG
129 ACTTGTGTGGGCTTTAAAAGGAGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGG
39837 GCTTTAAAAGGAGAA
194 GCTTTAAAA-G-G-A
39852 GGCGTCCTGCTCTTTGAGGACTAAAG
1 ---GTCCTGCTCTTTGAGGACTAAAG
39878 GGTGAAAGGA
Statistics
Matches: 217, Mismatches: 7, Indels: 17
0.90 0.03 0.07
Matches are distributed among these distances:
203 81 0.37
204 66 0.30
205 1 0.00
206 1 0.00
207 1 0.00
208 36 0.17
209 12 0.06
210 19 0.09
ACGTcount: A:0.24, C:0.20, G:0.31, T:0.26
Consensus pattern (205 bp):
GTCCTGCTCTTTGAGGACTAAAGAGTGCCACCAACTTGTGTGGCTTTAGAGAAGGCGTCCTGCTC
TTTGAGGACTAAAGGGCAAAAGGAGAGAGCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAAC
TTGTGTGGGCTTTAAAAGGAGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGC
TTTAAAAGGA
Found at i:39804 original size:55 final size:55
Alignment explanation
Indices: 39739--39849 Score: 197
Period size: 55 Copynumber: 2.0 Consensus size: 55
39729 AGGAGAGAGT
*
39739 GTCCTGCTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGA
1 GTCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
39794 GTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
1 GTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
39849 G
1 G
39850 AAGGCGTCCT
Statistics
Matches: 54, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
54 3 0.06
55 51 0.94
ACGTcount: A:0.23, C:0.20, G:0.30, T:0.27
Consensus pattern (55 bp):
GTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
Found at i:39806 original size:94 final size:95
Alignment explanation
Indices: 39645--39818 Score: 298
Period size: 94 Copynumber: 1.8 Consensus size: 95
39635 TTTGAAAGGA
* *
39645 GTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCT
1 GTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTGCTCT
39710 TTGAGGACT-AAAGGGCAAAAGGAGAGAGT
66 TTGAGGACTGAAAGGGCAAAAGGAGAGAGT
*
39739 GTCCTGCTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTGCTC
1 GTCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTGCTC
39803 TTTGAGGACTGAAAGG
65 TTTGAGGACTGAAAGG
39819 TGCCACCAAC
Statistics
Matches: 75, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
94 67 0.89
95 8 0.11
ACGTcount: A:0.24, C:0.20, G:0.31, T:0.26
Consensus pattern (95 bp):
GTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTGCTCT
TTGAGGACTGAAAGGGCAAAAGGAGAGAGT
Found at i:39967 original size:100 final size:100
Alignment explanation
Indices: 39794--39979 Score: 320
Period size: 100 Copynumber: 1.9 Consensus size: 100
39784 TTTAAAAGGA
* *
39794 GTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCC
1 GTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGGCGTCC
39859 TGCTCTTTGAGGACTAAAGGGTGAAAGGAGGGAGC
66 TGCTCTTTGAGGACTAAAGGGTGAAAGGAGGGAGC
*
39894 GTCCTGCTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGGCGTC
1 GTCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGGCGTC
*
39958 CTGCTCTTTGAGGACTGAAGGG
65 CTGCTCTTTGAGGACTAAAGGG
39980 CTAAAAGAGG
Statistics
Matches: 81, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
100 78 0.96
101 3 0.04
ACGTcount: A:0.25, C:0.19, G:0.32, T:0.24
Consensus pattern (100 bp):
GTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGGCGTCC
TGCTCTTTGAGGACTAAAGGGTGAAAGGAGGGAGC
Found at i:46149 original size:52 final size:51
Alignment explanation
Indices: 46059--46179 Score: 154
Period size: 51 Copynumber: 2.4 Consensus size: 51
46049 GAGATAACAA
* * *
46059 CGGGGCTAGAGTATCCCCGATTATGGAAAAACGGTGTTTTAAAAAATAAAAT
1 CGGGGTTAGAGTATCCCCGATTATGGAAAAACGATGTTTT-AAAAATAAAAC
* *
46111 CGGGGTTAGAGTATCCCCGATTAT-GAAAAATTGATGTTTTAGAAATAAAAC
1 CGGGGTTAGAGTATCCCCGATTATGGAAAAA-CGATGTTTTAAAAATAAAAC
* *
46162 CGGGATTGGAGTATCCCC
1 CGGGGTTAGAGTATCCCC
46180 TCAGAAATAA
Statistics
Matches: 61, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
51 31 0.51
52 30 0.49
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.26
Consensus pattern (51 bp):
CGGGGTTAGAGTATCCCCGATTATGGAAAAACGATGTTTTAAAAATAAAAC
Found at i:46244 original size:79 final size:79
Alignment explanation
Indices: 46111--46460 Score: 592
Period size: 79 Copynumber: 4.4 Consensus size: 79
46101 AAAATAAAAT
* *
46111 CGGGGTTAGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGATTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
*
46176 CCCCTCAGAAATAA
66 CCCCTCGGAAATAA
* *
46190 CAGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
46255 CCCCTCGGAAATAA
66 CCCCTCGGAAATAA
* * * * *
46269 TGGGGTTGGAGTATCCCCGATTGTGAAAAATTAATATTTTAGAAATAAAACTGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
*
46334 CCCCTCGAAAATAA
66 CCCCTCGGAAATAA
*
46348 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAGCCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
46413 CCCCTCGGAAATAA
66 CCCCTCGGAAATAA
46427 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGA
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGA
46461 GAAACTTAAC
Statistics
Matches: 251, Mismatches: 20, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
79 251 1.00
ACGTcount: A:0.33, C:0.15, G:0.26, T:0.27
Consensus pattern (79 bp):
CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
CCCCTCGGAAATAA
Found at i:47085 original size:35 final size:35
Alignment explanation
Indices: 47046--47112 Score: 125
Period size: 35 Copynumber: 1.9 Consensus size: 35
47036 TTATTCCATG
*
47046 CCCATGCCTTCATTTTTTTATTCCATGCCCATCAT
1 CCCATGCCTTCAATTTTTTATTCCATGCCCATCAT
47081 CCCATGCCTTCAATTTTTTATTCCATGCCCAT
1 CCCATGCCTTCAATTTTTTATTCCATGCCCAT
47113 GCCTTCATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.18, C:0.34, G:0.06, T:0.42
Consensus pattern (35 bp):
CCCATGCCTTCAATTTTTTATTCCATGCCCATCAT
Found at i:47115 original size:62 final size:62
Alignment explanation
Indices: 47013--47192 Score: 254
Period size: 62 Copynumber: 3.1 Consensus size: 62
47003 CTTCCTTTTT
* *
47013 CCATCATTCCATGCCTTC-ATTTCTTATTCCATGCCCATGCCTTCATTTTTTTATTCCATGC
1 CCATCATCCCATGCCTTCAATTTTTTATTCCATGCCCATGCCTTCATTTTTTTATTCCATGC
47074 CCATCATCCCATGCCTTCAATTTTTTATTCCATGCCCATGCCTTCATTTTTTTATTCCATG-
1 CCATCATCCCATGCCTTCAATTTTTTATTCCATGCCCATGCCTTCATTTTTTTATTCCATGC
* *
47135 -------CCCATGCCTTCATTTTTTTATTCCATGCCCATACCTTCA-TTTTTTATTCCATGC
1 CCATCATCCCATGCCTTCAATTTTTTATTCCATGCCCATGCCTTCATTTTTTTATTCCATGC
47189 CCAT
1 CCAT
47193 GCCTTTATTT
Statistics
Matches: 109, Mismatches: 4, Indels: 15
0.85 0.03 0.12
Matches are distributed among these distances:
53 14 0.13
54 37 0.34
61 17 0.16
62 41 0.38
ACGTcount: A:0.17, C:0.32, G:0.06, T:0.44
Consensus pattern (62 bp):
CCATCATCCCATGCCTTCAATTTTTTATTCCATGCCCATGCCTTCATTTTTTTATTCCATGC
Found at i:47182 original size:53 final size:54
Alignment explanation
Indices: 47021--47219 Score: 267
Period size: 53 Copynumber: 3.6 Consensus size: 54
47011 TTCCATCATT
* *
47021 CCATGCCTTCA-TTTCTTATTCCATGCCCATGCCTTCATTTTTTTATTCCATGCCCATCATC
1 CCATGCCTTCATTTTTTTATTCCATGCCCATACCTTCATTTTTTTATTCCATG--------C
* *
47082 CCATGCCTTCAATTTTTTATTCCATGCCCATGCCTTCATTTTTTTATTCCATGC
