Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 268 of 356
Found at i:87942493 original size:29 final size:29
Alignment explanation
Indices: 87942458--87942542 Score: 127
Period size: 29 Copynumber: 3.0 Consensus size: 29
87942448 GGGATGTTAC
*
87942458 ATGGCCCATTAGGCCCAAATCACATTTAA
1 ATGGCCCATTAGGCCCAAATCACATTCAA
* *
87942487 ATGGCCCATTTGGCCCAAATCACATTCAC
1 ATGGCCCATTAGGCCCAAATCACATTCAA
*
87942516 ATGGCCCATTAGGCCC-AATCACTTTCA
1 ATGGCCCATTAGGCCCAAATCACATTCA
87942543 TATTCATGTT
Statistics
Matches: 51, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
28 10 0.20
29 41 0.80
ACGTcount: A:0.29, C:0.32, G:0.14, T:0.25
Consensus pattern (29 bp):
ATGGCCCATTAGGCCCAAATCACATTCAA
Found at i:87947223 original size:17 final size:17
Alignment explanation
Indices: 87947201--87947235 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
87947191 ATTTCATACG
87947201 AGCTTACTAAGCTTTAT
1 AGCTTACTAAGCTTTAT
87947218 AGCTTACTAAGCTTTAT
1 AGCTTACTAAGCTTTAT
87947235 A
1 A
87947236 ATTCCATGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.31, C:0.17, G:0.11, T:0.40
Consensus pattern (17 bp):
AGCTTACTAAGCTTTAT
Found at i:87948253 original size:20 final size:19
Alignment explanation
Indices: 87948213--87948253 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
87948203 GTCCCCTGTA
*
87948213 TTTTGTAAAATTTTCTAAG
1 TTTTGTAAAATTTCCTAAG
*
87948232 TTTTGTAAAAATTTCCTGAG
1 TTTTGT-AAAATTTCCTAAG
87948252 TT
1 TT
87948254 ATCGGTTTAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 6 0.32
20 13 0.68
ACGTcount: A:0.29, C:0.07, G:0.12, T:0.51
Consensus pattern (19 bp):
TTTTGTAAAATTTCCTAAG
Found at i:87951122 original size:43 final size:43
Alignment explanation
Indices: 87951075--87951180 Score: 187
Period size: 43 Copynumber: 2.5 Consensus size: 43
87951065 AAAACAATAG
87951075 TGTAAGTTATTATAATCATTAACTTTAAATGTTTAAATGTTTA
1 TGTAAGTTATTATAATCATTAACTTTAAATGTTTAAATGTTTA
* *
87951118 TGTAAGTTATGATAATCATTTACTTTAAATGTTTAAATGTTTA
1 TGTAAGTTATTATAATCATTAACTTTAAATGTTTAAATGTTTA
87951161 TGTAAGTTA-TATAATCATTA
1 TGTAAGTTATTATAATCATTA
87951181 TTTTGAAATA
Statistics
Matches: 59, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
42 9 0.15
43 50 0.85
ACGTcount: A:0.37, C:0.05, G:0.10, T:0.48
Consensus pattern (43 bp):
TGTAAGTTATTATAATCATTAACTTTAAATGTTTAAATGTTTA
Found at i:87951247 original size:59 final size:59
Alignment explanation
Indices: 87951177--87951455 Score: 331
Period size: 55 Copynumber: 4.9 Consensus size: 59
87951167 TTATATAATC
* * * *
87951177 ATTATTTTGAAATATGATTATTTATTTAGTTAATCGAAAATTAATTAATTATTCATAAA
1 ATTATTATGAAATATGATTATTTAATTAATTAATCAAAAATTAATTAATTATTCATAAA
* *
87951236 ATTATTATGAAATATGATTA--T--TTAATTAATCAAAAATTAAATAAATATTCATAAA
1 ATTATTATGAAATATGATTATTTAATTAATTAATCAAAAATTAATTAATTATTCATAAA
* * ** * *
87951291 ATTATTATGGAATATGATTATTTATTTAATTAA-C--TGA-TAATTGATTATTCATAGA
1 ATTATTATGAAATATGATTATTTAATTAATTAATCAAAAATTAATTAATTATTCATAAA
* * * * *
87951346 ATTATTATAAAATATGGTTATTTAATAAATTAATCAAAAATTAATTAATTGTTCATAGA
1 ATTATTATGAAATATGATTATTTAATTAATTAATCAAAAATTAATTAATTATTCATAAA
* *
87951405 ATTGTTATGAAATATGATTATTTAATTAATTAATCAAAAATGAATTAATTA
1 ATTATTATGAAATATGATTATTTAATTAATTAATCAAAAATTAATTAATTA
87951456 GGGTTGCAAA
Statistics
Matches: 185, Mismatches: 27, Indels: 16
0.81 0.12 0.07
Matches are distributed among these distances:
55 91 0.49
56 2 0.01
57 2 0.01
58 2 0.01
59 88 0.48
ACGTcount: A:0.46, C:0.03, G:0.07, T:0.44
Consensus pattern (59 bp):
ATTATTATGAAATATGATTATTTAATTAATTAATCAAAAATTAATTAATTATTCATAAA
Found at i:87951305 original size:114 final size:117
Alignment explanation
Indices: 87951177--87951455 Score: 349
Period size: 114 Copynumber: 2.4 Consensus size: 117
87951167 TTATATAATC
* *
87951177 ATTATTTTGAAATATGATTATTTATTTAGTTAATCGAAAATTAATTAATTATTCATAAAATTATT
1 ATTATTATGAAATATGATTATTTATTTAATTAATCGAAAATTAATTAATTATTCATAAAATTATT
*
87951242 ATGAAATATGATTA-TT-T-AATTAATCAAAAATTAAATAAATATTCATAAA
66 ATAAAATATGATTATTTATAAATTAATCAAAAATTAAATAAATATTCATAAA
* * *
87951291 ATTATTATGGAATATGATTATTTATTTAATTAA-CTG---A-TAATTGATTATTCATAGAATTAT
1 ATTATTATGAAATATGATTATTTATTTAATTAATC-GAAAATTAATTAATTATTCATAAAATTAT
* * * * *
87951351 TATAAAATATGGTTATTTAATAAATTAATCAAAAATTAATTAATTGTTCATAGA
65 TATAAAATATGATTATTT-ATAAATTAATCAAAAATTAAATAAATATTCATAAA
* * * *
87951405 ATTGTTATGAAATATGATTATTTAATTAATTAATCAAAAATGAATTAATTA
1 ATTATTATGAAATATGATTATTTATTTAATTAATCGAAAATTAATTAATTA
87951456 GGGTTGCAAA
Statistics
Matches: 138, Mismatches: 17, Indels: 16
0.81 0.10 0.09
Matches are distributed among these distances:
110 34 0.25
111 3 0.02
113 2 0.01
114 89 0.64
115 1 0.01
117 1 0.01
118 8 0.06
ACGTcount: A:0.46, C:0.03, G:0.07, T:0.44
Consensus pattern (117 bp):
ATTATTATGAAATATGATTATTTATTTAATTAATCGAAAATTAATTAATTATTCATAAAATTATT
ATAAAATATGATTATTTATAAATTAATCAAAAATTAAATAAATATTCATAAA
Found at i:87951600 original size:22 final size:21
Alignment explanation
Indices: 87951573--87951625 Score: 61
Period size: 22 Copynumber: 2.5 Consensus size: 21
87951563 ATCAGCCTAA
* *
87951573 ATATAAATTAAATTAGAAAAC
1 ATATAAATTAAATAAAAAAAC
**
87951594 TATATAAATTCTATAAAAAAAC
1 -ATATAAATTAAATAAAAAAAC
87951616 ATATAAATTA
1 ATATAAATTA
87951626 TAAAAATAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
21 9 0.35
22 17 0.65
ACGTcount: A:0.60, C:0.06, G:0.02, T:0.32
Consensus pattern (21 bp):
ATATAAATTAAATAAAAAAAC
Found at i:87951627 original size:19 final size:22
Alignment explanation
Indices: 87951589--87951631 Score: 65
Period size: 19 Copynumber: 2.1 Consensus size: 22
87951579 ATTAAATTAG
87951589 AAAACTATATAAATTCTATAAA
1 AAAACTATATAAATTCTATAAA
87951611 AAAAC-ATATAAA-T-TATAAA
1 AAAACTATATAAATTCTATAAA
87951630 AA
1 AA
87951632 TAAAAAATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 8 0.38
20 1 0.05
21 7 0.33
22 5 0.24
ACGTcount: A:0.65, C:0.07, G:0.00, T:0.28
Consensus pattern (22 bp):
AAAACTATATAAATTCTATAAA
Found at i:87951719 original size:12 final size:11
Alignment explanation
Indices: 87951698--87951736 Score: 55
Period size: 10 Copynumber: 3.7 Consensus size: 11
87951688 ATGTAAAGAA
87951698 ATATAAAATAT
1 ATATAAAATAT
87951709 ATATAAAA-AT
1 ATATAAAATAT
*
87951719 ATATAAAATTT
1 ATATAAAATAT
87951730 AT-TAAAA
1 ATATAAAA
87951737 GTTAAATATT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
10 15 0.58
11 11 0.42
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (11 bp):
ATATAAAATAT
Found at i:87951722 original size:21 final size:20
Alignment explanation
Indices: 87951698--87951736 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
87951688 ATGTAAAGAA
87951698 ATATAAAATATATATAAAAAT
1 ATATAAAATATAT-TAAAAAT
*
87951719 ATATAAAATTTATTAAAA
1 ATATAAAATATATTAAAA
87951737 GTTAAATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (20 bp):
ATATAAAATATATTAAAAAT
Found at i:87953104 original size:25 final size:25
Alignment explanation
Indices: 87953041--87953104 Score: 65
Period size: 25 Copynumber: 2.6 Consensus size: 25
87953031 AAACTTACAT
*
87953041 AGCGATGCAGCAAAGGGCTGCCGAC
1 AGCGATGCAGCAGAGGGCTGCCGAC
* * * **
87953066 AGAGAGGCACCAGAGGGCTGTTGAC
1 AGCGATGCAGCAGAGGGCTGCCGAC
*
87953091 GGCGATGCAGCAGA
1 AGCGATGCAGCAGA
87953105 CGTTGGGGAA
Statistics
Matches: 29, Mismatches: 10, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.28, C:0.23, G:0.39, T:0.09
Consensus pattern (25 bp):
AGCGATGCAGCAGAGGGCTGCCGAC
Found at i:87953253 original size:78 final size:78
Alignment explanation
Indices: 87953110--87953275 Score: 201
Period size: 78 Copynumber: 2.1 Consensus size: 78
87953100 GCAGACGTTG
* * * * **
87953110 GGGAAAAGATTTAGGGATTTCAGGGAAGGGTGGAACTGATTTGGGGAAAAAAAAGTTGGGG-AAA
1 GGGAAAA-AGTTAAGGATTTCAAGGAAAGGCAGAACTGATTTGGGGAAAAAAAAG-TGGGGAAAA
*
87953174 AAATAAAGGGAATTA
64 AAAGAAAGGGAATTA
87953189 GGGAAAAAGTTAAGGATTTCAAGGAAAGGCAGAACTGATTTGGGGAAAATAAAA-TGGGGAAAAA
1 GGGAAAAAGTTAAGGATTTCAAGGAAAGGCAGAACTGATTTGGGGAAAA-AAAAGTGGGG-AAAA
* *
87953253 AAAGAAAGGGATTTC
64 AAAGAAAGGGAATTA
87953268 GGGAAAAA
1 GGGAAAAA
87953276 ATTAGGAATT
Statistics
Matches: 75, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
77 5 0.07
78 36 0.48
79 34 0.45
ACGTcount: A:0.45, C:0.04, G:0.33, T:0.18
Consensus pattern (78 bp):
GGGAAAAAGTTAAGGATTTCAAGGAAAGGCAGAACTGATTTGGGGAAAAAAAAGTGGGGAAAAAA
AGAAAGGGAATTA
Found at i:87953287 original size:79 final size:76
Alignment explanation
Indices: 87953110--87953287 Score: 196
Period size: 79 Copynumber: 2.2 Consensus size: 76
87953100 GCAGACGTTG
* * * **
87953110 GGGAAAAGATTTAGGGATTTCAGGGAAGGGTGGAACTGATTTGGGGAAAAAAAAGTTGGGGAAAA
1 GGGAAAA-AATTA-GGATTTCAAGGAAAGGCAGAACTGATTTGGGGAAAAAAAAG-TGGGGAAAA
*
87953175 AATAAAGGGAATTA
63 AAGAAAGGGAATTA
*
87953189 GGGAAAAAGTTAAGGATTTCAAGGAAAGGCAGAACTGATTTGGGGAAAATAAAA-TGGGGAAAAA
1 GGGAAAAAATT-AGGATTTCAAGGAAAGGCAGAACTGATTTGGGGAAAA-AAAAGTGGGG--AAA
* *
87953253 AAAGAAAGGGATTTC
62 AAAGAAAGGGAATTA
87953268 GGGAAAAAATTAGGAATTTC
1 GGGAAAAAATTAGG-ATTTC
87953288 GGGGAGGGGG
Statistics
Matches: 85, Mismatches: 9, Indels: 10
0.82 0.09 0.10
Matches are distributed among these distances:
77 5 0.06
78 38 0.45
79 42 0.49
ACGTcount: A:0.44, C:0.04, G:0.32, T:0.20
Consensus pattern (76 bp):
GGGAAAAAATTAGGATTTCAAGGAAAGGCAGAACTGATTTGGGGAAAAAAAAGTGGGGAAAAAAG
AAAGGGAATTA
Found at i:87956069 original size:40 final size:41
Alignment explanation
Indices: 87956007--87956253 Score: 241
Period size: 40 Copynumber: 6.2 Consensus size: 41
87955997 CGGATGATAA
*
87956007 CCGGGCTAAGTCCCG-AGAGCATTTGAGCTAGTGGCTAAT-T
1 CCGGGCTAAGTCCCGAAG-GCATTTGTGCTAGTGGCTAATAT
* * *
87956047 TCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCT-ACT-ATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGGCTAATAT
* *
87956087 CCGGGCTAAGTCCCGAAGGCGTTTGTG-T-G-AGCTATTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGGCTA--ATAT
* *
87956127 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT---TATTAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGGCTAATAT
* ** *
87956165 ACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT-ATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGGCTAATAT
*
87956206 CCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGGCT-ATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGGCTAATAT
87956246 CC-GGCTAA
1 CCGGGCTAA
87956254 ACTCCGAAGG
Statistics
Matches: 174, Mismatches: 19, Indels: 29
0.78 0.09 0.13
Matches are distributed among these distances:
37 2 0.01
38 4 0.02
39 39 0.22
40 122 0.70
41 5 0.03
42 2 0.01
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.26
Consensus pattern (41 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGGCTAATAT
Found at i:87956210 original size:79 final size:80
Alignment explanation
Indices: 87956048--87956230 Score: 287
Period size: 79 Copynumber: 2.3 Consensus size: 80
87956038 TGGCTAATTT
*
87956048 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATATCCGGGCTAAGTCCCGAAGGCGTTTGT
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATATCCGGGCTAAGTCCCGAAGGCATTTGT
** * *
87956113 GTGAGCTATTATATC
66 GCAAGCTACTATAAC
* *
87956128 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATA-CCGGGCTAAGTCCCGAAGGCATTTGT
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATATCCGGGCTAAGTCCCGAAGGCATTTGT
*
87956192 GCAAGTTACTATAAC
66 GCAAGCTACTATAAC
87956207 CGGGCTAAGTCCCGAAGGCATTTG
1 CGGGCTAAGTCCCGAAGGCATTTG
87956231 AGCTAGTGGC
Statistics
Matches: 95, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
79 59 0.62
80 36 0.38
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.26
Consensus pattern (80 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATATCCGGGCTAAGTCCCGAAGGCATTTGT
GCAAGCTACTATAAC
Found at i:87956263 original size:79 final size:79
Alignment explanation
Indices: 87956048--87956253 Score: 281
Period size: 79 Copynumber: 2.6 Consensus size: 79
87956038 TGGCTAATTT
*
87956048 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATATCCGGGCTAAGTCCCGAAGGCGTTTGT
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATATCCGGGCTAAGTCCCGAAGGCATTTGT
** * *
87956113 GTGAGCTATTATATC
65 GCAAGCTACTATAAC
*
87956128 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATA-CCGGGCTAAGTCCCGAAGGCATTTGT
