Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 188 of 433
Found at i:59114337 original size:15 final size:15
Alignment explanation
Indices: 59114260--59114337 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
59114250 AGAAAACCGA
59114260 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* **
59114275 ATAGAGAAA-CCCGG
1 ATAAAGAAATCCAAG
59114289 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
59114304 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
59114320 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
59114335 ATA
1 ATA
59114338 CGATACTATG
Statistics
Matches: 50, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
14 3 0.06
15 44 0.88
16 3 0.06
ACGTcount: A:0.55, C:0.15, G:0.18, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:59117369 original size:93 final size:93
Alignment explanation
Indices: 59117257--59117429 Score: 301
Period size: 93 Copynumber: 1.9 Consensus size: 93
59117247 CGCCCATAAG
* *
59117257 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
59117322 ACGAGCTCGGATGCCTAGTTACATCTCA
66 ACGAGCTCGGATGCCTAGTTACATCTCA
* *
59117350 CGAACTCGGACTCAACTCAACGAGTTCGGATGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
59117415 ACGAGTTCGGATGCC
66 ACGAGCTCGGATGCC
59117430 CAAATGTCCC
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.31, G:0.22, T:0.20
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCA
Found at i:59117425 original size:46 final size:46
Alignment explanation
Indices: 59117250--59117428 Score: 220
Period size: 46 Copynumber: 3.9 Consensus size: 46
59117240 TGTAACCCGC
** *
59117250 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGATGCTCGCAT
* *
59117296 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGATG-CTCG---CAT
* *
59117346 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGATGCTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGATGCTCGCAT
* *
59117389 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGATGC
59117429 CCAAATGTCC
Statistics
Matches: 115, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 71 0.62
47 32 0.28
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGATGCTCGCAT
Found at i:59117444 original size:46 final size:44
Alignment explanation
Indices: 59117301--59117444 Score: 137
Period size: 46 Copynumber: 3.1 Consensus size: 44
59117291 CGCATCCATA
* * *
59117301 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---A-ATCCC
* * ** *
59117349 A-CGAACTCGGACTCAACTCAACGAGTTCGGATGCTCGCATCCATA
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATCC--C
59117394 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATGTCCC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAA--TCCC
59117440 AGTGA
1 AGTGA
59117445 CATGTCACTT
Statistics
Matches: 78, Mismatches: 13, Indels: 12
0.76 0.13 0.12
Matches are distributed among these distances:
43 3 0.04
45 1 0.01
46 39 0.50
47 31 0.40
48 4 0.05
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (44 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATCCC
Found at i:59118294 original size:27 final size:27
Alignment explanation
Indices: 59118257--59118362 Score: 185
Period size: 27 Copynumber: 3.9 Consensus size: 27
59118247 TATTACAATT
* *
59118257 AGATATATGTGGCAGAGCCACCAGATT
1 AGATATTTGTGGCAGAGCCACCAGATC
59118284 AGATATTTGTGGCAGAGCCACCAGATC
1 AGATATTTGTGGCAGAGCCACCAGATC
59118311 AGATATTTGTGGCAGAGCCACCAGATC
1 AGATATTTGTGGCAGAGCCACCAGATC
*
59118338 AGATATTTGTGGCATAGCCACCAGA
1 AGATATTTGTGGCAGAGCCACCAGA
59118363 ACGCTTCCTC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 76 1.00
ACGTcount: A:0.31, C:0.21, G:0.25, T:0.23
Consensus pattern (27 bp):
AGATATTTGTGGCAGAGCCACCAGATC
Found at i:59118540 original size:28 final size:28
Alignment explanation
Indices: 59118467--59118529 Score: 76
Period size: 28 Copynumber: 2.3 Consensus size: 28
59118457 AAATTAACCC
** *
59118467 TAGGGGTATAACGGTAA--TTTTACACC
1 TAGGGGTATAACAATAATTTTTTACACA
*
59118493 TAGGGGTATAACAATAATTTTTTATACA
1 TAGGGGTATAACAATAATTTTTTACACA
59118521 TAGGGGTAT
1 TAGGGGTAT
59118530 TATAGTAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 15 0.48
28 16 0.52
ACGTcount: A:0.33, C:0.10, G:0.22, T:0.35
Consensus pattern (28 bp):
TAGGGGTATAACAATAATTTTTTACACA
Found at i:59120015 original size:26 final size:25
Alignment explanation
Indices: 59119979--59120131 Score: 203
Period size: 26 Copynumber: 6.2 Consensus size: 25
59119969 CATGAAATTC
59119979 TTATCATGAAACATTTACCTAACCCA
1 TTATCATG-AACATTTACCTAACCCA
59120005 TTATCATGAAACATTTACCTAACCCA
1 TTATCATG-AACATTTACCTAACCCA
59120031 TTATC-----CA-TTACCTAA-CCA
1 TTATCATGAACATTTACCTAACCCA
59120049 TTATCATGAACATTTACCTAACCCA
1 TTATCATGAACATTTACCTAACCCA
*
59120074 TTATCATGGAACATTTACCTAACCTA
1 TTATCAT-GAACATTTACCTAACCCA
*
59120100 TTATCATGGAACATTTACCTAACCTA
1 TTATCAT-GAACATTTACCTAACCCA
59120126 TTATCA
1 TTATCA
59120132 ATTTGTATCA
Statistics
Matches: 118, Mismatches: 1, Indels: 16
0.87 0.01 0.12
Matches are distributed among these distances:
18 8 0.07
19 8 0.07
20 2 0.02
23 2 0.02
24 8 0.07
25 10 0.08
26 80 0.68
ACGTcount: A:0.36, C:0.26, G:0.05, T:0.33
Consensus pattern (25 bp):
TTATCATGAACATTTACCTAACCCA
Found at i:59124902 original size:40 final size:40
Alignment explanation
Indices: 59124800--59124949 Score: 169
Period size: 40 Copynumber: 3.8 Consensus size: 40
59124790 AAATTGAATG
* * * * *
59124800 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAG-TAGTT
* *
59124840 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
59124880 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* *
59124920 AAATCCGGGCTAAGACCCGAAGGCATTTGT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGT
59124950 CCAAATCGTG
Statistics
Matches: 94, Mismatches: 13, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
39 3 0.03
40 88 0.94
41 3 0.03
ACGTcount: A:0.29, C:0.22, G:0.25, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:59124966 original size:40 final size:38
Alignment explanation
Indices: 59124796--59124983 Score: 155
Period size: 40 Copynumber: 4.8 Consensus size: 38
59124786 TGAGAAATTG
* * *
59124796 AATG-ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGAA
1 AATGTATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCA
* * *
59124836 AAT-TATATCCGGGTTAAGACCCGAAGGCAATTGTGCT
1 AATGTATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
* *
59124873 AGTAGCTATATCCGGGCTAAGACCCGAAGGCATTCGTGCA
1 AAT-G-TATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
* * *
59124913 AGTTGTTAAATCCGGGCTAAGACCCGAAGGCATTTGTCCA
1 A-ATG-TATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
* * *
59124953 AATCGTGATATCCGGGTTAAGTCCCGTAGGC
1 AAT-GT-ATATCCGGGCTAAGACCCGAAGGC
59124984 CTTGGTGCGG
Statistics
Matches: 120, Mismatches: 21, Indels: 14
0.77 0.14 0.09
Matches are distributed among these distances:
37 4 0.03
38 2 0.02
39 4 0.03
40 109 0.91
41 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.26, T:0.23
Consensus pattern (38 bp):
AATGTATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
Found at i:59127456 original size:27 final size:27
Alignment explanation
Indices: 59127402--59127565 Score: 201
Period size: 26 Copynumber: 6.2 Consensus size: 27
59127392 AGCATGGCTG
* * * *
59127402 CCAGAACAGATA-ATGTGACAGAGTCA
1 CCAGATCAGATATTTGTGGCAGAGCCA
* * *
59127428 CCAGATACAGACAATTGTGGTAG-GCCA
1 CCAGAT-CAGATATTTGTGGCAGAGCCA
* *
59127455 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGATCAGATATTTGTGGCAGAGCCA
59127482 CCAGAT-AGATATTTGTGGCAGAGCCA
1 CCAGATCAGATATTTGTGGCAGAGCCA
59127508 CCAGATCA-ATATTTGTGGCAGAGCCA
1 CCAGATCAGATATTTGTGGCAGAGCCA
*
59127534 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGATCAGATATTTGTGGCAGAGCCA
59127561 CCAGA
1 CCAGA
59127566 ACGCTTCCTC
Statistics
Matches: 119, Mismatches: 14, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
26 68 0.57
27 45 0.38
28 6 0.05
ACGTcount: A:0.34, C:0.22, G:0.24, T:0.20
Consensus pattern (27 bp):
CCAGATCAGATATTTGTGGCAGAGCCA
Found at i:59127508 original size:53 final size:54
Alignment explanation
Indices: 59127402--59127567 Score: 223
Period size: 53 Copynumber: 3.1 Consensus size: 54
59127392 AGCATGGCTG
* * * * *
59127402 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGACAATTGTGGTAG-GCCA
1 CCAGAACAGATATATGTGGCAGAGCCACCAGAT-CAGATATTTGTGGCAGAGCCA
59127455 CCAGAACAGATATATGTGGCAGAGCCACCAGAT-AGATATTTGTGGCAGAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCAGAGCCA
* * *
59127508 CCAGATCA-ATATTTGTGGCAGAGCCACCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCAGAGCCA
59127561 CCAGAAC
1 CCAGAAC
59127568 GCTTCCTCCA
Statistics
Matches: 101, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
52 35 0.35
53 48 0.48
54 18 0.18
ACGTcount: A:0.34, C:0.22, G:0.24, T:0.19
Consensus pattern (54 bp):
CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCAGAGCCA
Found at i:59127544 original size:79 final size:80
Alignment explanation
Indices: 59127415--59127565 Score: 207
Period size: 79 Copynumber: 1.9 Consensus size: 80
59127405 GAACAGATAA
* *
59127415 TGTGACAGAGTCACCAGATACAGACAATTGTGGTAGGCCACCAGAACAGATATATGTGGCAGAGC
1 TGTGACAGAGCCACCAGATACAGACAATTGTGGCAGGCCACCAGAACAGATATATGTGGCAGAGC
59127480 CACCAGATAGATATT
66 CACCAGATAGATATT
* * * * * *
59127495 TGTGGCAGAGCCACCAGAT-CA-ATATTTGTGGCAGAGCCACCAGATCAGATATTTGTGGCATAG
1 TGTGACAGAGCCACCAGATACAGACAATTGTGGCAG-GCCACCAGAACAGATATATGTGGCAGAG
59127558 CCACCAGA
65 CCACCAGA
59127566 ACGCTTCCTC
Statistics
Matches: 62, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
78 10 0.16
79 35 0.56
80 17 0.27
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.21
Consensus pattern (80 bp):
TGTGACAGAGCCACCAGATACAGACAATTGTGGCAGGCCACCAGAACAGATATATGTGGCAGAGC
CACCAGATAGATATT
Found at i:59129205 original size:26 final size:26
Alignment explanation
Indices: 59129169--59129321 Score: 198
Period size: 26 Copynumber: 6.2 Consensus size: 26
59129159 CATGAAATTC
59129169 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
59129195 TTATCATGAAACATTTACCTAA-CCA
1 TTATCATGAAACATTTACCTAACCCA
*
59129220 -T-T-AT----CATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
59129239 TTATCATGAAACATTTACCTAA-CCA
1 TTATCATGAAACATTTACCTAACCCA
* *
59129264 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
59129290 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
59129316 TTATCA
1 TTATCA
59129322 ATTTGTATCA
Statistics
Matches: 114, Mismatches: 4, Indels: 18
0.84 0.03 0.13
Matches are distributed among these distances:
18 11 0.10
19 2 0.02
20 1 0.01
21 1 0.01
22 4 0.04
23 1 0.01
24 1 0.01
25 26 0.23
26 67 0.59
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:59129229 original size:18 final size:19
Alignment explanation
Indices: 59129206--59129245 Score: 73
Period size: 18 Copynumber: 2.2 Consensus size: 19
59129196 TATCATGAAA
59129206 CATTTACCTAACC-ATTAT
1 CATTTACCTAACCTATTAT
59129224 CATTTACCTAACCTATTAT
1 CATTTACCTAACCTATTAT
59129243 CAT
1 CAT
59129246 GAAACATTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 13 0.62
19 8 0.38
ACGTcount: A:0.33, C:0.28, G:0.00, T:0.40
Consensus pattern (19 bp):
CATTTACCTAACCTATTAT
Found at i:59129230 original size:44 final size:44
Alignment explanation
Indices: 59129180--59129321 Score: 194
Period size: 44 Copynumber: 3.0 Consensus size: 44
59129170 TATCATGAAA
*
59129180 CATTTACCTAACCCATTATCATGAAACATTTACCTAACCATTAT
1 CATTTACCTAACCTATTATCATGAAACATTTACCTAACCATTAT
59129224 CATTTACCTAACCTATTATCATGAAACATTTACCTAACCATTATCAT
1 CATTTACCTAACCTATTATCATGAAACATTTACCTAACCA-T-T-AT