1 CCATGCCTTCATTTTTTTATTCCATGCCCATACCTTCATTTTTTTATTCCATGC
47136 CCATGCCTTCATTTTTTTATTCCATGCCCATACCTTCA-TTTTTTATTCCATGC
1 CCATGCCTTCATTTTTTTATTCCATGCCCATACCTTCATTTTTTTATTCCATGC
*
47189 CCATGCCTTTATTTTTTTATTCCATGCCCAT
1 CCATGCCTTCATTTTTTTATTCCATGCCCAT
47220 CATCCCGTGT
Statistics
Matches: 133, Mismatches: 4, Indels: 10
0.90 0.03 0.07
Matches are distributed among these distances:
53 45 0.34
54 37 0.28
61 11 0.08
62 40 0.30
ACGTcount: A:0.17, C:0.31, G:0.07, T:0.46
Consensus pattern (54 bp):
CCATGCCTTCATTTTTTTATTCCATGCCCATACCTTCATTTTTTTATTCCATGC
Found at i:47233 original size:27 final size:27
Alignment explanation
Indices: 47021--47219 Score: 276
Period size: 27 Copynumber: 7.1 Consensus size: 27
47011 TTCCATCATT
*
47021 CCATGCCTTCA-TTTCTTATTCCATGC
1 CCATGCCTTCATTTTTTTATTCCATGC
47047 CCATGCCTTCATTTTTTTATTCCATGCCCATCATC
1 CCATGCCTTCATTTTTTTATTCCATG--------C
*
47082 CCATGCCTTCAATTTTTTATTCCATGC
1 CCATGCCTTCATTTTTTTATTCCATGC
47109 CCATGCCTTCATTTTTTTATTCCATGC
1 CCATGCCTTCATTTTTTTATTCCATGC
47136 CCATGCCTTCATTTTTTTATTCCATGC
1 CCATGCCTTCATTTTTTTATTCCATGC
*
47163 CCATACCTTCA-TTTTTTATTCCATGC
1 CCATGCCTTCATTTTTTTATTCCATGC
*
47189 CCATGCCTTTATTTTTTTATTCCATGC
1 CCATGCCTTCATTTTTTTATTCCATGC
47216 CCAT
1 CCAT
47220 CATCCCGTGT
Statistics
Matches: 157, Mismatches: 6, Indels: 19
0.86 0.03 0.10
Matches are distributed among these distances:
26 35 0.22
27 96 0.61
35 26 0.17
ACGTcount: A:0.17, C:0.31, G:0.07, T:0.46
Consensus pattern (27 bp):
CCATGCCTTCATTTTTTTATTCCATGC
Found at i:47233 original size:80 final size:81
Alignment explanation
Indices: 47081--47233 Score: 229
Period size: 80 Copynumber: 1.9 Consensus size: 81
47071 TGCCCATCAT
* * *
47081 CCCATGCCTTCAATTTTTTATTCCATGCCCATGCCTTCATTTTTTTATTCCATGCCCATGCCTTC
1 CCCATACCTTCAATTTTTTATTCCATGCCCATGCCTTCATTTTTTTATTCCATGCCCATGCATCC
*
47146 ATTTTTTTATTCCATG
66 ATGTTTTTATTCCATG
*
47162 CCCATACCTTC-ATTTTTTATTCCATGCCCATGCCTTTATTTTTTTATTCCATGCCCAT-CATCC
1 CCCATACCTTCAATTTTTTATTCCATGCCCATGCCTTCATTTTTTTATTCCATGCCCATGCAT-C
*
47225 CGTGTTTTT
65 CATGTTTTT
47234 TTTTTATTTC
Statistics
Matches: 65, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
79 2 0.03
80 53 0.82
81 10 0.15
ACGTcount: A:0.16, C:0.30, G:0.07, T:0.47
Consensus pattern (81 bp):
CCCATACCTTCAATTTTTTATTCCATGCCCATGCCTTCATTTTTTTATTCCATGCCCATGCATCC
ATGTTTTTATTCCATG
Found at i:50815 original size:52 final size:52
Alignment explanation
Indices: 50734--50852 Score: 220
Period size: 52 Copynumber: 2.3 Consensus size: 52
50724 GAAAAGTTGT
*
50734 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
*
50786 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
50838 CTGCATGTATCGATA
1 CTGCATGTATCGATA
50853 TAAAGATCAG
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 65 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
Found at i:50867 original size:52 final size:52
Alignment explanation
Indices: 50734--50874 Score: 196
Period size: 52 Copynumber: 2.7 Consensus size: 52
50724 GAAAAGTTGT
*
50734 CTGCATGTATCGATACATTTA-ATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TAAGATAGTGTATCGATACATCTGGGCAAATTTGC
*** *
50786 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATAAGATAGTGTATCGATACATCTGGGCAAATTTGC
*
50838 CTGCATGTATCGATATA-AAGATCAGTGTATCGATACA
1 CTGCATGTATCGATACATAAGAT-AGTGTATCGATACA
50875 ATGTATCGAT
Statistics
Matches: 80, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
51 4 0.05
52 76 0.95
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.34
Consensus pattern (52 bp):
CTGCATGTATCGATACATAAGATAGTGTATCGATACATCTGGGCAAATTTGC
Found at i:50881 original size:13 final size:13
Alignment explanation
Indices: 50863--50887 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
50853 TAAAGATCAG
50863 TGTATCGATACAA
1 TGTATCGATACAA
50876 TGTATCGATACA
1 TGTATCGATACA
50888 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:51896 original size:50 final size:51
Alignment explanation
Indices: 51785--51920 Score: 152
Period size: 51 Copynumber: 2.7 Consensus size: 51
51775 ATTTAACTAG
* * * * * * *
51785 ATGTATTGATACATTGAAGAATATATC-ATTACATTTGGGTCAAAAACCAGA
1 ATGTATCGATACAATGAAAAATGTATCGA-TACATTTAGATCAAAAACCAAA
*
51836 ATGTATCGATACAATGAATAATGTATCGATACATTTAGATC-AAAACCAAA
1 ATGTATCGATACAATGAAAAATGTATCGATACATTTAGATCAAAAACCAAA
* *
51886 ATGTATCGATACAAT-AAAAAAGTATAGATACATTT
1 ATGTATCGATACAATGAAAAATGTATCGATACATTT
51921 TCTTTCTAGA
Statistics
Matches: 74, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
49 17 0.23
50 23 0.31
51 33 0.45
52 1 0.01
ACGTcount: A:0.45, C:0.12, G:0.13, T:0.30
Consensus pattern (51 bp):
ATGTATCGATACAATGAAAAATGTATCGATACATTTAGATCAAAAACCAAA
Found at i:55909 original size:79 final size:78
Alignment explanation
Indices: 55812--56055 Score: 294
Period size: 79 Copynumber: 3.1 Consensus size: 78
55802 GGCGTTTTGA
* *
55812 AAATAAAATCGGGGTTGGAGTATCCCCTCGAAAATAACGGGATTAGAGTATCCCCGATTGTGGAA
1 AAATAAAGTCGGGGTTGGAGTATCCCCTC-AAAATAACGGGATTGGAGTATCCCCGATTGTGGAA
55877 AATCGATGCTTTAG
65 AATCGATGCTTTAG
* * *
55891 AAATAAGGTCGGGGTTGGAGTATCCCCACCAAAATAACGGGGTTGGAGTATCCCCGATTGT-GAG
1 AAATAAAGTCGGGGTTGGAGTATCCCC-TCAAAATAACGGGATTGGAGTATCCCCGATTGTGGA-
* **
55955 AAATCAATATTTTAG
64 AAATCGATGCTTTAG
* * * * *
55970 AAATAAAGTCGGAGTTGGAGTATCCCCTCAGAAATAATGGGATTGGAGTATCCTCGATTATGAAA
1 AAATAAAGTCGGGGTTGGAGTATCCCCTCA-AAATAACGGGATTGGAGTATCCCCGATTGTGGAA
* *
56035 AATTGATG-TTTTG
65 AATCGATGCTTTAG
56048 TAAATAAA
1 -AAATAAA
56056 ACCAGGGCTA
Statistics
Matches: 140, Mismatches: 20, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
78 8 0.06
79 130 0.93
80 2 0.01
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.27
Consensus pattern (78 bp):
AAATAAAGTCGGGGTTGGAGTATCCCCTCAAAATAACGGGATTGGAGTATCCCCGATTGTGGAAA
ATCGATGCTTTAG
Found at i:58513 original size:20 final size:20
Alignment explanation
Indices: 58488--58563 Score: 143
Period size: 20 Copynumber: 3.8 Consensus size: 20
58478 ATGTATCGAT
*
58488 ACAATGTATGGATACAATGA
1 ACAATGTATCGATACAATGA
58508 ACAATGTATCGATACAATGA
1 ACAATGTATCGATACAATGA
58528 ACAATGTATCGATACAATGA
1 ACAATGTATCGATACAATGA
58548 ACAATGTATCGATACA
1 ACAATGTATCGATACA
58564 TCTGGGTAAA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
20 55 1.00
ACGTcount: A:0.45, C:0.14, G:0.16, T:0.25
Consensus pattern (20 bp):
ACAATGTATCGATACAATGA
Found at i:58546 original size:13 final size:13
Alignment explanation
Indices: 58477--58506 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
58467 GTAAACTCAG
58477 AATGTATCGATAC
1 AATGTATCGATAC
*
58490 AATGTATGGATAC
1 AATGTATCGATAC
58503 AATG
1 AATG
58507 AACAATGTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.40, C:0.10, G:0.20, T:0.30
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:62354 original size:15 final size:16
Alignment explanation
Indices: 62334--62369 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
62324 AGACAAAAAG
*
62334 AAGAAAAAT-AATAAA
1 AAGAAAAATAAAGAAA
62349 AAGAAAAATAAAGAAA