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATATCCGGGCTAAGTCCCGAAGGCATTTGT
*
87956192 GCAAGTTACTATAAC
65 GCAAGCTACTATAAC
* * *
87956207 CGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGGCTATATCC-GGCTAA
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGT-ACTATATCCGGGCTAA
87956254 ACTCCGAAGG
Statistics
Matches: 112, Mismatches: 12, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
78 1 0.01
79 73 0.65
80 38 0.34
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTG
CAAGCTACTATAAC
Found at i:87959102 original size:63 final size:63
Alignment explanation
Indices: 87958956--87959230 Score: 234
Period size: 63 Copynumber: 4.4 Consensus size: 63
87958946 TGCCACATGG
* * * * * * *
87958956 CCTGGGCACATGCCCATGTACCTTGGCCATGTGGTTTTTA-AGC-ACAAACAATGAGTTACATGA
1 CCTGGGCACACGCCCGTGT-CCCTAGCCATGTGATTTTTATA-CTACAAACAGTGAGTTACACGA
* * * *
87959019 CCTGGGCACACGCCCATGTCCCTAGCCATATGGTTTTTATTCCT-CAAACAGTGAGTTACACGA
1 CCTGGGCACACGCCCGTGTCCCTAGCCATGTGATTTTTA-TACTACAAACAGTGAGTTACACGA
* * * * * **
87959082 CCTGGGCACATGTCTGTGTCCCTGGCCTTGTGATTTTTATACTACAAACAGTGTTTTACAC-A
1 CCTGGGCACACGCCCGTGTCCCTAGCCATGTGATTTTTATACTACAAACAGTGAGTTACACGA
* * * * * * * * *
87959144 GCATAGGCACATGCCCGTGTCCCTAGCCGTGTGATTTTTATACTACAAAAAGTTAGTTAAATGG
1 -CCTGGGCACACGCCCGTGTCCCTAGCCATGTGATTTTTATACTACAAACAGTGAGTTACACGA
*
87959208 CCTGGGCACACGTCCGTGTCCCT
1 CCTGGGCACACGCCCGTGTCCCT
87959231 GGCTGTGTGA
Statistics
Matches: 171, Mismatches: 35, Indels: 12
0.78 0.16 0.06
Matches are distributed among these distances:
62 21 0.12
63 150 0.88
ACGTcount: A:0.24, C:0.26, G:0.21, T:0.29
Consensus pattern (63 bp):
CCTGGGCACACGCCCGTGTCCCTAGCCATGTGATTTTTATACTACAAACAGTGAGTTACACGA
Found at i:87959827 original size:4 final size:4
Alignment explanation
Indices: 87959818--87959848 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
87959808 CCAAAGTTTT
*
87959818 GAAA GAAA GAAA GAAA GAAA GAAA AAAA GAA
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAA
87959849 CGATAACTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:87964442 original size:21 final size:22
Alignment explanation
Indices: 87964416--87964462 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
87964406 CTCTGCTCAA
*
87964416 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
87964437 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
87964459 ACTC
1 ACTC
87964463 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:87970554 original size:126 final size:127
Alignment explanation
Indices: 87970404--87970656 Score: 499
Period size: 127 Copynumber: 2.0 Consensus size: 127
87970394 TAACCACGTT
87970404 TTGTTTTGTTTAGAAATAAC-AAAAAAAATGCAAAACGAAGTCTGGATAGAAATCTTTTTTCATT
1 TTGTTTTGTTTAGAAATAACAAAAAAAAATGCAAAACGAAGTCTGGATAGAAATCTTTTTTCATT
87970468 ATAATAAATGTGTTAGGTATCACATGTAGATTTTAATAAAAGTGGTCGACTTAAAAATGGTA
66 ATAATAAATGTGTTAGGTATCACATGTAGATTTTAATAAAAGTGGTCGACTTAAAAATGGTA
87970530 TTGTTTTGTTTAGAAATAACAAAAAAAAATGCAAAACGAAGTCTGGATAGAAATCTTTTTTCATT
1 TTGTTTTGTTTAGAAATAACAAAAAAAAATGCAAAACGAAGTCTGGATAGAAATCTTTTTTCATT
87970595 ATAATAAATGTGTTAGGTATCACATGTAGATTTTAATAAAAGTGGTCGACTTAAAAATGGTA
66 ATAATAAATGTGTTAGGTATCACATGTAGATTTTAATAAAAGTGGTCGACTTAAAAATGGTA
87970657 GTACGTTTAT
Statistics
Matches: 126, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
126 20 0.16
127 106 0.84
ACGTcount: A:0.41, C:0.08, G:0.17, T:0.35
Consensus pattern (127 bp):
TTGTTTTGTTTAGAAATAACAAAAAAAAATGCAAAACGAAGTCTGGATAGAAATCTTTTTTCATT
ATAATAAATGTGTTAGGTATCACATGTAGATTTTAATAAAAGTGGTCGACTTAAAAATGGTA
Found at i:87971600 original size:31 final size:31
Alignment explanation
Indices: 87971563--87971631 Score: 97
Period size: 31 Copynumber: 2.2 Consensus size: 31
87971553 TTATTATTTT
*
87971563 AGTTAAATTTGAC-ATTTAA-TTTTTAAAAAA
1 AGTTAAATTTAACTA-TTAATTTTTTAAAAAA
87971593 GAGTTAAATTTAACTATTAATTTTTTAAAAAA
1 -AGTTAAATTTAACTATTAATTTTTTAAAAAA
87971625 AGTTAAA
1 AGTTAAA
87971632 ATGATTTTTA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
31 23 0.66
32 12 0.34
ACGTcount: A:0.48, C:0.03, G:0.07, T:0.42
Consensus pattern (31 bp):
AGTTAAATTTAACTATTAATTTTTTAAAAAA
Found at i:87975053 original size:37 final size:37
Alignment explanation
Indices: 87975003--87975081 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
87974993 TTATTACGAA
* *
87975003 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
87975040 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
87975077 GTCTT
1 GTCTT
87975082 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:87975345 original size:47 final size:47
Alignment explanation
Indices: 87975200--87975437 Score: 370
Period size: 47 Copynumber: 5.1 Consensus size: 47
87975190 CCCTTCGGGA
* * * * * * *
87975200 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
87975247 CCTGTCACATATATACACTTTCACATTCA-CACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
87975293 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
87975340 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
87975387 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
87975434 CTTA
1 CTTA
87975438 CTATCATTTC
Statistics
Matches: 175, Mismatches: 15, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
46 40 0.23
47 135 0.77
ACGTcount: A:0.28, C:0.31, G:0.10, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:87979087 original size:40 final size:40
Alignment explanation
Indices: 87979030--87979212 Score: 194
Period size: 40 Copynumber: 4.6 Consensus size: 40
87979020 CCAGCATGAT
* *
87979030 TGCTCTTCGGGATTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * *
87979070 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * * *
87979110 TGCTCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACCAA
1 TGCTCTTCGGGACTTAGCCCGGATATA-TCACTAGCACGAA
* *
87979151 TGC-CTTC-GGATCTTAGTCCGGATATGGTCACTTAGCAC-AA
1 TGCTCTTCGGGA-CTTAGCCCGGATAT-ATCAC-TAGCACGAA
*
87979191 AGC-CTTCGGGACTTAGCCCGGA
1 TGCTCTTCGGGACTTAGCCCGGA
87979213 CATCATTCGA
Statistics
Matches: 119, Mismatches: 19, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
39 3 0.03
40 96 0.81
41 20 0.17
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
Found at i:87979557 original size:29 final size:29
Alignment explanation
Indices: 87979518--87979596 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
87979508 CTTAATAATC
*
87979518 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
87979548 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
87979577 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
87979597 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:87981591 original size:37 final size:37
Alignment explanation
Indices: 87981541--87981619 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 37
87981531 TTATTACGAA
* *
87981541 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
**
87981578 GTCTTACCCGGACAAAATTCCCACACTTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
87981615 GTCTT
1 GTCTT
87981620 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 35 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:87981888 original size:47 final size:47
Alignment explanation
Indices: 87981738--87982116 Score: 582
Period size: 47 Copynumber: 8.1 Consensus size: 47
87981728 CCCTTCGGGA
* * * * * * *
87981738 CTTATCACA-ATTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATA-TATACACTTTCACATTCATCACATCGGCTATTAGGC
* * *
87981785 CCTGTCACATATATACACTTTCACATTCA-CACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
87981831 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
*
87981878 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
*
87981925 CTTATCACATATGTACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
*
87981972 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
* *
87982019 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
* *
87982066 CTTATCACATATATACACTTTCACATTCATCACATCGACCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
87982113 CTTA
1 CTTA
87982117 CTATCATTTC
Statistics
Matches: 311, Mismatches: 19, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
46 40 0.13
47 270 0.87
48 1 0.00
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
Found at i:87984643 original size:18 final size:18
Alignment explanation
Indices: 87984586--87984650 Score: 73
Period size: 18 Copynumber: 3.6 Consensus size: 18
87984576 CTATGTTAAT
87984586 TTTTGTAATTT-TTTTATA
1 TTTT-TAATTTATTTTATA
87984604 TTTTTAATTTTGATTTTA-A
1 TTTTTAA-TTT-ATTTTATA
87984623 -TTTTAATTTATTTTAATA
1 TTTTTAATTTATTTT-ATA
87984641 TTTTTAATTT
1 TTTTTAATTT
87984651 TATATTTTTT
Statistics
Matches: 41, Mismatches: 0, Indels: 11
0.79 0.00 0.21
Matches are distributed among these distances:
16 5 0.12
17 7 0.17
18 14 0.34
19 10 0.24
20 5 0.12
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (18 bp):
TTTTTAATTTATTTTATA
Found at i:87984645 original size:25 final size:26
Alignment explanation
Indices: 87984617--87984674 Score: 75
Period size: 25 Copynumber: 2.2 Consensus size: 26
87984607 TTAATTTTGA
*
87984617 TTTTAATTTTA-ATTTATTTTAA-TAT
1 TTTTAATTTTATATTT-TTTAAATTAT
87984642 TTTTAATTTTATATTTTTTAAATTAT
1 TTTTAATTTTATATTTTTTAAATTAT
87984668 TTATTAA
1 TT-TTAA
87984675 CGTGACATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
25 16 0.55
26 9 0.31
27 4 0.14
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (26 bp):
TTTTAATTTTATATTTTTTAAATTAT
Found at i:87984652 original size:15 final size:14
Alignment explanation
Indices: 87984597--87984659 Score: 66
Period size: 14 Copynumber: 4.9 Consensus size: 14
87984587 TTTGTAATTT
87984597 TTTTATATTTTTAA
1 TTTTATATTTTTAA
*
87984611 TTTT-GA-TTTTAA
1 TTTTATATTTTTAA
87984623 TTTTA-A--TTT-A
1 TTTTATATTTTTAA
87984633 TTTTAATATTTTTAA
1 TTTT-ATATTTTTAA
87984648 TTTTATATTTTT
1 TTTTATATTTTT
87984660 TAAATTATTT
Statistics
Matches: 42, Mismatches: 1, Indels: 12
0.76 0.02 0.22
Matches are distributed among these distances:
10 5 0.12
11 4 0.10
12 12 0.29
13 1 0.02
14 15 0.36
15 5 0.12
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (14 bp):
TTTTATATTTTTAA
Found at i:87984660 original size:24 final size:24
Alignment explanation
Indices: 87984617--87984670 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 24
87984607 TTAATTTTGA
87984617 TTTTAATTTTAATTTATTTTAATAT
1 TTTTAATTTTAATTTATTTTAA-AT
87984642 TTTTAATTTT-ATATT-TTTTAAAT
1 TTTTAATTTTAAT-TTATTTTAAAT
87984665 TATTTA
1 T-TTTA
87984671 TTAACGTGAC
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
23 3 0.11
24 12 0.44
25 12 0.44
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (24 bp):
TTTTAATTTTAATTTATTTTAAAT
Found at i:87985209 original size:27 final size:27
Alignment explanation
Indices: 87985171--87985222 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
87985161 TAAAATATTG
87985171 GTCTTGCCTCTATCAGAGGCGGCACTA
1 GTCTTGCCTCTATCAGAGGCGGCACTA
*
87985198 GTCTTGCCTCTATTAGAGGCGGCAC
1 GTCTTGCCTCTATCAGAGGCGGCAC
87985223 CAGTTGATGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.17, C:0.29, G:0.27, T:0.27
Consensus pattern (27 bp):
GTCTTGCCTCTATCAGAGGCGGCACTA
Found at i:87988516 original size:64 final size:63
Alignment explanation
Indices: 87988390--87988541 Score: 277
Period size: 64 Copynumber: 2.4 Consensus size: 63
87988380 AATTGAGCTT
* *
87988390 ATGTTGTAATGTATTTAATTTATGTAAAAAAAATTTATTGCAAAGTTTGTTCCAATTTGATTA
1 ATGTTGTAATGTATTTAATTTATATAAAAAAAATTTATTGCAAAGTTTGTTCCAATTAGATTA
87988453 ATGTTGTAATGTATTTAATTTATATAAAAAAAATTATATTGCAAAGTTTGTTCCAATTAGATTA
1 ATGTTGTAATGTATTTAATTTATATAAAAAAAATT-TATTGCAAAGTTTGTTCCAATTAGATTA
87988517 ATGTTGTAATGTATTTAATTTATAT
1 ATGTTGTAATGTATTTAATTTATAT
87988542 TAGTAGACTA
Statistics
Matches: 86, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
63 34 0.40
64 52 0.60
ACGTcount: A:0.38, C:0.04, G:0.12, T:0.47
Consensus pattern (63 bp):
ATGTTGTAATGTATTTAATTTATATAAAAAAAATTTATTGCAAAGTTTGTTCCAATTAGATTA
Found at i:87988682 original size:38 final size:37
Alignment explanation
Indices: 87988639--87988714 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 37
87988629 TCCACTTTTC