*
59129271 GGAACATTTACCTAACCTATTATCATGGAACATTTACCTAACCTATTAT
1 ----CATTTACCTAACCTATTATCATGAAACATTTACCTAACC-ATTAT
59129320 CA
1 CA
59129322 ATTTGTATCA
Statistics
Matches: 88, Mismatches: 2, Indels: 15
0.84 0.02 0.14
Matches are distributed among these distances:
44 39 0.44
45 3 0.03
46 1 0.01
47 2 0.02
49 2 0.02
50 1 0.01
51 39 0.44
52 1 0.01
ACGTcount: A:0.36, C:0.25, G:0.04, T:0.35
Consensus pattern (44 bp):
CATTTACCTAACCTATTATCATGAAACATTTACCTAACCATTAT
Found at i:59129284 original size:51 final size:52
Alignment explanation
Indices: 59129224--59129321 Score: 180
Period size: 51 Copynumber: 1.9 Consensus size: 52
59129214 TAACCATTAT
59129224 CATTTACCTAACCTATTATCATGAAACATTTACCTAACC-ATTATCATGGAA
1 CATTTACCTAACCTATTATCATGAAACATTTACCTAACCTATTATCATGGAA
*
59129275 CATTTACCTAACCTATTATCATGGAACATTTACCTAACCTATTATCA
1 CATTTACCTAACCTATTATCATGAAACATTTACCTAACCTATTATCA
59129322 ATTTGTATCA
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
51 38 0.84
52 7 0.16
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.35
Consensus pattern (52 bp):
CATTTACCTAACCTATTATCATGAAACATTTACCTAACCTATTATCATGGAA
Found at i:59137347 original size:40 final size:40
Alignment explanation
Indices: 59137245--59137423 Score: 180
Period size: 40 Copynumber: 4.5 Consensus size: 40
59137235 AAATTGAATG
* * * ** *
59137245 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTAAAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
59137285 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
59137325 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* * * * * *
59137365 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATTGTG
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
59137405 ATATCCGGGTTAAGTCCCG
1 ATATCCGGGCTAAGACCCG
59137424 TAAGCCTTGG
Statistics
Matches: 118, Mismatches: 19, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
39 3 0.03
40 113 0.96
41 2 0.02
ACGTcount: A:0.29, C:0.22, G:0.25, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:59141447 original size:42 final size:42
Alignment explanation
Indices: 59141345--59141453 Score: 116
Period size: 42 Copynumber: 2.5 Consensus size: 42
59141335 GGCCTTTGAG
* * *
59141345 CCTAGCAGGCTATAATGCCGGTGAGATATTATTCAGGATTCGAG
1 CCTAGCAGGCT-GAATGCCGGTGAGATA-TATTCAGGATTCAAA
*
59141389 CCTAGCAGGC-GAAATGCCGGTGA-ATGA-ATTCAGGTTTTCAAA
1 CCTAGCAGGCTG-AATGCCGGTGAGAT-ATATTCAGG-ATTCAAA
59141431 CCTAGCAGGCTGAATGCCGGTGA
1 CCTAGCAGGCTGAATGCCGGTGA
59141454 TTTGATAAAA
Statistics
Matches: 57, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
41 7 0.12
42 27 0.47
43 13 0.23
44 10 0.18
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (42 bp):
CCTAGCAGGCTGAATGCCGGTGAGATATATTCAGGATTCAAA
Found at i:59146386 original size:16 final size:16
Alignment explanation
Indices: 59146367--59146402 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
59146357 GACAAAGGCT
59146367 GAAAAGCCAAAAAGCC
1 GAAAAGCCAAAAAGCC
**
59146383 GAAAAGGTAAAAAGCC
1 GAAAAGCCAAAAAGCC
59146399 GAAA
1 GAAA
59146403 TGTGGGTTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.58, C:0.17, G:0.22, T:0.03
Consensus pattern (16 bp):
GAAAAGCCAAAAAGCC
Found at i:59148135 original size:16 final size:15
Alignment explanation
Indices: 59148114--59148143 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
59148104 TGTAATAATC
59148114 ACTGGAATAATAACTG
1 ACTGGAATAA-AACTG
59148130 ACTGGAATAAAACT
1 ACTGGAATAAAACT
59148144 TTTAATACAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.47, C:0.13, G:0.17, T:0.23
Consensus pattern (15 bp):
ACTGGAATAAAACTG
Found at i:59152710 original size:48 final size:48
Alignment explanation
Indices: 59152653--59152873 Score: 309
Period size: 48 Copynumber: 4.6 Consensus size: 48
59152643 ATGAGATCCC
* * * * *
59152653 GTGTAAGACCATGTCTGGGACAT-GCATCAGCATCTGAGATGAGAGCCG
1 GTGTAAGACCATGTCTGGGACATGGCATCAGCGT-TGATATGTGTGCCA
* *
59152701 GTGTAAGACCATGTTTGGGACATGGCATCGGCGTTGATATGTGTGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCAGCGTTGATATGTGTGCCA
** *
59152749 GTGTAAGACCATGTCTGGGACATGGCATTGGTGTTGATATGTGTGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCAGCGTTGATATGTGTGCCA
* * *
59152797 GTATAAGACCATGTCTGGGACATGGAATCAGCGTTTATATGTGTGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCAGCGTTGATATGTGTGCCA
59152845 GTGTAAGACCATGTCTGGGACATGGCATC
1 GTGTAAGACCATGTCTGGGACATGGCATC
59152874 GGACCCTCGA
Statistics
Matches: 154, Mismatches: 18, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
48 146 0.95
49 8 0.05
ACGTcount: A:0.24, C:0.18, G:0.31, T:0.27
Consensus pattern (48 bp):
GTGTAAGACCATGTCTGGGACATGGCATCAGCGTTGATATGTGTGCCA
Found at i:59154667 original size:40 final size:40
Alignment explanation
Indices: 59154619--59154803 Score: 255
Period size: 40 Copynumber: 4.6 Consensus size: 40
59154609 CTTGCACAAG
*
59154619 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
59154659 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
59154699 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAAT
* * * *
59154739 GCCTTCGGATCTTAGTCCGGTTATAGTCACCTAGCACAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCA-CTAGCACAAAT
*
59154780 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
59154804 CATTCGAATA
Statistics
Matches: 125, Mismatches: 17, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
39 1 0.01
40 95 0.76
41 29 0.23
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:59162729 original size:40 final size:40
Alignment explanation
Indices: 59162681--59162865 Score: 246
Period size: 40 Copynumber: 4.6 Consensus size: 40
59162671 CTTGCACAAG
*
59162681 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
59162721 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
59162761 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAAT
* * * * *
59162801 GCCTTCGGATCTTAGTCCAGTTATAGTCACCTAGCACAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCA-CTAGCACAAAT
*
59162842 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
59162866 CATTCGAATA
Statistics
Matches: 123, Mismatches: 19, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
39 1 0.01
40 94 0.76
41 28 0.23
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:59163408 original size:29 final size:28
Alignment explanation
Indices: 59163374--59163476 Score: 107
Period size: 29 Copynumber: 3.6 Consensus size: 28
59163364 TACTCAATCA
*
59163374 CGCACACTTAGTGCCATATGATTCAAGCC
1 CGCACACTTAGTGCCATAT-ATTCAAGCT
* * *
59163403 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCATATA-TTCAAGCT
** *
59163432 CGCACACTTAGTGCTGTACATTACAAGCT
1 CGCACACTTAGTGCCATATATT-CAAGCT
*
59163461 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
59163477 ATCTCGTCAC
Statistics
Matches: 59, Mismatches: 13, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
28 2 0.03
29 57 0.97
ACGTcount: A:0.29, C:0.32, G:0.17, T:0.22
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATATTCAAGCT
Found at i:59170404 original size:29 final size:29
Alignment explanation
Indices: 59170343--59170407 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 29
59170333 TACTCAATCG
* * *
59170343 CGCACACTTAGTGCCATATGATTCAAGCC
1 CGCACACATAGTGCCATATGATCCAAACC
*
59170372 CGCACACATAGTGCCATAT-AGTCCAAACT
1 CGCACACATAGTGCCATATGA-TCCAAACC
59170401 CGCACAC
1 CGCACAC
59170408 TTACAAACGA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
28 1 0.03
29 30 0.97
ACGTcount: A:0.31, C:0.34, G:0.15, T:0.20
Consensus pattern (29 bp):
CGCACACATAGTGCCATATGATCCAAACC
Found at i:59173358 original size:29 final size:28
Alignment explanation
Indices: 59173324--59173426 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
59173314 TACTCAATCA
*
59173324 CGCACACTTAGTGCCATATGATTCAAGCC
1 CGCACACTTAGTGCCATAT-ATTCAAGCT
* * *
59173353 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCATATA-TTCAAGCT
* *
59173382 CGCACACTTAGTGCCGTACATTACAAGCT
1 CGCACACTTAGTGCCATATATT-CAAGCT
*
59173411 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
59173427 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
28 2 0.03
29 59 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATATTCAAGCT
Found at i:59180320 original size:29 final size:28
Alignment explanation
Indices: 59180286--59180388 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
59180276 TACTCAATCA
*
59180286 CGCACACTTAGTGCCATATGATTCAAGCC
1 CGCACACTTAGTGCCATAT-ATTCAAGCT
* * *
59180315 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCATATA-TTCAAGCT
* *
59180344 CGCACACTTAGTGCCGTACATTACAAGCT
1 CGCACACTTAGTGCCATATATT-CAAGCT
*
59180373 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
59180389 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
28 2 0.03
29 59 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATATTCAAGCT
Found at i:59185547 original size:23 final size:23
Alignment explanation
Indices: 59185521--59185574 Score: 108
Period size: 23 Copynumber: 2.3 Consensus size: 23
59185511 AACTTACAAC
59185521 ACATTTAAACATACTTTTCCCAT
1 ACATTTAAACATACTTTTCCCAT
59185544 ACATTTAAACATACTTTTCCCAT
1 ACATTTAAACATACTTTTCCCAT
59185567 ACATTTAA
1 ACATTTAA
59185575 TCAATACATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.37, C:0.24, G:0.00, T:0.39
Consensus pattern (23 bp):
ACATTTAAACATACTTTTCCCAT
Found at i:59193975 original size:24 final size:26
Alignment explanation
Indices: 59193933--59193980 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 26
59193923 TTATAACATG
* *
59193933 AAAATGACCGTTTTGA-CCCTAGGTA
1 AAAATGACCATTATGACCCCTAGGTA
59193958 AAAATGACCATTAT-ACCCCTAGG
1 AAAATGACCATTATGACCCCTAGG
59193981 GTTTATATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 1 0.05
25 19 0.95
ACGTcount: A:0.35, C:0.23, G:0.17, T:0.25
Consensus pattern (26 bp):
AAAATGACCATTATGACCCCTAGGTA
Found at i:59194083 original size:20 final size:20
Alignment explanation
Indices: 59194017--59194083 Score: 98
Period size: 20 Copynumber: 3.4 Consensus size: 20
59194007 ATTTTGATAA
* *
59194017 ACATGGTATGTATGATACGC
1 ACATGATATGTATGATATGC
*
59194037 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
*
59194057 ACATGATATGTATAATATGC
1 ACATGATATGTATGATATGC
59194077 ACATGAT
1 ACATGAT
59194084 GTATTCATAA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.36, C:0.13, G:0.19, T:0.31
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:59194159 original size:24 final size:24
Alignment explanation
Indices: 59194132--59194257 Score: 216
Period size: 24 Copynumber: 5.2 Consensus size: 24
59194122 GGAGGAAGTG
59194132 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
59194156 CAAAAGGGCTTATGCCCCAATTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
* *
59194180 TAAAAGGGCTTATGCTCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
59194204 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
59194228 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
59194252 TAAAAG
1 CAAAAG
59194258 TTATTAAAAG
Statistics
Matches: 95, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 95 1.00
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.26
Consensus pattern (24 bp):
CAAAAGGGCTTATGCCCCAGTTAT
Found at i:59194267 original size:34 final size:34
Alignment explanation
Indices: 59194222--59194291 Score: 131
Period size: 34 Copynumber: 2.1 Consensus size: 34
59194212 CTTATGCCCC
59194222 AGTTATCAAAAGGGCTTATGCCCCAGTTATTAAA
1 AGTTATCAAAAGGGCTTATGCCCCAGTTATTAAA
*
59194256 AGTTATTAAAAGGGCTTATGCCCCAGTTATTAAA
1 AGTTATCAAAAGGGCTTATGCCCCAGTTATTAAA
59194290 AG
1 AG