1 AAGAAAAATAAAGAAA
62365 AAGAA
1 AAGAA
62370 GAAGAAAAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.81, C:0.00, G:0.11, T:0.08
Consensus pattern (16 bp):
AAGAAAAATAAAGAAA
Found at i:66555 original size:16 final size:16
Alignment explanation
Indices: 66536--66669 Score: 58
Period size: 16 Copynumber: 8.4 Consensus size: 16
66526 AACTATTTTG
*
66536 AACAAGAGTTGTTCTA
1 AACAAGAGTTATTCTA
* * *
66552 AACAATAGTTATTTTG
1 AACAAGAGTTATTCTA
66568 AA-AAGAGTTATTCTA
1 AACAAGAGTTATTCTA
* * * *
66583 AATAAAAATTGTTCTA
1 AACAAGAGTTATTCTA
** **
66599 AATGAGAACTATTCTA
1 AACAAGAGTTATTCTA
* * *
66615 AACAAGA-TATGTTGTG
1 AACAAGAGT-TATTCTA
** *
66631 AATGAGA-TCTATTATA
1 AACAAGAGT-TATTCTA
*
66647 AACAAAAGTTATTCTA
1 AACAAGAGTTATTCTA
66663 AACAAGA
1 AACAAGA
66670 ACATTCCTGT
Statistics
Matches: 84, Mismatches: 31, Indels: 6
0.69 0.26 0.05
Matches are distributed among these distances:
15 12 0.14
16 71 0.85
17 1 0.01
ACGTcount: A:0.45, C:0.09, G:0.13, T:0.33
Consensus pattern (16 bp):
AACAAGAGTTATTCTA
Found at i:66582 original size:31 final size:32
Alignment explanation
Indices: 66511--66590 Score: 99
Period size: 32 Copynumber: 2.5 Consensus size: 32
66501 CTAGATAGAG
*
66511 GTTATTCTGAACAAAAACTATTTTGAACAAGA
1 GTTATTCTAAACAAAAACTATTTTGAACAAGA
* * **
66543 GTTGTTCTAAACAATAGTTATTTTGAA-AAGA
1 GTTATTCTAAACAAAAACTATTTTGAACAAGA
*
66574 GTTATTCTAAATAAAAA
1 GTTATTCTAAACAAAAA
66591 TTGTTCTAAA
Statistics
Matches: 39, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
31 17 0.44
32 22 0.56
ACGTcount: A:0.44, C:0.09, G:0.12, T:0.35
Consensus pattern (32 bp):
GTTATTCTAAACAAAAACTATTTTGAACAAGA
Found at i:67022 original size:18 final size:18
Alignment explanation
Indices: 66999--67040 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
66989 GAATCAAAAG
* *
66999 ATATAAAATTACTTTGTT
1 ATATAAAACTAATTTGTT
67017 ATATAAAACTAATTTGTT
1 ATATAAAACTAATTTGTT
*
67035 AAATAA
1 ATATAA
67041 TTTATATATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.48, C:0.05, G:0.05, T:0.43
Consensus pattern (18 bp):
ATATAAAACTAATTTGTT
Found at i:67802 original size:13 final size:14
Alignment explanation
Indices: 67764--67806 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
67754 ATCGATTTAC
*
67764 TTTGATTTGTTTGA
1 TTTGATTTATTTGA
*
67778 ATTGATTTATTTGA
1 TTTGATTTATTTGA
67792 TTTGA-TTATTTGA
1 TTTGATTTATTTGA
67805 TT
1 TT
67807 AAAGATTGAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
13 10 0.38
14 16 0.62
ACGTcount: A:0.21, C:0.00, G:0.16, T:0.63
Consensus pattern (14 bp):
TTTGATTTATTTGA
Found at i:75384 original size:78 final size:78
Alignment explanation
Indices: 75253--75745 Score: 459
Period size: 79 Copynumber: 6.3 Consensus size: 78
75243 TCCAAAACAT
* ** * * *
75253 CGTTATTTTCGAG-GGAATACTTTAACCCCGATTTTATTT-TCAGAACACCGA-TTTTCTACAAT
1 CGTTATTTTTGAGAGG-ATACTCCAA-CCCGGTTTTATTTCT-AAAACACTGATTTTTC-ACAAT
* *
75315 CGGGGATACTCTAACCC
62 CAGGGATACTCCAACCC
* * * *
75332 CGTTA-TTTTGAGAGGATACTCCAACTTCGGTTTTATTTCTAAAACACTGATTTTCCACCATCGG
1 CGTTATTTTTGAGAGGATACTCCAAC-CCGGTTTTATTTCTAAAACACTGATTTTTCACAATCAG
**
75396 GGATACTTTAACCC
65 GGATACTCCAACCC
** * *
75410 CGTTGGTTTCGAGAGGATACTTCAACCCCGGTTTTATTT-TCAAAACACTGATTTTTCACAATCA
1 CGTTATTTTTGAGAGGATACTCCAA-CCCGGTTTTATTTCT-AAAACACTGATTTTTCACAATCA
* *
75474 AGAATACTCCAA-CC
64 GGGATACTCCAACCC
* * * * *
75488 CATTATTTTTGAAAGGATACTCCAACCCTGGTTTTATTTCTAAAACACCGAATTTTCACAATCAT
1 CGTTATTTTTGAGAGGATACTCCAACCC-GGTTTTATTTCTAAAACACTGATTTTTCACAATCAG
*
75553 GGATATTCCAACCC
65 GGATACTCCAACCC
* * *
75567 CGTTATTTCTGA-AGAGATACTCAAACCCCGGCTTTATTTCTAAAACA-TCGATTTTTCACAATC
1 CGTTATTTTTGAGAG-GATACTCCAA-CCCGGTTTTATTTCTAAAACACT-GATTTTTCACAATC
*
75630 -GAGGATACTCCAATCC
63 AG-GGATACTCCAACCC
* * *
75646 CGTTATTTTTCA-AGGGATACTCCAACCCAGATTTTATTTTTAAAACACTGATTTTTCACCAA-C
1 CGTTATTTTTGAGA-GGATACTCCAACCC-GGTTTTATTTCTAAAACACTGATTTTTCA-CAATC
75709 AGGGATACTCCAACCCC
63 AGGGATACTCCAA-CCC
*
75726 CGTTATTTTTGAGGGGATAC
1 CGTTATTTTTGAGAGGATAC
75746 ACTAACCTCG
Statistics
Matches: 343, Mismatches: 50, Indels: 41
0.79 0.12 0.09
Matches are distributed among these distances:
77 4 0.01
78 122 0.36
79 188 0.55
80 29 0.08
ACGTcount: A:0.29, C:0.24, G:0.14, T:0.34
Consensus pattern (78 bp):
CGTTATTTTTGAGAGGATACTCCAACCCGGTTTTATTTCTAAAACACTGATTTTTCACAATCAGG
GATACTCCAACCC
Found at i:75557 original size:157 final size:158
Alignment explanation
Indices: 75253--75812 Score: 524
Period size: 157 Copynumber: 3.6 Consensus size: 158
75243 TCCAAAACAT
* * * *
75253 CGTTATTTTCGAG-GGAATACTTTAACCCCGATTTTATTTTCAGAACACCGA-TTTTCTACAATC
1 CGTTA-TTTCGAGAGG-ATACTTCAACCCCGGTTTTATTTTCAAAACACTGATTTTTC-ACAATC
* * * *
75316 GGGGATACTCTAACCCCGTTA-TTTTGAGAGGATACTCCAA-CTTCGGTTTTATTTCTAAAACAC
63 GAGGATACTCCAACCCCGTTATTTTTGAAAGGATACTCCAACCCT-GGTTTTATTTCTAAAACAC
* * *
75379 TG-ATTTTCCACCATCGGGGATACTT-TAACCC
127 TGAATTTT-CACAATCAGGGATACTTCCAACCC
* *
75410 CGTTGGTTTCGAGAGGATACTTCAACCCCGGTTTTATTTTCAAAACACTGATTTTTCACAATCAA
1 CGTT-ATTTCGAGAGGATACTTCAACCCCGGTTTTATTTTCAAAACACTGATTTTTCACAATCGA
* * *
75475 GAATACTCCAA-CCCATTATTTTTGAAAGGATACTCCAACCCTGGTTTTATTTCTAAAACACCGA
65 GGATACTCCAACCCCGTTATTTTTGAAAGGATACTCCAACCCTGGTTTTATTTCTAAAACACTGA
*
75539 ATTTTCACAATCATGGATA-TTCCAACCC
130 ATTTTCACAATCAGGGATACTTCCAACCC
*
75567 CGTTATTTCTGA-AGAGATAC-TCAAACCCCGGCTTTA-TTTCTAAAACA-TCGATTTTTCACAA
1 CGTTATTTC-GAGAG-GATACTTC-AACCCCGGTTTTATTTTC-AAAACACT-GATTTTTCACAA
* * * * * *
75628 TCGAGGATACTCCAATCCCGTTATTTTTCAAGGGATACTCCAACCCAGATTTTATTTTTAAAACA
61 TCGAGGATACTCCAACCCCGTTATTTTTGAAAGGATACTCCAACCCTGGTTTTATTTCTAAAACA
*
75693 CTGATTTTTCACCAA-CAGGGATAC-TCCAACCCC
126 CTGAATTTTCA-CAATCAGGGATACTTCCAA-CCC
* * * * * * * * * *
75726 CGTTATTTTTGAGGGGATAC-ACTAACCTCGATTTTGTTTCCAAAATA-TCAATTTTTCACCATC
1 CGTTA-TTTCGAGAGGATACTTC-AACCCCGGTTTTATTTTCAAAACACT-GATTTTTCACAATC
* *
75789 GAAGATTCTCCAACCCCGTT-TTTT
63 GAGGATACTCCAACCCCGTTATTTT
75813 CTCCAACATA
Statistics
Matches: 339, Mismatches: 45, Indels: 37
0.81 0.11 0.09
Matches are distributed among these distances:
156 21 0.06
157 165 0.49
158 82 0.24
159 64 0.19
160 7 0.02
ACGTcount: A:0.28, C:0.24, G:0.13, T:0.34
Consensus pattern (158 bp):
CGTTATTTCGAGAGGATACTTCAACCCCGGTTTTATTTTCAAAACACTGATTTTTCACAATCGAG
GATACTCCAACCCCGTTATTTTTGAAAGGATACTCCAACCCTGGTTTTATTTCTAAAACACTGAA
TTTTCACAATCAGGGATACTTCCAACCC
Found at i:75780 original size:80 final size:78
Alignment explanation
Indices: 75253--75812 Score: 403
Period size: 79 Copynumber: 7.1 Consensus size: 78
75243 TCCAAAACAT
* * * * *
75253 CGTTATTTTCG-AGGGAATACTTTAACCCCGATTTTATTT-TCAGAACACCGA-TTTTCTACAAT
1 CGTTATTTTTGAAGGG-ATAC-TCAAACCCGATTTTATTTCT-AAAACATCGATTTTTC-ACAAT
* *
75315 CGGGGATACTCTAACCC
62 CAGGGATACTCCAACCC
* * * * *
75332 CGTTA-TTTTG-AGAGGATACTCCAACTTCGGTTTTATTTCTAAAACA-CTGATTTTCCACCATC
1 CGTTATTTTTGAAG-GGATACTCAAAC-CCGATTTTATTTCTAAAACATC-GATTTTTCACAATC
* **
75394 GGGGATACTTTAACCC
63 AGGGATACTCCAACCC
