Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 568 of 770
Found at i:177069811 original size:13 final size:13
Alignment explanation
Indices: 177069781--177069805 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
177069771 TAAGAAAGGT
177069781 ATTTTTGGAAATG
1 ATTTTTGGAAATG
177069794 ATTTTTGGAAAT
1 ATTTTTGGAAAT
177069806 TCTTTTCAAA
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:0.00, G:0.20, T:0.48
Consensus pattern (13 bp):
ATTTTTGGAAATG
Found at i:177073146 original size:29 final size:28
Alignment explanation
Indices: 177073113--177073204 Score: 112
Period size: 29 Copynumber: 3.2 Consensus size: 28
177073103 TGACGAGATT
*
177073113 GGCACTAAGTGTGCGTGCTGGAAATATAA
1 GGCACTAAGTGTGCATGCTGGAAA-ATAA
*
177073142 GGCACTAAGTGTGCATGCTGGAAAATAT
1 GGCACTAAGTGTGCATGCTGGAAAATAA
* * * *
177073170 GACACTATGTGTGCAAGCTGGAAAAATAC
1 GGCACTAAGTGTGCATGCTGG-AAAATAA
177073199 GGCACT
1 GGCACT
177073205 GGGTGTGCGA
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
28 21 0.38
29 34 0.62
ACGTcount: A:0.33, C:0.16, G:0.28, T:0.23
Consensus pattern (28 bp):
GGCACTAAGTGTGCATGCTGGAAAATAA
Found at i:177073184 original size:28 final size:28
Alignment explanation
Indices: 177073115--177073194 Score: 106
Period size: 28 Copynumber: 2.8 Consensus size: 28
177073105 ACGAGATTGG
* *
177073115 CACTAAGTGTGCGTGCTGGAAATATAAGG
1 CACTAAGTGTGCATGCTGGAAA-ATAAGA
*
177073144 CACTAAGTGTGCATGCTGGAAAATATGA
1 CACTAAGTGTGCATGCTGGAAAATAAGA
* *
177073172 CACTATGTGTGCAAGCTGGAAAA
1 CACTAAGTGTGCATGCTGGAAAA
177073195 ATACGGCACT
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
28 25 0.54
29 21 0.46
ACGTcount: A:0.34, C:0.15, G:0.28, T:0.24
Consensus pattern (28 bp):
CACTAAGTGTGCATGCTGGAAAATAAGA
Found at i:177073217 original size:29 final size:29
Alignment explanation
Indices: 177073113--177073217 Score: 106
Period size: 29 Copynumber: 3.7 Consensus size: 29
177073103 TGACGAGATT
* *
177073113 GGCACTAAGTGTGCGTGCTGGAAATATAA
1 GGCACTAAGTGTGCGAGCTGGAAAAATAA
*
177073142 GGCACTAAGTGTGC-ATGCTGG-AAAATAT
1 GGCACTAAGTGTGCGA-GCTGGAAAAATAA
* * * *
177073170 GACACTATGTGTGCAAGCTGGAAAAATAC
1 GGCACTAAGTGTGCGAGCTGGAAAAATAA
**
177073199 GGCACTGGGTGTGCGAGCT
1 GGCACTAAGTGTGCGAGCT
177073218 CGGAGGGTAT
Statistics
Matches: 63, Mismatches: 10, Indels: 6
0.80 0.13 0.08
Matches are distributed among these distances:
28 22 0.35
29 41 0.65
ACGTcount: A:0.30, C:0.16, G:0.31, T:0.23
Consensus pattern (29 bp):
GGCACTAAGTGTGCGAGCTGGAAAAATAA
Found at i:177079289 original size:20 final size:20
Alignment explanation
Indices: 177079264--177079331 Score: 100
Period size: 20 Copynumber: 3.4 Consensus size: 20
177079254 GATTTTGATA
*
177079264 AACATGGTATGTATGATATG
1 AACATGATATGTATGATATG
*
177079284 AACATGACATGTATGATATG
1 AACATGATATGTATGATATG
*
177079304 CACATGATATGTATGATATG
1 AACATGATATGTATGATATG
*
177079324 TACATGAT
1 AACATGAT
177079332 GTAATCATAA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.37, C:0.09, G:0.21, T:0.34
Consensus pattern (20 bp):
AACATGATATGTATGATATG
Found at i:177079437 original size:24 final size:24
Alignment explanation
Indices: 177079381--177079461 Score: 128
Period size: 24 Copynumber: 3.4 Consensus size: 24
177079371 GAGGAAGTGA
177079381 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
177079405 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
177079428 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
177079452 CAAAGAGGCT
1 AAAAG-GGCT
177079462 AGGCCTCTAG
Statistics
Matches: 53, Mismatches: 2, Indels: 3
0.91 0.03 0.05
Matches are distributed among these distances:
23 23 0.43
24 26 0.49
25 4 0.08
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:177080552 original size:13 final size:13
Alignment explanation
Indices: 177080522--177080546 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
177080512 TAAGAAAGGT
177080522 ATTTTTGGAAATG
1 ATTTTTGGAAATG
177080535 ATTTTTGGAAAT
1 ATTTTTGGAAAT
177080547 TCTTTTCAAA
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:0.00, G:0.20, T:0.48
Consensus pattern (13 bp):
ATTTTTGGAAATG
Found at i:177083879 original size:29 final size:29
Alignment explanation
Indices: 177083846--177083938 Score: 123
Period size: 29 Copynumber: 3.2 Consensus size: 29
177083836 TGACGAGATT
* *
177083846 GGCACTAAGTGTGCGTGCTGGAAATATAA
1 GGCACTAAGTGTGCATGCTGGAAAAATAA
*
177083875 GGCACTAAGTGTGCATGCTGGAAAAATAT
1 GGCACTAAGTGTGCATGCTGGAAAAATAA
* * * *
177083904 GACACTATGTGTGCAAGCTGGAAAAATAC
1 GGCACTAAGTGTGCATGCTGGAAAAATAA
177083933 GGCACT
1 GGCACT
177083939 GGGTGTGCGA
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 56 1.00
ACGTcount: A:0.33, C:0.16, G:0.28, T:0.23
Consensus pattern (29 bp):
GGCACTAAGTGTGCATGCTGGAAAAATAA
Found at i:177083951 original size:29 final size:29
Alignment explanation
Indices: 177083846--177083951 Score: 115
Period size: 29 Copynumber: 3.7 Consensus size: 29
177083836 TGACGAGATT
* *
177083846 GGCACTAAGTGTGCGTGCTGGAAATATAA
1 GGCACTAAGTGTGCGAGCTGGAAAAATAA
*
177083875 GGCACTAAGTGTGC-ATGCTGGAAAAATAT
1 GGCACTAAGTGTGCGA-GCTGGAAAAATAA
* * * *
177083904 GACACTATGTGTGCAAGCTGGAAAAATAC
1 GGCACTAAGTGTGCGAGCTGGAAAAATAA
**
177083933 GGCACTGGGTGTGCGAGCT
1 GGCACTAAGTGTGCGAGCT
177083952 CGGAGGGTAT
Statistics
Matches: 65, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
29 64 0.98
30 1 0.02
ACGTcount: A:0.30, C:0.16, G:0.31, T:0.23
Consensus pattern (29 bp):
GGCACTAAGTGTGCGAGCTGGAAAAATAA
Found at i:177091800 original size:29 final size:29
Alignment explanation
Indices: 177091767--177091859 Score: 123
Period size: 29 Copynumber: 3.2 Consensus size: 29
177091757 TGACGAGATT
* *
177091767 GGCACTAAGTGTGCGTGCTGGAAATATAA
1 GGCACTAAGTGTGCATGCTGGAAAAATAA
*
177091796 GGCACTAAGTGTGCATGCTGGAAAAATAT
1 GGCACTAAGTGTGCATGCTGGAAAAATAA
* * * *
177091825 GACACTATGTGTGCAAGCTGGAAAAATAC
1 GGCACTAAGTGTGCATGCTGGAAAAATAA
177091854 GGCACT
1 GGCACT
177091860 GGGTGTGCGA
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 56 1.00
ACGTcount: A:0.33, C:0.16, G:0.28, T:0.23
Consensus pattern (29 bp):
GGCACTAAGTGTGCATGCTGGAAAAATAA
Found at i:177091872 original size:29 final size:29
Alignment explanation
Indices: 177091767--177091872 Score: 115
Period size: 29 Copynumber: 3.7 Consensus size: 29
177091757 TGACGAGATT
* *
177091767 GGCACTAAGTGTGCGTGCTGGAAATATAA
1 GGCACTAAGTGTGCGAGCTGGAAAAATAA
*
177091796 GGCACTAAGTGTGC-ATGCTGGAAAAATAT
1 GGCACTAAGTGTGCGA-GCTGGAAAAATAA
* * * *
177091825 GACACTATGTGTGCAAGCTGGAAAAATAC
1 GGCACTAAGTGTGCGAGCTGGAAAAATAA
**
177091854 GGCACTGGGTGTGCGAGCT
1 GGCACTAAGTGTGCGAGCT
177091873 CGGAGGGTAT
Statistics
Matches: 65, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
29 64 0.98
30 1 0.02
ACGTcount: A:0.30, C:0.16, G:0.31, T:0.23
Consensus pattern (29 bp):
GGCACTAAGTGTGCGAGCTGGAAAAATAA
Found at i:177098229 original size:25 final size:25
Alignment explanation
Indices: 177098200--177098247 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
177098190 CTTATACATG
* * *
177098200 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
177098225 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
177098248 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:177098331 original size:11 final size:11
Alignment explanation
Indices: 177098295--177098350 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
177098285 CATGGTATGT
177098295 ATGATATGCAC
1 ATGATATGCAC
* *
177098306 ATGACATG--T
1 ATGATATGCAC
177098315 ATGATATGCAC
1 ATGATATGCAC
*
177098326 ATGATATG--T
1 ATGATATGCAC
177098335 ATGATATGCAC
1 ATGATATGCAC
177098346 ATGAT
1 ATGAT
177098351 GTAATCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:177098350 original size:20 final size:20
Alignment explanation
Indices: 177098284--177098350 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
177098274 ATTTTGATAA
*
177098284 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
177098304 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
177098324 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
177098344 ACATGAT
1 ACATGAT
177098351 GTAATCATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:177098443 original size:19 final size:20
Alignment explanation
Indices: 177098419--177098457 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
177098409 TATGCCCCAA
177098419 TTATT-AAAGGGCTTATGCC
1 TTATTAAAAGGGCTTATGCC
*
177098438 TTATTAAAAGGGCTTTTGCC
1 TTATTAAAAGGGCTTATGCC
177098458 CCAGTTATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (20 bp):
TTATTAAAAGGGCTTATGCC
Found at i:177098470 original size:24 final size:24
Alignment explanation
Indices: 177098401--177098514 Score: 114
Period size: 24 Copynumber: 4.9 Consensus size: 24
177098391 AGGAAGTGAC
*
177098401 AAAGGGCTTATGCCCCAATTATT-
1 AAAGGGCTTATGCCCCAGTTATTA
177098424 AAAGGGCTTATG--CC--TTATTA
1 AAAGGGCTTATGCCCCAGTTATTA
*
177098444 AAAGGGCTTTTGCCCCAGTTATTA
1 AAAGGGCTTATGCCCCAGTTATTA
* * *
177098468 AAAGGTCTTTTGCCCCAGTTATTC
1 AAAGGGCTTATGCCCCAGTTATTA
*
177098492 AAAGAGGC-TAGGCCTCCAGTTAT
1 AAAG-GGCTTATGCC-CCAGTTAT
177098515 ATGATAAAGC
Statistics
Matches: 78, Mismatches: 6, Indels: 12
0.81 0.06 0.12
Matches are distributed among these distances:
19 5 0.06
20 11 0.14
21 2 0.03
22 2 0.03
23 12 0.15
24 36 0.46
25 10 0.13
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.32
Consensus pattern (24 bp):
AAAGGGCTTATGCCCCAGTTATTA
Found at i:177098742 original size:31 final size:31
Alignment explanation
Indices: 177098707--177098770 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
177098697 CGTTTACAGT
177098707 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
177098738 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
177098769 AA
1 AA
177098771 TATGAAAAGG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.38, C:0.16, G:0.23, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:177101887 original size:40 final size:40
Alignment explanation
Indices: 177101838--177102005 Score: 187
Period size: 40 Copynumber: 4.2 Consensus size: 40
177101828 TCTTCGGAAT
* * *
177101838 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* * *** *
177101877 TTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* * *
177101917 TTAGCCCGGATATAACAACTCGCACGAATTCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* *
177101957 TTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAA-CAACTAGCACAAATGCCTTCGGGTC
177101997 TTAGCCCGG
1 TTAGCCCGG
177102006 GTATCATTCA
Statistics
Matches: 105, Mismatches: 22, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
39 3 0.03
40 101 0.96
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
Found at i:177101965 original size:80 final size:80
Alignment explanation
Indices: 177101829--177102005 Score: 214
Period size: 80 Copynumber: 2.2 Consensus size: 80
177101819 CAACCGAGTT
* * * * **
177101829 CTTCGGAATTTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGATTTGGT
1 CTTCGGGACTTAGCCCGGATATAACAACAAGCACAATTGCCTTCGGGTCTTAACCCGGATATAAT
*
177101893 AACTTGCACAAATGC
66 AACTAGCACAAATGC
* ** *
177101908 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACGAATT-CCTTCGGGTCTTAGCCCGGATATAA
1 CTTCGGGACTTAGCCCGGATATAACAACAAGCAC-AATTGCCTTCGGGTCTTAACCCGGATATAA