59194292 GGCTTTTGCC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.36, C:0.16, G:0.19, T:0.30
Consensus pattern (34 bp):
AGTTATCAAAAGGGCTTATGCCCCAGTTATTAAA
Found at i:59194291 original size:58 final size:58
Alignment explanation
Indices: 59194198--59194315 Score: 200
Period size: 58 Copynumber: 2.0 Consensus size: 58
59194188 CTTATGCTCC
59194198 AGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATTAAA
1 AGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATTAAA
* * * *
59194256 AGTTATTAAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTTTGCCCTAGTTATTAAA
1 AGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATTAAA
59194314 AG
1 AG
59194316 GGGCTAAGCC
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
58 56 1.00
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.31
Consensus pattern (58 bp):
AGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATTAAA
Found at i:59194315 original size:82 final size:83
Alignment explanation
Indices: 59194176--59194334 Score: 241
Period size: 82 Copynumber: 1.9 Consensus size: 83
59194166 TATGCCCCAA
*
59194176 TTATTAAAAGGGCTTATGCTCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAA-GGGCTTA
1 TTATTAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGGGGC-TA
*
59194240 TGCC-CCAGTTATTAAAAG
65 AGCCTCCAGTTATTAAAAG
* * * *
59194258 TTATTAAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTTTGCCCTAGTTATTAAAAGGGGCTAA
1 TTATTAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGGGGCTAA
59194323 GCCTCCAGTTAT
66 GCCTCCAGTTAT
59194335 ATGATAAAGC
Statistics
Matches: 69, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
82 57 0.83
83 12 0.17
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.31
Consensus pattern (83 bp):
TTATTAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGGGGCTAA
GCCTCCAGTTATTAAAAG
Found at i:59194332 original size:25 final size:24
Alignment explanation
Indices: 59194256--59194334 Score: 106
Period size: 24 Copynumber: 3.2 Consensus size: 24
59194246 AGTTATTAAA
59194256 AGTTATTAAAAGGGCTTATGCCCC
1 AGTTATTAAAAGGGCTTATGCCCC
* *
59194280 AGTTATTAAAAGGGCTTTTGCCCT
1 AGTTATTAAAAGGGCTTATGCCCC
*
59194304 AGTTATTAAAAGGGGC-TAAGCCTCC
1 AGTTATTAAAA-GGGCTTATGCC-CC
59194329 AGTTAT
1 AGTTAT
59194335 ATGATAAAGC
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
24 37 0.77
25 11 0.23
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.32
Consensus pattern (24 bp):
AGTTATTAAAAGGGCTTATGCCCC
Found at i:59203995 original size:37 final size:39
Alignment explanation
Indices: 59203886--59204014 Score: 133
Period size: 37 Copynumber: 3.3 Consensus size: 39
59203876 GCTACTCGTT
* * *
59203886 CAAATGCCTTCGGTACATAGCCCGG-TTATAGCAACTCGCA
1 CAAATGCCTTCGGGAC-TAACCCGGATT-TAGTAACTCGCA
59203926 CAAATGCCTTCGGGACTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTAACCCGGATTTAGTAACTCGCA
* *
59203965 C-CATGCCTTC-GG-CTTAGCCCGGGA-TTAGTAACTCGCA
1 CAAATGCCTTCGGGAC-TAACCC-GGATTTAGTAACTCGCA
*
59204002 CAAAGGCCTTCGG
1 CAAATGCCTTCGG
59204015 ATCTTAGTCT
Statistics
Matches: 77, Mismatches: 7, Indels: 11
0.81 0.07 0.12
Matches are distributed among these distances:
36 1 0.01
37 21 0.27
38 18 0.23
39 20 0.26
40 17 0.22
ACGTcount: A:0.25, C:0.30, G:0.22, T:0.22
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTAACCCGGATTTAGTAACTCGCA
Found at i:59209239 original size:30 final size:31
Alignment explanation
Indices: 59209132--59209245 Score: 205
Period size: 31 Copynumber: 3.7 Consensus size: 31
59209122 TTAGTCTTGA
59209132 CATAT-ACTGGGCCGAAGCCTTTCCATAAAT
1 CATATCACTGGGCCGAAGCCTTTCCATAAAT
*
59209162 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTCCATAAAT
59209193 CATATCACTGGGCCGAAGCCTTTCCATAAAT
1 CATATCACTGGGCCGAAGCCTTTCCATAAAT
59209224 CATATCACT-GGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
59209246 TCTGTAAACG
Statistics
Matches: 81, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
30 18 0.22
31 63 0.78
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTCCATAAAT
Found at i:59209535 original size:25 final size:26
Alignment explanation
Indices: 59209466--59209535 Score: 108
Period size: 25 Copynumber: 2.8 Consensus size: 26
59209456 CTTATTTAAT
59209466 AACTGGGGCAAAGCCC-TTTCTGATA
1 AACTGGGGCAAAGCCCTTTTCTGATA
*
59209491 AACTGGGGCAAAGCCCTTTTC-GGTA
1 AACTGGGGCAAAGCCCTTTTCTGATA
*
59209516 AACTGGGGCAGAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
59209536 AGCACTTCCT
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
25 38 0.90
26 4 0.10
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.24
Consensus pattern (26 bp):
AACTGGGGCAAAGCCCTTTTCTGATA
Found at i:59210363 original size:27 final size:28
Alignment explanation
Indices: 59210332--59210400 Score: 83
Period size: 27 Copynumber: 2.6 Consensus size: 28
59210322 TACGGAACAT
*
59210332 AAGGGCATATT-C-GTCATTTTACCATAC
1 AAGGGC-TATTACGGTCACTTTACCATAC
*
59210359 AAGGG-TATTACGGTCACTTTACCCTAC
1 AAGGGCTATTACGGTCACTTTACCATAC
59210386 AAGGGCT-TTACGGTC
1 AAGGGCTATTACGGTC
59210401 TTTTTACCTA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
25 4 0.11
26 1 0.03
27 31 0.84
28 1 0.03
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.30
Consensus pattern (28 bp):
AAGGGCTATTACGGTCACTTTACCATAC
Found at i:59210406 original size:27 final size:27
Alignment explanation
Indices: 59210344--59210408 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
59210334 GGGCATATTC
59210344 GTCATTTTACCATACAAGGGTATTACG
1 GTCATTTTACCATACAAGGGTATTACG
* *
59210371 GTCACTTTACCCTACAAGGGCT-TTACG
1 GTCATTTTACCATACAAGGG-TATTACG
*
59210398 GTCTTTTTACC
1 GTCATTTTACC
59210409 TATTAGGGGT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 32 0.97
28 1 0.03
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (27 bp):
GTCATTTTACCATACAAGGGTATTACG
Found at i:59210516 original size:27 final size:27
Alignment explanation
Indices: 59210484--59210658 Score: 228
Period size: 27 Copynumber: 6.5 Consensus size: 27
59210474 AGAAAGTTAA
* **
59210484 GGGTATTTTTGTAATTTTGTAAA-TCAG
1 GGGTATTTTGGTAATTTTACAAACT-AG
*
59210511 GGGTATTTTGGTAATTTTACAAA-TTG
1 GGGTATTTTGGTAATTTTACAAACTAG
* * *
59210537 AGGGTATTTCGGTAATTTCACAAACCAG
1 -GGGTATTTTGGTAATTTTACAAACTAG
* *
59210565 TGGTATTTCGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
59210592 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
*
59210619 GGGTATTTTGGTAATTTTATAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
59210646 GGGTATTTTGGTA
1 GGGTATTTTGGTA
59210659 GTTCTATCCT
Statistics
Matches: 132, Mismatches: 14, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
26 1 0.01
27 130 0.98
28 1 0.01
ACGTcount: A:0.28, C:0.07, G:0.23, T:0.42
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACTAG
Found at i:59210673 original size:27 final size:28
Alignment explanation
Indices: 59210484--59210689 Score: 205
Period size: 27 Copynumber: 7.6 Consensus size: 28
59210474 AGAAAGTTAA
* *
59210484 GGGTATTTTTGTAATTTTGT-AAA-TCAG
1 GGGTATTTTGGTAATTTTATCAAACT-AG
*
59210511 GGGTATTTTGGTAATTTTA-CAAA-TTG
1 GGGTATTTTGGTAATTTTATCAAACTAG
* * *
59210537 AGGGTATTTCGGTAATTTCA-CAAACCAG
1 -GGGTATTTTGGTAATTTTATCAAACTAG
* *
59210565 TGGTATTTCGGTAATTTTA-CAAACTAG
1 GGGTATTTTGGTAATTTTATCAAACTAG
59210592 GGGTATTTTGGTAATTTTA-CAAACTAG
1 GGGTATTTTGGTAATTTTATCAAACTAG
59210619 GGGTATTTTGGTAATTTTAT-AAACTAG
1 GGGTATTTTGGTAATTTTATCAAACTAG
* * **
59210646 GGGTATTTTGGTAGTTCTATCCTA-TAG
1 GGGTATTTTGGTAATTTTATCAAACTAG
**
59210673 GGGTATTTCAGTAATTT
1 GGGTATTTTGGTAATTT
59210690 CACAATTGAG
Statistics
Matches: 154, Mismatches: 20, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
26 1 0.01
27 151 0.98
28 2 0.01
ACGTcount: A:0.27, C:0.08, G:0.22, T:0.42
Consensus pattern (28 bp):
GGGTATTTTGGTAATTTTATCAAACTAG
Found at i:59210730 original size:27 final size:27
Alignment explanation
Indices: 59210698--59210876 Score: 207
Period size: 27 Copynumber: 6.6 Consensus size: 27
59210688 TTCACAATTG
* *
59210698 AGGGTAAAACGATAATTTTGTAAA-CTA
1 AGGGTAAAATGGTAATTTTGTAAATC-A
*
59210725 AGGGTAAAATGGTAATTTTGTAAATCG
1 AGGGTAAAATGGTAATTTTGTAAATCA
* *
59210752 AGGGTAAAATGGTAATTCTGTAAATCG
1 AGGGTAAAATGGTAATTTTGTAAATCA
* * *
59210779 AGGGTAAAATGGTAATTCTATAAATCG
1 AGGGTAAAATGGTAATTTTGTAAATCA
* *
59210806 AGGGTAAAATGGTAACTTTGTAAATCG
1 AGGGTAAAATGGTAATTTTGTAAATCA
* * * * *
59210833 AGGGTGAAACGGTAATTCTATAAATCG
1 AGGGTAAAATGGTAATTTTGTAAATCA
59210860 AGGGTAAAATGGTAATT
1 AGGGTAAAATGGTAATT
59210877 CTACAAGTTG
Statistics
Matches: 136, Mismatches: 15, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
27 135 0.99
28 1 0.01
ACGTcount: A:0.39, C:0.07, G:0.25, T:0.30
Consensus pattern (27 bp):
AGGGTAAAATGGTAATTTTGTAAATCA
Found at i:59210768 original size:54 final size:54
Alignment explanation
Indices: 59210697--59210876 Score: 263
Period size: 54 Copynumber: 3.3 Consensus size: 54
59210687 TTTCACAATT
* * * * *
59210697 GAGGGTAAAACGATAATTTTGTAAA-CTAAGGGTAAAATGGTAATTTTGTAAATC
1 GAGGGTAAAATGGTAATTTTGTAAATC-GAGGGTAAAATGGTAATTCTATAAATC
*
59210751 GAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTATAAATC
1 GAGGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTATAAATC
* * *
59210805 GAGGGTAAAATGGTAACTTTGTAAATCGAGGGTGAAACGGTAATTCTATAAATC
1 GAGGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTATAAATC
59210859 GAGGGTAAAATGGTAATT
1 GAGGGTAAAATGGTAATT
59210877 CTACAAGTTG
Statistics
Matches: 114, Mismatches: 11, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
54 113 0.99
55 1 0.01
ACGTcount: A:0.39, C:0.07, G:0.25, T:0.29
Consensus pattern (54 bp):
GAGGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTATAAATC
Found at i:59210810 original size:81 final size:81
Alignment explanation
Indices: 59210725--59210879 Score: 274
Period size: 81 Copynumber: 1.9 Consensus size: 81
59210715 TTGTAAACTA
* * *
59210725 AGGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAATG
1 AGGGTAAAATGGTAACTTTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATG
59210790 GTAATTCTATAAATCG
66 GTAATTCTATAAATCG
*
59210806 AGGGTAAAATGGTAACTTTGTAAATCGAGGGTGAAACGGTAATTCTATAAATCGAGGGTAAAATG
1 AGGGTAAAATGGTAACTTTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATG
59210871 GTAATTCTA
66 GTAATTCTA
59210880 CAAGTTGAGG
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
81 70 1.00
ACGTcount: A:0.38, C:0.07, G:0.25, T:0.30
Consensus pattern (81 bp):
AGGGTAAAATGGTAACTTTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATG
GTAATTCTATAAATCG
Found at i:59210890 original size:27 final size:27
Alignment explanation
Indices: 59210725--59210879 Score: 240
Period size: 27 Copynumber: 5.7 Consensus size: 27
59210715 TTGTAAACTA
* *
59210725 AGGGTAAAATGGTAATTTTGTAAATCG
1 AGGGTAAAATGGTAATTCTATAAATCG
*
59210752 AGGGTAAAATGGTAATTCTGTAAATCG
1 AGGGTAAAATGGTAATTCTATAAATCG
59210779 AGGGTAAAATGGTAATTCTATAAATCG
1 AGGGTAAAATGGTAATTCTATAAATCG
*
59210806 AGGGTAAAATGGTAACTT-TGTAAATCG
1 AGGGTAAAATGGTAA-TTCTATAAATCG
* *
59210833 AGGGTGAAACGGTAATTCTATAAATCG
1 AGGGTAAAATGGTAATTCTATAAATCG
59210860 AGGGTAAAATGGTAATTCTA
1 AGGGTAAAATGGTAATTCTA
59210880 CAAGTTGAGG
Statistics
Matches: 118, Mismatches: 8, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
26 2 0.02
27 114 0.97
28 2 0.02
ACGTcount: A:0.38, C:0.07, G:0.25, T:0.30
Consensus pattern (27 bp):
AGGGTAAAATGGTAATTCTATAAATCG
Found at i:59215603 original size:39 final size:39
Alignment explanation
Indices: 59215485--59215667 Score: 240
Period size: 39 Copynumber: 4.6 Consensus size: 39
59215475 TCGTTCAAAC
* * ** * **
59215485 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAG
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
* * * *
59215525 GCCTTCGGGACTTAACCCGGATATCACAATTTGCACAATT
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
*
59215565 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCCCAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
59215604 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
59215643 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
59215668 CTCGAACATT
Statistics
Matches: 126, Mismatches: 17, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
39 88 0.70
40 38 0.30
ACGTcount: A:0.23, C:0.31, G:0.22, T:0.24
Consensus pattern (39 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
Found at i:59223034 original size:39 final size:39
Alignment explanation
Indices: 59222916--59223098 Score: 240
Period size: 39 Copynumber: 4.6 Consensus size: 39
59222906 TCGTTCAAAC
* * ** * **
59222916 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAG
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
* * * *
59222956 GCCTTCGGGACTTAACCCGGATATCACAATTTGCACAATT
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
*
59222996 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCCCAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
59223035 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
59223074 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
59223099 CTCGAACATT
Statistics
Matches: 126, Mismatches: 17, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
39 88 0.70
40 38 0.30
ACGTcount: A:0.23, C:0.31, G:0.22, T:0.24
Consensus pattern (39 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
Found at i:59225004 original size:46 final size:46
Alignment explanation
Indices: 59224941--59225091 Score: 125
Period size: 46 Copynumber: 3.3 Consensus size: 46
59224931 GCGAACTCAA
59224941 ACTCAACTCAA-TGAGCTCGGGCGTTCGCATCCACAAGTGAACTCGG
1 ACTCAACTCAACT-AGCTCGGGCGTTCGCATCCACAAGTGAACTCGG
* *
59224987 ACTCAACTCAACTAGCTCGGATGCCTAGTT-ACAT-CTC---TCGAACTCGG
1 ACTCAACTCAACTAGCTCGG--G-C--GTTCGCATCCACAAGT-GAACTCGG
* * * * * *
59225034 ACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTTGG
1 ACTCAACTCAACTAGCTCGGGCGTTCGCATCCACAAGTGAACTCGG
59225080 ACTCAACTCAAC
1 ACTCAACTCAAC
59225092 GAGTTCGGAT
Statistics
Matches: 83, Mismatches: 10, Indels: 24
0.71 0.09 0.21
Matches are distributed among these distances:
42 2 0.02
43 3 0.04
44 2 0.02
46 38 0.46
47 28 0.34
48 1 0.01
49 3 0.04
50 3 0.04
51 3 0.04
ACGTcount: A:0.28, C:0.30, G:0.19, T:0.23
Consensus pattern (46 bp):
ACTCAACTCAACTAGCTCGGGCGTTCGCATCCACAAGTGAACTCGG
Found at i:59225061 original size:93 final size:93
Alignment explanation
Indices: 59224932--59225104 Score: 256
Period size: 93 Copynumber: 1.9 Consensus size: 93
59224922 CGCCCATAAG
* * *
59224932 CGAACTCAAACTCAACTCAATGAGCTCGGGCGTTCGCATCCACAAGTGAACTCGGACTCAACTCA
1 CGAACTCAAACTCAACTCAACGAGCTCGGACATTCGCATCCACAAGTGAACTCGGACTCAACTCA
*
59224997 ACTAGCTCGGATGCCTAGTTACATCTCT
66 ACGAGCTCGGATGCCTAGTTACATCTCT
** * * *
59225025 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTTGGACTCAACTCA
1 CGAACTCAAACTCAACTCAACGAGCTCGGACATTCGCATCCACAAGTGAACTCGGACTCAACTCA
*
59225090 ACGAGTTCGGATGCC
66 ACGAGCTCGGATGCC
59225105 CAAATATCCT
Statistics
Matches: 70, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.22
Consensus pattern (93 bp):
CGAACTCAAACTCAACTCAACGAGCTCGGACATTCGCATCCACAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCT
Found at i:59228173 original size:66 final size:68
Alignment explanation
Indices: 59228097--59228283 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
59228087 TAGTACCACT
*
59228097 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
59228159 CACG
65 CACG
59228163 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
59228228 ATCACG
63 ATCACG
59228234 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
59228284 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:59228208 original size:71 final size:71
Alignment explanation
Indices: 59228120--59228283 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
59228110 CGATTTGTCT
59228120 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
59228185 CTTTCA
66 CTTTCA
59228191 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
59228256 CTTTCA
66 CTTTCA
59228262 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
59228284 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:59228321 original size:71 final size:70
Alignment explanation
Indices: 59228120--59228317 Score: 276
Period size: 71 Copynumber: 2.8 Consensus size: 70
59228110 CGATTTGTCT
* * *
59228120 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
59228185 CTTTCA
65 CTTTCA
* * *
59228191 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
59228256 CTTTCA
65 CTTTCA
* *
59228262 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
59228318 TACAGGGTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 1 0.01
71 96 0.79
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTATC
TTTCA
Found at i:59230269 original size:30 final size:31
Alignment explanation
Indices: 59230210--59230269 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
59230200 CGCTTGCTGG
* * *
59230210 AGAATAAAGAGAATCCAAGATAGAGAAACCC
1 AGAATAAAGAGAATACAAGACAAAGAAACCC
*
59230241 AGAATAAAGAG-ATACAGGACAAAGAAACC
1 AGAATAAAGAGAATACAAGACAAAGAAACC
59230270 TAAGTTATGA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 14 0.56
31 11 0.44
ACGTcount: A:0.57, C:0.15, G:0.20, T:0.08
Consensus pattern (31 bp):
AGAATAAAGAGAATACAAGACAAAGAAACCC
Found at i:59233353 original size:93 final size:93
Alignment explanation
Indices: 59233243--59233415 Score: 267
Period size: 93 Copynumber: 1.9 Consensus size: 93
59233233 CGCCCATAAG
* * * *
59233243 CGAACTCGGACTCAACTCAACGAGCTC-GAGCGTTTGGATCCGCAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTCGGA-CATTCGCATCCACAAGTGAACTCGGACTCAACTC
59233307 AACGAGCTCGGATGCCTAGTTACATCTCT
65 AACGAGCTCGGATGCCTAGTTACATCTCT
* *
59233336 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCACAAGTGAACTCGGACTCAACTCA
*
59233401 ACGAGTTCGGATGCC
66 ACGAGCTCGGATGCC
59233416 CAAATATCCT
Statistics
Matches: 72, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
93 70 0.97
94 2 0.03
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCACAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCT
Found at i:59233404 original size:46 final size:46
Alignment explanation
Indices: 59233236--59233411 Score: 162
Period size: 46 Copynumber: 3.8 Consensus size: 46
59233226 TGTAACCCGC
* * * *
59233236 CCATAAGCGAACTCGGACTCAACTCAACGAGCTC-GAGCGTTTGGAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA-CATTCGCAT
** *
59233282 CCGCAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
59233328 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
59233375 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
59233412 TGCCCAAATA
Statistics
Matches: 103, Mismatches: 19, Indels: 16
0.75 0.14 0.12
Matches are distributed among these distances:
44 2 0.02
46 63 0.61
47 33 0.32
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:59233430 original size:46 final size:44
Alignment explanation
Indices: 59233287--59233430 Score: 116
Period size: 46 Copynumber: 3.1 Consensus size: 44
59233277 TGGATCCGCA
* *
59233287 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---A-ATC-CT
* * *
59233336 --CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGC--ATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCCCAAATCC-T
59233379 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AA-ATCCT
59233426 AGTGA
1 AGTGA
59233431 CATGTCACTT
Statistics
Matches: 77, Mismatches: 8, Indels: 23
0.71 0.07 0.21
Matches are distributed among these distances:
42 1 0.01
43 4 0.05
44 4 0.05
46 33 0.43
47 28 0.36
48 4 0.05
49 3 0.04
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (44 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATCCT
Found at i:59234951 original size:31 final size:30
Alignment explanation
Indices: 59234866--59234951 Score: 109
Period size: 31 Copynumber: 2.8 Consensus size: 30
59234856 TTAGTCTTGA
* * *
59234866 CATATACTTGGCCGAAGCCTTTCCATAAAT
1 CATATACTGGGCCGAAGCATTTTCATAAAT
* *
59234896 CATATTACTGGGCCGAATCGTTTTCATAAAT
1 CATA-TACTGGGCCGAAGCATTTTCATAAAT
59234927 CATATCACTGGGCCGAAGCATTTTC
1 CATAT-ACTGGGCCGAAGCATTTTC
59234952 TGTAGATGGT
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
30 5 0.10
31 43 0.90
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.31
Consensus pattern (30 bp):
CATATACTGGGCCGAAGCATTTTCATAAAT
Found at i:59235132 original size:25 final size:25
Alignment explanation
Indices: 59235103--59235172 Score: 97
Period size: 25 Copynumber: 2.8 Consensus size: 25
59235093 CTCATTTAAT
*
59235103 AACTGGGGCAAAGCCC-TTTCTGATA
1 AACTGGGGCAAAGCCCTTTTCAG-TA
*
59235128 AACTGGGGCACAGCCCTTTTCAGTA
1 AACTGGGGCAAAGCCCTTTTCAGTA
*
59235153 AACTGGGGCAGAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
59235173 AGCACTTCCT
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
25 36 0.88
26 5 0.12
ACGTcount: A:0.24, C:0.26, G:0.26, T:0.24
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCAGTA
Found at i:59236010 original size:27 final size:27
Alignment explanation
Indices: 59235980--59236044 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
59235970 GGGCATATTT
59235980 GTCATTTTACCATACAAGGG-TATTACG
1 GTCATTTTACCATACAAGGGCT-TTACG
* * *
59236007 GTCAATTTACCCTACAGGGGCTTTACG
1 GTCATTTTACCATACAAGGGCTTTACG
*
59236034 GTCTTTTTACC
1 GTCATTTTACC
59236045 TATTAGGGGT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.23, C:0.23, G:0.18, T:0.35
Consensus pattern (27 bp):
GTCATTTTACCATACAAGGGCTTTACG
Found at i:59236118 original size:27 final size:27
Alignment explanation
Indices: 59236088--59236140 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
59236078 GGGTGTTTTG
59236088 GTAAATCTACAAACCAAGGGTATTTCA
1 GTAAATCTACAAACCAAGGGTATTTCA
* ** *
59236115 GTAAATTTGTAAACCAATGGTATTTC
1 GTAAATCTACAAACCAAGGGTATTTC
59236141 TATAATTTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.32
Consensus pattern (27 bp):
GTAAATCTACAAACCAAGGGTATTTCA
Found at i:59236378 original size:27 final size:27
Alignment explanation
Indices: 59236186--59236371 Score: 266
Period size: 27 Copynumber: 6.9 Consensus size: 27
59236176 TTTGTAAATC
59236186 AGGGGTATTTTGGTAATTTTACAAA-T
1 AGGGGTATTTTGGTAATTTTACAAACT
* * * * *
59236212 TGAGAGTATTTCGGTAATTTCACAAACC
1 AG-GGGTATTTTGGTAATTTTACAAACT
* *
59236240 AGTGGTATTTCGGTAATTTTACAAACT
1 AGGGGTATTTTGGTAATTTTACAAACT
59236267 AGGGGTATTTTGGTAATTTTACAAACT
1 AGGGGTATTTTGGTAATTTTACAAACT
59236294 AGGGGTATTTTGGTAATTTTACAAACT
1 AGGGGTATTTTGGTAATTTTACAAACT
59236321 AGGGGTATTTTGGTAATTTTACAAACT
1 AGGGGTATTTTGGTAATTTTACAAACT
** *
59236348 AGGGGTATTTCAGTAATTTCACAA
1 AGGGGTATTTTGGTAATTTTACAA
59236372 TCGAGGGTAA
Statistics
Matches: 143, Mismatches: 15, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
26 1 0.01
27 141 0.99
28 1 0.01
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.39
Consensus pattern (27 bp):
AGGGGTATTTTGGTAATTTTACAAACT
Found at i:59236400 original size:27 final size:27
Alignment explanation
Indices: 59236370--59236515 Score: 213
Period size: 27 Copynumber: 5.4 Consensus size: 27
59236360 GTAATTTCAC
*
59236370 AATCGAGGGTAAAATGGTAATTCTGTA
1 AATCGAGGGTAAAATGGTAATTCTATA
59236397 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTATA
* * *
59236424 AATTGAGGGTAAAACT-GTAATTTTGTA