87988639 AAAGTTCCAATTAATCTAATTAAATATATCAAAAAAAT
1 AAAGTTCCAATTAATCTAATTAAATATAT-AAAAAAAT
87988677 AAAGTTCCAATTAATCTAATTAAATATATAAAAAAAT
1 AAAGTTCCAATTAATCTAATTAAATATATAAAAAAAT
87988714 A
1 A
87988715 CAAACTTTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
37 9 0.24
38 29 0.76
ACGTcount: A:0.57, C:0.09, G:0.03, T:0.32
Consensus pattern (37 bp):
AAAGTTCCAATTAATCTAATTAAATATATAAAAAAAT
Found at i:87990362 original size:27 final size:27
Alignment explanation
Indices: 87990332--87990509 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
87990322 ATATTGAGTC
* * * *
87990332 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
87990359 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
87990386 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
87990414 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
87990441 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
87990468 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
87990495 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
87990510 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:87990471 original size:82 final size:81
Alignment explanation
Indices: 87990353--87990508 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
87990343 TGCTATATAA
* *
87990353 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
87990418 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
87990435 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
87990499 CACTTAGTGC
65 CACTTAGTGC
87990509 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:87998465 original size:27 final size:27
Alignment explanation
Indices: 87998435--87998612 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
87998425 ATATTGAGTC
* * * *
87998435 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
87998462 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
*
87998489 CGCACACTTAGTGCTACATAGTCAAACG
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
87998517 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
87998544 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
87998571 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
87998598 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
87998613 GTACAATTTA
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 105 0.82
28 23 0.18
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:87998574 original size:82 final size:81
Alignment explanation
Indices: 87998456--87998611 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
87998446 TGCTATATAA
* *
87998456 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACGCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-GCGCA
87998521 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * ** *
87998538 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAAGCGCA
87998602 CACTTAGTGC
65 CACTTAGTGC
87998612 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 15 0.23
82 51 0.77
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAAGCGCAC
ACTTAGTGCCGCATGG
Found at i:88014252 original size:31 final size:31
Alignment explanation
Indices: 88014217--88014279 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
88014207 GATGGCTTTA
88014217 TTTGTATATGGCTTACTAACCTTTTAAAGCT
1 TTTGTATATGGCTTACTAACCTTTTAAAGCT
*
88014248 TTTGTATATGGCTTACTAAGCTTTTAAAGCT
1 TTTGTATATGGCTTACTAACCTTTTAAAGCT
88014279 T
1 T
88014280 ACTTTGCAGA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.25, C:0.14, G:0.14, T:0.46
Consensus pattern (31 bp):
TTTGTATATGGCTTACTAACCTTTTAAAGCT
Found at i:88016245 original size:24 final size:23
Alignment explanation
Indices: 88016202--88016247 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
88016192 TACATAGGCC
*
88016202 AAAGATTTCTCGATTAGAAACAT
1 AAAGATTTCTAGATTAGAAACAT
88016225 AAAGAGTTTCTAGAATT-GAAACA
1 AAAGA-TTTCTAG-ATTAGAAACA
88016248 AGGACGAATG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 5 0.25
24 12 0.60
25 3 0.15
ACGTcount: A:0.46, C:0.11, G:0.15, T:0.28
Consensus pattern (23 bp):
AAAGATTTCTAGATTAGAAACAT
Found at i:88019775 original size:32 final size:32
Alignment explanation
Indices: 88019713--88019776 Score: 78
Period size: 32 Copynumber: 2.0 Consensus size: 32
88019703 GAATGTGATA
* *
88019713 ATATATATAAAATAATAATAATGTAGTAACAT
1 ATATATATAAAATAACAATAATGTAATAACAT
88019745 ATATATATCAAACA-AACAATAAT-TAATAACAT
1 ATATATAT-AAA-ATAACAATAATGTAATAACAT
88019777 TATGGAACTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
32 16 0.57
33 11 0.39
34 1 0.04
ACGTcount: A:0.58, C:0.08, G:0.03, T:0.31
Consensus pattern (32 bp):
ATATATATAAAATAACAATAATGTAATAACAT
Found at i:88020379 original size:35 final size:34
Alignment explanation
Indices: 88020339--88020415 Score: 86
Period size: 35 Copynumber: 2.3 Consensus size: 34
88020329 ATTGAAACAT
88020339 AAAATAATAATCTA-AAAGAAATAAAGTTAAAATAA
1 AAAATAA-AATCTAGAAAGAAATAAA-TTAAAATAA
* * * *
88020374 AAAATAAAATTTAGAAAGGATTAAATTAGAAT-A
1 AAAATAAAATCTAGAAAGAAATAAATTAAAATAA
88020407 AAAATAAAA
1 AAAATAAAA
88020416 ATACAGATGA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
33 10 0.27
34 11 0.30
35 16 0.43
ACGTcount: A:0.68, C:0.01, G:0.08, T:0.23
Consensus pattern (34 bp):
AAAATAAAATCTAGAAAGAAATAAATTAAAATAA
Found at i:88021946 original size:45 final size:44
Alignment explanation
Indices: 88021896--88022742 Score: 498
Period size: 45 Copynumber: 19.7 Consensus size: 44
88021886 CCTCGTCGAA
*
88021896 TACAAAGAGATAAGATCTGTCATCTTGGATCTACTCTCCGTCCAT
1 TACAGAGAGATAAGATCTGTCATCTTGGATCTACTC-CCGTCCAT
*
88021941 TACAAAGAGATAAGATCTGTCATCTTGGATCTACTCCCCGTCCAT
1 TACAGAGAGATAAGATCTGTCATCTTGGATCTACT-CCCGTCCAT
* * *
88021986 TACAGAGAGATAAGATCCGCCATCTTGGATCT-GTCCCG---A-
1 TACAGAGAGATAAGATCTGTCATCTTGGATCTACTCCCGTCCAT
* * * * * * *
88022025 T---GA-AGGTCAGAGCTGCTACATTTTCGATCTACTCCCCGTCGAA
1 TACAGAGAGATAAGATCTG-T-CATCTTGGATCTACT-CCCGTCCAT
* * *
88022068 TATAGAGAGATAAGATCTGTCATCTTAGATCTACTCTCCGTCAAT
1 TACAGAGAGATAAGATCTGTCATCTTGGATCTACTC-CCGTCCAT
* *
88022113 TACAGAGAGATAAGATCTGTCATCTTTGATCTACTCCCTGTCTAT
1 TACAGAGAGATAAGATCTGTCATCTTGGATCTACTCCC-GTCCAT
* * *
88022158 TACGGAGAGATAAGATCTGTCATCTTGGATCTGC-CACG---A-
1 TACAGAGAGATAAGATCTGTCATCTTGGATCTACTCCCGTCCAT
* * * * * * *
88022197 T---GA-AGGTCAGATTTG-CTATGTCTTCGATCTGCTCCCTGTCAAA
1 TACAGAGAGATAAGATCTGTC-A--TCTTGGATCTACTCCC-GTCCAT
88022240 TACAGAGAGATAAGATCTGTCATCTTGGATCTACTCCCCG-CCTAT
1 TACAGAGAGATAAGATCTGTCATCTTGGATCTACT-CCCGTCC-AT
* *
88022285 TACAGAGAGATAAGATCTATCATCTTGGATCTGC-CCCG---A-
1 TACAGAGAGATAAGATCTGTCATCTTGGATCTACTCCCGTCCAT
* * * * * *
88022324 T---GA-AGGTCAGATCTG-CTATGTCTTCGATCTGCTCCCCGTCGAA
1 TACAGAGAGATAAGATCTGTC-A--TCTTGGATCTACT-CCCGTCCAT
*
88022367 TACAGAGAGATAAGATCTGTCATCTTGGATCTACTCCCCGCCCAT
1 TACAGAGAGATAAGATCTGTCATCTTGGATCTACT-CCCGTCCAT
*
88022412 TACAGAGAGATAAGATCTGTCATCTTTGATCTACTCCTCGTCCAT
1 TACAGAGAGATAAGATCTGTCATCTTGGATCTACTCC-CGTCCAT
* * *
88022457 TACAAAGAGATAAGATCTATCATCTTGGATCT-GTCCCG---A-
1 TACAGAGAGATAAGATCTGTCATCTTGGATCTACTCCCGTCCAT
* * * * * * *
88022496 T---GA-AGGTCAGATCTGTGATGTCTTCGATCTGCTCCCTGTCGAA
1 TACAGAGAGATAAGATCTGTCA--TCTTGGATCTACTCCC-GTCCAT
* *
88022539 TACAGAGAGATAAGATCTGTCATCTTGGATCTACTCCCCTCTTAT
1 TACAGAGAGATAAGATCTGTCATCTTGGATCTACTCCCGTC-CAT
* *** * *
88022584 TATAGAGAGATAAGATCCACCATCTTAGATCTGC-CCCG---A-
1 TACAGAGAGATAAGATCTGTCATCTTGGATCTACTCCCGTCCAT
* * * * * *
88022623 T---GA-AGGTCAGATCTG-CTATGTCTTCGATCTGCTCCCTGTCGAA
1 TACAGAGAGATAAGATCTGTC-A--TCTTGGATCTACTCCC-GTCCAT
*
88022666 TACAGAGAGATAAGATCTGTCATCTTAGATCTACTTCCCG-CCTAT
1 TACAGAGAGATAAGATCTGTCATCTTGGATCTAC-TCCCGTCC-AT
* * *
88022711 TACAGAGAAATAAGATCCGCCATCTTGGATCT
1 TACAGAGAGATAAGATCTGTCATCTTGGATCT
88022743 GCCCCGATGA
Statistics
Matches: 633, Mismatches: 94, Indels: 150
0.72 0.11 0.17
Matches are distributed among these distances:
34 3 0.00
35 48 0.08
36 9 0.01
37 52 0.08
38 10 0.02
39 16 0.03
40 5 0.01
42 5 0.01
43 16 0.03
44 18 0.03
45 376 0.59
46 19 0.03
47 53 0.08
48 3 0.00
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (44 bp):
TACAGAGAGATAAGATCTGTCATCTTGGATCTACTCCCGTCCAT
Found at i:88022184 original size:172 final size:172
Alignment explanation
Indices: 88021884--88022316 Score: 634
Period size: 172 Copynumber: 2.5 Consensus size: 172
88021874 AAAGTGTCTG
* * * *
88021884 CTCCTCGTCGAATACAAAGAGATAAGATCTGTCATCTTGGATCTACTCTCCGTCCATTACAAAGA
1 CTCCCCGTCGAATACAGAGAGATAAGATCTGTCATCTTGGATCTACTCTCCGTCAATTACAGAGA
88021949 GATAAGATCTGTCATCTTGGATCTACTCCCCGTCCATTACAGAGAGATAAGATCCGCCATCTTGG
66 GATAAGATCTGTCATCTTGGATCTACTCCCCGTCCATTACAGAGAGATAAGATCCGCCATCTTGG
*
88022014 ATCTGTCC-CGATGAAGGTCAGAGCTGCTACATTTTCGATCTA
131 ATCTG-CCACGATGAAGGTCAGAGCTGCTACATCTTCGATCTA
* *
88022056 CTCCCCGTCGAATATAGAGAGATAAGATCTGTCATCTTAGATCTACTCTCCGTCAATTACAGAGA
1 CTCCCCGTCGAATACAGAGAGATAAGATCTGTCATCTTGGATCTACTCTCCGTCAATTACAGAGA
* * * * * *
88022121 GATAAGATCTGTCATCTTTGATCTACTCCCTGTCTATTACGGAGAGATAAGATCTGTCATCTTGG
66 GATAAGATCTGTCATCTTGGATCTACTCCCCGTCCATTACAGAGAGATAAGATCCGCCATCTTGG
** ** *
88022186 ATCTGCCACGATGAAGGTCAGATTTGCTATGTCTTCGATCTG
131 ATCTGCCACGATGAAGGTCAGAGCTGCTACATCTTCGATCTA
* * * * *
88022228 CTCCCTGTCAAATACAGAGAGATAAGATCTGTCATCTTGGATCTACTCCCCGCCTATTACAGAGA
1 CTCCCCGTCGAATACAGAGAGATAAGATCTGTCATCTTGGATCTACTCTCCGTCAATTACAGAGA
*
88022293 GATAAGATCTATCATCTTGGATCT
66 GATAAGATCTGTCATCTTGGATCT
88022317 GCCCCGATGA
Statistics
Matches: 233, Mismatches: 27, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
171 2 0.01
172 231 0.99
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (172 bp):
CTCCCCGTCGAATACAGAGAGATAAGATCTGTCATCTTGGATCTACTCTCCGTCAATTACAGAGA
GATAAGATCTGTCATCTTGGATCTACTCCCCGTCCATTACAGAGAGATAAGATCCGCCATCTTGG
ATCTGCCACGATGAAGGTCAGAGCTGCTACATCTTCGATCTA
Found at i:88022226 original size:127 final size:125
Alignment explanation
Indices: 88022090--88022443 Score: 555
Period size: 127 Copynumber: 2.8 Consensus size: 125
88022080 AGATCTGTCA
* * * * *
88022090 TCTTAGATCTACTCTCCGTCAATTACAGAGAGATAAGATCTGTCATCTTTGATCTACTCCCTGTC
1 TCTTCGATCTGCTC-CCGTCAA-TACAGAGAGATAAGATCTGTCATCTTGGATCTACTCCCCGCC
* *
88022155 TATTACGGAGAGATAAGATCTGTCATCTTGGATCTGCCACGATGAAGGTCAGATTTGCTATG
64 TATTACAGAGAGATAAGATCTGTCATCTTGGATCTGCCACGATGAAGGTCAGATCTGCTATG
88022217 TCTTCGATCTGCTCCCTGTCAAATACAGAGAGATAAGATCTGTCATCTTGGATCTACTCCCCGCC
1 TCTTCGATCTGCTCCC-GTC-AATACAGAGAGATAAGATCTGTCATCTTGGATCTACTCCCCGCC
* *
88022282 TATTACAGAGAGATAAGATCTATCATCTTGGATCTGCCCCGATGAAGGTCAGATCTGCTATG
64 TATTACAGAGAGATAAGATCTGTCATCTTGGATCTGCCACGATGAAGGTCAGATCTGCTATG
88022344 TCTTCGATCTGCTCCCCGTCGAATACAGAGAGATAAGATCTGTCATCTTGGATCTACTCCCCGCC
1 TCTTCGATCTGCT-CCCGTC-AATACAGAGAGATAAGATCTGTCATCTTGGATCTACTCCCCGCC
* *
88022409 CATTACAGAGAGATAAGATCTGTCATCTTTGATCT
64 TATTACAGAGAGATAAGATCTGTCATCTTGGATCT
88022444 ACTCCTCGTC
Statistics
Matches: 211, Mismatches: 13, Indels: 6
0.92 0.06 0.03
Matches are distributed among these distances:
126 2 0.01
127 204 0.97
128 5 0.02
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (125 bp):
TCTTCGATCTGCTCCCGTCAATACAGAGAGATAAGATCTGTCATCTTGGATCTACTCCCCGCCTA
TTACAGAGAGATAAGATCTGTCATCTTGGATCTGCCACGATGAAGGTCAGATCTGCTATG
Found at i:88022418 original size:172 final size:172
Alignment explanation
Indices: 88022240--88022600 Score: 609
Period size: 172 Copynumber: 2.1 Consensus size: 172
88022230 CCCTGTCAAA
*
88022240 TACAGAGAGATAAGATCTGTCATCTTGGATCTACTCCCCG-CCTATTACAGAGAGATAAGATCTA
1 TACAGAGAGATAAGATCTGTCATCTTGGATCTACTCCCCGTCC-ATTACAAAGAGATAAGATCTA
88022304 TCATCTTGGATCTGCCCCGATGAAGGTCAGATCTGCT-ATGTCTTCGATCTGCTCCCCGTCGAAT
65 TCATCTTGGATCTGCCCCGATGAAGGTCAGATCTG-TGATGTCTTCGATCTGCTCCCCGTCGAAT
88022368 ACAGAGAGATAAGATCTGTCATCTTGGATCTACTCCCCGCCCAT
129 ACAGAGAGATAAGATCTGTCATCTTGGATCTACTCCCCGCCCAT
* *
88022412 TACAGAGAGATAAGATCTGTCATCTTTGATCTACTCCTCGTCCATTACAAAGAGATAAGATCTAT
1 TACAGAGAGATAAGATCTGTCATCTTGGATCTACTCCCCGTCCATTACAAAGAGATAAGATCTAT
* *
88022477 CATCTTGGATCTGTCCCGATGAAGGTCAGATCTGTGATGTCTTCGATCTGCTCCCTGTCGAATAC
66 CATCTTGGATCTGCCCCGATGAAGGTCAGATCTGTGATGTCTTCGATCTGCTCCCCGTCGAATAC
* **
88022542 AGAGAGATAAGATCTGTCATCTTGGATCTACTCCCCTCTTAT
131 AGAGAGATAAGATCTGTCATCTTGGATCTACTCCCCGCCCAT
*