** * * *
75410 CGTTGGTTTCG-AGAGGATACTTCAACCCCGGTTTTATTT-TCAAAACA-CTGATTTTTCACAAT
1 CGTTATTTTTGAAG-GGATAC-TCAAACCCGATTTTATTTCT-AAAACATC-GATTTTTCACAAT
* *
75472 CAAGAATACTCCAA-CC
62 CAGGGATACTCCAACCC
* * * * * * *
75488 CATTATTTTTGAAAGGATACTCCAACCCTGGTTTTATTTCTAAAACACCGAATTTTCACAATCAT
1 CGTTATTTTTGAAGGGATACTCAAACCC-GATTTTATTTCTAAAACATCGATTTTTCACAATCAG
*
75553 GGATATTCCAACCC
65 GGATACTCCAACCC
* * **
75567 CGTTATTTCTGAAGAGATACTCAAACCCCGGCTTTATTTCTAAAACATCGATTTTTCACAATC-G
1 CGTTATTTTTGAAGGGATACTCAAA-CCCGATTTTATTTCTAAAACATCGATTTTTCACAATCAG
*
75631 AGGATACTCCAATCC
65 -GGATACTCCAACCC
* * *
75646 CGTTATTTTTCAAGGGATACTCCAACCCAGATTTTATTTTTAAAACA-CTGATTTTTCACCAA-C
1 CGTTATTTTTGAAGGGATACTCAAACCC-GATTTTATTTCTAAAACATC-GATTTTTCA-CAATC
75709 AGGGATACTCCAACCCC
63 AGGGATACTCCAA-CCC
* * * * * * * *
75726 CGTTATTTTTGAGGGGATACACTAACCTCGATTTTGTTTCCAAAATATCAATTTTTCACCATC-G
1 CGTTATTTTTGAAGGGATACTCAAACC-CGATTTTATTTCTAAAACATCGATTTTTCACAATCAG
* *
75790 AAGATTCTCCAACCC
65 -GGATACTCCAACCC
75805 CGTT-TTTT
1 CGTTATTTT
75813 CTCCAACATA
Statistics
Matches: 393, Mismatches: 64, Indels: 49
0.78 0.13 0.10
Matches are distributed among these distances:
77 10 0.03
78 114 0.29
79 199 0.51
80 68 0.17
81 2 0.01
ACGTcount: A:0.28, C:0.24, G:0.13, T:0.34
Consensus pattern (78 bp):
CGTTATTTTTGAAGGGATACTCAAACCCGATTTTATTTCTAAAACATCGATTTTTCACAATCAGG
GATACTCCAACCC
Found at i:77817 original size:4 final size:4
Alignment explanation
Indices: 77808--77868 Score: 106
Period size: 4 Copynumber: 15.2 Consensus size: 4
77798 TTGAGGTGTG
77808 TATT TATT TATT TATT TATT TATT TATT TATT CT-TT TATT TATT TATT
1 TATT TATT TATT TATT TATT TATT TATT TATT -TATT TATT TATT TATT
77856 TATT TATT TATT T
1 TATT TATT TATT T
77869 TGTTTTGTTT
Statistics
Matches: 55, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
3 1 0.02
4 53 0.96
5 1 0.02
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.75
Consensus pattern (4 bp):
TATT
Found at i:88981 original size:11 final size:11
Alignment explanation
Indices: 88946--89000 Score: 58
Period size: 11 Copynumber: 4.9 Consensus size: 11
88936 TTAGATAAGA
88946 AAGAAAGAAAG
1 AAGAAAGAAAG
*
88957 AAGGAAGATGAAG
1 AAGAAAGA--AAG
88970 AAGAAAGAAAG
1 AAGAAAGAAAG
*
88981 AA-AAAGAAAA
1 AAGAAAGAAAG
*
88991 AAAAAAGAAA
1 AAGAAAGAAA
89001 AAATATGAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
10 9 0.24
11 19 0.50
13 10 0.26
ACGTcount: A:0.75, C:0.00, G:0.24, T:0.02
Consensus pattern (11 bp):
AAGAAAGAAAG
Found at i:88987 original size:17 final size:17
Alignment explanation
Indices: 88967--89002 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
88957 AAGGAAGATG
* *
88967 AAGAAGAAAGAAAGAAA
1 AAGAAAAAAAAAAGAAA
88984 AAGAAAAAAAAAAGAAA
1 AAGAAAAAAAAAAGAAA
89001 AA
1 AA
89003 ATATGAAATG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (17 bp):
AAGAAAAAAAAAAGAAA
Found at i:89139 original size:36 final size:36
Alignment explanation
Indices: 89092--89163 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
89082 TTTTTAGTTA
*
89092 AGAATTACCAAAACAGTTATTTGACTTGTTGATTTT
1 AGAATTACCAAAACAATTATTTGACTTGTTGATTTT
89128 AGAATTACCAAAACAATTATTTGACTTGTTGATTTT
1 AGAATTACCAAAACAATTATTTGACTTGTTGATTTT
89164 TTGGGTAATT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.35, C:0.11, G:0.12, T:0.42
Consensus pattern (36 bp):
AGAATTACCAAAACAATTATTTGACTTGTTGATTTT
Found at i:96872 original size:27 final size:27
Alignment explanation
Indices: 96835--97453 Score: 889
Period size: 27 Copynumber: 23.0 Consensus size: 27
96825 GTGGCATTTT
* *
96835 CTTTTAAAGTCCACAACTCTGTGGCATC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
*
96863 TTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
96890 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
96917 CTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
* * *
96945 CTTTTAAGTCCACAACTTCGTGGTATCT
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
*
96973 CTTTCAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
97000 CTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
97027 CTTTTAAGTCCACAACTCTGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
* *
97055 TTTTTAAGACCACAA---C-T-----C
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
97073 CTTTTAAGACCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* * **
97100 CTTTTAAGTCCACAACTCTGTGGAATT
1 CTTTTAAGTCCACAACTCCGTGGCACC
97127 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
97154 TTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
97181 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
97208 CTTTTAAGACCACAAC-CCTGTGGCACC
1 CTTTTAAGTCCACAACTCC-GTGGCACC
*
97235 CTTTTAAGTCAACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* * *
97262 CTTTTAAGTCCATAACTCCATGGCATCT
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
*
97290 CTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
97317 CTTTTAAAGTCCACAACTCCGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
*
97345 CTTTTAAGACCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
97372 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
97399 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
97426 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
97453 C
1 C
97454 ATTCCAAAGC
Statistics
Matches: 534, Mismatches: 42, Indels: 31
0.88 0.07 0.05
Matches are distributed among these distances:
18 15 0.03
21 1 0.00
22 1 0.00
24 1 0.00
26 2 0.00
27 395 0.74
28 119 0.22
ACGTcount: A:0.24, C:0.34, G:0.14, T:0.28
Consensus pattern (27 bp):
CTTTTAAGTCCACAACTCCGTGGCACC
Found at i:97079 original size:18 final size:18
Alignment explanation
Indices: 97056--97091 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
97046 GTGGCATCCT
97056 TTTTAAGACCACAACTCC
1 TTTTAAGACCACAACTCC
97074 TTTTAAGACCACAACTCC
1 TTTTAAGACCACAACTCC
97092 GTGGCACCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.33, G:0.06, T:0.28
Consensus pattern (18 bp):
TTTTAAGACCACAACTCC
Found at i:97491 original size:32 final size:31
Alignment explanation
Indices: 97436--98185 Score: 716
Period size: 28 Copynumber: 25.1 Consensus size: 31
97426 CTTTTAAGTC
* * *
97436 CACAACTCCGTGGCACCCATTCCAAAGCCCA
1 CACAAGTCAGTGGCACCCATTTCAAAGCCCA
* *
97467 CACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCAGTGGC-ACCCATTTCAAAGCCCA
*
97499 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCAGTGGC-ACCCATTTCAAAGCCCA
*
97531 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCAGTGGC-ACCCATTTCAAAGCCCA
*
97563 CACAAGTCAGTGGCAACCGATTTCAAAGCCCA
1 CACAAGTCAGTGGC-ACCCATTTCAAAGCCCA
*
97595 CACAAGTCAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTC-A----GTGGC-ACCCATTTCAAAGCCCA
* *
97632 CACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCAGTGGC-ACCCATTTCAAAGCCCA
* *
97664 CACAAGTCGGTGGTAACCCATTTCAAAGCCCA
1 CACAAGTCAGTGG-CACCCATTTCAAAGCCCA
97696 CACAAGTCAGTGGCACCC-TTTCAAAG-CC-
1 CACAAGTCAGTGGCACCCATTTCAAAGCCCA
* *
97724 CACAAGTTAGTGGCACCC-TTTCAGAG-CC-
1 CACAAGTCAGTGGCACCCATTTCAAAGCCCA