1 AATCGAGGGTAAAA-TGGTAATTCTATA
* *
59236451 AATCGAGGGTGAAACGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTATA
*
59236478 AATCGAGGGTAAAATGGTAATTCTACA
1 AATCGAGGGTAAAATGGTAATTCTATA
59236505 AATCGAGGGTA
1 AATCGAGGGTA
59236516 TTTCAGTAAT
Statistics
Matches: 105, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
27 104 0.99
28 1 0.01
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.29
Consensus pattern (27 bp):
AATCGAGGGTAAAATGGTAATTCTATA
Found at i:59236524 original size:27 final size:27
Alignment explanation
Indices: 59236133--59236527 Score: 191
Period size: 27 Copynumber: 14.6 Consensus size: 27
59236123 GTAAACCAAT
** * *
59236133 GGTATTTCTATAATTTTTAGAAAGTCAAG
1 GGTATTTCGGTAA-TTTTACAAA-TCGAG
** **
59236162 GGTATTTCTATAATTTTGTAAATC-AGG
1 GGTATTTCGGTAATTTTACAAATCGA-G
* *
59236189 GGTATTTTGGTAATTTTACAAATTGAG
1 GGTATTTCGGTAATTTTACAAATCGAG
* * *
59236216 AGTATTTCGGTAATTTCACAAA-CCAG
1 GGTATTTCGGTAATTTTACAAATCGAG
*
59236242 TGGTATTTCGGTAATTTTACAAA-CTAGG
1 -GGTATTTCGGTAATTTTACAAATCGA-G
* *
59236270 GGTATTTTGGTAATTTTACAAA-CTAGG
1 GGTATTTCGGTAATTTTACAAATCGA-G
* *
59236297 GGTATTTTGGTAATTTTACAAA-CTAGG
1 GGTATTTCGGTAATTTTACAAATCGA-G
* *
59236324 GGTATTTTGGTAATTTTACAAA-CTAGG
1 GGTATTTCGGTAATTTTACAAATCGA-G
* *
59236351 GGTATTTCAGTAATTTCAC-AATCGAG
1 GGTATTTCGGTAATTTTACAAATCGAG
** * **
59236377 GGTAAAAT-GGTAATTCTGTAAATCGAG
1 GGT-ATTTCGGTAATTTTACAAATCGAG
** * * *
59236404 GGTAAAAT-GGTAATTCTATAAATTGAG
1 GGT-ATTTCGGTAATTTTACAAATCGAG
*** * **
59236431 GGTAAAACTGTAATTTTGTAAATCGAG
1 GGTATTTCGGTAATTTTACAAATCGAG
** * *
59236458 GGTGA-AACGGTAATTCTATAAATCGAG
1 GGT-ATTTCGGTAATTTTACAAATCGAG
** *
59236485 GGTAAAAT-GGTAATTCTACAAATCGAG
1 GGT-ATTTCGGTAATTTTACAAATCGAG
*
59236512 GGTATTTCAGTAATTT
1 GGTATTTCGGTAATTT
59236528 GGTAAACTAA
Statistics
Matches: 310, Mismatches: 45, Indels: 24
0.82 0.12 0.06
Matches are distributed among these distances:
26 20 0.06
27 266 0.86
28 11 0.04
29 13 0.04
ACGTcount: A:0.33, C:0.09, G:0.21, T:0.37
Consensus pattern (27 bp):
GGTATTTCGGTAATTTTACAAATCGAG
Found at i:59236525 original size:81 final size:81
Alignment explanation
Indices: 59236331--59236533 Score: 250
Period size: 81 Copynumber: 2.5 Consensus size: 81
59236321 AGGGGTATTT
* * * *
59236331 TGGTAATTTTACAAA-CTAGGGGTATTTCAGTAA-TTT-CACAATCGAGGGTAAAATGGTAATTC
1 TGGTAATTCTACAAATCGA-GGGTATTTCAGTAATTTTGTA-AATCGAGGGTAAAACGGTAATTC
*
59236393 TGTAAATCGAGGGTAAAA
64 TATAAATCGAGGGTAAAA
* * *** * *
59236411 TGGTAATTCTATAAATTGAGGGTAAAACTGTAATTTTGTAAATCGAGGGTGAAACGGTAATTCTA
1 TGGTAATTCTACAAATCGAGGGTATTTCAGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTA
59236476 TAAATCGAGGGTAAAA
66 TAAATCGAGGGTAAAA
*
59236492 TGGTAATTCTACAAATCGAGGGTATTTCAGTAATTTGGTAAA
1 TGGTAATTCTACAAATCGAGGGTATTTCAGTAATTTTGTAAA
59236534 CTAAAGTATT
Statistics
Matches: 101, Mismatches: 19, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
80 23 0.23
81 77 0.76
82 1 0.01
ACGTcount: A:0.36, C:0.09, G:0.23, T:0.32
Consensus pattern (81 bp):
TGGTAATTCTACAAATCGAGGGTATTTCAGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTA
TAAATCGAGGGTAAAA
Found at i:59241637 original size:23 final size:23
Alignment explanation
Indices: 59241603--59241730 Score: 82
Period size: 23 Copynumber: 5.6 Consensus size: 23
59241593 TGAGCTGATG
59241603 AACAGTAAGCTCTATCAAGCTGA
1 AACAGTAAGCTCTATCAAGCTGA
* ** **
59241626 AACGGTAAGCTCTATTGATTTGA
1 AACAGTAAGCTCTATCAAGCTGA
* *
59241649 AACAGTAAGCTCTATCGAGC-GG
1 AACAGTAAGCTCTATCAAGCTGA
* *
59241671 ATCAGTAAGCTCATAT-GAGCT-A
1 AACAGTAAGCTC-TATCAAGCTGA
** **
59241693 CAATGGTAAGCTCTATTGAGCTGA
1 -AACAGTAAGCTCTATCAAGCTGA
*
59241717 ACACAATAAGCTCT
1 A-ACAGTAAGCTCT
59241731 TTCGAGTTGA
Statistics
Matches: 81, Mismatches: 18, Indels: 11
0.74 0.16 0.10
Matches are distributed among these distances:
22 19 0.23
23 52 0.64
24 10 0.12
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (23 bp):
AACAGTAAGCTCTATCAAGCTGA
Found at i:59243117 original size:19 final size:21
Alignment explanation
Indices: 59243079--59243119 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
59243069 TGTTTTCATA
*
59243079 TAGCTTCTTCAGATTCCCATG
1 TAGCTTCCTCAGATTCCCATG
59243100 TAGCTTCCTCA-A-TCCCATG
1 TAGCTTCCTCAGATTCCCATG
59243119 T
1 T
59243120 TTATGGCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 8 0.42
20 1 0.05
21 10 0.53
ACGTcount: A:0.20, C:0.32, G:0.12, T:0.37
Consensus pattern (21 bp):
TAGCTTCCTCAGATTCCCATG
Found at i:59246713 original size:50 final size:49
Alignment explanation
Indices: 59246659--59246799 Score: 176
Period size: 49 Copynumber: 2.9 Consensus size: 49
59246649 AAAACTGTGA
* ** *
59246659 TCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTATTAGA-TGGTGAGG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACT-AT-AGG
*
59246709 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTATTGG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTATAGG
* * * *
59246758 TCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA
59246800 TAGCTTCGGC
Statistics
Matches: 81, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
49 40 0.49
50 40 0.49
51 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (49 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTATAGG
Found at i:59246779 original size:49 final size:49
Alignment explanation
Indices: 59246607--59246801 Score: 187
Period size: 50 Copynumber: 3.9 Consensus size: 49
59246597 TCTATTGTGA
* * * * *
59246607 GGTCGCATGTGTAGTACTAAGTGTAGG-TACTATGCGTACCCGAAAACTGT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAG-ATA-TGT
* * * * ** * *
59246657 GATCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTATTAGATGGTGA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGAT-ATGT
* *
59246707 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTAT-T
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGA-TATGT
* *
59246756 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATA
59246802 GCTTCGGCTA
Statistics
Matches: 121, Mismatches: 21, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
48 2 0.02
49 40 0.33
50 68 0.56
51 11 0.09
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.29
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATATGT
Found at i:59251882 original size:39 final size:39
Alignment explanation
Indices: 59251801--59251963 Score: 254
Period size: 39 Copynumber: 4.2 Consensus size: 39
59251791 TATGGTAACC
** *
59251801 CGCACAAACGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
59251841 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
59251880 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
59251919 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
59251958 CGCACA
1 CGCACA
59251964 TTCATTCACA
Statistics
Matches: 115, Mismatches: 8, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 99 0.86
40 16 0.14
ACGTcount: A:0.25, C:0.33, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:59256624 original size:20 final size:20
Alignment explanation
Indices: 59256601--59256659 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
59256591 TAAACATGGT
59256601 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
* *
59256621 ATGTATGCTATGCACATGAT
1 ATGTATGATATGCACATGAC
59256641 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
59256660 GGTATTCATA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.34, C:0.14, G:0.20, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:59256741 original size:23 final size:23
Alignment explanation
Indices: 59256711--59256852 Score: 257
Period size: 23 Copynumber: 6.1 Consensus size: 23
59256701 AGGAAGTGCA
59256711 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
59256734 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
59256757 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
59256780 AAAGGGCTTATACCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
59256803 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
59256826 AAAAGGGCTTTTGCCCCAGTTATT
1 -AAAGGGCTTATGCCCCAGTTATT
59256850 AAA
1 AAA
59256853 AGAGGCTAGG
Statistics
Matches: 115, Mismatches: 3, Indels: 2
0.96 0.03 0.02
Matches are distributed among these distances:
23 93 0.81
24 22 0.19
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.30
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:59257102 original size:31 final size:31
Alignment explanation
Indices: 59257067--59257126 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
59257057 TGTTTACAGT
59257067 AAAGGCTTCGGCCCAATAATATGAAATATAA
1 AAAGGCTTCGGCCCAATAATATGAAATATAA
**
59257098 AAAGGCTTCGGCCCAATGTTATGAAATAT
1 AAAGGCTTCGGCCCAATAATATGAAATAT
59257127 GGAATATTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.40, C:0.17, G:0.18, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAATAATATGAAATATAA
Found at i:59258435 original size:28 final size:28
Alignment explanation
Indices: 59258403--59258487 Score: 85
Period size: 28 Copynumber: 3.2 Consensus size: 28
59258393 AAACTATGAT
59258403 CACGTGTGTAGTACTAAGTGCAGGCTAC
1 CACGTGTGTAGTACTAAGTGCAGGCTAC
* *
59258431 CACGTGTATTAG-A-T-GGTG-AGG-T--
1 CACGTGT-GTAGTACTAAGTGCAGGCTAC
59258453 CACGTGTGTAGTACTAAGTGCAGGCTAC
1 CACGTGTGTAGTACTAAGTGCAGGCTAC
*
59258481 TACGTGT
1 CACGTGT
59258488 ACCGGACTGT
Statistics
Matches: 44, Mismatches: 5, Indels: 16
0.68 0.08 0.25
Matches are distributed among these distances:
21 3 0.07
22 8 0.18
23 1 0.02
24 4 0.09
25 6 0.14
26 4 0.09
27 1 0.02
28 14 0.32
29 3 0.07
ACGTcount: A:0.24, C:0.18, G:0.31, T:0.28
Consensus pattern (28 bp):
CACGTGTGTAGTACTAAGTGCAGGCTAC
Found at i:59258526 original size:49 final size:50
Alignment explanation
Indices: 59258402--59258543 Score: 180
Period size: 50 Copynumber: 2.9 Consensus size: 50
59258392 AAAACTATGA
* **
59258402 TCACGTGTGTAGTACTAAGTGCAGGCTACCACGTGTATTAGATGGTGAGG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTGAGG
* *
59258452 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGACT-GT-TGG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA-TGGTGAGG
* * * *
59258501 TCACATGTGTAGTACTAAGTACAGGCTACTATGCGTACCAGAT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT
59258544 AGCTTCGGCT
Statistics
Matches: 81, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
48 1 0.01
49 39 0.48
50 40 0.49
51 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (50 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTGAGG
Found at i:59258553 original size:26 final size:26
Alignment explanation
Indices: 59258524--59258583 Score: 120
Period size: 26 Copynumber: 2.3 Consensus size: 26
59258514 ACTAAGTACA
59258524 GGCTACTATGCGTACCAGATAGCTTC
1 GGCTACTATGCGTACCAGATAGCTTC
59258550 GGCTACTATGCGTACCAGATAGCTTC
1 GGCTACTATGCGTACCAGATAGCTTC
59258576 GGCTACTA
1 GGCTACTA
59258584 GTGTGGAAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (26 bp):
GGCTACTATGCGTACCAGATAGCTTC
Found at i:59271703 original size:46 final size:48
Alignment explanation
Indices: 59271518--59271835 Score: 223
Period size: 46 Copynumber: 6.7 Consensus size: 48
59271508 TCATTTGTGT
* * ** *
59271518 GAGCTAGTGTAAGA-CATGTCTGGGAGAT-GCATCGACCACGTTAT-CA
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCG-CCTCGAGATGTA
* * * * ** * *
59271564 AAGCCAATGTAAGACCATGTCTGGGACATGGCACCGGTATGGAGACG-A
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATC-GCCTCGAGATGTA
* * *
59271612 GTGCTAGTGTAAGA-CATGTCTGGGACAT-GCATTAGCCTCGGGATGTA
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCA-TCGCCTCGAGATGTA
* * *
59271659 -AGCAAGTATAAGA-CATGTCTGGGACAT-GCATCGGCTACGAGATGT-