88022584 TATAGAGAGATAAGATC
1 TACAGAGAGATAAGATC
88022601 CACCATCTTA
Statistics
Matches: 178, Mismatches: 9, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
171 1 0.01
172 175 0.98
173 2 0.01
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (172 bp):
TACAGAGAGATAAGATCTGTCATCTTGGATCTACTCCCCGTCCATTACAAAGAGATAAGATCTAT
CATCTTGGATCTGCCCCGATGAAGGTCAGATCTGTGATGTCTTCGATCTGCTCCCCGTCGAATAC
AGAGAGATAAGATCTGTCATCTTGGATCTACTCCCCGCCCAT
Found at i:88022484 original size:299 final size:299
Alignment explanation
Indices: 88021941--88022742 Score: 1252
Period size: 299 Copynumber: 2.7 Consensus size: 299
88021931 CTCCGTCCAT
* *
88021941 TACAAAGAGATAAGATCTGTCATCTTGGATCTACTCCCCGTCC-ATTACAGAGAGATAAGATCCG
1 TACAGAGAGATAAGATCTGTCATCTTGGATCTACTCCCCG-CCTATTACAGAGAGATAAGATCCA
* * ** * *
88022005 CCATCTTGGATCTGTCCCGATGAAGGTCAGAGCTGCTACATTTTCGATCTACTCCCCGTCGAATA
65 CCATCTTGGATCTGCCCCGATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCGAATA
* * *
88022070 TAGAGAGATAAGATCTGTCATCTTAGATCTACTCTCCGTCAATTACAGAGAGATAAGATCTGTCA
130 CAGAGAGATAAGATCTGTCATCTTAGATCTACTCCCCGCCAATTACAGAGAGATAAGATCTGTCA
* ** *
88022135 TCTTTGATCTACTCCCTGTCTATTACGGAGAGATAAGATCTGTCATCTTGGATCTG-CCACGATG
195 TCTTTGATCTACTCCCTGTCCATTACAAAGAGATAAGATCTATCATCTTGGATCTGTCC-CGATG
*
88022199 AAGGTCAGATTTGCT-ATGTCTTCGATCTGCTCCCTGTCAAA
259 AAGGTCAGATCTG-TGATGTCTTCGATCTGCTCCCTGTCAAA
* *
88022240 TACAGAGAGATAAGATCTGTCATCTTGGATCTACTCCCCGCCTATTACAGAGAGATAAGATCTAT
1 TACAGAGAGATAAGATCTGTCATCTTGGATCTACTCCCCGCCTATTACAGAGAGATAAGATCCAC
88022305 CATCTTGGATCTGCCCCGATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCGAATAC
66 CATCTTGGATCTGCCCCGATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCGAATAC
* *
88022370 AGAGAGATAAGATCTGTCATCTTGGATCTACTCCCCGCCCATTACAGAGAGATAAGATCTGTCAT
131 AGAGAGATAAGATCTGTCATCTTAGATCTACTCCCCGCCAATTACAGAGAGATAAGATCTGTCAT
88022435 CTTTGATCTACT-CCTCGTCCATTACAAAGAGATAAGATCTATCATCTTGGATCTGTCCCGATGA
196 CTTTGATCTACTCCCT-GTCCATTACAAAGAGATAAGATCTATCATCTTGGATCTGTCCCGATGA
*
88022499 AGGTCAGATCTGTGATGTCTTCGATCTGCTCCCTGTCGAA
260 AGGTCAGATCTGTGATGTCTTCGATCTGCTCCCTGTCAAA
* * *
88022539 TACAGAGAGATAAGATCTGTCATCTTGGATCTACTCCCCTCTTATTATAGAGAGATAAGATCCAC
1 TACAGAGAGATAAGATCTGTCATCTTGGATCTACTCCCCGCCTATTACAGAGAGATAAGATCCAC
* *
88022604 CATCTTAGATCTGCCCCGATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCTGTCGAATAC
66 CATCTTGGATCTGCCCCGATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCGAATAC
* * * * *
88022669 AGAGAGATAAGATCTGTCATCTTAGATCTACTTCCCGCCTATTACAGAGAAATAAGATCCGCCAT
131 AGAGAGATAAGATCTGTCATCTTAGATCTACTCCCCGCCAATTACAGAGAGATAAGATCTGTCAT
*
88022734 CTTGGATCT
196 CTTTGATCT
88022743 GCCCCGATGA
Statistics
Matches: 464, Mismatches: 35, Indels: 8
0.92 0.07 0.02
Matches are distributed among these distances:
298 6 0.01
299 456 0.98
300 2 0.00
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (299 bp):
TACAGAGAGATAAGATCTGTCATCTTGGATCTACTCCCCGCCTATTACAGAGAGATAAGATCCAC
CATCTTGGATCTGCCCCGATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCGAATAC
AGAGAGATAAGATCTGTCATCTTAGATCTACTCCCCGCCAATTACAGAGAGATAAGATCTGTCAT
CTTTGATCTACTCCCTGTCCATTACAAAGAGATAAGATCTATCATCTTGGATCTGTCCCGATGAA
GGTCAGATCTGTGATGTCTTCGATCTGCTCCCTGTCAAA
Found at i:88022818 original size:127 final size:127
Alignment explanation
Indices: 88022389--88022811 Score: 582
Period size: 127 Copynumber: 3.3 Consensus size: 127
88022379 AGATCTGTCA
* * * * * *
88022389 TCTTGGATCTACTCCCCGCCCATTACAGAGAGATAAGATCTGTCATCTTTGATCTAC-TCCTCGT
1 TCTTCGATCTGCTCCCCGTCGAATACAGAGAGATAAGATCTGTCATCTTAGATCTACTTCC-CG-
* * * *
88022453 CC-ATTACAAAGAGATAAGATCTATCATCTTGGATCTGTCCCGATGAAGGTCAGATCTG-TGATG
64 CCTATTACAGAGAGATAAGATCCACCATCTTGGATCTGCCCCGATGAAGGTCAGATCTGCT-ATG
* * * * *
88022516 TCTTCGATCTGCTCCCTGTCGAATACAGAGAGATAAGATCTGTCATCTTGGATCTACTCCCCTCT
1 TCTTCGATCTGCTCCCCGTCGAATACAGAGAGATAAGATCTGTCATCTTAGATCTACTTCCCGCC
* *
88022581 TATTATAGAGAGATAAGATCCACCATCTTAGATCTGCCCCGATGAAGGTCAGATCTGCTATG
66 TATTACAGAGAGATAAGATCCACCATCTTGGATCTGCCCCGATGAAGGTCAGATCTGCTATG
*
88022643 TCTTCGATCTGCTCCCTGTCGAATACAGAGAGATAAGATCTGTCATCTTAGATCTACTTCCCGCC
1 TCTTCGATCTGCTCCCCGTCGAATACAGAGAGATAAGATCTGTCATCTTAGATCTACTTCCCGCC
* * *
88022708 TATTACAGAGAAATAAGATCCGCCATCTTGGATCTGCCCCGATGAAGGTCAAATCTGCTATG
66 TATTACAGAGAGATAAGATCCACCATCTTGGATCTGCCCCGATGAAGGTCAGATCTGCTATG
* * *
88022770 TCTTTGATCTTCTCCCCGTCGAATACAAAGAGATAAGATCTG
1 TCTTCGATCTGCTCCCCGTCGAATACAGAGAGATAAGATCTG
88022812 CTATCTTCAA
Statistics
Matches: 264, Mismatches: 29, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
126 1 0.00
127 260 0.98
128 3 0.01
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (127 bp):
TCTTCGATCTGCTCCCCGTCGAATACAGAGAGATAAGATCTGTCATCTTAGATCTACTTCCCGCC
TATTACAGAGAGATAAGATCCACCATCTTGGATCTGCCCCGATGAAGGTCAGATCTGCTATG
Found at i:88032738 original size:17 final size:18
Alignment explanation
Indices: 88032716--88032750 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
88032706 CTATTTGGGC
88032716 CATGTGGGCC-ACACAGG
1 CATGTGGGCCTACACAGG
88032733 CATGTGGGCCTACACAGG
1 CATGTGGGCCTACACAGG
88032751 TAAGCTACAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.23, C:0.29, G:0.34, T:0.14
Consensus pattern (18 bp):
CATGTGGGCCTACACAGG
Found at i:88032840 original size:17 final size:18
Alignment explanation
Indices: 88032815--88032848 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
88032805 AGGTCAATTT
*
88032815 GGGCCTGTGGG-CCACAG
1 GGGCATGTGGGACCACAG
88032832 GGGCATGTGGGACCACA
1 GGGCATGTGGGACCACA
88032849 CGGGTAGGCC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.18, C:0.26, G:0.44, T:0.12
Consensus pattern (18 bp):
GGGCATGTGGGACCACAG
Found at i:88035484 original size:19 final size:19
Alignment explanation
Indices: 88035442--88035496 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
88035432 TTCTCGTGTG
*
88035442 AGGCCTACAA-GCCC-ATT
1 AGGCCCACAAGGCCCAATT
88035459 AGGCCCACAAGGCCCAATT
1 AGGCCCACAAGGCCCAATT
* *
88035478 CGGCCCAAAATGGCCCAAT
1 AGGCCCACAA-GGCCCAAT
88035497 ACCATTTTGG
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
17 9 0.28
18 4 0.12
19 11 0.34
20 8 0.25
ACGTcount: A:0.31, C:0.36, G:0.20, T:0.13
Consensus pattern (19 bp):
AGGCCCACAAGGCCCAATT
Found at i:88038646 original size:43 final size:43
Alignment explanation
Indices: 88038549--88038656 Score: 130
Period size: 43 Copynumber: 2.5 Consensus size: 43
88038539 ACCGAGATGT
** *
88038549 GATTACATGTGCGACCATGTCTGGGACATTGGCATTGTATGGA
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATGCA
*
88038592 GATTACGTGTAAGACCATGTCTGGGACATTGGCATTGTTAAT-CA
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATTG-T-ATGCA
* *
88038636 -ATTCCATGTAAGACCCTGTCT
1 GATTACATGTAAGACCATGTCT
88038657 AGGATAGTAA
Statistics
Matches: 56, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
43 52 0.93
44 2 0.04
45 2 0.04
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (43 bp):
GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATGCA
Found at i:88044687 original size:66 final size:66
Alignment explanation
Indices: 88044617--88044743 Score: 161
Period size: 66 Copynumber: 1.9 Consensus size: 66
88044607 ACAAATTGCT
* *
88044617 CAACTTAAAGCAGAGGCAG-AATCGAGAGAAGCAGAAGCTCAA-AG-AAAATATGATGAACTCTA
1 CAACTTAAAGCAGAGGCAGCAA-CAAGAGAAGCA-AAG-GCAAGAGAAAAATATGATGAACTCTA
88044679 GCTA
63 GCTA
* *
88044683 CAACTTAAAGTAGAGGCAGCAACAAGGGAAGCAAAGGCAAGTAGAAAAATATGATGAACTC
1 CAACTTAAAGCAGAGGCAGCAACAAGAGAAGCAAAGGCAAG-AGAAAAATATGATGAACTC
88044744 CAACTACAGC
Statistics
Matches: 53, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
64 3 0.06
65 3 0.06
66 29 0.55
67 18 0.34
ACGTcount: A:0.46, C:0.16, G:0.24, T:0.14
Consensus pattern (66 bp):
CAACTTAAAGCAGAGGCAGCAACAAGAGAAGCAAAGGCAAGAGAAAAATATGATGAACTCTAGCT
A
Found at i:88045756 original size:24 final size:24
Alignment explanation
Indices: 88045723--88045772 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
88045713 AAGTCTGTCT
88045723 GGAGAAGATTTAGAAGCTGATAAG
1 GGAGAAGATTTAGAAGCTGATAAG
* * *
88045747 GGAGAGGATTTAGGAGCTGATTAG
1 GGAGAAGATTTAGAAGCTGATAAG
88045771 GG
1 GG
88045773 TGAACTGTGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.34, C:0.04, G:0.40, T:0.22
Consensus pattern (24 bp):
GGAGAAGATTTAGAAGCTGATAAG
Found at i:88047260 original size:27 final size:26
Alignment explanation
Indices: 88047202--88047315 Score: 120
Period size: 27 Copynumber: 4.2 Consensus size: 26
88047192 AGGAAGCGTC
* *
88047202 CTGGTGGCTATGCCACAAATTATCTGAT
1 CTGGTGGCTCTGCCAC--ATTATCTGTT
88047230 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGTT
* *
88047257 CTGGTGGCTCTGCCACGATTGTCTATAT
1 CTGGTGGCTCTGCCAC-ATTATCTGT-T
* * *
88047285 CTGGTGACTCTGTCACATTATTTGTT
1 CTGGTGGCTCTGCCACATTATCTGTT
88047311 CTGGT
1 CTGGT
88047316 AGCCATGCTA
Statistics
Matches: 74, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
26 8 0.11
27 34 0.46
28 32 0.43
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.38
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGTT
Found at i:88047287 original size:55 final size:54
Alignment explanation
Indices: 88047202--88047315 Score: 140
Period size: 55 Copynumber: 2.1 Consensus size: 54
88047192 AGGAAGCGTC
*
88047202 CTGGTGGCTATGCCACAAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAAATTATCTGATCTGGTGACTCTGCCACAT-TATCTGTT
* * * * * *
88047257 CTGGTGGCTCTGCCAC-GATTGTCTATATCTGGTGACTCTGTCACATTATTTGTT
1 CTGGTGGCTATGCCACAAATTATCT-GATCTGGTGACTCTGCCACATTATCTGTT
88047311 CTGGT
1 CTGGT
88047316 AGCCATGCTA
Statistics
Matches: 51, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
54 18 0.35
55 33 0.65
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.38
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAAATTATCTGATCTGGTGACTCTGCCACATTATCTGTT
Found at i:88047296 original size:28 final size:28
Alignment explanation
Indices: 88047202--88047302 Score: 100
Period size: 28 Copynumber: 3.6 Consensus size: 28
88047192 AGGAAGCGTC
* * *
88047202 CTGGTGGCTATGCCACAAATTATCT-GAT
1 CTGGTGGCTCTGCCACATA-TATCTATAT
*
88047230 CTGGTGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTCTGCCACATATATCTATAT
*
88047257 CTGGTGGCTCTGCCACGAT-TGTCTATAT
1 CTGGTGGCTCTGCCAC-ATATATCTATAT
* *
88047285 CTGGTGACTCTGTCACAT
1 CTGGTGGCTCTGCCACAT
88047303 TATTTGTTCT
Statistics
Matches: 63, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
27 29 0.46
28 34 0.54
ACGTcount: A:0.18, C:0.25, G:0.23, T:0.35
Consensus pattern (28 bp):
CTGGTGGCTCTGCCACATATATCTATAT
Found at i:88056334 original size:24 final size:24
Alignment explanation
Indices: 88056307--88056373 Score: 116
Period size: 24 Copynumber: 2.8 Consensus size: 24
88056297 TCTGGAGAAT
88056307 ATTTAGGAGCTGATAAGGGAGAGG
1 ATTTAGGAGCTGATAAGGGAGAGG
*
88056331 ATTTAGGAGCTGATCAGGGAGAGG
1 ATTTAGGAGCTGATAAGGGAGAGG
*
88056355 ATTTAGGAGCTGATTAGGG
1 ATTTAGGAGCTGATAAGGG
88056374 TGAACTGTGT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 41 1.00
ACGTcount: A:0.30, C:0.06, G:0.40, T:0.24
Consensus pattern (24 bp):
ATTTAGGAGCTGATAAGGGAGAGG
Found at i:88057876 original size:27 final size:26
Alignment explanation
Indices: 88057812--88057924 Score: 127
Period size: 27 Copynumber: 4.2 Consensus size: 26
88057802 AGGAAGCGTC
* *
88057812 CTGGTGGCTATGCCACAAATTATCTGAT
1 CTGGTGGCTCTGCCAC--ATTATCTGTT
*
88057840 CTGGTGGCTCTGCCACATATATTTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGTT
*
88057867 CTGGTGGCTCTGCCACGATTGTCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTGT-T
* *
88057895 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGTT
88057921 CTGG
1 CTGG
88057925 CAGCCATGCT
Statistics
Matches: 74, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
26 7 0.09
27 35 0.47
28 32 0.43
ACGTcount: A:0.16, C:0.23, G:0.24, T:0.37
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGTT
Found at i:88057897 original size:55 final size:54
Alignment explanation
Indices: 88057812--88057924 Score: 147
Period size: 55 Copynumber: 2.1 Consensus size: 54
88057802 AGGAAGCGTC
* *
88057812 CTGGTGGCTATGCCACAAATTATCTGATCTGGTGGCTCTGCCACATATATTTGTT
1 CTGGTGGCTATGCCACAAATTATCTGATCTGGTGACTCTGCCACAT-TATCTGTT
* * * *