* *
177101972 TCACTAGCATAAATGC
65 TAACTAGCACAAATGC
177101988 CTTCGGGACTTAGCCCGG
1 CTTCGGGACTTAGCCCGG
177102006 GTATCATTCA
Statistics
Matches: 82, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
79 10 0.12
80 68 0.83
81 4 0.05
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.26
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAACAACAAGCACAATTGCCTTCGGGTCTTAACCCGGATATAAT
AACTAGCACAAATGC
Found at i:177109903 original size:40 final size:40
Alignment explanation
Indices: 177109854--177110025 Score: 202
Period size: 40 Copynumber: 4.3 Consensus size: 40
177109844 TCTTCGGAAT
* *
177109854 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTC
* * **** *
177109893 TTAACCCGGATTTGGTGACTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTC
* * *
177109933 TTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTC
* * *
177109973 TTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTC
177110013 TTAGCCCGGATAT
1 TTAGCCCGGATAT
177110026 CATTCAAATG
Statistics
Matches: 109, Mismatches: 23, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
39 3 0.03
40 106 0.97
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTC
Found at i:177115460 original size:40 final size:40
Alignment explanation
Indices: 177115392--177115585 Score: 275
Period size: 40 Copynumber: 4.9 Consensus size: 40
177115382 TCTTTGAGAT
* * * *
177115392 TTAG-CCGGATATCGTAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGAC
*
177115431 TTAGCCCGGATATAGTCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGAC
* *
177115471 TTAGCCCGGATATAGTCGCTAGCACAAATGCCTTTGGGAC
1 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGAC
* *
177115511 TTAGCCCGGGTATAGTCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGAC
*
177115551 TTAGCCCGGATATAG-CAACTCGCACAAATGCCTTC
1 TTAGCCCGGATATAGTC-ACTAGCACAAATGCCTTC
177115586 AGATCTTAGT
Statistics
Matches: 138, Mismatches: 15, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
39 5 0.04
40 133 0.96
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGAC
Found at i:177123207 original size:16 final size:17
Alignment explanation
Indices: 177123176--177123213 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
177123166 ACAAAGTCCG
177123176 AATTTATTTCCCAATTT
1 AATTTATTTCCCAATTT
177123193 AATTTATTT-CCAATTT
1 AATTTATTTCCCAATTT
177123209 -ATTTA
1 AATTTA
177123214 ATTGTTTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 5 0.24
16 7 0.33
17 9 0.43
ACGTcount: A:0.32, C:0.13, G:0.00, T:0.55
Consensus pattern (17 bp):
AATTTATTTCCCAATTT
Found at i:177127246 original size:19 final size:19
Alignment explanation
Indices: 177127204--177127246 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
177127194 TTCTTCTTCT
*
177127204 TCTTTTTTTATTTCTTGTC
1 TCTTTTTTTATTACTTGTC
*
177127223 ACTTTTTTCTATTACTTG-C
1 TCTTTTTT-TATTACTTGTC
177127242 TCTTT
1 TCTTT
177127247 GATTTTGGTC
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.09, C:0.19, G:0.05, T:0.67
Consensus pattern (19 bp):
TCTTTTTTTATTACTTGTC
Found at i:177127595 original size:62 final size:60
Alignment explanation
Indices: 177127512--177127657 Score: 186
Period size: 62 Copynumber: 2.4 Consensus size: 60
177127502 TGACAGGTCA
* * *
177127512 TGTAACTCACTATTTAAAATTAGAGGCACACTGGCGAAGGACACGGGCGTGTGTCCAGGCTG
1 TGTAACTCACTATTTAGAATTAGAGGCACACGGGCGAAGGACACGAGC--GTGTCCAGGCTG
* * * *
177127574 TGTAACTCAC-AGTTTAGAATTAGAGGCATAGGGGCTAGGGACACGAGCGTGTCCAGGCTG
1 TGTAACTCACTA-TTTAGAATTAGAGGCACACGGGCGAAGGACACGAGCGTGTCCAGGCTG
177127634 TGTAACTCACTATTTTAGAATTAG
1 TGTAACTCACTA-TTTAGAATTAG
177127658 GGTTACATGG
Statistics
Matches: 74, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
60 22 0.30
61 13 0.18
62 39 0.53
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.25
Consensus pattern (60 bp):
TGTAACTCACTATTTAGAATTAGAGGCACACGGGCGAAGGACACGAGCGTGTCCAGGCTG
Found at i:177129955 original size:40 final size:40
Alignment explanation
Indices: 177129911--177130020 Score: 148
Period size: 40 Copynumber: 2.8 Consensus size: 40
177129901 TTCACAATTT
* *
177129911 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAGTCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
* * *
177129951 GCACAATTGCCTTCGGGTCTTAACCCGGATGTAATTACCA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
* * *
177129991 GCATAAATGTCTTCGGGACTTAGCCCGGAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT
177130021 ATCATTCAAT
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 60 1.00
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
Found at i:177138009 original size:40 final size:40
Alignment explanation
Indices: 177137965--177138074 Score: 148
Period size: 40 Copynumber: 2.8 Consensus size: 40
177137955 TTCACAATTT
* *
177137965 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAGTCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
* * *
177138005 GCACAATTGCCTTCGGGTCTTAACCCGGATGTAATTACCA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
* * *
177138045 GCATAAATGTCTTCGGGACTTAGCCCGGAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT
177138075 ATCATTCAAT
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 60 1.00
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
Found at i:177141470 original size:27 final size:26
Alignment explanation
Indices: 177141430--177141481 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
177141420 CTCGCTGCAA
* *
177141430 TCTGGTGGCCTCGTCATATATATCTGT
1 TCTGGTGACCTCGTCACA-ATATCTGT
*
177141457 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGTCACAATATCTG
177141482 GCAGCCTTGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.23, G:0.21, T:0.38
Consensus pattern (26 bp):
TCTGGTGACCTCGTCACAATATCTGT
Found at i:177144950 original size:138 final size:138
Alignment explanation
Indices: 177144697--177144967 Score: 418
Period size: 138 Copynumber: 2.0 Consensus size: 138
177144687 CAAATACTCA
* * *
177144697 ATCATAGTCCATTCAATGTCTTTAATTGTAGCCTTTTGCAACTAGTCTTGCTTTGTATTTTTTGA
1 ATCATAGTCCACTCAATGTCTTTAATTGTAGCCCTTTGCAACTAGTCTTGCTTTGTATTTTCTGA
* ** **
177144762 CTTTTCCTTCTTTGTTAGTCTTTGTCTTGTACACCCATTTGACTTTAATTGGACTATGTCCTTCT
66 CTTTTCCTTCTTAGTTAGTCTTCATCTTGTACACCCATTTGACTCCAATTGGACTATGTCCTTCT
177144827 GGTCCTTC
131 GGTCCTTC
* *
177144835 ATCATAGTCCACTCTATGTCTTTACTTGTAGCCCTTTGCAACTAGTCTTGCTTTGTATTTCTCTG
1 ATCATAGTCCACTCAATGTCTTTAATTGTAGCCCTTTGCAACTAGTCTTGCTTTGTATTT-TCTG
* *
177144900 -CTTTTCCTTCTTAGTTAGTCTTCATCTTGTACACCTATTTGACTCCAATTGGACTATGTCTTTC
65 ACTTTTCCTTCTTAGTTAGTCTTCATCTTGTACACCCATTTGACTCCAATTGGACTATGTCCTTC
177144964 TGGT
130 TGGT
177144968 AGACTTGTTA
Statistics
Matches: 120, Mismatches: 12, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
138 117 0.98
139 3 0.03
ACGTcount: A:0.17, C:0.23, G:0.14, T:0.47
Consensus pattern (138 bp):
ATCATAGTCCACTCAATGTCTTTAATTGTAGCCCTTTGCAACTAGTCTTGCTTTGTATTTTCTGA
CTTTTCCTTCTTAGTTAGTCTTCATCTTGTACACCCATTTGACTCCAATTGGACTATGTCCTTCT
GGTCCTTC
Found at i:177145974 original size:13 final size:14
Alignment explanation
Indices: 177145951--177145980 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
177145941 TTTAACTTTT
177145951 TTTTCTTTTTCTTC
1 TTTTCTTTTTCTTC
177145965 TTTT-TTTTTCTTC
1 TTTTCTTTTTCTTC
177145978 TTT
1 TTT
177145981 CACATTTCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (14 bp):
TTTTCTTTTTCTTC
Found at i:177155876 original size:13 final size:14
Alignment explanation
Indices: 177155858--177155886 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
177155848 AATTGATTTA
177155858 AAGGTTAA-TTAGT
1 AAGGTTAACTTAGT
177155871 AAGGTTAACTTAGT
1 AAGGTTAACTTAGT
177155885 AA
1 AA
177155887 ATAAAATTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.41, C:0.03, G:0.21, T:0.34
Consensus pattern (14 bp):
AAGGTTAACTTAGT
Found at i:177157005 original size:29 final size:29
Alignment explanation
Indices: 177156972--177157045 Score: 132
Period size: 28 Copynumber: 2.6 Consensus size: 29
177156962 GGAGGATAGT
177156972 AAAAGTTTTGGGGGAAAGTGGGAAGGAGG
1 AAAAGTTTTGGGGGAAAGTGGGAAGGAGG
177157001 AAAAGTTTT-GGGGAAAGTGGGAAGGAGG
1 AAAAGTTTTGGGGGAAAGTGGGAAGGAGG
*
177157029 AAAAGTTTTGAGGGAAA
1 AAAAGTTTTGGGGGAAA
177157046 AGTAAAAAGG
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
28 28 0.65
29 15 0.35
ACGTcount: A:0.38, C:0.00, G:0.43, T:0.19
Consensus pattern (29 bp):
AAAAGTTTTGGGGGAAAGTGGGAAGGAGG
Found at i:177158064 original size:29 final size:28
Alignment explanation
Indices: 177158021--177158075 Score: 92
Period size: 29 Copynumber: 1.9 Consensus size: 28
177158011 GAGTTATACC
*
177158021 GATTTGGCTTTGGGCCATGAATATCAGCT
1 GATTTGGCTTCGGGCCATG-ATATCAGCT
177158050 GATTTGGCTTCGGGCCATGATATCAG
1 GATTTGGCTTCGGGCCATGATATCAG
177158076 TATTTCGGAT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
28 7 0.28
29 18 0.72
ACGTcount: A:0.20, C:0.18, G:0.29, T:0.33
Consensus pattern (28 bp):
GATTTGGCTTCGGGCCATGATATCAGCT
Found at i:177167410 original size:94 final size:93
Alignment explanation
Indices: 177167249--177167469 Score: 361
Period size: 94 Copynumber: 2.3 Consensus size: 93
177167239 CAGGTTTTTG
*
177167249 ACCCACACAGCCTGGACACACGGGCGTGTCCTAGGCCGTGTGACTTAACATGGGCGCGATAATAG
1 ACCCACACAGCCTGGACACAC-GGCATGTCCTAGGCCGTGTGACTTAACATGGGCGCGATAATAG
*
177167314 GTTCCACGGTTGTGCGATATAGCCATGTA
65 GTTCCACGGTCGTGCGATATAGCCATGTA
* *
177167343 ACCCACACGGCCTGGACATACGGCCATGTCCTAGGCCGTGTGACTTAACATGGGCGCGATAATAG
1 ACCCACACAGCCTGGACACACGG-CATGTCCTAGGCCGTGTGACTTAACATGGGCGCGATAATAG
*
177167408 GTTCCACGGTCGTGTGATATAGCCATGTA
65 GTTCCACGGTCGTGCGATATAGCCATGTA
*
177167437 CCCCACACAGCCTGGACACACAGGCATGTCCTA
1 ACCCACACAGCCTGGACACAC-GGCATGTCCTA
177167470 AGTCGTTTGA
Statistics
Matches: 117, Mismatches: 8, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
93 2 0.02
94 113 0.97
95 2 0.02
ACGTcount: A:0.24, C:0.29, G:0.27, T:0.20
Consensus pattern (93 bp):
ACCCACACAGCCTGGACACACGGCATGTCCTAGGCCGTGTGACTTAACATGGGCGCGATAATAGG
TTCCACGGTCGTGCGATATAGCCATGTA
Found at i:177168367 original size:7 final size:7
Alignment explanation
Indices: 177168357--177168406 Score: 57
Period size: 7 Copynumber: 7.0 Consensus size: 7
177168347 CCTTATTAGC
177168357 ATTATTT
1 ATTATTT
177168364 ATTATTT
1 ATTATTT
177168371 ATTATTT
1 ATTATTT
177168378 ATTA-TT
1 ATTATTT
177168384 ATTTATTT
1 A-TTATTT
*
177168392 CTTATGTT
1 ATTAT-TT
*
177168400 ACTATTT
1 ATTATTT
177168407 CTCTATTACT
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
6 3 0.08
7 27 0.73
8 7 0.19
ACGTcount: A:0.26, C:0.04, G:0.02, T:0.68
Consensus pattern (7 bp):
ATTATTT
Found at i:177170673 original size:40 final size:39
Alignment explanation
Indices: 177170637--177170743 Score: 142
Period size: 39 Copynumber: 2.7 Consensus size: 39
177170627 ATATCCGGAC
* *
177170637 TAAGATCCAAAGGCGTTCGTGCGAGTTAATAAATCCGGGT
1 TAAG-TCCGAAGGCATTCGTGCGAGTTAATAAATCCGGGT
* * * *
177170677 TAAGCCCGAAGGCATTTGTGCGAGTTACTAAACCCGGGT
1 TAAGTCCGAAGGCATTCGTGCGAGTTAATAAATCCGGGT
177170716 TAAGTCCCGAAGGCATTCGTGCGAGTTA
1 TAAGT-CCGAAGGCATTCGTGCGAGTTA
177170744 CTATAACCGG
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
39 33 0.57
40 25 0.43
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.24
Consensus pattern (39 bp):