*
97752 CACAAGTCAGTGGCACCC-TTTCGAAG-CC-
1 CACAAGTCAGTGGCACCCATTTCAAAGCCCA
* *
97780 CACAAGTCAGTGGCA-CCATTACTAAG-CC-
1 CACAAGTCAGTGGCACCCATTTCAAAGCCCA
* *
97808 CACAATTCAGTGGCACTC-TTTCAAAG-CC-
1 CACAAGTCAGTGGCACCCATTTCAAAGCCCA
* *
97836 CACAAGTCAGTGGCACCC-TTTTAAAGCCTA
1 CACAAGTCAGTGGCACCCATTTCAAAGCCCA
*
97866 CACAAGTTAGTGGCACCC-TTTCAAAGCCCA
1 CACAAGTCAGTGGCACCCATTTCAAAGCCCA
97896 CACAAGTCAGTGGCACTCC-TTTCAAAGCCCA
1 CACAAGTCAGTGGCAC-CCATTTCAAAGCCCA
* *
97927 CGCAAGTCAGTGGCA-CCTTTTCAAAG-CC-
1 CACAAGTCAGTGGCACCCATTTCAAAGCCCA
* *
97955 CACGAGTCAGTGGCACTC-TTTCAAAG-CC-
1 CACAAGTCAGTGGCACCCATTTCAAAGCCCA
*
97983 CACAAGTCAATGGCACCC-TTTC-AAG-CC-
1 CACAAGTCAGTGGCACCCATTTCAAAGCCCA
* * *
98010 CACGAGTCAGTGGTA-CCTTTTCAAAG-CC-
1 CACAAGTCAGTGGCACCCATTTCAAAGCCCA
*
98038 CACGAGTCAGTGGCA-CC-TTTCAAAG-CC-
1 CACAAGTCAGTGGCACCCATTTCAAAGCCCA
* *
98065 CACAAGTCAGTGGCGCTC-TTTCAAAG-CC-
1 CACAAGTCAGTGGCACCCATTTCAAAGCCCA
* *
98093 CACGAGTCAGTGGCATCC-TTTCAAAGCCCA
1 CACAAGTCAGTGGCACCCATTTCAAAGCCCA
* *
98123 CGCAAGTCAGTGGCACCC-TTTTAAAGCCCA
1 CACAAGTCAGTGGCACCCATTTCAAAGCCCA
* ** * *
98153 CGCAAGTCAGTAACACTCTTTTCAAAGCCCA
1 CACAAGTCAGTGGCACCCATTTCAAAGCCCA
98184 CA
1 CA
98186 TGTGTCAGTG
Statistics
Matches: 641, Mismatches: 58, Indels: 40
0.87 0.08 0.05
Matches are distributed among these distances:
26 2 0.00
27 46 0.07
28 215 0.34
29 11 0.02
30 99 0.15
31 56 0.09
32 182 0.28
33 1 0.00
37 29 0.05
ACGTcount: A:0.29, C:0.34, G:0.18, T:0.19
Consensus pattern (31 bp):
CACAAGTCAGTGGCACCCATTTCAAAGCCCA
Found at i:97618 original size:133 final size:120
Alignment explanation
Indices: 97458--98185 Score: 695
Period size: 133 Copynumber: 6.1 Consensus size: 120
97448 GCACCCATTC
*
97458 CAAAGCCCACACAAGTC--GGTGGCAACCCATTCCAAAGCCCACACAAGTCGGTGGCAACCCATT
1 CAAAG-CC-CACAAGTCATGGTGGC-ACCC-TTCCAAAGCCCACACAAGTCAGTGGC-ACCC-TT
*
97521 TCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCAGTGGCAACCGATTT
60 TCAAAGCCCACACAAGTCAGTGGC-ACCCATTTCAAAGCCCACACAAGTCAGTGGC-ACC--TTT
*
97586 CAAAGCCCACACAAGTCAAGTCGGTGGCAACCCATTCCAAAGCCCACACAAGTCGGTGGCAACCC
1 CAAAG-CC-CACAAGTC-A-T-GGTGGC-ACCC-TTCCAAAGCCCACACAAGTCAGTGGC-ACCC
* * *
97651 ATTCCAAAGCCCACACAAGTCGGTGGTAACCCATTTCAAAGCCCACACAAGTCAGTGGCACCCTT
58 -TTTCAAAGCCCACACAAGTCAGTGG-CACCCATTTCAAAGCCCACACAAGTCAGTGGCA-CCTT
97716 T
120 T
* * * *
97717 CAAAGCCCACAAGT--TAGTGGCACCCTTTCAGAG-CC-CACAAGTCAGTGGCACCCTTTCGAAG
1 CAAAGCCCACAAGTCATGGTGGCACCCTTCCAAAGCCCACACAAGTCAGTGGCACCCTTTCAAAG
* * *
97778 -CC-CACAAGTCAGTGGCA-CCATTACTAAG-CC-CACAATTCAGTGGCACTCTTT
66 CCCACACAAGTCAGTGGCACCCATTTCAAAGCCCACACAAGTCAGTGGCAC-CTTT
** * *
97829 CAAAGCCCACAAGTCA--GTGGCACCCTTTTAAAGCCTACACAAGTTAGTGGCACCCTTTCAAAG
1 CAAAGCCCACAAGTCATGGTGGCACCCTTCCAAAGCCCACACAAGTCAGTGGCACCCTTTCAAAG
*
97892 CCCACACAAGTCAGTGGCACTCC-TTTCAAAGCCCACGCAAGTCAGTGGCACCTTTT
66 CCCACACAAGTCAGTGGCAC-CCATTTCAAAGCCCACACAAGTCAGTGGCACC-TTT
* * * *
97948 CAAAGCCCACGAGTCA--GTGGCACTCTTTCAAAG-CC-CACAAGTCAATGGCACCCTTTC-AAG
1 CAAAGCCCACAAGTCATGGTGGCACCCTTCCAAAGCCCACACAAGTCAGTGGCACCCTTTCAAAG
* * * *
98008 -CC-CACGAGTCAGTGGTA-CCTTTTCAAAG-CC-CACGAGTCAGTGGCACCTTT
66 CCCACACAAGTCAGTGGCACCCATTTCAAAGCCCACACAAGTCAGTGGCACCTTT
* * * * *
98058 CAAAGCCCACAAGTCA--GTGGCGCTCTTTCAAAG-CC-CACGAGTCAGTGGCATCCTTTCAAAG
1 CAAAGCCCACAAGTCATGGTGGCACCCTTCCAAAGCCCACACAAGTCAGTGGCACCCTTTCAAAG
* * * **
98119 CCCACGCAAGTCAGTGGCACCC-TTTTAAAGCCCACGCAAGTCAGTAACACTCTTTT
66 CCCACACAAGTCAGTGGCACCCATTTCAAAGCCCACACAAGTCAGTGGCAC-C-TTT
98175 CAAAGCCCACA
1 CAAAGCCCACA
98186 TGTGTCAGTG
Statistics
Matches: 527, Mismatches: 45, Indels: 67
0.82 0.07 0.10
Matches are distributed among these distances:
110 55 0.10
111 19 0.04
112 53 0.10
113 30 0.06
114 50 0.09
115 17 0.03
116 31 0.06
117 42 0.08
118 12 0.02
119 51 0.10
120 13 0.02
121 2 0.00
122 6 0.01
123 4 0.01
124 5 0.01
125 1 0.00
128 17 0.03
129 7 0.01
130 2 0.00
131 8 0.02
132 1 0.00
133 101 0.19
ACGTcount: A:0.29, C:0.34, G:0.19, T:0.19
Consensus pattern (120 bp):
CAAAGCCCACAAGTCATGGTGGCACCCTTCCAAAGCCCACACAAGTCAGTGGCACCCTTTCAAAG
CCCACACAAGTCAGTGGCACCCATTTCAAAGCCCACACAAGTCAGTGGCACCTTT
Found at i:98105 original size:257 final size:263
Alignment explanation
Indices: 97409--98185 Score: 841
Period size: 257 Copynumber: 2.9 Consensus size: 263
97399 CTTTTAAGTC
* * * * * ** * *
97409 CACAACTCCGTGGCACCCTTT-TAAGTCCACAACTCCGTGGCACCCATTCCAAAGCCCACACAAG
1 CACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAATGGCACCC-TTTCAGAG-CC-CACAAG
* * * *
97473 TCGGTGGCAACCCATTCCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGT
63 TCAGTGGC-ACCC-TTTCAAAG-CC-CACAAGTCAGTGGC-A-CCATTACAAAG-CC-CACAAGT
* * *
97538 CGGTGGCAACCCATTTCAAAGCCCACACAAGTCAGTGGCAACCGATTTCAAAGCCCACACAAGTC
120 CAGTGGC-ACTC-TTTCAAAG-CC-CACAAGTCAGTGGC-ACC-CTTTCAAAGCCCACACAAGTC
* * *
97603 AAGTCGGTGGCAACCCATTCCAAAGCCCACACAAGTCGGTGGCAAC-CCATTCCAAAGCCCACAC
179 -A----GTGGC-ACCC-TTTCAAAGCCCACACAAGTCAGTGGC-ACTCC-TTTCAAAGCCCACAC
*
97667 AAGTCGGTGGTAACCCATTTCAAAGCCCA
235 AAGTCAGTGGTAACCCATTTCAAAGCCCA
* *
97696 CACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCACCCTTTCAGAGCCCACAAGTCA
1 CACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAATGGCACCCTTTCAGAGCCCACAAGTCA
* * *
97761 GTGGCACCCTTTCGAAGCCCACAAGTCAGTGGCACCATTACTAAGCCCACAATTCAGTGGCACTC
66 GTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCATTACAAAGCCCACAAGTCAGTGGCACTC
* * *
97826 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTTAAAGCCTACACAAGTTAGTGGCACCCTTTCAAA
131 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACACAAGTCAGTGGCACCCTTTCAAA
* * *
97891 GCCCACACAAGTCAGTGGCACTCCTTTCAAAGCCCACGCAAGTCAGTGG-CA-CCTTTTCAAAG-
196 GCCCACACAAGTCAGTGGCACTCCTTTCAAAGCCCACACAAGTCAGTGGTAACCCATTTCAAAGC
97953 CC-
261 CCA
* * *
97955 CACGAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAATGGCACCCTTTCA-AGCCCACGAGTCA
1 CACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAATGGCACCCTTTCAGAGCCCACAAGTCA
* * * * *
98019 GTGGTACCTTTTCAAAGCCCACGAGTCAGTGGCACC-TTTCAAAGCCCACAAGTCAGTGGCGCTC
66 GTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCATTACAAAGCCCACAAGTCAGTGGCACTC
* * * *
98083 TTTCAAAGCCCACGAGTCAGTGGCATCCTTTCAAAGCCCACGCAAGTCAGTGGCACCCTTTTAAA
131 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACACAAGTCAGTGGCACCCTTTCAAA
* ** *
98148 GCCCACGCAAGTCAGTAACACTCTTTTCAAAGCCCACA
196 GCCCACACAAGTCAGTGGCACTCCTTTCAAAGCCCACA
98186 TGTGTCAGTG
Statistics
Matches: 434, Mismatches: 54, Indels: 34
0.83 0.10 0.07
Matches are distributed among these distances:
257 115 0.26
258 44 0.10
259 47 0.11
260 2 0.00
261 10 0.02
262 1 0.00
263 24 0.06
264 26 0.06
265 4 0.01
266 5 0.01
270 1 0.00
271 17 0.04
272 3 0.01
273 14 0.03
274 2 0.00
275 8 0.02
276 3 0.01
277 12 0.03
278 2 0.00
279 9 0.02
280 1 0.00
281 13 0.03
282 2 0.00
283 6 0.01
284 4 0.01
285 13 0.03
286 2 0.00
287 25 0.06
288 19 0.04
ACGTcount: A:0.29, C:0.34, G:0.18, T:0.19
Consensus pattern (263 bp):
CACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAATGGCACCCTTTCAGAGCCCACAAGTCA
GTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCATTACAAAGCCCACAAGTCAGTGGCACTC
TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACACAAGTCAGTGGCACCCTTTCAAA
GCCCACACAAGTCAGTGGCACTCCTTTCAAAGCCCACACAAGTCAGTGGTAACCCATTTCAAAGC
CCA
Found at i:98810 original size:20 final size:20
Alignment explanation
Indices: 98782--98856 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 20
98772 TTTTACCTTG
98782 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
98802 ATATATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* * *
98822 ATGTATCGATATATTCTACA
1 ATGTATCGATACATTTTTCA
98842 ATGTATCGATACATT
1 ATGTATCGATACATT
98857 ATGTCTTTTT
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:98849 original size:40 final size:39
Alignment explanation
Indices: 98782--98859 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
98772 TTTTACCTTG
* *
98782 ATGTATCGATACATTTTTCAATATATCGATACATGTATGA
1 ATGTATCGATACATTCTACAATATATCGATACAT-TATGA
* *
98822 ATGTATCGATATATTCTACAATGTATCGATACATTATG
1 ATGTATCGATACATTCTACAATATATCGATACATTATG
98860 TCTTTTTACC
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.40
Consensus pattern (39 bp):
ATGTATCGATACATTCTACAATATATCGATACATTATGA
Found at i:108529 original size:58 final size:56
Alignment explanation
Indices: 108409--108518 Score: 159
Period size: 56 Copynumber: 1.9 Consensus size: 56
108399 AATATATGAT
* *
108409 AACAAAATAATAATGGAAATAAAATAAATAAAAATATGTACATAAAATAACAAAATAA
1 AACAAAATAACAATGGAAATAAAATAAAT--AAATATGAACATAAAATAACAAAATAA
*
108467 AACAAAATAACAATGGAAAATAAAATAAAT-AATATGAACATAAAGTAACAAA
1 AACAAAATAACAATGG-AAATAAAATAAATAAATATGAACATAAAATAACAAA
108519 TATAGCAACA
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
56 20 0.42
58 15 0.31
59 13 0.27
ACGTcount: A:0.68, C:0.06, G:0.06, T:0.19
Consensus pattern (56 bp):
AACAAAATAACAATGGAAATAAAATAAATAAATATGAACATAAAATAACAAAATAA
Found at i:109411 original size:22 final size:21
Alignment explanation
Indices: 109358--109413 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 21
109348 GAATTTTCTT
*
109358 TCTTTTCTTTCTCTCTTTTTTC
1 TCTTTT-TTTCTCTCTATTTTC
109380 -CTTTTGTTTTCTCTCCTATTTTC
1 TC-TTT-TTTTCTCT-CTATTTTC
109403 TCTTTTTTTCT
1 TCTTTTTTTCT
109414 TTTTTTTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
21 1 0.03
22 16 0.55
23 11 0.38
24 1 0.03
ACGTcount: A:0.02, C:0.25, G:0.02, T:0.71
Consensus pattern (21 bp):
TCTTTTTTTCTCTCTATTTTC
Found at i:109885 original size:28 final size:27
Alignment explanation
Indices: 109853--110008 Score: 124
Period size: 26 Copynumber: 5.8 Consensus size: 27
109843 TTTATATTCT
109853 TATGTAAAAGTTTAATTTAAAAAATTT-A
1 TATGTAAAAGTTTAA-TT-AAAAATTTCA
*
109881 TATGT-GAAGATTTAATTAAAAATTTCA
1 TATGTAAAAG-TTTAATTAAAAATTTCA
* *
109908 TGTGTGAAA-TTTAATTAAAAATTTCA
1 TATGTAAAAGTTTAATTAAAAATTTCA
* *
109934 TATGTGAAAAGTTTAATTAAATATTTTA
1 TATGT-AAAAGTTTAATTAAAAATTTCA
* * * *
109962 GATGTGAGAG-TTAATTAAAACTTT-A
1 TATGTAAAAGTTTAATTAAAAATTTCA
** * *
109987 GGTGCAAAAGTTTAATCAAAAA
1 TATGTAAAAGTTTAATTAAAAA
110009 GGTTTAATTA
Statistics
Matches: 104, Mismatches: 18, Indels: 14
0.76 0.13 0.10
Matches are distributed among these distances:
25 7 0.07
26 50 0.48
27 16 0.15
28 31 0.30
ACGTcount: A:0.45, C:0.03, G:0.13, T:0.39
Consensus pattern (27 bp):
TATGTAAAAGTTTAATTAAAAATTTCA
Found at i:109901 original size:26 final size:26
Alignment explanation
Indices: 109863--109986 Score: 126
Period size: 26 Copynumber: 4.6 Consensus size: 26
109853 TATGTAAAAG
109863 TTTAATTTAAAAAATTTATATGTGAAGA
1 TTTAA-TT-AAAAATTTATATGTGAAGA
*
109891 TTTAATTAAAAATTTCATGTGTGAA-A
1 TTTAATTAAAAATTT-ATATGTGAAGA
*
109917 TTTAATTAAAAATTTCATATGTGAAAA
1 TTTAATTAAAAATTT-ATATGTGAAGA
* *
109944 GTTTAATTAAATATTTTAGATGTG-AGA
1 -TTTAATTAAA-AATTTATATGTGAAGA
* *
109971 GTTAATTAAAACTTTA
1 TTTAATTAAAAATTTA
109987 GGTGCAAAAG
Statistics
Matches: 85, Mismatches: 7, Indels: 11
0.83 0.07 0.11
Matches are distributed among these distances:
25 5 0.06
26 42 0.49
27 13 0.15
28 21 0.25
29 4 0.05
ACGTcount: A:0.44, C:0.02, G:0.11, T:0.43
Consensus pattern (26 bp):
TTTAATTAAAAATTTATATGTGAAGA
Found at i:110050 original size:12 final size:12
Alignment explanation
Indices: 110033--110073 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
110023 ATCAACAGTC
110033 AAAAGTTTAATT
1 AAAAGTTTAATT
* *
110045 AAAAGTCTATAGT
1 AAAAGTTTA-ATT
110058 AAAAGTTTAATT
1 AAAAGTTTAATT
110070 AAAA
1 AAAA
110074 ATCTCATACG
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
12 14 0.58
13 10 0.42
ACGTcount: A:0.54, C:0.02, G:0.10, T:0.34
Consensus pattern (12 bp):
AAAAGTTTAATT
Found at i:110074 original size:13 final size:13
Alignment explanation
Indices: 109992--110074 Score: 53
Period size: 13 Copynumber: 6.3 Consensus size: 13
109982 CTTTAGGTGC
*
109992 AAAAGTTTAATCA
1 AAAAGTTTAATTA
110005 AAAAGGTTTAATTA
1 AAAA-GTTTAATTA
* ** * *
110019 AAAAATCAACAGTC
1 AAAAGTTTA-ATTA
110033 AAAAGTTTAATT-
1 AAAAGTTTAATTA
* *
110045 AAAAGTCTATAGT-
1 AAAAGTTTA-ATTA
110058 AAAAGTTTAATTA
1 AAAAGTTTAATTA
110071 AAAA
1 AAAA
110075 TCTCATACGT
Statistics
Matches: 52, Mismatches: 14, Indels: 8
0.70 0.19 0.11
Matches are distributed among these distances:
12 10 0.19
13 22 0.42
14 20 0.38
ACGTcount: A:0.54, C:0.06, G:0.10, T:0.30
Consensus pattern (13 bp):
AAAAGTTTAATTA
Found at i:110197 original size:29 final size:28
Alignment explanation
Indices: 110142--110216 Score: 82
Period size: 29 Copynumber: 2.7 Consensus size: 28
110132 CCAAGTTTAA
* **
110142 TTACAATTAAAAAATTCTATGCCTAAAAGG
1 TTAC-ATTAAAAAATTTTATGAAT-AAAGG
*
110172 TTACATTAAAAAATTTTATGAATAAAGT
1 TTACATTAAAAAATTTTATGAATAAAGG
110200 TTA-ATT-AAAAATTTTAT
1 TTACATTAAAAAATTTTAT
110217 ATCTAAGAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
26 11 0.27
27 3 0.07
28 7 0.17
29 16 0.39
30 4 0.10
ACGTcount: A:0.48, C:0.07, G:0.07, T:0.39
Consensus pattern (28 bp):
TTACATTAAAAAATTTTATGAATAAAGG
Found at i:110610 original size:14 final size:14
Alignment explanation
Indices: 110591--110643 Score: 52
Period size: 14 Copynumber: 3.5 Consensus size: 14
110581 AGCTCAACTC
*
110591 ATATAACTTATATT
1 ATATAAATTATATT
110605 ATATAAAATATATATAT
1 ATAT-AAAT-TATAT-T
*
110622 AATATAATTTATATT
1 -ATATAAATTATATT
110637 ATATAAA
1 ATATAAA
110644 GAACAAATGC
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
14 10 0.31
15 4 0.12
16 10 0.31
17 4 0.12
18 4 0.12
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (14 bp):
ATATAAATTATATT
Found at i:110634 original size:16 final size:16
Alignment explanation
Indices: 110591--110641 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
110581 AGCTCAACTC
*
110591 ATATAACTTATATTAT
1 ATATAATTTATATTAT
* *
110607 ATAAAATATATA-TAT
1 ATATAATTTATATTAT
110622 AATATAATTTATATTAT
1 -ATATAATTTATATTAT
110639 ATA
1 ATA
110642 AAGAACAAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
15 3 0.11
16 22 0.79
17 3 0.11