88057867 CTGGTGGCTCTGCCAC-GATTGTCTGTATCTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTATGCCACAAATTATCTG-ATCTGGTGACTCTGCCACATTATCTGTT
88057921 CTGG
1 CTGG
88057925 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
54 18 0.35
55 33 0.65
ACGTcount: A:0.16, C:0.23, G:0.24, T:0.37
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAAATTATCTGATCTGGTGACTCTGCCACATTATCTGTT
Found at i:88069887 original size:12 final size:12
Alignment explanation
Indices: 88069870--88069894 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
88069860 ATGTAAGTGA
88069870 TCTTGATGATTT
1 TCTTGATGATTT
88069882 TCTTGATGATTT
1 TCTTGATGATTT
88069894 T
1 T
88069895 TACATTTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.08, G:0.16, T:0.60
Consensus pattern (12 bp):
TCTTGATGATTT
Found at i:88071107 original size:237 final size:231
Alignment explanation
Indices: 88070705--88071248 Score: 686
Period size: 237 Copynumber: 2.3 Consensus size: 231
88070695 ACGACTGCCT
* * *
88070705 GTGTAAGA-CATGTTTGGGACATGCATCGGCCT-CGAGATGTAAGCCAGTGTAAGA-CATGTCTG
1 GTGTAAGACCATGTCTGGGACATGCATCGG-CTAAGAG-TGT--GCTAGTGTAAGACCATGTCTG
* *
88070767 GGACATGCATCAACTACGAGACATGTCAGTGTAAGAACATGTCTGGGACATGGCATCGACATGGA
62 GGACATGCATCAACTACGAGACAAGTCAGTGTAAGAACATGTCTGGGACATGGCATCGACATCGA
* *
88070832 TACGCGAGAGCTAGTGTAAGACCATGTTTGGCACATGGCATCGGCCTCGATGATGATAGCCAGTG
127 TAC-CGAGAGCCAGTGTAAGACCATGTCTGGCACATGGCATCGGCCTCGATGATGATAGCCAGTG
88070897 TAAGACATGTTTGGGACATGCATCGACTAAGAGTTGTGCTA
191 TAAGACATGTTTGGGACATGCATCGACTAAGAGTTGTGCTA
88070938 GTGTAAGACCATGTCTGGGACATGCATCGGCTAAGAGTTGTGCTAGTGTAAGACCATGTCTGGGA
1 GTGTAAGACCATGTCTGGGACATGCATCGGCTAAGAG-TGTGCTAGTGTAAGACCATGTCTGGGA
* * *
88071003 CATGACATCAGC-ACGTAAGTACGAGAG-CTAGTGTAAGACCATGTCTGGGACATGGCATCGACC
65 CATG-CATCAACTACG--AG-AC-A-AGTC-AGTGTAAGAACATGTCTGGGACATGGCATCGACA
* * * * *
88071066 TCGATGA-TGATAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATTATGATAGCT
123 TCGAT-ACCGAGAGCCAGTGTAAGACCATGTCTGGCACATGGCATCGGCCTCGATGATGATAGCC
*
88071130 AGTGTAAGACATGTTTGGGACATGCATCGGCTAAGAGTTGTGCTA
187 AGTGTAAGACATGTTTGGGACATGCATCGACTAAGAGTTGTGCTA
* * * *
88071175 GTGTAAGACCATGTCTGGGACATGACATCAGCACGTAAGTACGAGAGCTAGTGTAAGACCATGTT
1 GTGTAAGACCATGTCTGGGACATG-CATC-G-GC-TAAG-A-GTGTGCTAGTGTAAGACCATGTC
88071240 TGGGACATG
60 TGGGACATG
88071249 GTATCGACCT
Statistics
Matches: 273, Mismatches: 21, Indels: 25
0.86 0.07 0.08
Matches are distributed among these distances:
232 11 0.04
233 28 0.10
234 32 0.12
235 2 0.01
236 2 0.01
237 120 0.44
238 41 0.15
239 2 0.01
240 1 0.00
241 4 0.01
242 29 0.11
243 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (231 bp):
GTGTAAGACCATGTCTGGGACATGCATCGGCTAAGAGTGTGCTAGTGTAAGACCATGTCTGGGAC
ATGCATCAACTACGAGACAAGTCAGTGTAAGAACATGTCTGGGACATGGCATCGACATCGATACC
GAGAGCCAGTGTAAGACCATGTCTGGCACATGGCATCGGCCTCGATGATGATAGCCAGTGTAAGA
CATGTTTGGGACATGCATCGACTAAGAGTTGTGCTA
Found at i:88071205 original size:192 final size:188
Alignment explanation
Indices: 88070610--88071305 Score: 850
Period size: 192 Copynumber: 3.7 Consensus size: 188
88070600 TTTGTGTACC
* * *
88070610 AGTGTAAGA-CATGTCTAGGACATG-CATCAGC-C--ACATTATGAGAGCTAGTGTAAGACCATG
1 AGTGTAAGACCATGTCTGGGACATGACATCAGCACGTA-AGTACGAGAGCTAGTGTAAGACCATG
* * * * *
88070670 TCTAGGACATGGCATC-AGCATTC-A-GACGACT-GCCTGTGTAAGACATGTTTGGGACATGCAT
65 TCTGGGACATGGCATCGA-C-CTCGATGATGA-TAGCCAGTGTAAGACATGTCTGGGACATGCAT
* * ** **
88070731 CGGCCTCGAGATGTAAGCCAGTGTAAGACATGTCTGGGACATGCATCAACTACGAGACATGT-C-
127 CGGCCTCGATATGT-AGCTAGTGTAAGACATGTCTGGGACATGCATCGGCTA--AGAGTTGTGCT
* * * *
88070794 AGTGTAAGAACATGTCTGGGACATGGCATC-G-ACAT-GGATACGCGAGAGCTAGTGTAAGACCA
1 AGTGTAAGACCATGTCTGGGACATGACATCAGCACGTAAG-TA--CGAGAGCTAGTGTAAGACCA
* * * *
88070856 TGTTTGGCACATGGCATCGGCCTCGATGATGATAGCCAGTGTAAGACATGTTTGGGACATGCATC
63 TGTCTGGGACATGGCATCGACCTCGATGATGATAGCCAGTGTAAGACATGTCTGGGACATGCATC
* *
88070921 -GACTAAGAGT-TGT-GCTAGTGTAAGACCATGTCTGGGACATGCATCGGCTAAGAGTTGTGCT
128 GGCCT-CGA-TATGTAGCTAGTGTAAGA-CATGTCTGGGACATGCATCGGCTAAGAGTTGTGCT
88070982 AGTGTAAGACCATGTCTGGGACATGACATCAGCACGTAAGTACGAGAGCTAGTGTAAGACCATGT
1 AGTGTAAGACCATGTCTGGGACATGACATCAGCACGTAAGTACGAGAGCTAGTGTAAGACCATGT
88071047 CTGGGACATGGCATCGACCTCGATGATGATAGCCAGTGTAAGACCATGTCTGGGACATGGCATCG
66 CTGGGACATGGCATCGACCTCGATGATGATAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCG
*
88071112 GCCTCGATTATGATAGCTAGTGTAAGACATGTTTGGGACATGCATCGGCTAAGAGTTGTGCT
129 GCCTCGA-TATG-TAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCTAAGAGTTGTGCT
88071174 AGTGTAAGACCATGTCTGGGACATGACATCAGCACGTAAGTACGAGAGCTAGTGTAAGACCATGT
1 AGTGTAAGACCATGTCTGGGACATGACATCAGCACGTAAGTACGAGAGCTAGTGTAAGACCATGT
* * *
88071239 TTGGGACATGGTATCGACCTTGATGATGATAGCCAGTGTAAGACCATGTCTGGGACATGACATCG
66 CTGGGACATGGCATCGACCTCGATGATGATAGCCAGTGTAAGA-CATGTCTGGGACATG-CATCG
88071304 GC
129 GC
88071306 AACTTAACCC
Statistics
Matches: 451, Mismatches: 34, Indels: 46
0.85 0.06 0.09
Matches are distributed among these distances:
184 9 0.02
185 16 0.04
186 12 0.03
187 14 0.03
188 153 0.34
189 53 0.12
190 13 0.03
191 7 0.02
192 162 0.36
193 12 0.03
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (188 bp):
AGTGTAAGACCATGTCTGGGACATGACATCAGCACGTAAGTACGAGAGCTAGTGTAAGACCATGT
CTGGGACATGGCATCGACCTCGATGATGATAGCCAGTGTAAGACATGTCTGGGACATGCATCGGC
CTCGATATGTAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCTAAGAGTTGTGCT
Found at i:88089877 original size:55 final size:53
Alignment explanation
Indices: 88089691--88089945 Score: 189
Period size: 55 Copynumber: 4.8 Consensus size: 53
88089681 ACATGGGTAC
* * * * * *
88089691 CTTACCATTGCCATGACTTGTCATGGTCTTACGTGGTATCCTT---TT-GGAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAA
* * * * *
88089740 CTTACCATTGCCATGTCTCGACATGGTCTTACGTGGTATCCTTGCCTTATGGA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAA
* * *
88089793 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCC-TTGCCTTAT-G-AA
* * *** *
88089848 CTTATCAATGCCATGTCTTGACATGGTCTTCCATGATTTTCTTGCCTTA-GAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG-AA
* * * * *
88089901 CCTTAACAATTTCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 -CTTACCAA-TGCCATGTCTTGACATGGTCTTACATGGGATCCTT
88089946 AAACCCTAAT
Statistics
Matches: 166, Mismatches: 30, Indels: 14
0.79 0.14 0.07
Matches are distributed among these distances:
49 40 0.24
52 4 0.02
53 46 0.28
54 8 0.05
55 67 0.40
56 1 0.01
ACGTcount: A:0.20, C:0.25, G:0.18, T:0.36
Consensus pattern (53 bp):
CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAA
Found at i:88089892 original size:108 final size:110
Alignment explanation
Indices: 88089738--88089938 Score: 264
Period size: 108 Copynumber: 1.8 Consensus size: 110
88089728 ATCCTTTTGG
* * * * *
88089738 AACTTACCATTGCCATGTCTCGACATGGTCTTACGTGGTATCCTTGCCTTATG-GA-CTCACCAA
1 AACTTACCAATGCCATGTCTCGACATGGTCTTACATGATATCCTTGCCTTA-GAAACCTCAACAA
88089801 -TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGA
65 TTGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGA
* * * * * *
88089846 AACTTATCAATGCCATGTCTTGACATGGTCTTCCATGATTTTCTTGCCTTAGAAACCTTAACAAT
1 AACTTACCAATGCCATGTCTCGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCAACAAT
*
88089911 TTCCATGCCTTGGCATGGTCTTACATGG
66 TGCCATGCCTTGGCATGGTCTTACATGG
88089939 TATCCTTAAA
Statistics
Matches: 78, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
107 1 0.01
108 44 0.56
109 6 0.08
110 27 0.35
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.34
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTCGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCAACAAT
TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGA
Found at i:88093361 original size:19 final size:19
Alignment explanation
Indices: 88093334--88093372 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
88093324 AAATCAAAGA
*
88093334 AAGGTATTCCAAAATCATT
1 AAGGGATTCCAAAATCATT
88093353 AAGGGATTCCAAAATCATT
1 AAGGGATTCCAAAATCATT
88093372 A
1 A
88093373 TGACTCTGTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.44, C:0.15, G:0.13, T:0.28
Consensus pattern (19 bp):
AAGGGATTCCAAAATCATT
Found at i:88093946 original size:50 final size:51
Alignment explanation
Indices: 88093770--88093948 Score: 247
Period size: 52 Copynumber: 3.5 Consensus size: 51
88093760 CAGATACCCG
* * * *
88093770 GTGGCCTGT-ACATAGTACCACCCTTGT-AGTCAAAGCTACCTTCTTTACAAG
1 GTGGCCT-TCACATAGTACCACACTTGTGA-CCAAAGCTATCTTCTTTACAAA
*
88093821 GTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATCTTTCTTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATC-TTCTTTACAAA
* *
88093873 GTGGCCTTCACATAGTACGACACTTGTGACCAAAGCTATC-TCTTTGCAAA
1 GTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATCTTCTTTACAAA
88093923 GTGGCCTTCACATAGTACCACACTTG
1 GTGGCCTTCACATAGTACCACACTTG
88093949 AGTTACTAGT
Statistics
Matches: 116, Mismatches: 9, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
50 34 0.29
51 33 0.28
52 49 0.42
ACGTcount: A:0.27, C:0.28, G:0.17, T:0.28
Consensus pattern (51 bp):
GTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATCTTCTTTACAAA
Found at i:88097242 original size:97 final size:97
Alignment explanation
Indices: 88097076--88097271 Score: 365
Period size: 97 Copynumber: 2.0 Consensus size: 97
88097066 AGAACAAAAA
*
88097076 AAGAAAGCTGAATTTGAGCAGAAACTAAAAGAGAATTTGATGAAAAATTATTCACTTTATTTTTT
1 AAGAAAGCTGAATTTGAGCAGAAACTAAAAGAGAATTTGATGAAAAATTATTCACTTTATTTTTG
88097141 ATAAAACAAAACATTACATATATCAAGTAATT
66 ATAAAACAAAACATTACATATATCAAGTAATT
* *
88097173 AAGAAAGCTGAATTTGAGCAGAAACTAAGAGAGAATTTGATGAAAAATTATTCATTTTATTTTTG
1 AAGAAAGCTGAATTTGAGCAGAAACTAAAAGAGAATTTGATGAAAAATTATTCACTTTATTTTTG
88097238 ATAAAACAAAACATTACATATATCAAGTAATT
66 ATAAAACAAAACATTACATATATCAAGTAATT
88097270 AA
1 AA
88097272 CTTGTGGTGT
Statistics
Matches: 96, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
97 96 1.00
ACGTcount: A:0.47, C:0.09, G:0.12, T:0.32
Consensus pattern (97 bp):
AAGAAAGCTGAATTTGAGCAGAAACTAAAAGAGAATTTGATGAAAAATTATTCACTTTATTTTTG
ATAAAACAAAACATTACATATATCAAGTAATT
Found at i:88107995 original size:13 final size:13
Alignment explanation
Indices: 88107977--88108001 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
88107967 GACGGGTGAG
88107977 AAATTAAAACATT
1 AAATTAAAACATT
88107990 AAATTAAAACAT
1 AAATTAAAACAT
88108002 GTGCATCATA
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:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (13 bp):
AAATTAAAACATT
Found at i:88124774 original size:18 final size:19
Alignment explanation
Indices: 88124729--88124765 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
88124719 AAAAAAAATC
*
88124729 AAAATATTTTTTAAAATTA
1 AAAATATTTTTAAAAATTA
88124748 AAAATATTTTTAAAAATT
1 AAAATATTTTTAAAAATT
88124766 CTAAAATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
AAAATATTTTTAAAAATTA
Found at i:88127249 original size:119 final size:120
Alignment explanation
Indices: 88127067--88127289 Score: 283
Period size: 119 Copynumber: 1.9 Consensus size: 120
88127057 TCCTCGTTCA
* *
88127067 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCACGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* *
88127132 TTAGTAAC-TCGCACAAATGCCTTCGGGACTT-GACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTTAGCACAAA-GCCTTCGGGACTTAG-CCCGGATTTAGTAACTCGCACC
* * ** **
88127187 AATGCCTTCGGG-CTTAGCACGGA-ATTAGTATCTCGCACAAATGCCTTCGGTTCTTAGTCCGGA
1 AATGCCTTCGGGACATAGCACGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
* *
88127250 TATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
65 TATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
88127290 CATCATTCAA
Statistics
Matches: 88, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
118 1 0.01
119 66 0.75
120 21 0.24
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCACGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACC
Found at i:88127289 original size:40 final size:40
Alignment explanation
Indices: 88127065--88127289 Score: 269
Period size: 40 Copynumber: 5.7 Consensus size: 40
88127055 GCTCCTCGTT
* *
88127065 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