TAAGTCCGAAGGCATTCGTGCGAGTTAATAAATCCGGGT
Found at i:177170744 original size:40 final size:40
Alignment explanation
Indices: 177170646--177170772 Score: 168
Period size: 40 Copynumber: 3.2 Consensus size: 40
177170636 CTAAGATCCA
* * *
177170646 AAGGCGTTCGTGCGAGTTAATAAATCCGGGTTAAG-CCCG
1 AAGGCATTCGTGCGAGTTACTAAACCCGGGTTAAGTCCCG
*
177170685 AAGGCATTTGTGCGAGTTACTAAACCCGGGTTAAGTCCCG
1 AAGGCATTCGTGCGAGTTACTAAACCCGGGTTAAGTCCCG
* *
177170725 AAGGCATTCGTGCGAGTTACTATAACCGGGGTT-TGTCCCG
1 AAGGCATTCGTGCGAGTTACTA-AACCCGGGTTAAGTCCCG
*
177170765 GAGGCATT
1 AAGGCATT
177170773 TGAGCTAGTC
Statistics
Matches: 78, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
39 31 0.40
40 38 0.49
41 9 0.12
ACGTcount: A:0.24, C:0.21, G:0.30, T:0.25
Consensus pattern (40 bp):
AAGGCATTCGTGCGAGTTACTAAACCCGGGTTAAGTCCCG
Found at i:177178817 original size:40 final size:39
Alignment explanation
Indices: 177178693--177178821 Score: 165
Period size: 39 Copynumber: 3.3 Consensus size: 39
177178683 GGACTAAGAT
* *
177178693 CCGAAGGCGTTCGTGCGAGTTAATAAATCCGGGTTAAG-C
1 CCGAAGGCATTCGTGCGAGTTACTAAA-CCGGGTTAAGTC
*
177178732 CCGAAGGCATTTGTGCGAGTTACTAAACCCGGGTTAAGT-
1 CCGAAGGCATTCGTGCGAGTTACTAAA-CCGGGTTAAGTC
*
177178771 CCGAAGGCATTCGTGCGAGTTACTATAACCGGGGTT-TGTC
1 CCGAAGGCATTCGTGCGAGTTACTA-AACC-GGGTTAAGTC
177178811 CCGAAGGCATT
1 CCGAAGGCATT
177178822 TGAGCTAGTC
Statistics
Matches: 80, Mismatches: 6, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
39 62 0.77
40 18 0.22
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGTTACTAAACCGGGTTAAGTC
Found at i:177184721 original size:40 final size:39
Alignment explanation
Indices: 177184677--177184895 Score: 235
Period size: 40 Copynumber: 5.5 Consensus size: 39
177184667 GCTCGATTGT
* * *
177184677 CTTCGGGACATT-GCCCGGTTATAGTGATTCGCACAATTGC
1 CTTCGGGAC-TTAGCCCGGTT-TAGTAACTCGCACAAATGC
* *
177184717 CTTCGGGAATTAGCCCGGATTTAGTAACTCGCACGAATGC
1 CTTCGGGACTTAGCCCGG-TTTAGTAACTCGCACAAATGC
* *
177184757 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGG-TTTAGTAACTCGCACAAATGC
* *
177184797 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGG-TTTAGTAACTCGCACAAATGC
* * * *
177184837 CTTCGGGAATT-GACCCGGATTTAGTCACTTAGCACAAAAGC
1 CTTCGGGACTTAG-CCCGG-TTTAGTAAC-TCGCACAAATGC
177184878 CTTCGGGACTTAGCCCGG
1 CTTCGGGACTTAGCCCGG
177184896 ACACCATTCG
Statistics
Matches: 156, Mismatches: 18, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
39 2 0.01
40 126 0.81
41 27 0.17
42 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.26
Consensus pattern (39 bp):
CTTCGGGACTTAGCCCGGTTTAGTAACTCGCACAAATGC
Found at i:177185608 original size:2 final size:2
Alignment explanation
Indices: 177185601--177185626 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
177185591 CATCATGTGC
177185601 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
177185627 GCTAGAGCCG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:177188710 original size:27 final size:28
Alignment explanation
Indices: 177188680--177188779 Score: 121
Period size: 27 Copynumber: 3.5 Consensus size: 28
177188670 ATAGTGAGTC
177188680 CGCACACTTAGTGCTATAAAATC-AACT
1 CGCACACTTAGTGCTATAAAATCAAACT
* *
177188707 CGCACACCTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATAAAATCAAACT
* * *
177188735 CGCACACTTAGTGCTGTACAAATTTAAAACC
1 CGCACACTTAGTGCTATA-AAA--TCAAACT
177188766 CGCACACTTAGTGC
1 CGCACACTTAGTGC
177188780 AATCTCATGA
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
27 21 0.34
28 20 0.32
29 2 0.03
31 19 0.31
ACGTcount: A:0.34, C:0.28, G:0.13, T:0.25
Consensus pattern (28 bp):
CGCACACTTAGTGCTATAAAATCAAACT
Found at i:177189639 original size:7 final size:7
Alignment explanation
Indices: 177189629--177189653 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
177189619 TCATCACCAC
177189629 AACATCA
1 AACATCA
177189636 AACATCA
1 AACATCA
177189643 AACATCA
1 AACATCA
177189650 AACA
1 AACA
177189654 AGAAGACAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.28, G:0.00, T:0.12
Consensus pattern (7 bp):
AACATCA
Found at i:177193566 original size:17 final size:18
Alignment explanation
Indices: 177193524--177193572 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
177193514 AGTTGAAAAG
177193524 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
177193543 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
177193560 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
177193573 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:177194459 original size:40 final size:40
Alignment explanation
Indices: 177194393--177194559 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
177194383 AAATTGAATG
* * *
177194393 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
177194432 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
177194472 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
177194512 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
177194552 ATATCCGG
1 ATATCCGG
177194560 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:177199394 original size:27 final size:28
Alignment explanation
Indices: 177199364--177199463 Score: 121
Period size: 27 Copynumber: 3.5 Consensus size: 28
177199354 ATAGTGAGTC
177199364 CGCACACTTAGTGCTATAAAATC-AACT
1 CGCACACTTAGTGCTATAAAATCAAACT
* *
177199391 CGCACACCTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATAAAATCAAACT
* * *
177199419 CGCACACTTAGTGCTGTACAAATTTAAAACC
1 CGCACACTTAGTGCTATA-AAA--TCAAACT
177199450 CGCACACTTAGTGC
1 CGCACACTTAGTGC
177199464 AATCTCATGA
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
27 21 0.34
28 20 0.32
29 2 0.03
31 19 0.31
ACGTcount: A:0.34, C:0.28, G:0.13, T:0.25
Consensus pattern (28 bp):
CGCACACTTAGTGCTATAAAATCAAACT
Found at i:177200320 original size:7 final size:7
Alignment explanation
Indices: 177200308--177200332 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
177200298 TCATCACCAC
177200308 AACATCA
1 AACATCA
177200315 AACATCA
1 AACATCA
177200322 AACATCA
1 AACATCA
177200329 AACA
1 AACA
177200333 AGAAGACAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.28, G:0.00, T:0.12
Consensus pattern (7 bp):
AACATCA
Found at i:177201100 original size:30 final size:30
Alignment explanation
Indices: 177201056--177201144 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
177201046 CAAAGATAAC
177201056 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
177201085 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
177201115 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
177201145 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:177201104 original size:15 final size:15
Alignment explanation
Indices: 177201056--177201135 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
177201046 CAAAGATAAC
*
177201056 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
177201070 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
177201085 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
177201100 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
177201115 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
177201130 AAGAAA
1 AAGAAA
177201136 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:177201144 original size:15 final size:15
Alignment explanation
Indices: 177201067--177201144 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
177201057 AGAAAACCGA
177201067 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
177201082 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
177201096 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
177201111 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
177201127 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
177201142 ATA
1 ATA
177201145 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:177204123 original size:46 final size:46
Alignment explanation
Indices: 177204056--177204234 Score: 182
Period size: 46 Copynumber: 3.9 Consensus size: 46
177204046 TGTAACCCGC
* * * * *
177204056 CCATAAGTGAACTTGGACTCAACTCAATGAGCTCGGGTGTTCGCAT
1 CCATAAGTGAACTCGAACTCAACTCAACGAGCTCGGATGCTCGCAT
* *
177204102 CCATAAGTGAACTCGAACTCAACTCAACGAGCTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGAACTCAACTCAACGAGCTCGGATG-CTCGCAT
* *** * * *
177204148 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGT-GAACTCGAACTCAACTCAACGAGCTCGGATGCTCGCAT
*
177204195 CCATAAGTGAACTC-AGACTCAACTCAACGAGTTCGGATGC
1 CCATAAGTGAACTCGA-ACTCAACTCAACGAGCTCGGATGC
177204235 CCAAATATCC
Statistics
Matches: 107, Mismatches: 22, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
46 72 0.67
47 35 0.33
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGAACTCAACTCAACGAGCTCGGATGCTCGCAT
Found at i:177204193 original size:93 final size:93
Alignment explanation
Indices: 177204064--177204235 Score: 265
Period size: 93 Copynumber: 1.8 Consensus size: 93
177204054 GCCCATAAGT
* * ** *
177204064 GAACTTGGACTCAACTCAATGAGCTCGGGTGTTCGCATCCATAAGTGAACTC-GAACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCAG-ACTCAACTCA
177204128 ACGAGCTCGGATGCCTAGTTACATCTCTC
65 ACGAGCTCGGATGCCTAGTTACATCTCTC
*
177204157 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCAGACTCAACTCAA
*
177204222 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
177204236 CAAATATCCC
Statistics
Matches: 71, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
93 70 0.99
94 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCAGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:177211211 original size:46 final size:46
Alignment explanation
Indices: 177211161--177211336 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
177211151 TGGTTGAGCA
177211161 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
177211207 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
177211252 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
177211300 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
177211337 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:177211317 original size:93 final size:93
Alignment explanation
Indices: 177211158--177211329 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
177211148 GGATGGTTGA
* *
177211158 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
177211223 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
177211251 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
177211316 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
177211330 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:177218723 original size:46 final size:46
Alignment explanation
Indices: 177218673--177218848 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
177218663 TGGTTGAGCA
177218673 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
177218719 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
177218764 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
177218812 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
177218849 GGGTTACATG
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:177218829 original size:93 final size:93
Alignment explanation
Indices: 177218670--177218841 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
177218660 GGATGGTTGA
* *
177218670 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