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (16 bp):
ATATAATTTATATTAT
Found at i:111176 original size:4 final size:4
Alignment explanation
Indices: 111167--111215 Score: 57
Period size: 4 Copynumber: 12.2 Consensus size: 4
111157 TTTTGCTGAA
*
111167 AAAG AAAG AAAG AAAC AAAG AAAG AAAG AAAAG AGAA- AAA- AAAG AAAG
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG -AAAG A-AAG AAAG AAAG AAAG
111215 A
1 A
111216 TCAAAAAAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
3 5 0.12
4 29 0.73
5 6 0.15
ACGTcount: A:0.78, C:0.02, G:0.20, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:111192 original size:20 final size:19
Alignment explanation
Indices: 111165--111215 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 19
111155 CATTTTGCTG
111165 AAAAAGAAAGAAAGA-AACA
1 AAAAAGAAAGAAAGAGAA-A
111184 AAGAAAGAAAGAAAAGAGAAA
1 AA-AAAGAAAG-AAAGAGAAA
111205 AAAAAGAAAGA
1 AAAAAGAAAGA
111216 TCAAAAAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
19 3 0.10
20 16 0.55
21 8 0.28
22 2 0.07
ACGTcount: A:0.78, C:0.02, G:0.20, T:0.00
Consensus pattern (19 bp):
AAAAAGAAAGAAAGAGAAA
Found at i:111282 original size:10 final size:10
Alignment explanation
Indices: 111267--111389 Score: 69
Period size: 10 Copynumber: 12.2 Consensus size: 10
111257 TTTAAAATTT
111267 TATATTTTTA
1 TATATTTTTA
111277 TATATTTTT-
1 TATATTTTTA
* *
111286 TATATATTAA
1 TATATTTTTA
111296 TA-ATTTATT-
1 TATATTT-TTA
111305 T-TATTTTATA
1 TATATTTT-TA
*
111315 TATATTTATA
1 TATATTTTTA
* *
111325 TATATATATA
1 TATATTTTTA
*
111335 TATATTTGTA
1 TATATTTTTA
**
111345 T-TATTTACA
1 TATATTTTTA
111354 TATTATTTTTA
1 TA-TATTTTTA
111365 TATTATGTTTTA
1 TA-TAT-TTTTA
111377 -AGTATTCTTTA
1 TA-TATT-TTTA
111388 TA
1 TA
111390 AATATCACGT
Statistics
Matches: 89, Mismatches: 13, Indels: 20
0.73 0.11 0.16
Matches are distributed among these distances:
8 1 0.01
9 23 0.26
10 34 0.38
11 25 0.28
12 6 0.07
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (10 bp):
TATATTTTTA
Found at i:112979 original size:24 final size:23
Alignment explanation
Indices: 112939--112984 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 23
112929 ATTCTGCATG
* *
112939 TTAATTATTAGTTTATTTATATT
1 TTAATTATTAGTATATTCATATT
*
112962 TTAATATATTCGTATATTCATAT
1 TTAAT-TATTAGTATATTCATAT
112985 CATATTCATG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 5 0.26
24 14 0.74
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.59
Consensus pattern (23 bp):
TTAATTATTAGTATATTCATATT
Found at i:113246 original size:15 final size:15
Alignment explanation
Indices: 113225--113270 Score: 56
Period size: 17 Copynumber: 2.9 Consensus size: 15
113215 ATTTTTAAAT
113225 AAATTTTATTAATAA
1 AAATTTTATTAATAA
*
113240 TAATTTTATTTAATTAA
1 AAATTTTA-TTAA-TAA
*
113257 AAATTTTATGAATA
1 AAATTTTATTAATA
113271 TTTCAAAATG
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
15 9 0.35
16 7 0.27
17 10 0.38
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (15 bp):
AAATTTTATTAATAA
Found at i:113263 original size:17 final size:16
Alignment explanation
Indices: 113225--113265 Score: 57
Period size: 17 Copynumber: 2.6 Consensus size: 16
113215 ATTTTTAAAT
113225 AAATTTTA-TTAATAA
1 AAATTTTATTTAATAA
*
113240 TAATTTTATTTAATTAA
1 AAATTTTATTTAA-TAA
113257 AAATTTTAT
1 AAATTTTAT
113266 GAATATTTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
15 7 0.32
16 4 0.18
17 11 0.50
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (16 bp):
AAATTTTATTTAATAA
Found at i:113972 original size:2 final size:2
Alignment explanation
Indices: 113965--113996 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
113955 ATATGAGGTC
113965 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
113997 TTGAGGTTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:114525 original size:33 final size:33
Alignment explanation
Indices: 114466--114546 Score: 89
Period size: 33 Copynumber: 2.5 Consensus size: 33
114456 TATATATTAA
*
114466 TAATAAAAT-ATATAA-ATTTTACAAATA-AAAT
1 TAATAAAATAATA-AATATTTTAAAAATATAAAT
**
114497 TAATAAAATAATAAATATTTTTAAAAATATATTT
1 TAATAAAATAATAAATA-TTTTAAAAATATAAAT
114531 TAA-AAAATAATAAATA
1 TAATAAAATAATAAATA
114547 AAATACATGT
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
31 11 0.26
32 4 0.09
33 23 0.53
34 5 0.12
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.37
Consensus pattern (33 bp):
TAATAAAATAATAAATATTTTAAAAATATAAAT
Found at i:118407 original size:5 final size:5
Alignment explanation
Indices: 118393--118443 Score: 65
Period size: 5 Copynumber: 11.0 Consensus size: 5
118383 ACAGCATTCA
*
118393 TAATT TAATT CAA-T TAA-T TAATT TAATT TAATT TAA-T TAA-T TAATT
1 TAATT TAATT TAATT TAATT TAATT TAATT TAATT TAATT TAATT TAATT
118439 TAATT
1 TAATT
118444 ATATTTAAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
4 15 0.36
5 27 0.64
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (5 bp):
TAATT
Found at i:118411 original size:9 final size:8
Alignment explanation
Indices: 118397--118444 Score: 51
Period size: 9 Copynumber: 5.4 Consensus size: 8
118387 CATTCATAAT
118397 TTAATTCAA
1 TTAATT-AA
118406 TTAATTAA
1 TTAATTAA
118414 TTTAATTTAA
1 -TTAA-TTAA
118424 TTTAATTAA
1 -TTAATTAA
118433 TTAATTTAA
1 TTAA-TTAA
118442 TTA
1 TTA
118445 TATTTAAATA
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
8 6 0.17
9 21 0.58
10 9 0.25
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (8 bp):
TTAATTAA
Found at i:118416 original size:18 final size:18
Alignment explanation
Indices: 118393--118444 Score: 79
Period size: 18 Copynumber: 2.9 Consensus size: 18
118383 ACAGCATTCA
*
118393 TAATTTAATTCAATTAAT
1 TAATTTAATTTAATTAAT
118411 TAATTTAATTTAATTTAAT
1 TAATTTAATTTAA-TTAAT
118430 TAA-TTAATTTAATTA
1 TAATTTAATTTAATTA
118445 TATTTAAATA
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
17 3 0.09
18 21 0.66
19 8 0.25
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (18 bp):
TAATTTAATTTAATTAAT
Found at i:118449 original size:23 final size:23
Alignment explanation
Indices: 118393--118456 Score: 94
Period size: 23 Copynumber: 2.8 Consensus size: 23
118383 ACAGCATTCA
*
118393 TAATTTAATTCAATTAATTAATT
1 TAATTTAATTTAATTAATTAATT
118416 TAATTTAATTTAATTAATTAATT
1 TAATTTAATTTAATTAATTAATT
*
118439 TAA-TTATATTTAAATAAT
1 TAATTTA-ATTTAATTAAT
118457 AAATATCATA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
22 3 0.08
23 35 0.92
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (23 bp):
TAATTTAATTTAATTAATTAATT
Found at i:118735 original size:2 final size:2
Alignment explanation
Indices: 118728--118752 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
118718 TTCATGAGAA
118728 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
118753 AATTATAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:119053 original size:3 final size:3
Alignment explanation
Indices: 119045--119085 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
119035 GTCTAGACAA