88127105 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
88127145 CAAATGCCTTCGGGACTT-GACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAG-CCCGGATATAGTAACTCGCA
* * *
88127185 CCAATGCCTTCGGG-CTTAGCACGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
** * * * *
88127224 CAAATGCCTTCGGTTCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAAC-TCGCA
88127265 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
88127290 CATCATTCAA
Statistics
Matches: 159, Mismatches: 20, Indels: 12
0.83 0.10 0.06
Matches are distributed among these distances:
39 31 0.19
40 119 0.75
41 9 0.06
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:88146543 original size:46 final size:44
Alignment explanation
Indices: 88146438--88146611 Score: 156
Period size: 46 Copynumber: 3.8 Consensus size: 44
88146428 ATGTAACTGT
* *
88146438 GCCGATGCATGTCCCAGACATGTCTTACACTAGCACGTCTCGTA
1 GCCGATGCATGTCCCAGACATGTCTGACACTAGCACATCTCGTA
* * *
88146482 GCTGACGCATGTCCCAGACATGTCTGACACTGGCTAACATCTCG-A
1 GCCGATGCATGTCCCAGACATGTCTGACACTAGC--ACATCTCGTA
* * * *
88146527 GGCCGATGTATGTCCCAGACATGTCTTAAACTAACAC-TCGTC-TCAA
1 -GCCGATGCATGTCCCAGACATGTCTGACACTAGCACATC-TCGT--A
*
88146573 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCAC
1 -GCCGATG-CATGTCCCAGACAT-GTCTGACACTAGCAC
88146612 TCGTCTCAAT
Statistics
Matches: 105, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 2 0.02
44 34 0.32
45 1 0.01
46 42 0.40
47 13 0.12
48 13 0.12
ACGTcount: A:0.25, C:0.31, G:0.20, T:0.24
Consensus pattern (44 bp):
GCCGATGCATGTCCCAGACATGTCTGACACTAGCACATCTCGTA
Found at i:88146616 original size:48 final size:45
Alignment explanation
Indices: 88146437--88146654 Score: 224
Period size: 48 Copynumber: 4.7 Consensus size: 45
88146427 AATGTAACTG
*
88146437 TGCCGATGCATGTCCCAGACATGTCTTACACTAGCA-CGTCTC-G
1 TGCCGATGCATGTCCCAGACATGTCTTACACTAGCATCGTCTCAA
* * * * * * *
88146480 TAGCTGACGCATGTCCCAGACATGTCTGACACTGGCTAACATCTCGA
1 T-GCCGATGCATGTCCCAGACATGTCTTACACTAGC-ATCGTCTCAA
* * * *
88146527 GGCCGATGTATGTCCCAGACATGTCTTAAACTAACACTCGTCTCAA
1 TGCCGATGCATGTCCCAGACATGTCTTACACTAGCA-TCGTCTCAA
88146573 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCGTCTCAA
1 TGCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCA-TCGTCTCAA
* *
88146621 TGCTGATGCCATGTCCCAAACATGGTCTTACACT
1 TGCCGATG-CATGTCCCAGACAT-GTCTTACACT
88146655 GGCTCTCATT
Statistics
Matches: 145, Mismatches: 23, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
43 1 0.01
44 30 0.21
45 2 0.01
46 45 0.31
47 13 0.09
48 54 0.37
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.26
Consensus pattern (45 bp):
TGCCGATGCATGTCCCAGACATGTCTTACACTAGCATCGTCTCAA
Found at i:88146683 original size:142 final size:136
Alignment explanation
Indices: 88146437--88146690 Score: 341
Period size: 142 Copynumber: 1.8 Consensus size: 136
88146427 AATGTAACTG
* *
88146437 TGCCGATGCATGTCCCAGACATGTCTTACACTAGCACGTCTCGTAGCTGACGCATGTCCCAGACA
1 TGCCGATGCATGTCCCAGACATGTCTTACACTAGCACGTCTCATAGCTGACGCATGTCCCAAACA
*
88146502 TGTCTGACACTGGCTAACATCTCGAGGCCGATGTATGTCCCAGACATGTCTTAAACTAACACTCG
66 TGTCTGACACTGGCTAACATCTCGAGGCCAATGTATGTCCCAGACATGTCTTAAACTAACACTCG
88146567 TCTCAA
131 TCTCAA
*
88146573 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCGTCTCA-ATGCTGATGCCATGTCC
1 TGCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCA--CGTCTCATA-GCTGACG-CATGTCC
* ** * *
88146637 CAAACATGGTCTTACACTGGCTCTCAT-TATGTGGCCAATGTATGTCCCAGACAT
60 CAAACAT-GTCTGACACTGGCTAACATCT-CGAGGCCAATGTATGTCCCAGACAT
88146691 ATCTAACACT
Statistics
Matches: 101, Mismatches: 9, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
136 8 0.08
137 14 0.14
138 14 0.14
139 1 0.01
140 12 0.12
141 14 0.14
142 38 0.38
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (136 bp):
TGCCGATGCATGTCCCAGACATGTCTTACACTAGCACGTCTCATAGCTGACGCATGTCCCAAACA
TGTCTGACACTGGCTAACATCTCGAGGCCAATGTATGTCCCAGACATGTCTTAAACTAACACTCG
TCTCAA
Found at i:88150834 original size:14 final size:14
Alignment explanation
Indices: 88150800--88150839 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
88150790 AAAAACATTT
* *
88150800 TATGCAAATGCATG
1 TATGCAGATGTATG
*
88150814 TACGCAGATGTATG
1 TATGCAGATGTATG
88150828 TATGCAGATGTA
1 TATGCAGATGTA
88150840 CCAAATCAGA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (14 bp):
TATGCAGATGTATG
Found at i:88151978 original size:193 final size:193
Alignment explanation
Indices: 88151649--88152039 Score: 737
Period size: 193 Copynumber: 2.0 Consensus size: 193
88151639 TTTTGGCCAC
**
88151649 CAGAATCGTCCCTAACCTTTACCTTATCAAAATATATAAAAGGTGATGATTTCTCATCACTTCCA
1 CAGAATCGTCCCTAACCTTTACCTTATCAAAATATATAAAAGGTGACAATTTCTCATCACTTCCA
88151714 ATGTCTAGAACCCAAAATCTTTGGGTTAACACAAAATCAAAAATATATCAAAACAGTAACTTCGT
66 ATGTCTAGAACCCAAAATCTTTGGGTTAACACAAAATCAAAAATATATCAAAACAGTAACTTCGT
*
88151779 AAAAACGATAATGAAAAGATAAGGTTTCTAATCCCACACATGATATGCGACCGGTATAGGCAA
131 AAAAACGATAATGAAAAGATAAGATTTCTAATCCCACACATGATATGCGACCGGTATAGGCAA
*
88151842 CAGAATCGTCCCTAACCTTTACCTTATCAAAATATATAAAAGGTGACAATTTCTCATCATTTCCA
1 CAGAATCGTCCCTAACCTTTACCTTATCAAAATATATAAAAGGTGACAATTTCTCATCACTTCCA
*
88151907 ATGTCTAGAACCCAAAATCTTTGGGTTAACACAAAATCAAAAATATATCGAAACAGTAACTTCGT
66 ATGTCTAGAACCCAAAATCTTTGGGTTAACACAAAATCAAAAATATATCAAAACAGTAACTTCGT
88151972 AAAAACGATAATGAAAAGATAAGATTTCTAATCCCACACATGATATGCGACCGGTATAGGCAA
131 AAAAACGATAATGAAAAGATAAGATTTCTAATCCCACACATGATATGCGACCGGTATAGGCAA
88152035 CAGAA
1 CAGAA
88152040 GAGCGACAAT
Statistics
Matches: 193, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
193 193 1.00
ACGTcount: A:0.41, C:0.20, G:0.13, T:0.26
Consensus pattern (193 bp):
CAGAATCGTCCCTAACCTTTACCTTATCAAAATATATAAAAGGTGACAATTTCTCATCACTTCCA
ATGTCTAGAACCCAAAATCTTTGGGTTAACACAAAATCAAAAATATATCAAAACAGTAACTTCGT
AAAAACGATAATGAAAAGATAAGATTTCTAATCCCACACATGATATGCGACCGGTATAGGCAA
Found at i:88158617 original size:29 final size:27
Alignment explanation
Indices: 88158545--88158624 Score: 83
Period size: 30 Copynumber: 2.8 Consensus size: 27
88158535 ATTTTTGGTA
88158545 AAAAAAATTCAATT-AAGCCCTTATAAG
1 AAAAAAATTCAATTGAA-CCCTTATAAG
88158572 AAAAAAATGCCTCAATTGAACCCTTAATAATG
1 AAAAAAAT---TCAATTGAACCCTT-ATAA-G
*
88158604 AAAATAATTCAATTG-ACCCTT
1 AAAAAAATTCAATTGAACCCTT
88158625 TATATTAATA
Statistics
Matches: 46, Mismatches: 1, Indels: 11
0.79 0.02 0.19
Matches are distributed among these distances:
27 8 0.17
28 6 0.13
29 7 0.15
30 11 0.24
31 6 0.13
32 8 0.17
ACGTcount: A:0.47, C:0.17, G:0.07, T:0.28
Consensus pattern (27 bp):
AAAAAAATTCAATTGAACCCTTATAAG
Found at i:88164738 original size:20 final size:21
Alignment explanation
Indices: 88164698--88164764 Score: 70
Period size: 20 Copynumber: 3.2 Consensus size: 21
88164688 CTTTTATATT
88164698 TTTTTAAAAATATAGATTTTGAAA
1 TTTTTAAAAAT-T--ATTTTGAAA
*
88164722 TTTTTATAAA-TATTTTGAAA
1 TTTTTAAAAATTATTTTGAAA
88164742 --TTTAAAAATTATTTT-AAA
1 TTTTTAAAAATTATTTTGAAA
88164760 TTTTT
1 TTTTT
88164765 TGTAATTCCT
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
18 10 0.26
19 6 0.16
20 12 0.32
22 1 0.03
24 9 0.24
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (21 bp):
TTTTTAAAAATTATTTTGAAA
Found at i:88164745 original size:18 final size:19
Alignment explanation
Indices: 88164713--88164762 Score: 59
Period size: 18 Copynumber: 2.6 Consensus size: 19
88164703 AAAAATATAG
*
88164713 ATTTTGAAATTTTTATAAA-T
1 ATTTTGAAA--TTTAAAAATT
88164733 ATTTTGAAATTTAAAAATT
1 ATTTTGAAATTTAAAAATT
88164752 ATTTT-AAATTT
1 ATTTTGAAATTT
88164763 TTTGTAATTC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
18 13 0.46
19 6 0.21
20 9 0.32
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (19 bp):
ATTTTGAAATTTAAAAATT
Found at i:88178067 original size:26 final size:26
Alignment explanation
Indices: 88178031--88178081 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
88178021 AACCTTAGAA
88178031 GATTGATAATGAGATTTTAGCTAAAC
1 GATTGATAATGAGATTTTAGCTAAAC
88178057 GATTGATAATGAGATTTTAGCTAAA
1 GATTGATAATGAGATTTTAGCTAAA
88178082 TGAGCTCAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.39, C:0.06, G:0.20, T:0.35
Consensus pattern (26 bp):
GATTGATAATGAGATTTTAGCTAAAC
Found at i:88185321 original size:18 final size:17
Alignment explanation
Indices: 88185295--88185330 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
88185285 TATGTGGCCT
88185295 ACCCATGTGGGCCCACAC
1 ACCCATGT-GGCCCACAC
*
88185313 ACCCGTGTGGCCCACAC
1 ACCCATGTGGCCCACAC
88185330 A
1 A
88185331 ACTTAAATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.22, C:0.44, G:0.22, T:0.11
Consensus pattern (17 bp):
ACCCATGTGGCCCACAC
Found at i:88186985 original size:29 final size:27
Alignment explanation
Indices: 88186932--88186986 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
88186922 ATTTATGTAC
*
88186932 AAGATAAACATTAAATTTAATTTAATT
1 AAGATAAACATTAAATTTAAATTAATT
* *
88186959 AAGATAATCATTTTAATATTAAATTAAT
1 AAGATAAACA-TTAAAT-TTAAATTAAT
88186987 AAAATACTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 9 0.39
28 5 0.22
29 9 0.39
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.42
Consensus pattern (27 bp):
AAGATAAACATTAAATTTAAATTAATT
Found at i:88188686 original size:40 final size:40
Alignment explanation
Indices: 88188602--88188826 Score: 260
Period size: 40 Copynumber: 5.7 Consensus size: 40
88188592 TTGAATGATG
* * * * *
88188602 TCCGGGCTATGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
88188642 TCCGGACTAAGAT-CTGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
88188682 TCCGGGCTAAG-CTCGAAGGCATTGGTGCTAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
88188721 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
88188761 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
88188802 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
88188827 AACGAGGAGC
Statistics
Matches: 158, Mismatches: 22, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
39 31 0.20
40 117 0.74
41 10 0.06
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:88188844 original size:80 final size:80
Alignment explanation
Indices: 88188657--88188859 Score: 209
Period size: 80 Copynumber: 2.6 Consensus size: 80
88188647 ACTAAGATCT
** * * * *
88188657 GAAGGCATTTGTGCGAGAT-ACTAATTCCGGGCTAAG-CTCGAAGGCATTGGTGCTAGTTACTAA
1 GAAGGCATTTGAACGAG-TGACTAAATCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTAA
*
88188720 ATCCGGGTTAAGTCCC
65 ATCCGGGCTAAGTCCC
** * *
88188736 GAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 GAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTA-A
*
88188801 A-CCGGGCTATGTCCC
65 ATCCGGGCTAAGTCCC
* * *
88188816 GAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATTCCGAAGG
1 GAAGGCATTTGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
88188860 TACGTGATTT
Statistics
Matches: 107, Mismatches: 13, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
78 1 0.01
79 47 0.44
80 57 0.53
81 2 0.02
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (80 bp):
GAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTAAA
TCCGGGCTAAGTCCC
Found at i:88192519 original size:43 final size:43
Alignment explanation
Indices: 88192467--88192574 Score: 121
Period size: 43 Copynumber: 2.5 Consensus size: 43
88192457 GGAAAAAGCC
* * *
88192467 GCTATAGAACATGACCTTCT-GCGGCT-TTTTTCCCACAAACACA
1 GCTAAAGAACATGACCTT-TAGCGG-TGCTTTTCCAACAAACACA
* *
88192510 GCTAAAGAACATGACCTTTAGCGGTGCTTTTCTAACAAACACC
1 GCTAAAGAACATGACCTTTAGCGGTGCTTTTCCAACAAACACA
* *
88192553 GCTAAAGAAAATGACTTTTAGC
1 GCTAAAGAACATGACCTTTAGC
88192575 TGCGTTTTTT
Statistics
Matches: 56, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
42 2 0.04
43 54 0.96
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.27
Consensus pattern (43 bp):
GCTAAAGAACATGACCTTTAGCGGTGCTTTTCCAACAAACACA
Found at i:88192596 original size:43 final size:42
Alignment explanation
Indices: 88192501--88192601 Score: 116
Period size: 43 Copynumber: 2.4 Consensus size: 42
88192491 CTTTTTTCCC
* *
88192501 ACAAACACAGCTAAAGAACATGACCTTTAGCGGTGCTTTTCTA
1 ACAAACACCGCTAAAGAAAATGACCTTTAGC-GTGCTTTTCTA
* *
88192544 ACAAACACCGCTAAAGAAAATGACTTTTAGC-TGCGTTTTTTA
1 ACAAACACCGCTAAAGAAAATGACCTTTAGCGTGC-TTTTCTA