177218735 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
177218763 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
177218828 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
177218842 CTTATGGGGG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:177227273 original size:46 final size:44
Alignment explanation
Indices: 177227164--177227557 Score: 355
Period size: 45 Copynumber: 8.7 Consensus size: 44
177227154 ATGATTGAAG
* * * *
177227164 GATGCCACAGTGTCTTTCAACCATGGTCTTATTTATTCTCGACT-T
1 GATGCCATAGTGTCTTTCAA-CATGGTCTTATTCATTTTTGA-TAT
* * *
177227209 GATGCCATAATATCTTTCAATCCTGGTCTTATTCACTTTTTGATAT
1 GATGCCATAGTGTCTTTCAA-CATGGTCTTATTCA-TTTTTGATAT
* *
177227255 GATGCCATAGTGTCTTTCAACCATAGTCTTATACAGTTTTTGATAT
1 GATGCCATAGTGTCTTTCAA-CATGGTCTTATTCA-TTTTTGATAT
* * * * * * *
177227301 AATGCCATAGTGTCTTTTAAATATAGTCTTATCCATTTTCGATAG
1 GATGCCATAGTGTC-TTTCAACATGGTCTTATTCATTTTTGATAT
*
177227346 GATGCAATAGTGTCTTTCAACTATGGTCTTATTCATTTTTTGATAT
1 GATGCCATAGTGTCTTTCAAC-ATGGTCTTATTCA-TTTTTGATAT
* * *
177227392 GATGCCATAGTGTCTTTCAACTATGGCCTTATCCATTTTTGATAG
1 GATGCCATAGTGTCTTTCAAC-ATGGTCTTATTCATTTTTGATAT
* ***
177227437 GATTCCATAGTGTCTTT-AACTATGGTCTTATTCACTTTCCAATAT
1 GATGCCATAGTGTCTTTCAAC-ATGGTCTTATTCA-TTTTTGATAT
* * *
177227482 GATGCCATAGTGTCTTTCAACTATGGTATTACTCA--TCTGAATCAT
1 GATGCCATAGTGTCTTTCAAC-ATGGTCTTATTCATTTTTG-AT-AT
**
177227527 GATGCCATAGCATCTTTCAACTATGGTCTTA
1 GATGCCATAGTGTCTTTCAAC-ATGGTCTTA
177227558 CTCGATTGAA
Statistics
Matches: 292, Mismatches: 48, Indels: 18
0.82 0.13 0.05
Matches are distributed among these distances:
43 2 0.01
44 22 0.08
45 138 0.47
46 125 0.43
47 5 0.02
ACGTcount: A:0.25, C:0.19, G:0.14, T:0.42
Consensus pattern (44 bp):
GATGCCATAGTGTCTTTCAACATGGTCTTATTCATTTTTGATAT
Found at i:177227350 original size:91 final size:91
Alignment explanation
Indices: 177227158--177227557 Score: 384
Period size: 91 Copynumber: 4.4 Consensus size: 91
177227148 ATAGTAATGA
* * * * * *
177227158 TTGA-AGGATGCCACAGTGTCTTTCAACCATGGTCTTATTTA-TTCTCGACT-TGATGCCATAAT
1 TTGATAGGATGCCATAGTGTCTTTCAACTATGGTCTTATTCACTTTTTGA-TATGATGCCATAGT
* * * *
177227220 ATCTTTC-AATCCTGGTCTTATTCACTTT
65 GTCTTTCAAAT-ATAGTCTTATCCA-TTT
* * * * * *
177227248 TTGATATGATGCCATAGTGTCTTTCAACCATAGTCTTATACAGTTTTTGATATAATGCCATAGTG
1 TTGATAGGATGCCATAGTGTCTTTCAACTATGGTCTTATTCACTTTTTGATATGATGCCATAGTG
*
177227313 TCTTTTAAATATAGTCTTATCCATTT
66 TCTTTCAAATATAGTCTTATCCATTT
* * *
177227339 TCGATAGGATGCAATAGTGTCTTTCAACTATGGTCTTATTCATTTTTTGATATGATGCCATAGTG
1 TTGATAGGATGCCATAGTGTCTTTCAACTATGGTCTTATTCACTTTTTGATATGATGCCATAGTG
* * *
177227404 TCTTTCAACTATGGCCTTATCCATTT
66 TCTTTCAAATATAGTCTTATCCATTT
* ***
177227430 TTGATAGGATTCCATAGTGTCTTT-AACTATGGTCTTATTCACTTTCCAATATGATGCCATAGTG
1 TTGATAGGATGCCATAGTGTCTTTCAACTATGGTCTTATTCACTTTTTGATATGATGCCATAGTG
* * *
177227494 TCTTTCAACTATGGTATTA-CTCA--T
66 TCTTTCAAATATAGTCTTATC-CATTT
* * **
177227518 CTGAATCATGATGCCATAGCATCTTTCAACTATGGTCTTA
1 TTG-AT-AGGATGCCATAGTGTCTTTCAACTATGGTCTTA
177227558 CTCGATTGAA
Statistics
Matches: 262, Mismatches: 40, Indels: 15
0.83 0.13 0.05
Matches are distributed among these distances:
88 3 0.01
89 3 0.01
90 74 0.28
91 149 0.57
92 30 0.11
93 3 0.01
ACGTcount: A:0.25, C:0.19, G:0.15, T:0.42
Consensus pattern (91 bp):
TTGATAGGATGCCATAGTGTCTTTCAACTATGGTCTTATTCACTTTTTGATATGATGCCATAGTG
TCTTTCAAATATAGTCTTATCCATTT
Found at i:177227582 original size:45 final size:45
Alignment explanation
Indices: 177227480--177227584 Score: 158
Period size: 45 Copynumber: 2.3 Consensus size: 45
177227470 ACTTTCCAAT
** *
177227480 ATGATGCCATAGTGTCTTTCAACTATGGTATTACTCATCTGAATC
1 ATGATGCCATAGCATCTTTCAACTATGGTATTACTCATCTGAATA
*
177227525 ATGATGCCATAGCATCTTTCAACTATGGTCTTACTCGAT-TGAATA
1 ATGATGCCATAGCATCTTTCAACTATGGTATTACTC-ATCTGAATA
177227570 ATGATGCCATAGCAT
1 ATGATGCCATAGCAT
177227585 GTAACACCCC
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
45 53 0.96
46 2 0.04
ACGTcount: A:0.29, C:0.20, G:0.16, T:0.35
Consensus pattern (45 bp):
ATGATGCCATAGCATCTTTCAACTATGGTATTACTCATCTGAATA
Found at i:177229767 original size:27 final size:28
Alignment explanation
Indices: 177229711--177229780 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
177229701 AAACTTGTAC
177229711 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
177229739 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
177229766 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
177229781 GACTCACTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 23 0.57
28 17 0.43
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:177229791 original size:27 final size:27
Alignment explanation
Indices: 177229711--177229792 Score: 69
Period size: 27 Copynumber: 3.0 Consensus size: 27
177229701 AAACTTGTAC
* *
177229711 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
177229739 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
*
177229766 AGCACTGAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
177229793 GCTTTTGAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
26 1 0.02
27 29 0.60
28 18 0.38
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:177231772 original size:54 final size:54
Alignment explanation
Indices: 177231704--177232262 Score: 305
Period size: 54 Copynumber: 10.4 Consensus size: 54
177231694 TTTAGTTTAC
* * * *
177231704 TAAAATTACCGAAATACCCTTAGTTTGTAAAATTACTGAAATACCCTCGATTTG
1 TAAAATTACCAAAATACCCTTCGTTTATAAAATTACTAAAATACCCTCGATTTG
** * * * * * *
177231758 TAAAATTACTGAAATA-CCTTCGACTTGTAAAATTA-TCAAAGTACCCCCGGTTTA
1 TAAAATTACCAAAATACCCTTCG-TTTATAAAATTACT-AAAATACCCTCGATTTG
* * * * * * *
177231812 TAAAATTACCGAAATA-TCGTCGATTGTAAAATTACTAAAATGCCCTCAATTTG
1 TAAAATTACCAAAATACCCTTCGTTTATAAAATTACTAAAATACCCTCGATTTG
* * * * *** *
177231865 TAAAATTACCAAAGTACCC-TCGATTTACAGAATTACCATTTTACCCTCGATTTA
1 TAAAATTACCAAAATACCCTTCG-TTTATAAAATTACTAAAATACCCTCGATTTG
* *** * ***** * **
177231919 TAGAATTACCATTTTACCC-TCGATTTATAGAATTACCGTTTTATCCTTAATTT-
1 TAAAATTACCAAAATACCCTTCG-TTTATAAAATTACTAAAATACCCTCGATTTG
* * *** * * * * *** *
177231972 AAAGAATTATCATTTTATCC-TCGATTTACAGAATTACGATTTTACCCTCGATTTA
1 TAA-AATTACCAAAATACCCTTCG-TTTATAAAATTACTAAAATACCCTCGATTTG
* * * * * *
177232027 CAAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCGATTAG
1 TAAAATTACCAAAATACCCTTCGTTTATAAAATTACTAAAATACCCTCGATTTG
* * *
177232081 TAAAATTACCAAAATACCTTTTGTTTATAAAATTACTAAAATACCCTCGATTAG
1 TAAAATTACCAAAATACCCTTCGTTTATAAAATTACTAAAATACCCTCGATTTG
* *
177232135 TAAAATTACCAAAACACCCCTT-GTTTATAAAATTACTAAAATACTCCT-GGTTTG
1 TAAAATTACCAAAATA-CCCTTCGTTTATAAAATTACTAAAATAC-CCTCGATTTG
* * * * *
177232189 TAAAATTACCAAAATACCCCT-GATTTGTGAAATTA-TCGAAATACTCTCGATTTG
1 TAAAATTACCAAAATACCCTTCG-TTTATAAAATTACT-AAAATACCCTCGATTTG
* *
177232243 TAAAA-TATCGAAATACCCTT
1 TAAAATTACCAAAATACCCTT
177232263 GTAGGGTAGA
Statistics
Matches: 406, Mismatches: 86, Indels: 27
0.78 0.17 0.05
Matches are distributed among these distances:
53 66 0.16
54 329 0.81
55 11 0.03
ACGTcount: A:0.37, C:0.19, G:0.09, T:0.34
Consensus pattern (54 bp):
TAAAATTACCAAAATACCCTTCGTTTATAAAATTACTAAAATACCCTCGATTTG
Found at i:177231885 original size:27 final size:26
Alignment explanation
Indices: 177231704--177232261 Score: 241
Period size: 27 Copynumber: 20.7 Consensus size: 26
177231694 TTTAGTTTAC
*
177231704 TAAAATTACCGAAATACCCT-TAGTTTG
1 TAAAATTACC-AAATACCCTCGA-TTTG
*
177231731 TAAAATTACTGAAATACCCTCGATTTG
1 TAAAATTAC-CAAATACCCTCGATTTG
* * *
177231758 TAAAATTACTGAAATACCTTCGACTTG
1 TAAAATTAC-CAAATACCCTCGATTTG
* * * *
177231785 TAAAATTATCAAAGTACCCCCGGTTTA
1 TAAAATTACCAAA-TACCCTCGATTTG
* *
177231812 TAAAATTACCGAAATATCGTCGA-TTG
1 TAAAATTACC-AAATACCCTCGATTTG
* * *
177231838 TAAAATTACTAAAATGCCCTCAATTTG
1 TAAAATTAC-CAAATACCCTCGATTTG
*
177231865 TAAAATTACCAAAGTACCCTCGATTTA
1 TAAAATTACCAAA-TACCCTCGATTTG
* * ** *
177231892 CAGAATTACCATTTTACCCTCGATTTA
1 TAAAATTACCA-AATACCCTCGATTTG
* ** *
177231919 TAGAATTACCATTTTACCCTCGATTTA
1 TAAAATTACCA-AATACCCTCGATTTG
* *** * **
177231946 TAGAATTACCGTTTTATCCTTAATTT-
1 TAAAATTACC-AAATACCCTCGATTTG
* * ** * *
177231972 AAAGAATTATCATTTTATCCTCGATTTA
1 TAA-AATTACCA-AATACCCTCGATTTG
* * * ** *
177232000 CAGAATTACGATTTTACCCTCGATTTA
1 TAAAATTACCA-AATACCCTCGATTTG
* * * * *
177232027 CAAAATTACTAAAATACCCTTGGTTTA
1 TAAAATTAC-CAAATACCCTCGATTTG
* *
177232054 CAAAATTACCAAAATACCCTCGATTAG
1 TAAAATTACC-AAATACCCTCGATTTG
* * *
177232081 TAAAATTACCAAAATACCTTTTG-TTTA
1 TAAAATTACC-AAATACC-CTCGATTTG
* *
177232108 TAAAATTACTAAAATACCCTCGATTAG
1 TAAAATTAC-CAAATACCCTCGATTTG
* * *
177232135 TAAAATTACCAAAACACCCCTTG-TTTA
1 TAAAATTACC-AAATA-CCCTCGATTTG
* *
177232162 TAAAATTACTAAAATACTCCT-GGTTTG
1 TAAAATTAC-CAAATAC-CCTCGATTTG
177232189 TAAAATTACCAAAATACCC-CTGATTTG
1 TAAAATTACC-AAATACCCTC-GATTTG
* * *
177232216 TGAAATTATCGAAATACTCTCGATTTG
1 TAAAATTA-CCAAATACCCTCGATTTG
*
177232243 TAAAA-TATCGAAATACCCT
1 TAAAATTA-CCAAATACCCT
177232262 TGTAGGGTAG
Statistics
Matches: 422, Mismatches: 82, Indels: 55
0.75 0.15 0.10
Matches are distributed among these distances:
26 45 0.11
27 362 0.86
28 15 0.04
ACGTcount: A:0.37, C:0.20, G:0.09, T:0.34
Consensus pattern (26 bp):
TAAAATTACCAAATACCCTCGATTTG
Found at i:177231919 original size:107 final size:108
Alignment explanation
Indices: 177231699--177231928 Score: 252
Period size: 107 Copynumber: 2.1 Consensus size: 108
177231689 AATACTTTAG
* * * *
177231699 TTTACTAAAATTACCGAAATACCCTTAGTTTGTAAAATTACTGAAATACCCTCGATTTGTAAAAT
1 TTTA-TAAAATTACCGAAATACCCGTAGATTGTAAAATTACTAAAATACCCTCAATTTGTAAAAT
* * * *
177231764 TACTGAAATACCTTCGACTTGTAAAATTATCAAAGTACCCCCGG
65 TACTCAAATACCCTCGACTTGTAAAATTACCAAAGTACCCCCGA
* * *
177231808 TTTATAAAATTACCGAAATA-TCGTCGATTGTAAAATTACTAAAATGCCCTCAATTTGTAAAATT
1 TTTATAAAATTACCGAAATACCCGTAGATTGTAAAATTACTAAAATACCCTCAATTTGTAAAATT
*** *
177231872 AC-CAAAGTACCCTCGA-TT-TACAGAATTACCATTTTACCCTCGA
66 ACTCAAA-TACCCTCGACTTGTA-A-AATTACCAAAGTACCCCCGA
*
177231915 TTTATAGAATTACC
1 TTTATAAAATTACC
177231929 ATTTTACCCT
Statistics
Matches: 102, Mismatches: 16, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
105 2 0.02
106 6 0.06
107 74 0.73
108 16 0.16
109 4 0.04
ACGTcount: A:0.37, C:0.20, G:0.10, T:0.33
Consensus pattern (108 bp):
TTTATAAAATTACCGAAATACCCGTAGATTGTAAAATTACTAAAATACCCTCAATTTGTAAAATT
ACTCAAATACCCTCGACTTGTAAAATTACCAAAGTACCCCCGA
Found at i:177232088 original size:81 final size:80
Alignment explanation
Indices: 177231699--177232261 Score: 271
Period size: 81 Copynumber: 7.0 Consensus size: 80
177231689 AATACTTTAG
* * ** **
177231699 TTTACTAAAATTACCGAAATACCCTTAGTTTGTAAAATTACTGAAATACCCTCGATTTGTAAAAT
1 TTTA-TAAAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCGA-TTGTAAAAT
*
177231764 TACTGA-AATACCTTCGA
64 TAC-GATAATACCCTCGA
* * * * ** * * * *
177231781 CTTGTAAAATTATCAAAGTACCCCCGGTTTATAAAATTACCGAAATATCGTCGATTGTAAAATTA
1 TTTATAAAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCGATTGTAAAATTA
* * * *
177231846 CTAAAATGCCCTCAA
66 CGATAATACCCTCGA
* * * * * ***
177231861 TTTGTAAAATTACCAAAGTACCCTCGATTTACAGAATTACCATTTTACCCTCGATT-TATAGAAT
1 TTTATAAAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCGATTGTA-A-AAT
* **
177231925 TACCATTTTACCCTCGA