119045 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
119086 ACAAACAAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:119703 original size:24 final size:23
Alignment explanation
Indices: 119676--119729 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 23
119666 TCATGATTAA
119676 AATTATTTTAT-ATATTATATATTT
1 AATTATTTTATAAT-TTAT-TATTT
119700 AATTATTTTATAATTTATTATTT
1 AATTATTTTATAATTTATTATTT
*
119723 AAATATT
1 AATTATT
119730 AATTATTAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
23 11 0.39
24 15 0.54
25 2 0.07
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (23 bp):
AATTATTTTATAATTTATTATTT
Found at i:119706 original size:15 final size:15
Alignment explanation
Indices: 119688--119737 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
119678 TTATTTTATA
119688 TATTATATATTTAAT
1 TATTATATATTTAAT
*
119703 TATTTTATAATTT-AT
1 TATTATAT-ATTTAAT
*
119718 TATT-TAAATATTAAT
1 TATTATATAT-TTAAT
119733 TATTA
1 TATTA
119738 AATAAAAATG
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
13 2 0.07
14 4 0.14
15 19 0.66
16 4 0.14
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
TATTATATATTTAAT
Found at i:120093 original size:21 final size:22
Alignment explanation
Indices: 120052--120094 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
120042 GCAAATTTAC
120052 CCTTCGGTGTAAATCAAACTTCT
1 CCTTCGGTGTAAA-CAAACTTCT
*
120075 CCTTCTGTGTAAA-AAACTTC
1 CCTTCGGTGTAAACAAACTTC
120095 GGAATGACAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 7 0.37
23 12 0.63
ACGTcount: A:0.28, C:0.26, G:0.12, T:0.35
Consensus pattern (22 bp):
CCTTCGGTGTAAACAAACTTCT
Found at i:120863 original size:16 final size:18
Alignment explanation
Indices: 120842--120878 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 18
120832 ATTTCATTTA
120842 TAAATA-ATTAAAA-AAT
1 TAAATATATTAAAATAAT
*
120858 TAAATATTTTAAAATAAT
1 TAAATATATTAAAATAAT
120876 TAA
1 TAA
120879 TACTTATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 6 0.33
17 6 0.33
18 6 0.33
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
TAAATATATTAAAATAAT
Found at i:122211 original size:2 final size:2
Alignment explanation
Indices: 122204--122245 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
122194 ACACTTATTA
122204 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
122246 CTTCATTTGC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:125508 original size:15 final size:15
Alignment explanation
Indices: 125488--125523 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
125478 TCCATTTTGG
125488 CATCATCACCAATAT
1 CATCATCACCAATAT
* *
125503 CATCATCATCATTAT
1 CATCATCACCAATAT
125518 CATCAT
1 CATCAT
125524 GTCCATCATC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.36, C:0.31, G:0.00, T:0.33
Consensus pattern (15 bp):
CATCATCACCAATAT
Found at i:126533 original size:2 final size:2
Alignment explanation
Indices: 126526--126560 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
126516 TACGTCTTAC
126526 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
126561 ATCTCTTATC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:127487 original size:15 final size:16
Alignment explanation
Indices: 127451--127490 Score: 55
Period size: 15 Copynumber: 2.5 Consensus size: 16
127441 TTTAATATTT
*
127451 ATAAAATTTTTAATTAA
1 ATAAAA-TTATAATTAA
127468 ATAAAATTATAATT-A
1 ATAAAATTATAATTAA
127483 ATAAAATT
1 ATAAAATT
127491 TATTTAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 9 0.41
16 7 0.32
17 6 0.27
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
ATAAAATTATAATTAA
Found at i:127493 original size:16 final size:17
Alignment explanation
Indices: 127451--127493 Score: 63
Period size: 16 Copynumber: 2.6 Consensus size: 17
127441 TTTAATATTT
*
127451 ATAAAATTTTTAATTAA
1 ATAAAATTTATAATTAA
127468 ATAAAA-TTATAATT-A
1 ATAAAATTTATAATTAA
127483 ATAAAATTTAT
1 ATAAAATTTAT
127494 TTAAAAATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
15 7 0.29
16 11 0.46
17 6 0.25
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
ATAAAATTTATAATTAA
Found at i:128574 original size:26 final size:26
Alignment explanation
Indices: 128507--128576 Score: 65
Period size: 27 Copynumber: 2.7 Consensus size: 26
128497 TTTTCTCTCG
* * *
128507 TATAT-AAAATAAAATTTACATAAAA
1 TATATAAAAATATAATATACAAAAAA
128532 TA-A-AATAAATTATTAATATACAAAAAA
1 TATATAA-AAA-TA-TAATATACAAAAAA
128559 TATATAAAAATATAATAT
1 TATATAAAAATATAATAT
128577 TTTAAATAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 11
0.72 0.06 0.22
Matches are distributed among these distances:
24 2 0.06
25 5 0.14
26 8 0.22
27 15 0.42
28 4 0.11
29 2 0.06
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (26 bp):
TATATAAAAATATAATATACAAAAAA
Found at i:128608 original size:14 final size:13
Alignment explanation
Indices: 128507--128610 Score: 52
Period size: 14 Copynumber: 7.7 Consensus size: 13
128497 TTTTCTCTCG
128507 TATATAAAATAAAA
1 TATAT-AAATAAAA
*
128521 T-T-TACATAAAA
1 TATATAAATAAAA
* *
128532 TAAAATAAATTATTAA
1 T-ATATAAA-TA-AAA
*
128548 TATACAAA-AAATA
1 TATATAAATAAA-A
* *
128561 TATAAAAATATAA
1 TATATAAATAAAA
*
128574 TATTTTAAATAAAA
1 TA-TATAAATAAAA
*
128588 AATATAAATACAAA
1 TATATAAATA-AAA
128602 TATATAAAT
1 TATATAAAT
128611 TTTTTCTTTT
Statistics
Matches: 66, Mismatches: 15, Indels: 18
0.67 0.15 0.18
Matches are distributed among these distances:
11 8 0.12
12 2 0.03
13 20 0.30
14 26 0.39
15 7 0.11
16 3 0.05
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (13 bp):
TATATAAATAAAA
Found at i:128622 original size:7 final size:7
Alignment explanation
Indices: 128610--128658 Score: 64
Period size: 7 Copynumber: 6.9 Consensus size: 7
128600 AATATATAAA
128610 TTTTTTC
1 TTTTTTC
128617 TTTTTTCC
1 TTTTTT-C
*
128625 TTCTTTC
1 TTTTTTC
128632 TTTTTT-
1 TTTTTTC
128638 TTTCTTTC
1 TTT-TTTC
128646 TTTTTTC
1 TTTTTTC
128653 TTTTTT
1 TTTTTT
128659 ATCACTTAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
6 3 0.08
7 25 0.68
8 9 0.24
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (7 bp):
TTTTTTC
Found at i:128640 original size:18 final size:18
Alignment explanation
Indices: 128610--128658 Score: 73
Period size: 18 Copynumber: 2.7 Consensus size: 18
128600 AATATATAAA
128610 TTTTTTCTTTTTTCCTTC
1 TTTTTTCTTTTTTCCTTC
*
128628 TTTCTTT-TTTTTTCTTTC
1 TTT-TTTCTTTTTTCCTTC
128646 TTTTTTCTTTTTT
1 TTTTTTCTTTTTT
128659 ATCACTTAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
17 3 0.11
18 22 0.79
19 3 0.11
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (18 bp):
TTTTTTCTTTTTTCCTTC
Found at i:130179 original size:16 final size:16
Alignment explanation
Indices: 130158--130189 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
130148 GTGTTGGTTG
130158 GAAAGAAAAGTAAAAA
1 GAAAGAAAAGTAAAAA
*
130174 GAAAGAAAATTAAAAA
1 GAAAGAAAAGTAAAAA
130190 AATTACCATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.75, C:0.00, G:0.16, T:0.09
Consensus pattern (16 bp):
GAAAGAAAAGTAAAAA
Done.