88192586 TA-AAAGCACCGCTAAA
1 -ACAAA-CACCGCTAAA
88192602 AGTCTTGTTT
Statistics
Matches: 51, Mismatches: 4, Indels: 6
0.84 0.07 0.10
Matches are distributed among these distances:
41 3 0.06
42 9 0.18
43 39 0.76
ACGTcount: A:0.38, C:0.22, G:0.15, T:0.26
Consensus pattern (42 bp):
ACAAACACCGCTAAAGAAAATGACCTTTAGCGTGCTTTTCTA
Found at i:88197213 original size:41 final size:41
Alignment explanation
Indices: 88197092--88197205 Score: 140
Period size: 41 Copynumber: 2.8 Consensus size: 41
88197082 ATACATATTC
**
88197092 GCGGCGTTTGGACCAAAAAAGCCATTATTGCTCAACTTTTA
1 GCGGCGTTTGGACCAAAAAAGCTGTTATTGCTCAACTTTTA
* * *
88197133 GCGGCGTTTGGACCAAAAACG-TCGCTATTGCTCAACTTTTT
1 GCGGCGTTTGGACCAAAAAAGCT-GTTATTGCTCAACTTTTA
* * *
88197174 GCGGCATTTGGAACAAAAATGCTGTTATTGCT
1 GCGGCGTTTGGACCAAAAAAGCTGTTATTGCT
88197206 TACCTTTTGT
Statistics
Matches: 62, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
41 61 0.98
42 1 0.02
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (41 bp):
GCGGCGTTTGGACCAAAAAAGCTGTTATTGCTCAACTTTTA
Found at i:88197993 original size:7 final size:7
Alignment explanation
Indices: 88197968--88198127 Score: 56
Period size: 7 Copynumber: 22.7 Consensus size: 7
88197958 GCGTTTTTAT
88197968 CTAAACC
1 CTAAACC
88197975 TCTAAA-C
1 -CTAAACC
88197982 CTAAACC
1 CTAAACC
88197989 CTAAACC
1 CTAAACC
* **
88197996 TTAAAAT
1 CTAAACC
*
88198003 CTAAACA
1 CTAAACC
*
88198010 TTAAACC
1 CTAAACC
*
88198017 CCAAACTC
1 CTAAAC-C
*
88198025 C-AAATC
1 CTAAACC
* *
88198031 TTAAACT
1 CTAAACC
*
88198038 ATAAACC
1 CTAAACC
*
88198045 ATAAACC
1 CTAAACC
* *
88198052 ATAAAAC
1 CTAAACC
* *
88198059 ATAAAAC
1 CTAAACC
88198066 CTAAAACC
1 CT-AAACC
**
88198074 AC-AAATA
1 -CTAAACC
*
88198081 CTAAATC
1 CTAAACC
88198088 CTAAACC
1 CTAAACC
88198095 CTAAACC
1 CTAAACC
* *
88198102 TTAAATC
1 CTAAACC
* *
88198109 ATAGACC
1 CTAAACC
*
88198116 ATAAACC
1 CTAAACC
88198123 CTAAA
1 CTAAA
88198128 ATAAAATAAA
Statistics
Matches: 116, Mismatches: 30, Indels: 13
0.73 0.19 0.08
Matches are distributed among these distances:
6 7 0.06
7 97 0.84
8 11 0.09
9 1 0.01
ACGTcount: A:0.51, C:0.29, G:0.01, T:0.20
Consensus pattern (7 bp):
CTAAACC
Found at i:88198072 original size:22 final size:22
Alignment explanation
Indices: 88198047--88198092 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
88198037 TATAAACCAT
*
88198047 AAACCATAAA-ACATAAAACCTA
1 AAACCACAAATAC-TAAAACCTA
*
88198069 AAACCACAAATACTAAATCCTA
1 AAACCACAAATACTAAAACCTA
88198091 AA
1 AA
88198093 CCCTAAACCT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 19 0.90
23 2 0.10
ACGTcount: A:0.61, C:0.24, G:0.00, T:0.15
Consensus pattern (22 bp):
AAACCACAAATACTAAAACCTA
Found at i:88198106 original size:21 final size:21
Alignment explanation
Indices: 88197968--88198127 Score: 64
Period size: 21 Copynumber: 7.6 Consensus size: 21
88197958 GCGTTTTTAT
88197968 CTAAACCTCTAAA-CCTAAACC
1 CTAAACCT-TAAATCCTAAACC
*
88197989 CTAAACCTTAAAAT-CTAAACA
1 CTAAACCTT-AAATCCTAAACC
* ** *
88198010 TTAAACCCCAAACTCC-AAATC
1 CTAAACCTTAAA-TCCTAAACC
*
88198031 TTAAA-CTATAAA-CCATAAACC
1 CTAAACCT-TAAATCC-TAAACC
* * * *
88198052 ATAAAACATAAAACCTAAAACC
1 CTAAACCTTAAATCCT-AAACC
*
88198074 AC-AAATAC-TAAATCCTAAACC
1 -CTAAA-CCTTAAATCCTAAACC
* *
88198095 CTAAACCTTAAATCATAGACC
1 CTAAACCTTAAATCCTAAACC
* *
88198116 ATAAACCCTAAA
1 CTAAACCTTAAA
88198128 ATAAAATAAA
Statistics
Matches: 107, Mismatches: 18, Indels: 28
0.70 0.12 0.18
Matches are distributed among these distances:
19 2 0.02
20 7 0.07
21 77 0.72
22 19 0.18
23 2 0.02
ACGTcount: A:0.51, C:0.29, G:0.01, T:0.20
Consensus pattern (21 bp):
CTAAACCTTAAATCCTAAACC
Found at i:88198956 original size:41 final size:41
Alignment explanation
Indices: 88198909--88199064 Score: 170
Period size: 41 Copynumber: 3.8 Consensus size: 41
88198899 TTTTTTTCGG
88198909 CGCCGCTAATGCTTGACCTTTTGCGGTGTTTTTCTCATAAA
1 CGCCGCTAATGCTTGACCTTTTGCGGTGTTTTTCTCATAAA
* * * * * *
88198950 CACCGCTTATGCTAGACCTTTCGTGGTGTTTTTCTCATTAA
1 CGCCGCTAATGCTTGACCTTTTGCGGTGTTTTTCTCATAAA
* * * * *
88198991 TGCTGCTACTGCTTGACCTTTTGTGGTGCTTTTCTCATAAA
1 CGCCGCTAATGCTTGACCTTTTGCGGTGTTTTTCTCATAAA
* *
88199032 CGCCGCT-ATAGCTCTAACCTTTTGCGGCGTTTT
1 CGCCGCTAAT-GCT-TGACCTTTTGCGGTGTTTT
88199065 CTGATTAGCG
Statistics
Matches: 91, Mismatches: 22, Indels: 3
0.78 0.19 0.03
Matches are distributed among these distances:
40 1 0.01
41 75 0.82
42 15 0.16
ACGTcount: A:0.15, C:0.25, G:0.19, T:0.40
Consensus pattern (41 bp):
CGCCGCTAATGCTTGACCTTTTGCGGTGTTTTTCTCATAAA
Found at i:88199066 original size:82 final size:82
Alignment explanation
Indices: 88198913--88199064 Score: 200
Period size: 82 Copynumber: 1.8 Consensus size: 82
88198903 TTTCGGCGCC
* * *
88198913 GCTAATGCTTGACCTTTTGCGGTGTTTTTCTCATAAACACCGCTTATGCTAGACCTTTCGTGGTG
1 GCTAATGCTTGACCTTTTGCGGTGCTTTTCTCATAAACACCGCTTATGCTAGACCTTTCGCGGCG
88198978 TTTTTCTCATTAATGCT
66 TTTTTCTCATTAATGCT
* * * *
88198995 GCTACTGCTTGACCTTTTGTGGTGCTTTTCTCATAAACGCCGC-TATAGCTCTA-ACCTTTTGCG
1 GCTAATGCTTGACCTTTTGCGGTGCTTTTCTCATAAACACCGCTTAT-G--CTAGACCTTTCGCG
88199058 GCGTTTT
63 GCGTTTT
88199065 CTGATTAGCG
Statistics
Matches: 60, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
81 3 0.05
82 40 0.67
83 14 0.23
84 3 0.05
ACGTcount: A:0.16, C:0.24, G:0.19, T:0.41
Consensus pattern (82 bp):
GCTAATGCTTGACCTTTTGCGGTGCTTTTCTCATAAACACCGCTTATGCTAGACCTTTCGCGGCG
TTTTTCTCATTAATGCT
Found at i:88203223 original size:40 final size:40
Alignment explanation
Indices: 88203179--88203402 Score: 253
Period size: 40 Copynumber: 5.6 Consensus size: 40
88203169 GCTCCTCGTT
*
88203179 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
88203219 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCA
*
88203259 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCA
* * *
88203299 CCAATGCCTTCGGG-CTTAGCCCGG-AATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
* * * * * *
88203338 CAAATGCCTTC-GGATCTTAGTCTGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGTAAC-TCGCA
88203379 CAAA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
88203403 ACATCATTCA
Statistics
Matches: 160, Mismatches: 16, Indels: 16
0.83 0.08 0.08
Matches are distributed among these distances:
38 2 0.01
39 30 0.19
40 114 0.71
41 14 0.09
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:88203283 original size:80 final size:80
Alignment explanation
Indices: 88203179--88203403 Score: 287
Period size: 80 Copynumber: 2.8 Consensus size: 80
88203169 GCTCCTCGTT
* *
88203179 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
88203244 ATTTAGTAACTCGCA
66 AATTAGTAACTCGCA
* *
88203259 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
*
88203322 GAATTAGTATCTCGCA
65 GAATTAGTAACTCGCA
* * * * * *
88203338 CAAATGCCTTC-GGATCTTAGTCTGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCC
88203401 GGA
64 GGA
88203404 CATCATTCAA
Statistics
Matches: 126, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
78 4 0.03
79 54 0.43
80 66 0.52
81 2 0.02
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
AATTAGTAACTCGCA
Found at i:88203387 original size:119 final size:120
Alignment explanation
Indices: 88203181--88203403 Score: 292
Period size: 119 Copynumber: 1.9 Consensus size: 120
88203171 TCCTCGTTCA
*
88203181 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* *
88203246 TTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTAGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
* * ** *
88203301 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCTGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* * *
88203363 ATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
64 ATATAGTAAC-TAGCACAAATGCCTTCGGGACTTAACCCGGA
88203404 CATCATTCAA
Statistics
Matches: 89, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
118 4 0.04
119 65 0.73
120 20 0.22
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTAGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:88211243 original size:79 final size:80
Alignment explanation
Indices: 88211144--88211326 Score: 221
Period size: 79 Copynumber: 2.3 Consensus size: 80
88211134 CTCTCGTTCA
* *
88211144 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
88211207 ATTTAGTAAC-TCGCACC
64 ATATAGTAACTTAGCA-C
* **
88211224 AATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGGAT
1 AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGAT
* *
88211288 ATGGTCACTTAGCAC
66 ATAGTAACTTAGCAC
*
88211303 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
88211327 CATCATTCAA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 58 0.65
80 28 0.31
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGAT
ATAGTAACTTAGCAC
Found at i:88211326 original size:40 final size:40
Alignment explanation
Indices: 88211142--88211326 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
88211132 AGCTCTCGTT
* *
88211142 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
88211182 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
88211222 CCAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
88211261 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
88211302 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
88211327 CATCATTCAA
Statistics
Matches: 124, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
38 2 0.02
39 31 0.25
40 79 0.64
41 12 0.10
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:88240871 original size:19 final size:19
Alignment explanation
Indices: 88240825--88240879 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
88240815 ATAATACATA
88240825 ATTCAAAAATATATAAAATT
1 ATTCAAAAA-ATATAAAATT
* *
88240845 -TT-ATAAAATATCAAATT
1 ATTCAAAAAATATAAAATT
*
88240862 ATTCAAAAAATATTAAAT
1 ATTCAAAAAATATAAAAT
88240880 AAAAATTACT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
17 9 0.31
18 6 0.21
19 14 0.48
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.36
Consensus pattern (19 bp):
ATTCAAAAAATATAAAATT
Found at i:88241266 original size:24 final size:25
Alignment explanation
Indices: 88241214--88241267 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 25
88241204 TTCGTAGGTC
* * *
88241214 AAATAAATTATACTAATAAGTGCTT
1 AAATATATTATACTAATAAATGATT
88241239 -AATATATTATACTAATAAAT-ATT
1 AAATATATTATACTAATAAATGATT
88241262 AAATAT
1 AAATAT
88241268 TCTAGAAAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
23 2 0.08
24 23 0.92
ACGTcount: A:0.52, C:0.06, G:0.04, T:0.39
Consensus pattern (25 bp):
AAATATATTATACTAATAAATGATT
Found at i:88243768 original size:46 final size:46
Alignment explanation
Indices: 88243718--88243890 Score: 165
Period size: 46 Copynumber: 3.7 Consensus size: 46
88243708 TGGTTGAGCA
* *
88243718 TCCGAAATCTTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
88243764 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* * *
88243809 CATCTGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
88243857 CCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
88243891 GGGGCAGGTT
Statistics
Matches: 100, Mismatches: 18, Indels: 18
0.74 0.13 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 56 0.56
47 27 0.27
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:88249315 original size:27 final size:27
Alignment explanation
Indices: 88249277--88249455 Score: 182
Period size: 27 Copynumber: 6.6 Consensus size: 27
88249267 TAAATTGTAC
*
88249277 AGCACTAAGTGTGCGGTTTGACTATGT
1 AGCACTAAGTGTGCGGTTTGATTATGT
* *** *
88249304 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGGTTTGATTATGT
** *
88249330 ATGCACTAAGTGTGCGAATTGATTATGC
1 A-GCACTAAGTGTGCGGTTTGATTATGT
* *
88249358 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCG-GTTTGATTATGT
* *
88249386 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGGTTTGATTATGT
*
88249413 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCG-GTTTGATTATGT
*
88249440 AGCACTGAGTGTGCGG
1 AGCACTAAGTGTGCGG
88249456 GCTCAATATA
Statistics
Matches: 127, Mismatches: 21, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
26 1 0.01
27 104 0.82
28 22 0.17
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGGTTTGATTATGT
Found at i:88249338 original size:54 final size:55