64 TACGATAATACCCTCGA
* **** * ** * *** *
177231942 TTTATAGAATTACCGTTTTATCCTTAATTTA-AAGAATTATCATTTTATCCTCGATT-TACAGAA
1 TTTATAAAATTACCAAAATACCCTTGGTTTACAA-AATTACCAAAATACCCTCGATTGTA-A-AA
**
177232005 TTACGATTTTACCCTCGA
63 TTACGATAATACCCTCGA
* *
177232023 TTTACAAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCGATTAGTAAAATT
1 TTTATAAAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCGATT-GTAAAATT
* * * *
177232088 ACCAAAATACCTTTTG-
65 ACGATAATACC-CTCGA
* * * * * * * *
177232104 TTTATAAAATTACTAAAATACCC-TCGATTAGTAAAATTACCAAAACACCCCTTGTTTATAAAAT
1 TTTATAAAATTACCAAAATACCCTTGGTTTA-CAAAATTACCAAAATA-CCCTCGATTGTAAAAT
* * *
177232168 TACTAAAATACTCCT-GG
64 TACGATAATAC-CCTCGA
* * * *** * * *
177232185 TTTGTAAAATTACCAAAATACCCCTGATTTGTGAAATTATCGAAATACTCTCGATTTGTAAAA-T
1 TTTATAAAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCGA-TTGTAAAATT
177232249 ATCGA-AATACCCT
65 A-CGATAATACCCT
177232262 TGTAGGGTAG
Statistics
Matches: 372, Mismatches: 94, Indels: 33
0.75 0.19 0.07
Matches are distributed among these distances:
79 6 0.02
80 83 0.22
81 263 0.71
82 18 0.05
83 2 0.01
ACGTcount: A:0.37, C:0.20, G:0.09, T:0.34
Consensus pattern (80 bp):
TTTATAAAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCGATTGTAAAATTA
CGATAATACCCTCGA
Found at i:177232292 original size:27 final size:27
Alignment explanation
Indices: 177232251--177232412 Score: 236
Period size: 27 Copynumber: 6.0 Consensus size: 27
177232241 TGTAAAATAT
*
177232251 CGAAATACCCTTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
* *
177232278 AGAAATACCCCTGTAGGGTAAAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
177232305 CGAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
*
177232332 TGAAATACCCCTGTA-GGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
*
177232358 CGAAATACCCCTGTAGGGTAGAATTAT
1 CGAAATACCCCTGTAGGGTAGAATTAC
* * * *
177232385 CGAGATACCCTTGTGGGGTAAAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
177232412 C
1 C
177232413 ATTTTGCCCC
Statistics
Matches: 121, Mismatches: 13, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
26 25 0.21
27 96 0.79
ACGTcount: A:0.34, C:0.20, G:0.22, T:0.25
Consensus pattern (27 bp):
CGAAATACCCCTGTAGGGTAGAATTAC
Found at i:177232302 original size:80 final size:80
Alignment explanation
Indices: 177232252--177232411 Score: 239
Period size: 80 Copynumber: 2.0 Consensus size: 80
177232242 GTAAAATATC
* *
177232252 GAAATACCCTTGTAGGGTAGAATTACAGAAATACCCCTGTAGGGTAAAATTACCGAAATACCCCT
1 GAAATACCCCTGTA-GGTAGAATTACAGAAATACCCCTGTAGGGTAAAATTATCGAAATACCCCT
*
177232317 GTAGGGTAGAATTACT
65 GTAGGGTAAAATTACT
* * * *
177232333 GAAATACCCCTGTAGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTATCGAGATACCCTTG
1 GAAATACCCCTGTAGGTAGAATTACAGAAATACCCCTGTAGGGTAAAATTATCGAAATACCCCTG
*
177232398 TGGGGTAAAATTAC
66 TAGGGTAAAATTAC
177232412 CATTTTGCCC
Statistics
Matches: 71, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
80 58 0.82
81 13 0.18
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.25
Consensus pattern (80 bp):
GAAATACCCCTGTAGGTAGAATTACAGAAATACCCCTGTAGGGTAAAATTATCGAAATACCCCTG
TAGGGTAAAATTACT
Found at i:177232330 original size:107 final size:107
Alignment explanation
Indices: 177232188--177232413 Score: 248
Period size: 107 Copynumber: 2.1 Consensus size: 107
177232178 CTCCTGGTTT
** * **
177232188 GTAAAATTACCAAAATACCCCTGATTTGTGAAATTA-TCGAAATA-CTCTCGATTTGTA-AAATA
1 GTAAAATTACCAAAATACCCCTGATGGGTGAAATTACT-GAAATACCCCT-G-TAGGTAGAAATA
* *
177232250 TCGAAATACCCTTGTAGGGTAGAATTA-CAGAAATACCCCTGTAGG
63 CCGAAATACCCCTGTAGGGTAGAATTATC-GAAATACCCCTGTAGG
* *
177232295 GTAAAATTACCGAAATACCCCTG-TAGGGT-AGAATTACTGAAATACCCCTGTAGGTAGAATTAC
1 GTAAAATTACCAAAATACCCCTGAT-GGGTGA-AATTACTGAAATACCCCTGTAGGTAGAAATAC
* * *
177232358 CGAAATACCCCTGTAGGGTAGAATTATCGAGATACCCTTGTGGG
64 CGAAATACCCCTGTAGGGTAGAATTATCGAAATACCCCTGTAGG
177232402 GTAAAATTACCA
1 GTAAAATTACCA
177232414 TTTTGCCCCT
Statistics
Matches: 100, Mismatches: 13, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
106 6 0.06
107 89 0.89
108 5 0.05
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.27
Consensus pattern (107 bp):
GTAAAATTACCAAAATACCCCTGATGGGTGAAATTACTGAAATACCCCTGTAGGTAGAAATACCG
AAATACCCCTGTAGGGTAGAATTATCGAAATACCCCTGTAGG
Found at i:177233398 original size:27 final size:27
Alignment explanation
Indices: 177233360--177233430 Score: 124
Period size: 27 Copynumber: 2.6 Consensus size: 27
177233350 TCATATAACT
*
177233360 GGGGTATTTCGATAATTCTACCCTACA
1 GGGGTATTTCGATAATTCTACACTACA
177233387 GGGGTATTTCGATAATTCTACACTACA
1 GGGGTATTTCGATAATTCTACACTACA
*
177233414 GGGGTATTTCAATAATT
1 GGGGTATTTCGATAATT
177233431 TTGTAAATCG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (27 bp):
GGGGTATTTCGATAATTCTACACTACA
Found at i:177233445 original size:27 final size:27
Alignment explanation
Indices: 177233415--177233756 Score: 133
Period size: 27 Copynumber: 12.6 Consensus size: 27
177233405 TACACTACAG
*
177233415 GGGTATTTCAATAATTTTGTAAATCGA
1 GGGTATTTCAGTAATTTTGTAAATCGA
** * * * *
177233442 GGGTAAAAT-GGTAATTCTGTAAATTGG
1 GGGT-ATTTCAGTAATTTTGTAAATCGA
* *
177233469 GGGTACTTT-GGTAATTTT-TACAAGTTGA
1 GGGTA-TTTCAGTAATTTTGTA-AA-TCGA
* **
177233497 GGGTATTTCAATAATTTTACAAATCGA
1 GGGTATTTCAGTAATTTTGTAAATCGA
* *
177233524 GGGTATTTCAGTAATTTTGCAAA-CTAA
1 GGGTATTTCAGTAATTTTGTAAATC-GA
* ***
177233551 GGGTATTTCGGTAATTTCACAAATC-A
1 GGGTATTTCAGTAATTTTGTAAATCGA
** ** *
177233577 GGGGTATTTTGGTAATTTTACAAA-CCA
1 -GGGTATTTCAGTAATTTTGTAAATCGA
** ** *
177233604 GGGGTATTTTGGTAATTTTACAAA-CCA
1 -GGGTATTTCAGTAATTTTGTAAATCGA
** * *
177233631 GGGGTATTTTGGTAATTTTGTAAACCAA
1 -GGGTATTTCAGTAATTTTGTAAATCGA
** ** *
177233659 GGGTATTTTGGTAATTTTACAAGTCGA
1 GGGTATTTCAGTAATTTTGTAAATCGA
***
177233686 GGGTATTTCAGTAATTTCACAAATC-A
1 GGGTATTTCAGTAATTTTGTAAATCGA
** ** *
177233712 GTGGTATTTTGGTAATTTTACAAGTCGA
1 G-GGTATTTCAGTAATTTTGTAAATCGA
*
177233740 GGGTATTTTAGTAATTT
1 GGGTATTTCAGTAATTT
177233757 CACAAATTAG
Statistics
Matches: 262, Mismatches: 40, Indels: 26
0.80 0.12 0.08
Matches are distributed among these distances:
26 8 0.03
27 229 0.87
28 24 0.09
29 1 0.00
ACGTcount: A:0.30, C:0.09, G:0.22, T:0.39
Consensus pattern (27 bp):
GGGTATTTCAGTAATTTTGTAAATCGA
Found at i:177233610 original size:81 final size:81
Alignment explanation
Indices: 177233508--177233884 Score: 380
Period size: 81 Copynumber: 4.7 Consensus size: 81
177233498 GGTATTTCAA
* * * *
177233508 TAATTTTACAAATC-GAGGGTATTTCAGTAATTTTGCAAACTAAGGGTATTTCGGTAATTTCACA
1 TAATTTTACAAATCAG-GGGTATTTTAGTAATTTTACAAACTAAGGGTATTTTGGTAATTTTACA
177233572 AATCAGGGGTATTTTGG
65 AATCAGGGGTATTTTGG
* * * * **
177233589 TAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAA
1 TAATTTTACAAATCAGGGGTATTTTAGTAATTTTACAAACTAAGGGTATTTTGGTAATTTTACAA
* *
177233654 ACCAAGGGTATTTTGG
66 ATCAGGGGTATTTTGG
* * * *
177233670 TAATTTTACAAGTC-GAGGGTATTTCAGTAATTTCACAAA-TCAGTGGTATTTTGGTAATTTTAC
1 TAATTTTACAAATCAG-GGGTATTTTAGTAATTTTACAAACTAAG-GGTATTTTGGTAATTTTAC
* *
177233733 AAGTC-GAGGGTATTTTAG
64 AAATCAG-GGGTATTTTGG
* * * * *
177233751 TAATTTCACAAATTAGGGGTATTTTGGTAATTTCACAAACTAAAGGTATTTTGGTAA--TTAC--
1 TAATTTTACAAATCAGGGGTATTTTAGTAATTTTACAAACTAAGGGTATTTTGGTAATTTTACAA
177233812 --CA-GGGTATTTTGG
66 ATCAGGGGTATTTTGG
* * * * * *
177233825 TAATTGTACAAACCAGGGGTATTTTAGTAATTTTACAAATTGAGGGCATTTTAGTAATTT
1 TAATTTTACAAATCAGGGGTATTTTAGTAATTTTACAAACTAAGGGTATTTTGGTAATTT
177233885 GGTAAACTAA
Statistics
Matches: 242, Mismatches: 45, Indels: 23
0.78 0.15 0.07
Matches are distributed among these distances:
74 56 0.23
75 1 0.00
76 1 0.00
79 4 0.02
80 2 0.01
81 174 0.72
82 4 0.02
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.39
Consensus pattern (81 bp):
TAATTTTACAAATCAGGGGTATTTTAGTAATTTTACAAACTAAGGGTATTTTGGTAATTTTACAA
ATCAGGGGTATTTTGG
Found at i:177233761 original size:27 final size:27
Alignment explanation
Indices: 177233469--177233884 Score: 331
Period size: 27 Copynumber: 15.6 Consensus size: 27
177233459 TGTAAATTGG
* * *
177233469 GGGTACTTTGGTAATTTTTACAAGTTGA
1 GGGTATTTTGGTAA-TTTTACAAATCGA
***
177233497 GGGTATTTCAATAATTTTACAAATCGA
1 GGGTATTTTGGTAATTTTACAAATCGA
** * *
177233524 GGGTATTTCAGTAATTTTGCAAA-CTAA
1 GGGTATTTTGGTAATTTTACAAATC-GA
* *
177233551 GGGTATTTCGGTAATTTCACAAATC-A
1 GGGTATTTTGGTAATTTTACAAATCGA
*
177233577 GGGGTATTTTGGTAATTTTACAAA-CCA
1 -GGGTATTTTGGTAATTTTACAAATCGA
*
177233604 GGGGTATTTTGGTAATTTTACAAA-CCA
1 -GGGTATTTTGGTAATTTTACAAATCGA
** * *
177233631 GGGGTATTTTGGTAATTTTGTAAACCAA
1 -GGGTATTTTGGTAATTTTACAAATCGA
*
177233659 GGGTATTTTGGTAATTTTACAAGTCGA
1 GGGTATTTTGGTAATTTTACAAATCGA
** *
177233686 GGGTATTTCAGTAATTTCACAAATC-A
1 GGGTATTTTGGTAATTTTACAAATCGA
*
177233712 GTGGTATTTTGGTAATTTTACAAGTCGA
1 G-GGTATTTTGGTAATTTTACAAATCGA
* * *
177233740 GGGTATTTTAGTAATTTCACAAAT-TA
1 GGGTATTTTGGTAATTTTACAAATCGA
* *
177233766 GGGGTATTTTGGTAATTTCACAAA-CTAA
1 -GGGTATTTTGGTAATTTTACAAATC-GA
*
177233794 AGGTATTTTGGTAA--TTAC----C-A
1 GGGTATTTTGGTAATTTTACAAATCGA
* *
177233814 GGGTATTTTGGTAATTGTACAAA-CCA
1 GGGTATTTTGGTAATTTTACAAATCGA
* *
177233840 GGGGTATTTTAGTAATTTTACAAATTGA
1 -GGGTATTTTGGTAATTTTACAAATCGA
* *
177233868 GGGCATTTTAGTAATTT
1 GGGTATTTTGGTAATTT
177233885 GGTAAACTAA
Statistics
Matches: 325, Mismatches: 45, Indels: 37
0.80 0.11 0.09
Matches are distributed among these distances:
20 14 0.04
22 4 0.01
25 4 0.01
26 7 0.02
27 279 0.86
28 17 0.05
ACGTcount: A:0.30, C:0.10, G:0.21, T:0.39
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAATCGA
Found at i:177233828 original size:47 final size:47
Alignment explanation
Indices: 177233767--177233856 Score: 128
Period size: 47 Copynumber: 1.9 Consensus size: 47
177233757 CACAAATTAG
* *
177233767 GGGTATTTTGGTAATT-TCACAAACTAAAGGTATTTTGGTAATTACCA
1 GGGTATTTTGGTAATTGT-ACAAACCAAAGGTATTTTAGTAATTACCA
**
177233814 GGGTATTTTGGTAATTGTACAAACCAGGGGTATTTTAGTAATT
1 GGGTATTTTGGTAATTGTACAAACCAAAGGTATTTTAGTAATT
177233857 TTACAAATTG
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
47 37 0.97
48 1 0.03
ACGTcount: A:0.30, C:0.09, G:0.22, T:0.39
Consensus pattern (47 bp):
GGGTATTTTGGTAATTGTACAAACCAAAGGTATTTTAGTAATTACCA
Found at i:177233876 original size:74 final size:74
Alignment explanation
Indices: 177233739--177233883 Score: 184
Period size: 74 Copynumber: 2.0 Consensus size: 74
177233729 TTACAAGTCG
** * * *
177233739 AGGGTATTTTAGTAATTTCACAAATTAGGGGTATTTTGGTAATTTCACAAACTAAAGGTATTTTG
1 AGGGTATTTTAGTAATTTCACAAACCAGGGGTATTTTAGTAATTTCACAAACTAAAGGCATTTTA
177233804 GTAATTACC
66 GTAATTACC
* * * * *
177233813 AGGGTATTTTGGTAATTGT-ACAAACCAGGGGTATTTTAGTAATTTTACAAATTGAGGGCATTTT
1 AGGGTATTTTAGTAATT-TCACAAACCAGGGGTATTTTAGTAATTTCACAAACTAAAGGCATTTT
177233877 AGTAATT
65 AGTAATT
177233884 TGGTAAACTA
Statistics
Matches: 60, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
74 59 0.98
75 1 0.02
ACGTcount: A:0.32, C:0.08, G:0.21, T:0.39
Consensus pattern (74 bp):
AGGGTATTTTAGTAATTTCACAAACCAGGGGTATTTTAGTAATTTCACAAACTAAAGGCATTTTA
GTAATTACC
Found at i:177233892 original size:101 final size:100
Alignment explanation
Indices: 177233714--177233900 Score: 252
Period size: 101 Copynumber: 1.9 Consensus size: 100
177233704 ACAAATCAGT
* ** * *