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGCCT-CGAGATGTA
* * * *
59271704 --GTTAGTGTAAGACCATGTCTAGGACATGGCATCGGCACG-GTTATGTGA
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGCCTCGAG--ATGT-A
59271752 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCGAAGATG-A
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATC-GCCTCG-AGATGTA
* * *
59271801 TAGCCAGTGTAAGACCATGTTTGGGACATGGCATC
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATC
59271836 TGCACTTTAC
Statistics
Matches: 213, Mismatches: 41, Indels: 33
0.74 0.14 0.11
Matches are distributed among these distances:
44 10 0.05
45 19 0.09
46 66 0.31
47 28 0.13
48 17 0.08
49 34 0.16
50 31 0.15
51 7 0.03
53 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (48 bp):
GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGCCTCGAGATGTA
Found at i:59273180 original size:37 final size:37
Alignment explanation
Indices: 59273121--59273229 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
59273111 AGCTCAGACG
* *
59273121 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
59273158 AAATCTCCACACGTAGTCATCGGGTCTTACTCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
59273195 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
59273230 ATATATTTCC
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:59273431 original size:48 final size:48
Alignment explanation
Indices: 59273376--59273511 Score: 227
Period size: 48 Copynumber: 2.8 Consensus size: 48
59273366 GCACATCGCC
59273376 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACAGATCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACAGATCTCA
*
59273424 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACAGATCTCA
* *
59273472 TACATATTTCACATTAGCCATTCGGCCTTATCACACATAT
1 TACATATTTCACACTAGCCATTCGGCTTTA-C-CACATAT
59273512 GCATGTTCAC
Statistics
Matches: 83, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
48 75 0.90
49 1 0.01
50 7 0.08
ACGTcount: A:0.31, C:0.29, G:0.07, T:0.33
Consensus pattern (48 bp):
TACATATTTCACACTAGCCATTCGGCTTTACCACATATACAGATCTCA
Found at i:59273759 original size:94 final size:94
Alignment explanation
Indices: 59273480--59273784 Score: 549
Period size: 94 Copynumber: 3.3 Consensus size: 94
59273470 CATACATATT
* * *
59273480 TCACATTAGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATTACATTGGCCATTCGGC
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATATTCACATTCATCACATTGGCCATTCGGC
59273545 CTTAACACATATATGCATGTTCACATTCA
66 CTTAACACATATATGCATGTTCACATTCA
*
59273574 TCACTTTGGCCATTCGGCCTTATC-CACATATGCATATTCACATTCATCACATTGGCCATTCGGC
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATATTCACATTCATCACATTGGCCATTCGGC
59273638 CTTAACACATATATGCATGTTCACATTCA
66 CTTAACACATATATGCATGTTCACATTCA
59273667 TCACATTGGCCATTCGGCCTTATCACACATATGCATATTCACATTCATCACATTGGCCATTCGGC
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATATTCACATTCATCACATTGGCCATTCGGC
59273732 CTTAACACATATATGCATGTTCACATTCA
66 CTTAACACATATATGCATGTTCACATTCA
* *
59273761 TCACATTGGTCGTTCGGCCTTATC
1 TCACATTGGCCATTCGGCCTTATC
59273785 TCATATATAC
Statistics
Matches: 203, Mismatches: 7, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
93 90 0.44
94 113 0.56
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.33
Consensus pattern (94 bp):
TCACATTGGCCATTCGGCCTTATCACACATATGCATATTCACATTCATCACATTGGCCATTCGGC
CTTAACACATATATGCATGTTCACATTCA
Found at i:59273790 original size:47 final size:47
Alignment explanation
Indices: 59273480--59273792 Score: 493
Period size: 47 Copynumber: 6.7 Consensus size: 47
59273470 CATACATATT
* *
59273480 TCACATTAGCCATTCGGCCTTATCACACATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* *
59273527 TTACATTGGCCATTCGGCCTTAACACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * *
59273574 TCACTTTGGCCATTCGGCCTTATC-CACATATGCATATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
*
59273620 TCACATTGGCCATTCGGCCTTAACACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* *
59273667 TCACATTGGCCATTCGGCCTTATCACACATATGCATATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
*
59273714 TCACATTGGCCATTCGGCCTTAACACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * *
59273761 TCACATTGGTCGTTCGGCCTTATCTCATATAT
1 TCACATTGGCCATTCGGCCTTATCACATATAT
59273793 ACACATAAAA
Statistics
Matches: 242, Mismatches: 23, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
46 42 0.17
47 200 0.83
ACGTcount: A:0.26, C:0.28, G:0.12, T:0.34
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:59275676 original size:93 final size:93
Alignment explanation
Indices: 59275564--59275734 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
59275554 GCCCATAAGT
* *
59275564 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
59275629 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
59275657 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
59275722 CGAGTTCGGATGC
66 CGAGTTCGGATGC
59275735 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:59275750 original size:46 final size:46
Alignment explanation
Indices: 59275556--59275736 Score: 233
Period size: 46 Copynumber: 3.9 Consensus size: 46
59275546 TGTAACCCGC
* * *
59275556 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
59275602 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
59275652 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
*
59275695 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTC
59275737 AACCATCCTA
Statistics
Matches: 116, Mismatches: 12, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 72 0.62
47 32 0.28
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:59278154 original size:30 final size:30
Alignment explanation
Indices: 59278110--59278198 Score: 94
Period size: 30 Copynumber: 3.0 Consensus size: 30
59278100 CAAAGATAAC
*
59278110 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAACCCGGAATAAAGAAATCCAAGATA
*
59278139 GAGAAACCCGGAATAAAGAAATCC-AGAATA
1 AAGAAACCCGGAATAAAGAAATCCAAG-ATA
* * *
59278169 AAGAGATCCAGG-ATAAAGAAACCCAAGATA
1 AAGA-AACCCGGAATAAAGAAATCCAAGATA
59278199 CGATACTATG
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
29 9 0.18
30 34 0.68
31 7 0.14
ACGTcount: A:0.56, C:0.16, G:0.18, T:0.10
Consensus pattern (30 bp):
AAGAAACCCGGAATAAAGAAATCCAAGATA
Found at i:59278158 original size:15 final size:14
Alignment explanation
Indices: 59278110--59278192 Score: 58
Period size: 15 Copynumber: 5.6 Consensus size: 14
59278100 CAAAGATAAC
*
59278110 AAGAAAACCGAATA
1 AAGAAACCCGAATA
* *
59278124 AAGAAATCCAAGATA
1 AAGAAACCCGA-ATA
*
59278139 GAGAAACCCGGAATA
1 AAGAAACCC-GAATA
*
59278154 AAGAAATCCAGAATA
1 AAGAAA-CCCGAATA
* * *
59278169 AAGAGATCCAGGATA
1 AAGA-AACCCGAATA
59278184 AAGAAACCC
1 AAGAAACCC
59278193 AAGATACGAT
Statistics
Matches: 54, Mismatches: 11, Indels: 8
0.74 0.15 0.11
Matches are distributed among these distances:
14 12 0.22
15 38 0.70
16 4 0.07
ACGTcount: A:0.55, C:0.17, G:0.18, T:0.10
Consensus pattern (14 bp):
AAGAAACCCGAATA
Found at i:59278198 original size:15 final size:15
Alignment explanation
Indices: 59278121--59278198 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
59278111 AGAAAACCGA
59278121 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* **
59278136 ATAGAGAAA-CCCGG
1 ATAAAGAAATCCAAG
59278150 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
59278165 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
59278181 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
59278196 ATA
1 ATA
59278199 CGATACTATG
Statistics
Matches: 50, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
14 3 0.06
15 44 0.88
16 3 0.06
ACGTcount: A:0.55, C:0.15, G:0.18, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:59281256 original size:46 final size:47
Alignment explanation
Indices: 59281134--59281268 Score: 179
Period size: 46 Copynumber: 2.9 Consensus size: 47
59281124 TGTAACCCGC
*
59281134 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG-CTCG-T-CAT
* * *
59281184 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCG-CAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCGTCAT
59281227 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
59281269 AACCATCCTA
Statistics
Matches: 75, Mismatches: 7, Indels: 10
0.82 0.08 0.11
Matches are distributed among these distances:
43 3 0.04
44 1 0.01
45 2 0.03
46 36 0.48
47 30 0.40
48 2 0.03
49 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (47 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCGTCAT
Found at i:59285339 original size:40 final size:40
Alignment explanation
Indices: 59285282--59285726 Score: 719
Period size: 40 Copynumber: 11.1 Consensus size: 40
59285272 CGAATACACG
* * * *
59285282 TCACTAGCATGATTGCTCTTCGGGACCTAGCCCGGATATA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
* * ** * * *
59285322 ACACCAGCACGAATGCTCTTCGGGGTTTAGCACAGATATA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
* *
59285362 TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
59285402 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
59285442 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
*
59285482 TCACTAGCACGAATGCTCTTTGGGACTTAGCCCGGATACA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
59285522 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
59285562 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
* * *
59285602 TCACTAGCACAAATTCTCTTCGAGACTTAGCCCGGATACA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
59285642 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
* *
59285682 TCACTAGCACGAATGCTCTTTGGGACTTAGCCCGGATATA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
59285722 TCACT
1 TCACT
59285727 CTCAATTCTC
Statistics
Matches: 375, Mismatches: 30, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 375 1.00
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
Found at i:59287055 original size:37 final size:37
Alignment explanation
Indices: 59286996--59287102 Score: 178
Period size: 37 Copynumber: 2.9 Consensus size: 37
59286986 AGCTCAGACG
* *
59286996 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
59287033 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* *
59287070 TAATCTCCACACGTAGTCATTGGGTCTTACCCG
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCG
59287103 AAATATATTT
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 66 1.00
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:59287305 original size:48 final size:48
Alignment explanation
Indices: 59287251--59287386 Score: 218
Period size: 48 Copynumber: 2.8 Consensus size: 48
59287241 GCACATCGCC
59287251 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACAGATCCCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACAGATCCCA
* *
59287299 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACAGATCCCA
* *
59287347 TACATATTTCACATTAGCCATTCGGCCTTATCACACATAT
1 TACATATTTCACACTAGCCATTCGGCTTTA-C-CACATAT
59287387 GATGTTCACA
Statistics
Matches: 82, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
48 74 0.90
49 1 0.01
50 7 0.09
ACGTcount: A:0.31, C:0.29, G:0.07, T:0.32
Consensus pattern (48 bp):
TACATATTTCACACTAGCCATTCGGCTTTACCACATATACAGATCCCA
Found at i:59287457 original size:47 final size:47
Alignment explanation
Indices: 59287355--59287761 Score: 663
Period size: 47 Copynumber: 8.7 Consensus size: 47
59287345 CATACATATT
* *
59287355 TCACATTAGCCATTCGGCCTTATCACACATATG-ATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
*
59287401 TCACATTGGCCATTCGGCCTTAACACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * * *
59287448 TCACTTTGGCCATTTGGCCTTATCACACATATGCATATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
*
59287495 TCACATTGGCCATTCGGCCTTAACACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
*
59287542 TCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
*
59287589 TCACATTGGCCATTCGGCCTTAACACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * *
59287636 TCACATTGGCCATTCGGCCTTATTACACATATGCATATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
*
59287683 TCACATTGGCCATTCGGCCTTAACACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* *
59287730 TCACATTGGCCGTTCGGCCTTATCTCATATAT
1 TCACATTGGCCATTCGGCCTTATCACATATAT
59287762 ACACATAAAA
Statistics
Matches: 332, Mismatches: 28, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
46 30 0.09
47 302 0.91
ACGTcount: A:0.27, C:0.28, G:0.12, T:0.33
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:59294508 original size:16 final size:15
Alignment explanation
Indices: 59294482--59294511 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
59294472 ACTAGATCGG
59294482 CAAAAGCCGAAAAGC
1 CAAAAGCCGAAAAGC
59294497 CAAAATGCCGAAAAG
1 CAAAA-GCCGAAAAG
59294512 TCAGTATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.53, C:0.23, G:0.20, T:0.03
Consensus pattern (15 bp):
CAAAAGCCGAAAAGC
Found at i:59294941 original size:27 final size:26
Alignment explanation
Indices: 59294901--59294984 Score: 105
Period size: 27 Copynumber: 3.2 Consensus size: 26
59294891 AGGAAGCATC
* * *
59294901 CTGGTGGCTATGCCACAATTATTTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGTT
59294928 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGTT
* *
59294955 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGTT
59294981 CTGG
1 CTGG
59294985 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 5, Indels: 3
0.86 0.08 0.05
Matches are distributed among these distances:
26 14 0.27
27 37 0.73
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.38
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGTT
Found at i:59297534 original size:29 final size:29
Alignment explanation
Indices: 59297444--59297603 Score: 180
Period size: 29 Copynumber: 5.5 Consensus size: 29
59297434 ACTCGATTTC
* * **
59297444 GCACACTTAGTGCCATGTGATTT-AAGCCC
1 GCACACTTAGTGCCATAT-ATTTCCAGCAT
* *** *
59297473 GCACACATAGTGCCATACCCTTCGAGC-T
1 GCACACTTAGTGCCATATATTTCCAGCAT
** *
59297501 CGCACACCCAGTGCCGTATATTTCCAGCAT
1 -GCACACTTAGTGCCATATATTTCCAGCAT
59297531 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
59297560 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
59297589 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
59297604 ATCTCGTCAC
Statistics
Matches: 111, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
28 2 0.02
29 108 0.97
30 1 0.01
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.26
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:59305620 original size:39 final size:39
Alignment explanation
Indices: 59305566--59305728 Score: 254
Period size: 39 Copynumber: 4.2 Consensus size: 39
59305556 TGTGTATGAA
*
59305566 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
59305605 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
59305644 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
59305683 TGTGTGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
59305723 TGTGCG
1 TGTGCG
59305729 GGTTACCATA
Statistics
Matches: 112, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 96 0.86
40 16 0.14
ACGTcount: A:0.23, C:0.20, G:0.33, T:0.25
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:59305744 original size:40 final size:39
Alignment explanation
Indices: 59305566--59305759 Score: 244
Period size: 39 Copynumber: 4.9 Consensus size: 39
59305556 TGTGTATGAA
* *
59305566 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
*
59305605 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* *
59305644 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* * * *
59305683 TGTGTGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAAT
* ** * *
59305723 TGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGGC
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGC
59305760 GTTTGAACGA
Statistics
Matches: 136, Mismatches: 18, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
39 96 0.71
40 40 0.29
ACGTcount: A:0.23, C:0.21, G:0.32, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:59312848 original size:29 final size:29
Alignment explanation
Indices: 59312815--59312945 Score: 131
Period size: 29 Copynumber: 4.5 Consensus size: 29
59312805 GTGACGAGAT
59312815 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
59312844 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
** * ***
59312873 TGGCACTGGGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTAAGTGTGC-ATGCTGGAAATATA
* ** * *
59312902 TGGCACTATGTGTGCGGGCT-TAAATCACA
1 TGGCACTAAGTGTGCATGCTGGAAAT-ATA
59312931 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
59312946 GAAATCGAGT
Statistics
Matches: 84, Mismatches: 15, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
28 2 0.02
29 81 0.96
30 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:59319669 original size:42 final size:42
Alignment explanation
Indices: 59319602--59319721 Score: 125
Period size: 42 Copynumber: 2.9 Consensus size: 42
59319592 ATCGGTATAT
* *
59319602 GATTTCATGTAAGACCATATCTGGGA-TATGGCGTTGATATGA
1 GATTTCATGTAAGACCATATCTGGGACT-TGGCATCGATATGA
* * *
59319644 GATTTCGTGTAAGACCATGTTTGGGACTTGGCATCGATATGA
1 GATTTCATGTAAGACCATATCTGGGACTTGGCATCGATATGA
* ** * * *
59319686 GGTCCCATATAAGACCATGTCTGGGACATGGCATCG
1 GATTTCATGTAAGACCATATCTGGGACTTGGCATCG
59319722 GCACCGACAT
Statistics
Matches: 65, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
42 64 0.98
43 1 0.02
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.30
Consensus pattern (42 bp):
GATTTCATGTAAGACCATATCTGGGACTTGGCATCGATATGA
Found at i:59319765 original size:89 final size:90
Alignment explanation
Indices: 59319640--59319806 Score: 207
Period size: 89 Copynumber: 1.9 Consensus size: 90
59319630 TGGCGTTGAT
* * * * *
59319640 ATGAGATTTCGTGTAAGACCATGTTTGGGACTTGGCATC-GATATG-AGGTCCCATATAAGACCA
1 ATGAGATTTCGTATAAGACCATATCTGGGACTTGGCATCAG-TACGTA-GACCCATATAAGACCA
*
59319703 TGTCTGGGACATGGCATCGGCACCGAC
64 TGTCGGGGACATGGCATCGGCACCGAC
* *
59319730 ATGAGA-TTCGTATAAGACCATATCTGGGA-TATGGCATCAGTACGTAGACCCATGTACGACCAT
1 ATGAGATTTCGTATAAGACCATATCTGGGACT-TGGCATCAGTACGTAGACCCATATAAGACCAT
59319793 GTCGGGGACATGGC
65 GTCGGGGACATGGC
59319807 TTTGGCACTC
Statistics
Matches: 66, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
88 1 0.02
89 57 0.86
90 8 0.12
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.25
Consensus pattern (90 bp):
ATGAGATTTCGTATAAGACCATATCTGGGACTTGGCATCAGTACGTAGACCCATATAAGACCATG
TCGGGGACATGGCATCGGCACCGAC
Found at i:59330054 original size:27 final size:28
Alignment explanation
Indices: 59329995--59330064 Score: 97
Period size: 27 Copynumber: 2.5 Consensus size: 28
59329985 AAACTTGTAC
* *
59329995 AGCACTAAGTGTGAGAGTTTGATCATGT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
* *
59330023 TGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
59330050 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
59330065 GACTCACTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 22 0.59
28 15 0.41
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:59332317 original size:30 final size:30
Alignment explanation
Indices: 59332281--59332343 Score: 126
Period size: 30 Copynumber: 2.1 Consensus size: 30
59332271 GAATGTTCGA
59332281 GTGATATCCGGGCTAAGCCCGAAGGCAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATT
59332311 GTGATATCCGGGCTAAGCCCGAAGGCAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATT
59332341 GTG
1 GTG
59332344 CGAGCTATGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.25, C:0.22, G:0.32, T:0.21
Consensus pattern (30 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATT
Found at i:59332440 original size:40 final size:39
Alignment explanation
Indices: 59332312--59332454 Score: 187
Period size: 39 Copynumber: 3.6 Consensus size: 39
59332302 AAGGCAATTG
*
59332312 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
59332351 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
59332390 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
59332430 CCATAACCGGGCTATGTCCCGAAGG
1 TGATATCCGGGCTAAG-CCCGAAGG
59332455 TGTTTTGAAC
Statistics
Matches: 92, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
39 52 0.57
40 40 0.43
ACGTcount: A:0.23, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:59332440 original size:79 final size:79
Alignment explanation
Indices: 59332309--59332454 Score: 204
Period size: 79 Copynumber: 1.8 Consensus size: 79
59332299 CCGAAGGCAA
** *
59332309 TTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTATGATATCCGGGCTAAG-CCCGAA
1 TTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTACCATAACCGGGCTAAGTCCCGAA
59332373 GGCAATTGTGCGAG
66 GGCAATTGTGCGAG
* * * * *
59332387 TTGTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTACCATAACCGGGCTATGTCCCGA
1 TTGTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGCTACCATAACCGGGCTAAGTCCCGA
59332452 AGG
65 AGG
59332455 TGTTTTGAAC
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
78 18 0.31
79 32 0.55
80 8 0.14
ACGTcount: A:0.23, C:0.22, G:0.32, T:0.24
Consensus pattern (79 bp):
TTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTACCATAACCGGGCTAAGTCCCGAA
GGCAATTGTGCGAG
Found at i:59345298 original size:40 final size:39
Alignment explanation
Indices: 59345197--59345407 Score: 309
Period size: 40 Copynumber: 5.3 Consensus size: 39
59345187 ATGATAAGGA
*
59345197 CTAAGATCCGAAGGCATTTGTGCTAGTGATTATATCCGGG
1 CTAAG-TCCGAAGGCATTTGTGCTAGTGACTATATCCGGG
*
59345237 CTAAGTCCGAAGGCATTTGTGCTAGTGATTATATCCGGG
1 CTAAGTCCGAAGGCATTTGTGCTAGTGACTATATCCGGG
59345276 CTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGG
1 CTAAGT-CCGAAGGCATTTGTGCTAGTGACTATATCCGGG
*
59345316 CTAAGTCCCGAAGGCATTTGTGCTAGTGACTATGTCCGGG
1 CTAAGT-CCGAAGGCATTTGTGCTAGTGACTATATCCGGG
* *
59345356 CTAAGTCCGAAGGCATTCGTGCGAGTTG-CTATATCC-GG
1 CTAAGTCCGAAGGCATTTGTGCTAG-TGACTATATCCGGG
*
59345394 CTAAATTCCGAAGG
1 CT-AAGTCCGAAGG
59345408 TACTTGGGTT
Statistics
Matches: 162, Mismatches: 6, Indels: 7
0.93 0.03 0.04
Matches are distributed among these distances:
38 4 0.02
39 74 0.46
40 84 0.52
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (39 bp):
CTAAGTCCGAAGGCATTTGTGCTAGTGACTATATCCGGG
Found at i:59345366 original size:79 final size:78
Alignment explanation
Indices: 59345197--59345407 Score: 309
Period size: 79 Copynumber: 2.7 Consensus size: 78
59345187 ATGATAAGGA
*
59345197 CTAAGATCCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTCCGAAGGCATTTGTGCTAG
1 CTAAG-TCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCGAAGGCATTTGTGCTAG
*
59345262 TGATTATATCCGGG
65 TGACTATATCCGGG
59345276 CTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA
1 CTAAGT-CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGT-CCGAAGGCATTTGTGCTA
*
59345341 GTGACTATGTCCGGG
64 GTGACTATATCCGGG
* * *
59345356 CTAAGTCCGAAGGCATTCGTGCGAGTTG-CTATATCC-GGCTAAATTCCGAAGG
1 CTAAGTCCGAAGGCATTTGTGCTAG-TGACTATATCCGGGCT-AAGTCCGAAGG
59345408 TACTTGGGTT
Statistics
Matches: 122, Mismatches: 6, Indels: 9
0.89 0.04 0.07
Matches are distributed among these distances:
78 12 0.10
79 71 0.58
80 39 0.32
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (78 bp):
CTAAGTCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCGAAGGCATTTGTGCTAGT
GACTATATCCGGG
Found at i:59355258 original size:37 final size:36
Alignment explanation
Indices: 59355171--59355279 Score: 182
Period size: 37 Copynumber: 3.0 Consensus size: 36
59355161 AGCTCAGACG
* *
59355171 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGAA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGAA
59355207 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA-A
*
59355244 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGAA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGAA
59355280 TATATTTCCA
Statistics
Matches: 69, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
36 34 0.49
37 35 0.51
ACGTcount: A:0.28, C:0.30, G:0.19, T:0.23
Consensus pattern (36 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGAA
Found at i:59355550 original size:48 final size:48
Alignment explanation
Indices: 59355418--59355562 Score: 175
Period size: 52 Copynumber: 2.9 Consensus size: 48
59355408 ATATACGTAC
* * *
59355418 ATCGCCTACATATTTCACACTAGCCATTCGCCTTTACCACATATACAT
1 ATCGCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* * *
59355466 ATCTCATATATATATATTTCACATT-GACCATTCGGCTTTACCACATATGCAT
1 ATCGC----ATACATATTTCACATTAG-CCATTCGGCTTTACCACATATACAT
*
59355518 ATCGCATACATATTTCATATTAGCCATTCGGCTTTACCACATATA
1 ATCGCATACATATTTCACATTAGCCATTCGGCTTTACCACATATA
59355563 TGCATGTTCA
Statistics
Matches: 81, Mismatches: 10, Indels: 12
0.79 0.10 0.12
Matches are distributed among these distances:
48 39 0.48
49 1 0.01
51 1 0.01
52 40 0.49
ACGTcount: A:0.30, C:0.27, G:0.08, T:0.35
Consensus pattern (48 bp):
ATCGCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
Found at i:59355611 original size:47 final size:47
Alignment explanation
Indices: 59355540--59355704 Score: 249
Period size: 47 Copynumber: 3.5 Consensus size: 47
59355530 TTTCATATTA
* * * *
59355540 GCCATTCGGCTTTACCACATATATGCATGTTCATATTCACCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* *
59355587 GCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* *
59355634 GCCATTTGGCCTTATCGCATATATGCATGTTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
*
59355681 GCCATTCGGCCTTATCTCATATAT
1 GCCATTCGGCCTTATCACATATAT
59355705 ACACATTCAA
Statistics
Matches: 106, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 106 1.00
ACGTcount: A:0.24, C:0.28, G:0.13, T:0.34
Consensus pattern (47 bp):
GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
Found at i:59358559 original size:21 final size:23
Alignment explanation
Indices: 59358533--59358585 Score: 60
Period size: 22 Copynumber: 2.4 Consensus size: 23
59358523 CTACAAGCAT
*
59358533 CAAATTCATAA-CATTTTA-TAC
1 CAAATTCATAACCATTTTACAAC
59358554 CAAATTC-TCAACCATTTTACAAC
1 CAAATTCAT-AACCATTTTACAAC
59358577 CAAA-TCATA
1 CAAATTCATA
59358586 CATCATTCAT
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
20 1 0.04
21 9 0.33
22 10 0.37
23 7 0.26
ACGTcount: A:0.43, C:0.25, G:0.00, T:0.32
Consensus pattern (23 bp):
CAAATTCATAACCATTTTACAAC
Found at i:59359525 original size:43 final size:44
Alignment explanation
Indices: 59359400--59359559 Score: 165
Period size: 43 Copynumber: 3.7 Consensus size: 44
59359390 CAGAAAGCTC
* * *
59359400 ATACAATGCCAATGTCCCAGACA-TGGTCTTACATGT-AATCAA
1 ATACGATGCCAACGTCCCAGAAAGTGGTCTTACATGTAAATCAA
* *
59359442 ATATCGATGCC-ACTGTCCCAGACAG-GGTCTTACACG-AAATCAA
1 ATA-CGATGCCAAC-GTCCCAGAAAGTGGTCTTACATGTAAATCAA
59359485 ATACGATGCCAACGTCCCA-AAAGTGGTCTTACATGTAAATCATA
1 ATACGATGCCAACGTCCCAGAAAGTGGTCTTACATGTAAATCA-A
* *
59359529 AGTA-GCTGCCAACGTCCCA-AATGTGGTCTTA
1 A-TACGATGCCAACGTCCCAGAAAGTGGTCTTA
59359560 TCACTTATCG
Statistics
Matches: 102, Mismatches: 7, Indels: 16
0.82 0.06 0.13
Matches are distributed among these distances:
41 3 0.03
42 27 0.26
43 43 0.42
44 27 0.26
45 2 0.02
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.24
Consensus pattern (44 bp):
ATACGATGCCAACGTCCCAGAAAGTGGTCTTACATGTAAATCAA
Found at i:59362387 original size:18 final size:18
Alignment explanation
Indices: 59362353--59362387 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
59362343 AAGAAATGGA
* *
59362353 AAAAAAAATGATGATAAC
1 AAAAAAAATAATAATAAC
59362371 AAAAAAAATAATAATAA
1 AAAAAAAATAATAATAA
59362388 TGTGTAGATG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.74, C:0.03, G:0.06, T:0.17
Consensus pattern (18 bp):
AAAAAAAATAATAATAAC
Found at i:59363748 original size:29 final size:30
Alignment explanation
Indices: 59363651--59363754 Score: 138
Period size: 30 Copynumber: 3.5 Consensus size: 30
59363641 GACAAGATTG
* * * * *
59363651 GCACTAAGTGTGCGGGTTTAAAAATTGTACA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
*
59363682 GCACTAAGTGTGCAAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
59363712 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
59363741 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
59363755 GATTCACTAT
Statistics
Matches: 66, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
29 20 0.30
30 32 0.48
31 14 0.21
ACGTcount: A:0.35, C:0.14, G:0.25, T:0.26
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:59369544 original size:123 final size:123
Alignment explanation
Indices: 59369325--59369663 Score: 597
Period size: 123 Copynumber: 2.8 Consensus size: 123
59369315 GAATTATGTG
59369325 AAATGAAATATGGATGTGTAATGATTATTGACATATGTGTGTATGAGTATTTGAATGGTACCCGG
1 AAATGAAATATGGATGTGTAATGATTATTGACATATGTGTGTATGAGTATTTGAATGGTACCCGG
*
59369390 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTTGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTCGAGCCTTAGTAACGA
59369448 AAATGAAATATGGATGTGTAATGATTATTGACATATGTGTGTATGAGTATTTGAATGGTACCCGG
1 AAATGAAATATGGATGTGTAATGATTATTGACATATGTGTGTATGAGTATTTGAATGGTACCCGG
59369513 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTCGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTCGAGCCTTAGTAACGA
** * * * *
59369571 AAATGAAATATGGATGTGTAATGATTATTGATTTATGTGTGCATGAGCAATTGAATGATACCCGG
1 AAATGAAATATGGATGTGTAATGATTATTGACATATGTGTGTATGAGTATTTGAATGGTACCCGG
* *
59369636 GCTAAGTCCCGAAGACATTTATGCTAGT
66 GCTAAGTCCCGAAGGCAATTATGCTAGT
59369664 AATTATATCC
Statistics
Matches: 207, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
123 207 1.00
ACGTcount: A:0.30, C:0.11, G:0.25, T:0.33
Consensus pattern (123 bp):
AAATGAAATATGGATGTGTAATGATTATTGACATATGTGTGTATGAGTATTTGAATGGTACCCGG
GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTCGAGCCTTAGTAACGA
Found at i:59369687 original size:40 final size:40
Alignment explanation
Indices: 59369632--59369875 Score: 301
Period size: 40 Copynumber: 6.1 Consensus size: 40
59369622 TGAATGATAC
* * * * **
59369632 CCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGTTATAT
* * * *
59369672 CCGGGTTAAGACCCGAAGGCAATTGTGCTAG-TGACTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTG-TTATAT
*
59369712 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGTTATAT
*
59369752 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGTTATAT
* *
59369792 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGTTATAT
* * ** *
59369832 CCGGGCTAAGACCCGAGGGCATTCGTGCGTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGTTATAT
59369872 CCGG
1 CCGG
59369876 TTGTATTCCG
Statistics
Matches: 182, Mismatches: 20, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
40 180 0.99
41 2 0.01
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGTTATAT
Found at i:59374558 original size:59 final size:58
Alignment explanation
Indices: 59374462--59374593 Score: 246
Period size: 59 Copynumber: 2.3 Consensus size: 58
59374452 AAAATTGTAC
59374462 AGCACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAGCTGAAAATATAT
*
59374520 AGCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAA-TATATAGCACTAAGTGTGCGAGCTGAAAATATAT
59374579 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
59374594 GATTCACTAT
Statistics
Matches: 72, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
58 23 0.32
59 49 0.68
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.24
Consensus pattern (58 bp):
AGCACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAGCTGAAAATATAT
Found at i:59374582 original size:88 final size:89
Alignment explanation
Indices: 59374432--59374593 Score: 263
Period size: 88 Copynumber: 1.8 Consensus size: 89
59374422 GACAAGATTG
* * *
59374432 GCACTAAGTGTGCGGGTTTAAAAATTGTACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
1 GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
59374497 AAGTGTGCGAGCTGAAAATATATA
66 AAGTGTGCGAGCTGAAAATATATA
* * *
59374521 GCACTAAGTGTGCGAG-CTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATAGCACT
1 GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
59374585 AAGTGTGCG
66 AAGTGTGCG
59374594 GATTCACTAT
Statistics
Matches: 67, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
88 52 0.78
89 15 0.22
ACGTcount: A:0.36, C:0.14, G:0.25, T:0.25
Consensus pattern (89 bp):
GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
AAGTGTGCGAGCTGAAAATATATA
Found at i:59374605 original size:29 final size:29
Alignment explanation
Indices: 59374462--59374593 Score: 246
Period size: 29 Copynumber: 4.5 Consensus size: 29
59374452 AAAATTGTAC
*
59374462 AGCACTAAGTGTGCGAACTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
59374491 AGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
59374520 AGCACTAAGTGTGCGAGCTGAAAATTATAT
1 AGCACTAAGTGTGCGAGCTGAAAA-TATAT
59374550 AGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
59374579 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
59374594 GATTCACTAT
Statistics
Matches: 101, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
29 72 0.71
30 29 0.29
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.24
Consensus pattern (29 bp):
AGCACTAAGTGTGCGAGCTGAAAATATAT
Found at i:59383267 original size:40 final size:40
Alignment explanation
Indices: 59383162--59383306 Score: 184
Period size: 40 Copynumber: 3.6 Consensus size: 40
59383152 TACTCGAATG
*
59383162 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGTGACT
* ** *
59383203 ACATCCGAACTAAGAT-CCGAAGGCATTTGTGCTAGTAACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGTGACT
* * *
59383243 ATATCCAGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
59383283 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
59383307 CTTGGGCGAG
Statistics
Matches: 88, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
39 1 0.01
40 59 0.67
41 27 0.31
42 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.24, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:59384925 original size:20 final size:17
Alignment explanation
Indices: 59384883--59384916 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
59384873 TTCTTGTCAA
*
59384883 AAAATAATTAATTTTAT
1 AAAATAATTAATTTCAT
59384900 AAAATAATTAAATTTCA
1 AAAATAATT-AATTTCA
59384917 CTTAAAATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (17 bp):
AAAATAATTAATTTCAT
Found at i:59395571 original size:15 final size:15
Alignment explanation
Indices: 59395551--59395619 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
59395541 GTATCTTGGG
59395551 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
59395566 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
59395581 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
59395596 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
59395611 TTTCTTTAT
1 TTTCTTTAT
59395620 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Done.