Alignment explanation
Indices: 88249277--88249454 Score: 209
Period size: 54 Copynumber: 3.3 Consensus size: 55
88249267 TAAATTGTAC
* * * *
88249277 AGCACTAAGTGTGCGGTTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT
1 AGCACTAAGTGTGCGATTTGATTATGTAGCACTAAGTGTGCGAATTGAATATGAT
* ** * *
88249332 -GCACTAAGTGTGCGAATTGATTATGCGGCACTAAGTGTGCGAGTTTGACTATG-T
1 AGCACTAAGTGTGCGATTTGATTATGTAGCACTAAGTGTGCGA-ATTGAATATGAT
* * *
88249386 AGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTGTGCGAGTTGATTAT-AT
1 AGCACTAAGTGTGCGATTTGATTATGTAGCACTAAGTGTGCGAATTGAATATGAT
*
88249440 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
88249455 GGCTCAATAT
Statistics
Matches: 105, Mismatches: 15, Indels: 7
0.83 0.12 0.06
Matches are distributed among these distances:
54 60 0.57
55 45 0.43
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (55 bp):
AGCACTAAGTGTGCGATTTGATTATGTAGCACTAAGTGTGCGAATTGAATATGAT
Found at i:88249391 original size:82 final size:81
Alignment explanation
Indices: 88249278--88249455 Score: 241
Period size: 82 Copynumber: 2.2 Consensus size: 81
88249268 AAATTGTACA
* *
88249278 GCACTAAGTGTGCGGTTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGGTTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
88249342 TGCGAATTGATTATGCG
65 TGCGAATTGATTATGCG
** *
88249359 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCG-GTTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
* ***
88249424 TGCGAGTTGATTATATA
65 TGCGAATTGATTATGCG
*
88249441 GCACTGAGTGTGCGG
1 GCACTAAGTGTGCGG
88249456 GCTCAATATA
Statistics
Matches: 85, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
81 15 0.18
82 69 0.81
83 1 0.01
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (81 bp):
GCACTAAGTGTGCGGTTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGATTATGCG
Found at i:88256396 original size:36 final size:36
Alignment explanation
Indices: 88256349--88256422 Score: 139
Period size: 36 Copynumber: 2.1 Consensus size: 36
88256339 TTTTCTGGAA
*
88256349 AAGTTTTTTTTACATATATTAATAAATTTATATTTT
1 AAGTTGTTTTTACATATATTAATAAATTTATATTTT
88256385 AAGTTGTTTTTACATATATTAATAAATTTATATTTT
1 AAGTTGTTTTTACATATATTAATAAATTTATATTTT
88256421 AA
1 AA
88256423 AAGAGGTTAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.38, C:0.03, G:0.04, T:0.55
Consensus pattern (36 bp):
AAGTTGTTTTTACATATATTAATAAATTTATATTTT
Found at i:88260498 original size:55 final size:54
Alignment explanation
Indices: 88260439--88260544 Score: 149
Period size: 55 Copynumber: 1.9 Consensus size: 54
88260429 GGGAAGAGAT
* *
88260439 TTGAAGAACGGAAGAAGAAGAAGACTTACATGGATGAAGAAGGAGATGGAAATAG
1 TTGAAGAACGGAAGAAAAAAAAGACTTACATGGATGAAG-AGGAGATGGAAATAG
* ** *
88260494 TTGAAGAATGGAAGAAAAAAAAGTTTTACCTGGATGAAGAGGAGATGGAAA
1 TTGAAGAACGGAAGAAAAAAAAGACTTACATGGATGAAGAGGAGATGGAAA
88260545 ATGTCTTACA
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
54 12 0.27
55 33 0.73
ACGTcount: A:0.47, C:0.05, G:0.31, T:0.17
Consensus pattern (54 bp):
TTGAAGAACGGAAGAAAAAAAAGACTTACATGGATGAAGAGGAGATGGAAATAG
Found at i:88268299 original size:24 final size:24
Alignment explanation
Indices: 88268266--88268311 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
88268256 GGTCAAAGAA
* *
88268266 ATTATGTTAATAAATGCTAAATAT
1 ATTATATTAATAAATACTAAATAT
88268290 ATTATATTAATAAATACTAAAT
1 ATTATATTAATAAATACTAAAT
88268312 CTTTTAGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.41
Consensus pattern (24 bp):
ATTATATTAATAAATACTAAATAT
Found at i:88268977 original size:42 final size:41
Alignment explanation
Indices: 88268811--88268994 Score: 217
Period size: 41 Copynumber: 4.5 Consensus size: 41
88268801 AAGAACGCTG
* * * *
88268811 CAAAAGGTTAAGGCTATAGAGGCATTTTTTCATAAATGCCG
1 CAAAAGGTTAAGGCTATAGTGACATTTTTTCATAAACGCCA
* *
88268852 CAAAAGGTTAAGGCTATAGCGATGATTTTTT-ATAAACGCCA
1 CAAAAGGTTAAGGCTATAGTGA-CATTTTTTCATAAACGCCA
* * *
88268893 CAAAATGTTAGGGCTATAGTGACATTTTTTCATAAACACCA
1 CAAAAGGTTAAGGCTATAGTGACATTTTTTCATAAACGCCA
* * *
88268934 CAAAATGTTAAGGTTATAATGACATTTTTTTCATAAACGCCA
1 CAAAAGGTTAAGGCTATAGTGACA-TTTTTTCATAAACGCCA
* *
88268976 CAAAAGGTTAGGGTTATAG
1 CAAAAGGTTAAGGCTATAG
88268995 CGCATTTGGA
Statistics
Matches: 123, Mismatches: 17, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
40 7 0.06
41 77 0.63
42 39 0.32
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.31
Consensus pattern (41 bp):
CAAAAGGTTAAGGCTATAGTGACATTTTTTCATAAACGCCA
Found at i:88269533 original size:40 final size:40
Alignment explanation
Indices: 88269481--88269575 Score: 113
Period size: 40 Copynumber: 2.4 Consensus size: 40
88269471 TGAGTATTTG
88269481 AAAAA-CGCCGCTAAAAATCGAGCAT-TAGCAGCGTTTTTA
1 AAAAAGCGCCGCTAAAAATCGA-CATATAGCAGCGTTTTTA
* * * * *
88269520 AGAAAGCGCCGCTATAGATCGACCTATAGCGGCGTTTTTA
1 AAAAAGCGCCGCTAAAAATCGACATATAGCAGCGTTTTTA
*
88269560 AAAAAGGGCCGCTAAA
1 AAAAAGCGCCGCTAAA
88269576 GGATTAAAGA
Statistics
Matches: 46, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
39 6 0.13
40 40 0.87
ACGTcount: A:0.36, C:0.21, G:0.22, T:0.21
Consensus pattern (40 bp):
AAAAAGCGCCGCTAAAAATCGACATATAGCAGCGTTTTTA
Found at i:88270090 original size:21 final size:21
Alignment explanation
Indices: 88270066--88270107 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
88270056 ACAAATTATT
88270066 TATTGAAAAATAGATTGAAAA
1 TATTGAAAAATAGATTGAAAA
* **
88270087 TATTTATGAATAGATTGAAAA
1 TATTGAAAAATAGATTGAAAA
88270108 CGTTGTCGTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.52, C:0.00, G:0.14, T:0.33
Consensus pattern (21 bp):
TATTGAAAAATAGATTGAAAA
Found at i:88270457 original size:6 final size:6
Alignment explanation
Indices: 88270446--88270471 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
88270436 TTCCCTAACC
88270446 GCGTCT GCGTCT GCGTCT GCGTCT GC
1 GCGTCT GCGTCT GCGTCT GCGTCT GC
88270472 CTCTTCCCAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.35, G:0.35, T:0.31
Consensus pattern (6 bp):
GCGTCT
Found at i:88271938 original size:24 final size:24
Alignment explanation
Indices: 88271911--88271957 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
88271901 ATTATTATTG
*
88271911 AAATATTCTCGTCCGTTTTATCAC
1 AAATATTATCGTCCGTTTTATCAC
88271935 AAATATTATCGTCCGTTTTATCA
1 AAATATTATCGTCCGTTTTATCA
88271958 TTTAAGTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.28, C:0.21, G:0.09, T:0.43
Consensus pattern (24 bp):
AAATATTATCGTCCGTTTTATCAC
Found at i:88272194 original size:15 final size:14
Alignment explanation
Indices: 88272176--88272334 Score: 56
Period size: 14 Copynumber: 11.9 Consensus size: 14
88272166 TCTTATTTTA
88272176 ATTAATATAATTTGG
1 ATTAATATAATTT-G
88272191 ATTAACT-T-ATTT-
1 ATTAA-TATAATTTG
* *
88272203 A--AATATTATTTA
1 ATTAATATAATTTG
88272215 ATTAATATAATTTGG
1 ATTAATATAATTT-G
*
88272230 ATTAAT-TTATTT-
1 ATTAATATAATTTG
* *
88272242 A--AATATTATTTA
1 ATTAATATAATTTG
88272254 ATTAATATAATTTGG
1 ATTAATATAATTT-G
*
88272269 ATTAAT-TTATTT-
1 ATTAATATAATTTG
* **
88272281 A--AATATTATTAA
1 ATTAATATAATTTG
*
88272293 ATTAATATAATTTTT
1 ATTAATATAA-TTTG
* * *
88272308 ATAAATATTATTTA
1 ATTAATATAATTTG
*
88272322 ATTAAAATAATTT
1 ATTAATATAATTT
88272335 TTTTCCATGT
Statistics
Matches: 111, Mismatches: 16, Indels: 35
0.69 0.10 0.22
Matches are distributed among these distances:
9 1 0.01
10 9 0.08
11 15 0.14
12 6 0.05
14 51 0.46
15 28 0.25
16 1 0.01
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.52
Consensus pattern (14 bp):
ATTAATATAATTTG
Found at i:88272216 original size:39 final size:39
Alignment explanation
Indices: 88272172--88272305 Score: 250
Period size: 39 Copynumber: 3.4 Consensus size: 39
88272162 TCAATCTTAT
*
88272172 TTTAATTAATATAATTTGGATTAACTTATTTAAATATTA
1 TTTAATTAATATAATTTGGATTAATTTATTTAAATATTA
88272211 TTTAATTAATATAATTTGGATTAATTTATTTAAATATTA
1 TTTAATTAATATAATTTGGATTAATTTATTTAAATATTA
88272250 TTTAATTAATATAATTTGGATTAATTTATTTAAATATTA
1 TTTAATTAATATAATTTGGATTAATTTATTTAAATATTA
*
88272289 TTAAATTAATATAATTT
1 TTTAATTAATATAATTT
88272306 TTATAAATAT
Statistics
Matches: 93, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 93 1.00
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.53
Consensus pattern (39 bp):
TTTAATTAATATAATTTGGATTAATTTATTTAAATATTA
Found at i:88272237 original size:24 final size:24
Alignment explanation
Indices: 88272210--88272326 Score: 61
Period size: 24 Copynumber: 5.0 Consensus size: 24
88272200 TTTAAATATT
*
88272210 ATTTAATT-AATATAATTTGGATTA
1 ATTTAATTAAATATAATTT-AATTA
* *
88272234 ATTTATTTAAATATTATTTAATTA
1 ATTTAATTAAATATAATTTAATTA
* ** *
88272258 ATATAATTTGGAT-TAATTTATTTAA
1 ATTTAA-TTAAATATAATTTAATT-A
*
88272283 ATATT-ATTAAAT-TAATATAATT-
1 AT-TTAATTAAATATAATTTAATTA
*
88272305 -TTT-A-TAAATATTATTTAATTA
1 ATTTAATTAAATATAATTTAATTA
88272326 A
1 A
88272327 AATAATTTTT
Statistics
Matches: 70, Mismatches: 16, Indels: 16
0.69 0.16 0.16
Matches are distributed among these distances:
19 5 0.07
20 11 0.16
21 1 0.01
24 35 0.50
25 17 0.24
26 1 0.01
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (24 bp):
ATTTAATTAAATATAATTTAATTA
Found at i:88272313 original size:29 final size:28
Alignment explanation
Indices: 88272271--88272337 Score: 98
Period size: 29 Copynumber: 2.3 Consensus size: 28
88272261 TAATTTGGAT
*
88272271 TAATTTATTTAAATATTATTAAATTAATA
1 TAATTT-TTTAAATATTATTAAATTAAAA
*
88272300 TAATTTTTATAAATATTATTTAATTAAAA
1 TAATTTTT-TAAATATTATTAAATTAAAA
88272329 TAATTTTTT
1 TAATTTTTT
88272338 TCCATGTGAT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
28 3 0.09
29 32 0.91
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (28 bp):
TAATTTTTTAAATATTATTAAATTAAAA
Found at i:88272608 original size:9 final size:9
Alignment explanation
Indices: 88272594--88272810 Score: 232
Period size: 9 Copynumber: 24.7 Consensus size: 9
88272584 TATATACTTG
88272594 AACTTACAT
1 AACTTACAT
88272603 AACTTACAT
1 AACTTACAT
*
88272612 AACTTAGAT
1 AACTTACAT
*
88272621 AACTTATAT
1 AACTTACAT
88272630 AACTTACAT
1 AACTTACAT
*
88272639 AACTCACAT
1 AACTTACAT
88272648 AACTTACAT
1 AACTTACAT
*
88272657 AACTCACAT
1 AACTTACAT
88272666 AACTTACAT
1 AACTTACAT
*
88272675 AACTTATAT
1 AACTTACAT
*
88272684 AA---ATAT
1 AACTTACAT
88272690 AA-TTCACAT
1 AACTT-ACAT
*
88272699 AACTTATAT
1 AACTTACAT
*
88272708 AACTCACAT
1 AACTTACAT
88272717 AACTTACAT
1 AACTTACAT
88272726 AACTTACAT
1 AACTTACAT
*
88272735 AACTCACAT
1 AACTTACAT
*
88272744 AACTCACAT
1 AACTTACAT
*
88272753 AATTTACAT
1 AACTTACAT
88272762 AACTTACAT
1 AACTTACAT
88272771 AA--TACAT
1 AACTTACAT
* *
88272778 AA-ATATAT
1 AACTTACAT
* *
88272786 ATCATATCAT
1 AACTTA-CAT
88272796 AACTTACAT
1 AACTTACAT
88272805 AACTTA
1 AACTTA
88272811 ATTAGAGTTA
Statistics
Matches: 179, Mismatches: 22, Indels: 14
0.83 0.10 0.07
Matches are distributed among these distances:
6 6 0.03
7 7 0.04
8 5 0.03
9 153 0.85
10 8 0.04
ACGTcount: A:0.46, C:0.20, G:0.00, T:0.33
Consensus pattern (9 bp):
AACTTACAT
Found at i:88277880 original size:13 final size:14
Alignment explanation
Indices: 88277864--88277892 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
88277854 TTATAAATAT
88277864 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
88277877 TTATAATGGTTTAA
1 TTATAATGGTTTAA
88277891 TT
1 TT
88277893 CGTCATTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:88278767 original size:26 final size:26
Alignment explanation
Indices: 88278731--88278780 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
88278721 GTGCCACTAA
88278731 AAGTCATGGCTTTTAGCGGCGTTTTT
1 AAGTCATGGCTTTTAGCGGCGTTTTT
*
88278757 AAGTCATGGCTTTTAGTGGCGTTT
1 AAGTCATGGCTTTTAGCGGCGTTT
88278781 GTGAAAAACG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.16, C:0.14, G:0.28, T:0.42
Consensus pattern (26 bp):
AAGTCATGGCTTTTAGCGGCGTTTTT
Found at i:88284546 original size:20 final size:20
Alignment explanation
Indices: 88284523--88284562 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
88284513 TTTGATTCTT
88284523 TTTATAATTTT-TAATATCTA
1 TTTAT-ATTTTATAATATCTA
*
88284543 TTTATATTTTATAATTTCTA
1 TTTATATTTTATAATATCTA
88284563 ATTTCTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (20 bp):
TTTATATTTTATAATATCTA
Done.