177233714 GGTATTTTGGTAATTTTACAAGTCGAGGGTATTTTAGTAATTTCACAAATTAGGGGTATTTTGGT
1 GGTATTTTGGTAATTGTACAAACCGAGGGTATTTTAGTAATTTCACAAATTAGGGGCATTTTAGT
177233779 AATTTCACAAACTAAAGGTATTTTGGTAATTACCAG
66 AATTTCACAAACTAAA-GTATTTTGGTAATTACCAG
*
177233815 GGTATTTTGGTAATTGTACAAACC-AGGGGTATTTTAGTAATTTTACAAATT-GAGGGCATTTTA
1 GGTATTTTGGTAATTGTACAAACCGA-GGGTATTTTAGTAATTTCACAAATTAG-GGGCATTTTA
***
177233878 GTAATTTGGTAAACTAAAGTATT
64 GTAATTTCACAAACTAAAGTATT
177233901 CTAAATAGGG
Statistics
Matches: 75, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
100 7 0.09
101 68 0.91
ACGTcount: A:0.32, C:0.08, G:0.21, T:0.40
Consensus pattern (100 bp):
GGTATTTTGGTAATTGTACAAACCGAGGGTATTTTAGTAATTTCACAAATTAGGGGCATTTTAGT
AATTTCACAAACTAAAGTATTTTGGTAATTACCAG
Found at i:177234881 original size:25 final size:25
Alignment explanation
Indices: 177234847--177234938 Score: 103
Period size: 25 Copynumber: 3.7 Consensus size: 25
177234837 AGGAAGTGCT
*
177234847 AAAAGGGCTTTGCCCTAGGTTACCG
1 AAAAGGGCTTTGCCCCAGGTTACCG
* * *
177234872 AAAAAGGCTTTTCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGGTTACCG
* * * *
177234897 AAAAGGGATTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGGTTACCG
*
177234922 AAAAGGGCTTTTCCCCA
1 AAAAGGGCTTTGCCCCA
177234939 ATTATTAAAA
Statistics
Matches: 56, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 56 1.00
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGGTTACCG
Found at i:177241270 original size:140 final size:140
Alignment explanation
Indices: 177241018--177241291 Score: 413
Period size: 140 Copynumber: 2.0 Consensus size: 140
177241008 AAAATTGCAG
* * ** *
177241018 AGTCATCATGCACAGACATTTCTCAACCAAATACATTCTTCAACTCTACTGTGGCTACAAGGTAC
1 AGTCATCATGCACAGACATTTCTCAACAAAAGACATTCTTCAACTCTACTGTGAATACAAAGTAC
* * * *
177241083 TCAAATAATATTCTAAAGCATGCCTTTTGTTTTGAGTAGGGATTCTTATTTAAGGATGGACCCTA
66 TCAAATAATATTCTAAAGCATCCCTTTTGTTTTGAGCAGGGATTCTTATTTAAGGATGAACCATA
177241148 TATATCACGA
131 TATATCACGA
* ** **
177241158 AGTCATCATGCACTGATGTTTCTCAACAAAAGACATTCTTCAACTCTGTTGTGAATACAAAGTAC
1 AGTCATCATGCACAGACATTTCTCAACAAAAGACATTCTTCAACTCTACTGTGAATACAAAGTAC
*
177241223 TCAAATGATATTCTAAAGCATCCCTTTTGTTTTGAGCAGGGATTCTTATTTAAGGATGAACCATA
66 TCAAATAATATTCTAAAGCATCCCTTTTGTTTTGAGCAGGGATTCTTATTTAAGGATGAACCATA
177241288 TATA
131 TATA
177241292 GGGTATGATG
Statistics
Matches: 119, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
140 119 1.00
ACGTcount: A:0.32, C:0.19, G:0.15, T:0.34
Consensus pattern (140 bp):
AGTCATCATGCACAGACATTTCTCAACAAAAGACATTCTTCAACTCTACTGTGAATACAAAGTAC
TCAAATAATATTCTAAAGCATCCCTTTTGTTTTGAGCAGGGATTCTTATTTAAGGATGAACCATA
TATATCACGA
Found at i:177245795 original size:16 final size:16
Alignment explanation
Indices: 177245771--177245817 Score: 76
Period size: 16 Copynumber: 2.9 Consensus size: 16
177245761 GTAGATTGGC
*
177245771 AAATCCCGAAAAGCTG
1 AAATACCGAAAAGCTG
177245787 AAATACCGAAAAGCTG
1 AAATACCGAAAAGCTG
*
177245803 AAATGCCGAAAAGCT
1 AAATACCGAAAAGCT
177245818 AAAAGTTTGG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.47, C:0.21, G:0.19, T:0.13
Consensus pattern (16 bp):
AAATACCGAAAAGCTG
Found at i:177246083 original size:29 final size:26
Alignment explanation
Indices: 177246040--177246119 Score: 97
Period size: 27 Copynumber: 2.9 Consensus size: 26
177246030 TGACTATAAA
177246040 AGTGATTGGGCCTAATGGGCCATATAG
1 AGTGATTGGGCCTAATGGGCCATAT-G
177246067 ATGTGATTTGGGCCTAATGGGCCATATG
1 A-GTGA-TTGGGCCTAATGGGCCATATG
* * *
177246095 AATAAATTGGGCCTAGTGGGCCATA
1 AGT-GATTGGGCCTAATGGGCCATA
177246120 AGCATGTATG
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
27 20 0.43
28 7 0.15
29 20 0.43
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (26 bp):
AGTGATTGGGCCTAATGGGCCATATG
Found at i:177249210 original size:180 final size:180
Alignment explanation
Indices: 177248908--177249258 Score: 540
Period size: 180 Copynumber: 1.9 Consensus size: 180
177248898 ACGGAACTCC
* * ** *
177248908 AAATTAAGATCTGTTAATTTTCTTAGAAACTATACTCACATATATTCTTACCATAAAATTTGCAG
1 AAATTAAGAACTGCTAATTTTCCCAGAAACTAGACTCACATATATTCTTACCATAAAATTTGCAG
** *
177248973 AATTTTTGGTTTAGCCAATTAGTACAGTTTATTCATTAAAGTTACCCCTATTTCACTGTCCAATA
66 AATTTTTGGTTTAGCCAATTAGTACAGTTTATTCATTAAAAATACCCCTATTTCACTGTCCAACA
*
177249038 GTTCCAACCTCTCTTCACTAAAAATTATTTATCTCATGGTAAGGAAATTG
131 GTTCCAACATCTCTTCACTAAAAATTATTTATCTCATGGTAAGGAAATTG
**
177249088 AAATTAAGAACTGCTAATTTTCCCAGAAACTAGACTCACATATATTCTTACCATAAAATTTTTAG
1 AAATTAAGAACTGCTAATTTTCCCAGAAACTAGACTCACATATATTCTTACCATAAAATTTGCAG
* * * **
177249153 AATTTTTGGTTTAGCCAATTGGTACAGTTTATTCGTTAAAAATACCCCTGTTTCACTGTCTGACA
66 AATTTTTGGTTTAGCCAATTAGTACAGTTTATTCATTAAAAATACCCCTATTTCACTGTCCAACA
* *
177249218 GTTCCAATATTTCTTCACTAAAAATTATTTATCTCATGGTA
131 GTTCCAACATCTCTTCACTAAAAATTATTTATCTCATGGTA
177249259 CAGATCTCGG
Statistics
Matches: 153, Mismatches: 18, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
180 153 1.00
ACGTcount: A:0.33, C:0.18, G:0.10, T:0.39
Consensus pattern (180 bp):
AAATTAAGAACTGCTAATTTTCCCAGAAACTAGACTCACATATATTCTTACCATAAAATTTGCAG
AATTTTTGGTTTAGCCAATTAGTACAGTTTATTCATTAAAAATACCCCTATTTCACTGTCCAACA
GTTCCAACATCTCTTCACTAAAAATTATTTATCTCATGGTAAGGAAATTG
Found at i:177249881 original size:50 final size:50
Alignment explanation
Indices: 177249827--177249954 Score: 193
Period size: 50 Copynumber: 2.6 Consensus size: 50
177249817 ATGGTATGCA
*
177249827 TAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGATACACG
* * * * * *
177249877 TAGTAGCATGCACTTAGTACTACACACGTGACTTATCCATCTGATACATG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGATACACG
177249927 TAGTAGCCTGCACTTAGTACTACACATG
1 TAGTAGCCTGCACTTAGTACTACACATG
177249955 TGATCGAAGT
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
50 69 1.00
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGATACACG
Found at i:177251377 original size:71 final size:71
Alignment explanation
Indices: 177251291--177251454 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
177251281 CGATTTGTCT
177251291 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
177251356 CTTTCA
66 CTTTCA
177251362 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
177251427 CTTTCA
66 CTTTCA
177251433 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
177251455 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:177251492 original size:71 final size:70
Alignment explanation
Indices: 177251291--177251488 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
177251281 CGATTTGTCT
* * * *
177251291 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
177251356 CTTTCA
65 CTTTCA
* * * *
177251362 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
177251427 CTTTCA
65 CTTTCA
* *
177251433 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
177251489 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:177258951 original size:71 final size:71
Alignment explanation
Indices: 177258865--177259028 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
177258855 CGATTTGTCT
177258865 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
177258930 CTTTCA
66 CTTTCA
177258936 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
177259001 CTTTCA
66 CTTTCA
177259007 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
177259029 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:177259066 original size:71 final size:70
Alignment explanation
Indices: 177258865--177259062 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
177258855 CGATTTGTCT
* * * *
177258865 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
177258930 CTTTCA
65 CTTTCA
* * * *
177258936 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
177259001 CTTTCA
65 CTTTCA
* *
177259007 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
177259063 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:177262165 original size:15 final size:15
Alignment explanation
Indices: 177262122--177262176 Score: 78
Period size: 15 Copynumber: 3.7 Consensus size: 15
177262112 GTATCTTGGG
177262122 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
177262137 -TTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
177262151 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
177262166 TTTCTTTATTC
1 TTTCTTTATTC
177262177 GGTTTCCTTG
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
14 16 0.46
15 17 0.49
16 2 0.06
ACGTcount: A:0.13, C:0.16, G:0.11, T:0.60
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:177264190 original size:22 final size:22
Alignment explanation
Indices: 177264165--177264209 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
177264155 TTTGGGTCAA
177264165 TTTGAATAATGTGAGTCCTAAT
1 TTTGAATAATGTGAGTCCTAAT
177264187 TTTGAATAATGTGAGTCCTAAT
1 TTTGAATAATGTGAGTCCTAAT
177264209 T
1 T
177264210 AGACTATATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.31, C:0.09, G:0.18, T:0.42
Consensus pattern (22 bp):
TTTGAATAATGTGAGTCCTAAT
Found at i:177267732 original size:15 final size:15
Alignment explanation
Indices: 177267712--177267767 Score: 78
Period size: 15 Copynumber: 3.7 Consensus size: 15
177267702 GTATCTTGGG
177267712 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
177267727 TTTCTTTATTCCGGA
1 TTTCTTTATTCTGGA
*
177267742 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
177267757 TTTCTTTATTC
1 TTTCTTTATTC
177267768 GGTTTCCTTG
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
14 2 0.06
15 31 0.89
16 2 0.06
ACGTcount: A:0.12, C:0.18, G:0.11, T:0.59
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:177271874 original size:55 final size:56
Alignment explanation
Indices: 177271809--177271923 Score: 146
Period size: 55 Copynumber: 2.1 Consensus size: 56
177271799 AGCATGGCTG
* *
177271809 CCAGATACAGA-AAATGTGACAGAGTCACCAGATACAGATATTTTGTGGCAGT-GCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGA-ACAGATAATTTGTGGCA-TAGCCA
* * *
177271865 CCAGA-ACAGATATATGTGGCAGGGCCACCAGAACAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
177271920 CCAG
1 CCAG
177271924 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
54 1 0.02
55 29 0.56
56 22 0.42
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (56 bp):
CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
Found at i:177271886 original size:27 final size:27
Alignment explanation
Indices: 177271834--177271923 Score: 119
Period size: 27 Copynumber: 3.2 Consensus size: 27
177271824 GTGACAGAGT
177271834 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATA-TTTGTGGCAGTGC
* *
177271863 CACCAGAACAGATATATGTGGCAGGGC
1 CACCAGAACAGATATTTGTGGCAGTGC
177271890 CACCAGAACAGATAATTTGTGGCA-TAGC
1 CACCAGAACAGAT-ATTTGTGGCAGT-GC
177271918 CACCAG
1 CACCAG
177271924 GACGCTTCCT
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
27 24 0.44
28 24 0.44
29 7 0.13
ACGTcount: A:0.32, C:0.23, G:0.24, T:0.20
Consensus pattern (27 bp):
CACCAGAACAGATATTTGTGGCAGTGC
Found at i:177272076 original size:28 final size:28
Alignment explanation
Indices: 177272029--177272116 Score: 151
Period size: 28 Copynumber: 3.2 Consensus size: 28
177272019 AAATTAACCC
* *
177272029 TAGGGGTATAAAGGTCATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
177272057 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
177272085 TA-GGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
177272112 TAGGG
1 TAGGG
177272117 ATTCTAGTAC
Statistics
Matches: 57, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
27 27 0.47
28 30 0.53
ACGTcount: A:0.32, C:0.08, G:0.26, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAATGGTAATTTTGCATACA
Found at i:177272098 original size:27 final size:27
Alignment explanation
Indices: 177272032--177272116 Score: 143
Period size: 27 Copynumber: 3.1 Consensus size: 27
177272022 TTAACCCTAG
* *
177272032 GGGTATAAAGGTCATTTTGCATACATA
1 GGGTATAATGGTAATTTTGCATACATA
177272059 GGGGTATAATGGTAATTTTGCATACATA
1 -GGGTATAATGGTAATTTTGCATACATA
177272087 GGGTATAATGGTAATTTTGCATACATA
1 GGGTATAATGGTAATTTTGCATACATA
177272114 GGG
1 GGG
177272117 ATTCTAGTAC
Statistics
Matches: 55, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
27 30 0.55
28 25 0.45
ACGTcount: A:0.32, C:0.08, G:0.26, T:0.34
Consensus pattern (27 bp):
GGGTATAATGGTAATTTTGCATACATA
Found at i:177279767 original size:55 final size:56
Alignment explanation
Indices: 177279702--177279816 Score: 146
Period size: 55 Copynumber: 2.1 Consensus size: 56
177279692 AGCATGGCTG
* *
177279702 CCAGATACAGA-AAATGTGACAGAGTCACCAGATACAGATATTTTGTGGCAGT-GCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGA-ACAGATAATTTGTGGCA-TAGCCA
* * *
177279758 CCAGA-ACAGATATATGTGGCAGGGCCACCAGAACAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
177279813 CCAG
1 CCAG
177279817 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
54 1 0.02
55 29 0.56
56 22 0.42
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (56 bp):
CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
Found at i:177279779 original size:27 final size:27
Alignment explanation
Indices: 177279727--177279816 Score: 119
Period size: 27 Copynumber: 3.2 Consensus size: 27
177279717 GTGACAGAGT
177279727 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATA-TTTGTGGCAGTGC
* *
177279756 CACCAGAACAGATATATGTGGCAGGGC
1 CACCAGAACAGATATTTGTGGCAGTGC
177279783 CACCAGAACAGATAATTTGTGGCA-TAGC
1 CACCAGAACAGAT-ATTTGTGGCAGT-GC
177279811 CACCAG
1 CACCAG
177279817 GACGCTTCCT
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
27 24 0.44
28 24 0.44
29 7 0.13
ACGTcount: A:0.32, C:0.23, G:0.24, T:0.20
Consensus pattern (27 bp):
CACCAGAACAGATATTTGTGGCAGTGC
Found at i:177279969 original size:28 final size:28
Alignment explanation
Indices: 177279922--177280010 Score: 160
Period size: 28 Copynumber: 3.2 Consensus size: 28
177279912 AAATTAACCC
* *
177279922 TAGGGGTATAAAGGTCATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
177279950 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
177279978 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
177280006 TAGGG
1 TAGGG
177280011 AAATTCTAGT
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 59 1.00
ACGTcount: A:0.31, C:0.08, G:0.27, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAATGGTAATTTTGCATACA
Found at i:177283892 original size:38 final size:39
Alignment explanation
Indices: 177283809--177283952 Score: 184
Period size: 39 Copynumber: 3.7 Consensus size: 39
177283799 CAAATTCAAT
* * *
177283809 CACCACCAC-AAAGCATGCGGGACTTTAAGCCCGGATATAA
1 CACCAGCACGAAAGCCTTCGGGAC-TT-AGCCCGGATATAA
*
177283849 TACCAGCAC-AAAGCCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAAAGCCTTCGGGACTTAGCCCGGATATAA
* * *
177283887 CACCAGCACGAATGCCTTCGGGACTTAGCTCGGGTATAA
1 CACCAGCACGAAAGCCTTCGGGACTTAGCCCGGATATAA
*
177283926 CACCAGCACGAATGCCTTCGGGACTTA
1 CACCAGCACGAAAGCCTTCGGGACTTA
177283953 TGTGACAACC
Statistics
Matches: 95, Mismatches: 8, Indels: 3
0.90 0.08 0.03
Matches are distributed among these distances:
38 21 0.22
39 55 0.58
40 19 0.20
ACGTcount: A:0.30, C:0.30, G:0.22, T:0.18
Consensus pattern (39 bp):
CACCAGCACGAAAGCCTTCGGGACTTAGCCCGGATATAA
Found at i:177283915 original size:39 final size:39
Alignment explanation
Indices: 177283826--177283952 Score: 193
Period size: 39 Copynumber: 3.2 Consensus size: 39
177283816 ACAAAGCATG
* *
177283826 CGGGACTTTAAGCCCGGATATAATACCAGCAC-AAAGCCTT
1 CGGGAC-TT-AGCCCGGATATAACACCAGCACGAATGCCTT
177283866 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
* *
177283905 CGGGACTTAGCTCGGGTATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
177283944 CGGGACTTA
1 CGGGACTTA
177283953 TGTGACAACC
Statistics
Matches: 82, Mismatches: 4, Indels: 3
0.92 0.04 0.03
Matches are distributed among these distances:
38 21 0.26
39 55 0.67
40 6 0.07
ACGTcount: A:0.28, C:0.28, G:0.24, T:0.20
Consensus pattern (39 bp):
CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
Found at i:177285390 original size:70 final size:71
Alignment explanation
Indices: 177285240--177285402 Score: 319
Period size: 70 Copynumber: 2.3 Consensus size: 71
177285230 GAGATGTATC
177285240 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
177285305 AGGACA
66 AGGACA
177285311 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCT-GGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
177285375 AGGACA
66 AGGACA
177285381 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
177285403 AGACAAATCG
Statistics
Matches: 92, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
70 52 0.57
71 40 0.43
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:177292924 original size:70 final size:71
Alignment explanation
Indices: 177292773--177292935 Score: 310
Period size: 70 Copynumber: 2.3 Consensus size: 71
177292763 GAGATGTATC
177292773 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
177292838 AGGACA
66 AGGACA
177292844 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCT-GGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
*
177292908 CGGACA
66 AGGACA
177292914 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
177292936 AGACAAATCG
Statistics
Matches: 91, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
70 51 0.56
71 40 0.44
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:177294320 original size:39 final size:39
Alignment explanation
Indices: 177294214--177294307 Score: 152
Period size: 39 Copynumber: 2.4 Consensus size: 39
177294204 GGGTGTTACA
* * *
177294214 ACTTAGCTCGGATATAACACCAGCACGAATGCCTTCGGG
1 ACTTAGCCCGAATATAACACCAGCACAAATGCCTTCGGG
177294253 ACTTAGCCCGAATATAACACCAGCACAAATGCCTTCGGG
1 ACTTAGCCCGAATATAACACCAGCACAAATGCCTTCGGG
*
177294292 AATTAGCCCGAATATA
1 ACTTAGCCCGAATATA
177294308 TATCTCACAC
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 51 1.00
ACGTcount: A:0.33, C:0.28, G:0.19, T:0.20
Consensus pattern (39 bp):
ACTTAGCCCGAATATAACACCAGCACAAATGCCTTCGGG
Found at i:177307446 original size:12 final size:13
Alignment explanation
Indices: 177307429--177307466 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
177307419 ATCTTGGAAT
177307429 ATTAAG-ACAAGA
1 ATTAAGAACAAGA
*
177307441 ATTAAGAACACATA
1 ATTAAGAACA-AGA
177307455 ATTAAGAACAAG
1 ATTAAGAACAAG
177307467 TTAAATATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 6 0.27
13 4 0.18
14 12 0.55
ACGTcount: A:0.58, C:0.11, G:0.13, T:0.18
Consensus pattern (13 bp):
ATTAAGAACAAGA
Found at i:177308256 original size:44 final size:44
Alignment explanation
Indices: 177308208--177308472 Score: 146
Period size: 44 Copynumber: 6.0 Consensus size: 44
177308198 AGCCACCAGC
* *
177308208 CTTATC-TCTCTGAGGTAGCAAGGGAGTAGGCTGAAGATTGTAGT
1 CTTATCTTCT-TGAGGTAGCAAGGGAGCAGACTGAAGATTGTAGT
177308252 CTTATCTTCTTGAGGTAGCAAGGGAGCAGACTGAAGATTGTAGAT
1 CTTATCTTCTTGAGGTAGCAAGGGAGCAGACTGAAGATTGTAG-T
* * * * * * *
177308297 TTTGTCTCCTTGAGATAGC-AGTGGGGCAGA-TCGAAGACAATG-AAT
1 CTTATCTTCTTGAGGTAGCAAG-GGAGCAGACT-GAAG--ATTGTAGT
** * * * ** ***** *
177308342 CTTATCTTCCCGAGGCAGCAGGGGAGCAGATTTTAGCCACCAGC
1 CTTATCTTCTTGAGGTAGCAAGGGAGCAGACTGAAGATTGTAGT
* * * *
177308386 CTTATC-TCTCTAAAGTAGCAAGGGAGTAGGCT-AGAGATTGTAGT
1 CTTATCTTCT-TGAGGTAGCAAGGGAGCAGACTGA-AGATTGTAGT
* * * *
177308430 CTTATTTTCCTGACGTAGCAAGGGAGCAGACTGAAGACTGTAG
1 CTTATCTTCTTGAGGTAGCAAGGGAGCAGACTGAAGATTGTAG
177308473 ATTTGTCTCC
Statistics
Matches: 159, Mismatches: 49, Indels: 26
0.68 0.21 0.11
Matches are distributed among these distances:
43 2 0.01
44 96 0.60
45 55 0.35
46 3 0.02
47 3 0.02
ACGTcount: A:0.27, C:0.17, G:0.29, T:0.27
Consensus pattern (44 bp):
CTTATCTTCTTGAGGTAGCAAGGGAGCAGACTGAAGATTGTAGT
Found at i:177308474 original size:178 final size:177
Alignment explanation
Indices: 177308169--177308578 Score: 615
Period size: 178 Copynumber: 2.3 Consensus size: 177
177308159 CAGTTTATCA
* * *
177308169 CTTCCCGAGGTACCAGGGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGGGAG
1 CTTCCCGAGGTAGCAGGGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTAAAGTAGCAAGGGAG
* * *
177308234 TAGGCTGAAGATTGTAGTCTTATCTTCTTGAGGTAGCAAGGGAGCAGACTGAAGATTGTAGATTT
66 TAGGCTGAAGATTGTAGTCTTATCTTCCTGACGTAGCAAGGGAGCAGACTGAAGACTGTAGA-TT
* *
177308299 TGTCTCCTTGAGATAGCAGTGGGGCAGATCGAAGACAATGAATCTTAT
130 TGTCTCCTCGAGATAGCAGTGGGGAAGATCGAAGACAATGAATCTTAT
*
177308347 CTTCCCGAGGCAGCAGGGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTAAAGTAGCAAGGGAG
1 CTTCCCGAGGTAGCAGGGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTAAAGTAGCAAGGGAG
*
177308412 TAGGCT-AGAGATTGTAGTCTTATTTTCCTGACGTAGCAAGGGAGCAGACTGAAGACTGTAGATT
66 TAGGCTGA-AGATTGTAGTCTTATCTTCCTGACGTAGCAAGGGAGCAGACTGAAGACTGTAGATT
* **
177308476 TGTCTCCTCGAGATAGTAGTGGGGAAGATCGAAGATGATGAATCTTAT
130 TGTCTCCTCGAGATAGCAGTGGGGAAGATCGAAGACAATGAATCTTAT
** * ** * *
177308524 CTTCTTGAGGTAGTAGGGGAGCAGATTAAAGTCACCAGCCTTATCTCCCTAAAGT
1 CTTCCCGAGGTAGCAGGGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTAAAGT
177308579 TGCAGTGGAG
Statistics
Matches: 210, Mismatches: 21, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
177 93 0.44
178 117 0.56
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.27
Consensus pattern (177 bp):
CTTCCCGAGGTAGCAGGGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTAAAGTAGCAAGGGAG
TAGGCTGAAGATTGTAGTCTTATCTTCCTGACGTAGCAAGGGAGCAGACTGAAGACTGTAGATTT
GTCTCCTCGAGATAGCAGTGGGGAAGATCGAAGACAATGAATCTTAT
Found at i:177311193 original size:127 final size:129
Alignment explanation
Indices: 177310991--177311221 Score: 371
Period size: 127 Copynumber: 1.8 Consensus size: 129
177310981 CTTTCGAGAA
*
177310991 CAAGGCAATATTTTGTGTTTGGGAAATTCAAGAAATCGTGCCCTAACGTGCTGGGTTTCGATTGT
1 CAAGGCAATATTTCGTGTTTGGGAAATTCAAGAAATCGTGCCCTAACGTGCTGGGTTTCGATTGT
*
177311056 CCGTTCGACCAAATGACTGAATATCCTTTTTAAAATTTCATCTGTGTTTTCTTCAATTAATAAAG
66 CCGTTCGACCAAATAACTGAATATCC-TTTTAAAATTTCATCTGTGTTTTCTTCAATTAATAAAG
*
177311121 CAAGGCAAT-TTTCGTGTTT-GG-AATTCGAGAAATCGTGCCCTAACGTGCTGGGTTTCGATT-T
1 CAAGGCAATATTTCGTGTTTGGGAAATTCAAGAAATCGTGCCCTAACGTGCTGGGTTTCGATTGT
* *
177311182 ATCGTTTGACCAAATAACTGAATATCCTTTTAAAATTTCA
66 -CCGTTCGACCAAATAACTGAATATCCTTTTAAAATTTCA
177311222 CTTCACGAAT
Statistics
Matches: 95, Mismatches: 5, Indels: 6
0.90 0.05 0.06
Matches are distributed among these distances:
126 14 0.15
127 61 0.64
128 2 0.02
129 9 0.09
130 9 0.09
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (129 bp):
CAAGGCAATATTTCGTGTTTGGGAAATTCAAGAAATCGTGCCCTAACGTGCTGGGTTTCGATTGT
CCGTTCGACCAAATAACTGAATATCCTTTTAAAATTTCATCTGTGTTTTCTTCAATTAATAAAG
Found at i:177318765 original size:39 final size:40
Alignment explanation
Indices: 177318722--177318827 Score: 139
Period size: 39 Copynumber: 2.7 Consensus size: 40
177318712 GGAAATTATA
* *
177318722 CCGGGTTAAGACCCGAAGGCATT-GTGCTAGTGGC-TAC-AT
1 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGT--CATACTAT
*
177318761 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATTCTAT
1 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATACTAT
177318801 CC-GGCTAAGACCCGAAGGCATTCGTGC
1 CCGGGCTAAGACCCGAAGGCATTCGTGC
177318828 ACGTATTATA
Statistics
Matches: 61, Mismatches: 3, Indels: 6
0.87 0.04 0.09
Matches are distributed among these distances:
38 1 0.02
39 49 0.80
40 11 0.18
ACGTcount: A:0.23, C:0.27, G:0.29, T:0.21
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATACTAT
Found at i:177326761 original size:40 final size:41
Alignment explanation
Indices: 177326714--177326824 Score: 142
Period size: 40 Copynumber: 2.8 Consensus size: 41
177326704 CTGGAAATTA
* *
177326714 TATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTCGTGCGAGT--CATAC
*
177326755 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATTC
1 TATCCGGGCTAAGACCCGAAGGCAATTCGTGCGAGTCATAC
177326794 TATCCGGGCTAAGACCCGAAGGC-ATTCGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTCGTGC
177326825 ACGTATTATA
Statistics
Matches: 64, Mismatches: 3, Indels: 7
0.86 0.04 0.09
Matches are distributed among these distances:
38 1 0.02
39 5 0.08
40 58 0.91
ACGTcount: A:0.23, C:0.26, G:0.29, T:0.22
Consensus pattern (41 bp):
TATCCGGGCTAAGACCCGAAGGCAATTCGTGCGAGTCATAC
Found at i:177333794 original size:17 final size:17
Alignment explanation
Indices: 177333759--177333791 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
177333749 TTAAGATAAG
*
177333759 TATTAAATTTAATTTAA
1 TATTAAATTTAATTAAA
177333776 TATTAAATTT-ATTAAA
1 TATTAAATTTAATTAAA
177333792 ATAATATTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
TATTAAATTTAATTAAA
Found at i:177334583 original size:36 final size:36
Alignment explanation
Indices: 177334536--177334609 Score: 132
Period size: 36 Copynumber: 2.1 Consensus size: 36
177334526 CAGTTTGAAC
177334536 TTAGATAATCAATGAACTAATA-TTTCATTATCACAA
1 TTAGATAATCAATGAACTAATATTTTC-TTATCACAA
177334572 TTAGATAATCAATGAACTAATATTTTCTTATCACAA
1 TTAGATAATCAATGAACTAATATTTTCTTATCACAA
177334608 TT
1 TT
177334610 TCGCTATGCA
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
36 33 0.89
37 4 0.11
ACGTcount: A:0.42, C:0.14, G:0.05, T:0.39
Consensus pattern (36 bp):
TTAGATAATCAATGAACTAATATTTTCTTATCACAA
Found at i:177339686 original size:22 final size:22
Alignment explanation
Indices: 177339658--177339700 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
177339648 CAAGGATGCT
*
177339658 CCAATGATGATTATTTTATTTC
1 CCAATGATGATTACTTTATTTC
177339680 CCAATGATGATTACTTTATTT
1 CCAATGATGATTACTTTATTT
177339701 ACTTTATATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.28, C:0.14, G:0.09, T:0.49
Consensus pattern (22 bp):
CCAATGATGATTACTTTATTTC
Found at i:177345192 original size:29 final size:29
Alignment explanation
Indices: 177345102--177345261 Score: 180
Period size: 29 Copynumber: 5.5 Consensus size: 29
177345092 ACTCGATTTC
* * **
177345102 GCACACTTAGTGCCATGTGATTT-AAGCCC
1 GCACACTTAGTGCCATAT-ATTTCCAGCAT
* *** *
177345131 GCACACATAGTGCCATACCCTTCGAGC-T
1 GCACACTTAGTGCCATATATTTCCAGCAT
** *
177345159 CGCACACCCAGTGCCGTATATTTCCAGCAT
1 -GCACACTTAGTGCCATATATTTCCAGCAT
177345189 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
177345218 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
177345247 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
177345262 ATCTCGTCAC
Statistics
Matches: 111, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
28 2 0.02
29 108 0.97
30 1 0.01
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.26
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:177353212 original size:29 final size:29
Alignment explanation
Indices: 177353180--177353252 Score: 101
Period size: 29 Copynumber: 2.5 Consensus size: 29
177353170 CTTCGAGCTC
*
177353180 GCACACCCAGTGCCGTATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
177353209 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
177353238 GCACACTTAGTGCCA
1 GCACACCCAGTGCCA
177353253 ATCTCGTCAC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (29 bp):
GCACACCCAGTGCCATATATTTCCAGCAT
Found at i:177359685 original size:21 final size:21
Alignment explanation
Indices: 177359659--177359701 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
177359649 TTGGATGATT
177359659 AGTCTAAATTCTAACTATCTC
1 AGTCTAAATTCTAACTATCTC
177359680 AGTCTAAATTCTAACTATCTC
1 AGTCTAAATTCTAACTATCTC
177359701 A
1 A
177359702 TGGATGGATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.35, C:0.23, G:0.05, T:0.37
Consensus pattern (21 bp):
AGTCTAAATTCTAACTATCTC
Found at i:177361073 original size:40 final size:40
Alignment explanation
Indices: 177360972--177361227 Score: 353
Period size: 40 Copynumber: 6.5 Consensus size: 40
177360962 TGGATGATAA
* * *
177360972 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
177361012 CCGGGC-AAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
177361051 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
177361091 CCGGGCTAAGTCTCGAAGGCATTTGTGCGAAG-TACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCG-AGTTACTATAT
* *
177361131 CTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
177361171 CCGGGCTAAGTCCCGAAGGCATTTGAGC-AG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
**
177361210 CC-GGCTAAACCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
177361228 TACTTGGTTG
Statistics
Matches: 197, Mismatches: 14, Indels: 12
0.88 0.06 0.05
Matches are distributed among these distances:
38 17 0.09
39 45 0.23
40 133 0.68
41 2 0.01
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:177371698 original size:71 final size:71
Alignment explanation
Indices: 177371614--177371777 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
177371604 CGATTTGTCT
177371614 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
177371679 CTTTCA
66 CTTTCA
177371685 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
177371750 CTTTCA
66 CTTTCA
177371756 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
177371778 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:177371815 original size:71 final size:70
Alignment explanation
Indices: 177371614--177371811 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
177371604 CGATTTGTCT
* * * *
177371614 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
177371679 CTTTCA
65 CTTTCA
* * * *
177371685 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
177371750 CTTTCA
65 CTTTCA
* *
177371756 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
177371812 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:177379258 original size:71 final size:71
Alignment explanation
Indices: 177379174--177379337 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
177379164 CGATTTGTCT
177379174 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
177379239 CTTTCA
66 CTTTCA
177379245 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
177379310 CTTTCA
66 CTTTCA
177379316 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
177379338 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:177379375 original size:71 final size:70
Alignment explanation
Indices: 177379174--177379371 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
177379164 CGATTTGTCT
* * * *
177379174 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
177379239 CTTTCA
65 CTTTCA
* * * *
177379245 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
177379310 CTTTCA
65 CTTTCA
* *
177379316 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
177379372 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:177385801 original size:39 final size:40
Alignment explanation
Indices: 177385749--177385858 Score: 136
Period size: 39 Copynumber: 2.8 Consensus size: 40
177385739 CTGGAAATTA
* *
177385749 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAG-T-GGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTTAGGC
**
177385787 TATTCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATTC
1 TA-TCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTTAGGC
*
177385828 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
177385859 ACGTGATTAT
Statistics
Matches: 62, Mismatches: 5, Indels: 8
0.83 0.07 0.11
Matches are distributed among these distances:
38 5 0.08
39 26 0.42
40 26 0.42
41 5 0.08
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.25
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTTAGGC
Found at i:177385872 original size:40 final size:40
Alignment explanation
Indices: 177385745--177385874 Score: 165
Period size: 40 Copynumber: 3.3 Consensus size: 40
177385735 TATGCTGGAA
* * *
177385745 ATTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
** * *
177385785 GCTAT-TCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTT
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
*
177385824 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTG
177385864 ATTATATCCGG
1 ATTATATCCGG
177385875 TTATATTCCG
Statistics
Matches: 75, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
39 32 0.43
40 43 0.57
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
Found at i:177388283 original size:2 final size:2
Alignment explanation
Indices: 177388276--177388318 Score: 70
Period size: 2 Copynumber: 22.0 Consensus size: 2
177388266 ACCATTGACG
*
177388276 TA TA TA TA TA TA TA TA TG TA TA TA TA TA TA TA TA TA TA -A TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
177388317 TA
1 TA
177388319 CAAACCAAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
TA
Found at i:177388919 original size:41 final size:42
Alignment explanation
Indices: 177388841--177388920 Score: 153
Period size: 42 Copynumber: 1.9 Consensus size: 42
177388831 AGAGATTCGT
177388841 TATTTGCCCATACATAATTTAAAATTTAACTTTTAAACTCGG
1 TATTTGCCCATACATAATTTAAAATTTAACTTTTAAACTCGG
177388883 TATTTGCCCATACATAATTT-AAATTTAACTTTTAAACT
1 TATTTGCCCATACATAATTTAAAATTTAACTTTTAAACT
177388921 TAATGCATAT
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
41 18 0.47
42 20 0.53
ACGTcount: A:0.36, C:0.16, G:0.05, T:0.42
Consensus pattern (42 bp):
TATTTGCCCATACATAATTTAAAATTTAACTTTTAAACTCGG
Found at i:177393641 original size:39 final size:39
Alignment explanation
Indices: 177393587--177393702 Score: 178
Period size: 39 Copynumber: 3.0 Consensus size: 39
177393577 AGTGATGAAG
* *
177393587 TATATCCGGACTTAAGGTCCGTAGGCTATGTGCTGGAAT
1 TATATCTGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
*
177393626 TATATCTGGACTTAAGGTCCGCAAGCTATGTGCTGGAAT
1 TATATCTGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
* * *
177393665 TATAACTGGACTTAAGGTCCACAGGCTACGTGCTGGAA
1 TATATCTGGACTTAAGGTCCGCAGGCTATGTGCTGGAA
177393703 ATATGTCCGG
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 70 1.00
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (39 bp):
TATATCTGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
Done.