Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 ID=Chr02-JGI_221_v2.0
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: 62769430
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1067035 characters in sequence are not A, C, G, or T
File 155 of 206
Found at i:46950233 original size:130 final size:129
Alignment explanation
Indices: 46950038--46950285 Score: 354
Period size: 130 Copynumber: 1.9 Consensus size: 129
46950028 TCACGAACAA
* ** * *
46950038 TGTTGAAGTTTATCAGCTGAGAGCGTAGGTCCGTGAGTTGTTTTGGAGTAGCGAGCATAAATCAG
1 TGTTAAAGTTTATCAGCTGAGAGCGTAGGTCCACGAGCTGTTCTGGAGTAGCGAGCATAAATCAG
* *
46950103 CTAACTCAAATAAATGAAGGTTGTGAGTATAACTCAGCTAACCTTTAAACATCAACTGCGAGCTG
66 CTAACTCAAA-AAATGAAGGTTGTGAGTATAACTCAACTAAACTTTAAACATCAACTGCGAGCTG
* * * *
46950168 TGTTAAAGTTTATCAG-TTAGGAGTGTAGGTCCACGAGCTGTTCTGGAGTAGCGAGCTTAACTCA
1 TGTTAAAGTTTATCAGCTGA-GAGCGTAGGTCCACGAGCTGTTCTGGAGTAGCGAGCATAAATCA
* *
46950232 GCTAACTTAAAAAATGAAGGTTGTGAGTGTAACTCAACTAAACTTTAAACATCA
65 GCTAACTCAAAAAATGAAGGTTGTGAGTATAACTCAACTAAACTTTAAACATCA
46950286 GTTAGGAGAA
Statistics
Matches: 104, Mismatches: 13, Indels: 3
0.87 0.11 0.03
Matches are distributed among these distances:
129 42 0.40
130 62 0.60
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.29
Consensus pattern (129 bp):
TGTTAAAGTTTATCAGCTGAGAGCGTAGGTCCACGAGCTGTTCTGGAGTAGCGAGCATAAATCAG
CTAACTCAAAAAATGAAGGTTGTGAGTATAACTCAACTAAACTTTAAACATCAACTGCGAGCTG
Found at i:46950422 original size:103 final size:103
Alignment explanation
Indices: 46950214--46950422 Score: 237
Period size: 103 Copynumber: 2.0 Consensus size: 103
46950204 GCTGTTCTGG
* * * *
46950214 AGTAGCGAGCTTAACTCAGCTAACTTAAAAAATGAAGGTTGTGAGTGTAACTCAACTAAACTTTA
1 AGTAGCAAGCTTAACTCAGCTAACTCAAAAAATGAAGGTTGTGAATATAACTCAACTAAACTTTA
* * * *
46950279 AACATCAGTTAGGAGAAAAAGTCCGTGATCTCTTTCAA
66 AACATCAATTAGGAGAAAAAGTCCGCGAGCTATTTCAA
*
46950317 AGTAGCAAGCTTAACTCAGCTAACTCAAATAAATGAAGGTTGTGAATATAA-T-ATAGCTAACCT
1 AGTAGCAAGCTTAACTCAGCTAACTCAAA-AAATGAAGGTTGTGAATATAACTCA-A-CTAAACT
* * * *
46950380 TTAAA-ATCAATTGGGAGCATAGGTCCGCGAGCTATGTT-AA
63 TTAAACATCAATTAGGAGAAAAAGTCCGCGAGCTAT-TTCAA
46950420 AGT
1 AGT
46950423 TTATCAACTT
Statistics
Matches: 89, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
102 1 0.01
103 56 0.63
104 32 0.36
ACGTcount: A:0.38, C:0.16, G:0.19, T:0.27
Consensus pattern (103 bp):
AGTAGCAAGCTTAACTCAGCTAACTCAAAAAATGAAGGTTGTGAATATAACTCAACTAAACTTTA
AACATCAATTAGGAGAAAAAGTCCGCGAGCTATTTCAA
Found at i:46954583 original size:42 final size:42
Alignment explanation
Indices: 46954536--46954615 Score: 126
Period size: 42 Copynumber: 1.9 Consensus size: 42
46954526 GGGTATAAGG
* *
46954536 TTCAAACTTAC-CTTGAGGGATGTACTTCATTATGCACTCAGC
1 TTCAAACTTACACTAG-GGGATGTACCTCATTATGCACTCAGC
46954578 TTCAAACTTACACTAGGGGATGTACCTCATTATGCACT
1 TTCAAACTTACACTAGGGGATGTACCTCATTATGCACT
46954616 ATAGTTAAGC
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
42 32 0.91
43 3 0.09
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.33
Consensus pattern (42 bp):
TTCAAACTTACACTAGGGGATGTACCTCATTATGCACTCAGC
Found at i:46961573 original size:36 final size:36
Alignment explanation
Indices: 46961526--46961598 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
46961516 TCGTTCTTGG
46961526 TTGTCAATTTGCTTGTAAATCCATTAAATTGATGTT
1 TTGTCAATTTGCTTGTAAATCCATTAAATTGATGTT
46961562 TTGTCAATTTGCTTGTAAATCCATTAAATTGATGTT
1 TTGTCAATTTGCTTGTAAATCCATTAAATTGATGTT
46961598 T
1 T
46961599 AGTATCTTGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.27, C:0.11, G:0.14, T:0.48
Consensus pattern (36 bp):
TTGTCAATTTGCTTGTAAATCCATTAAATTGATGTT
Found at i:46978430 original size:97 final size:97
Alignment explanation
Indices: 46978258--46978457 Score: 339
Period size: 97 Copynumber: 2.1 Consensus size: 97
46978248 TTCTATAGAA
*
46978258 AAAATGACTCGTGGCAAGAATACGCCGATATTGAAGGAGGCAGAAACCAGTAAGACAAGAAAGGG
1 AAAATGACTCGTGGCAAGAACACGCCGATATTGAAGGAGGCAGAAACCAGTAAGACAAGAAAGGG
*
46978323 TAAAGACAAAGCCAACAGCAAAGGAACAAACC
66 CAAAGACAAAGCCAACAGCAAAGGAACAAACC
46978355 AAAATGACTCGTGGCAAGAACACGCCGATATTGAAGGAGGC-GAAAACCAGTAAGACAAGAAAGG
1 AAAATGACTCGTGGCAAGAACACGCCGATATTGAAGGAGGCAG-AAACCAGTAAGACAAGAAAGG
* *
46978419 GCGAAGCCAAAGCCAACAGCAAAGGAACAAACC
65 GCAAAGACAAAGCCAACAGCAAAGGAACAAACC
*
46978452 TAAATG
1 AAAATG
46978458 TAGAGACATC
Statistics
Matches: 97, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
96 1 0.01
97 96 0.99
ACGTcount: A:0.47, C:0.20, G:0.25, T:0.09
Consensus pattern (97 bp):
AAAATGACTCGTGGCAAGAACACGCCGATATTGAAGGAGGCAGAAACCAGTAAGACAAGAAAGGG
CAAAGACAAAGCCAACAGCAAAGGAACAAACC
Found at i:46978882 original size:18 final size:20
Alignment explanation
Indices: 46978861--46978922 Score: 65
Period size: 21 Copynumber: 3.1 Consensus size: 20
46978851 AGGATACTGT
46978861 TGTTG-AGAAG-GAAGTTGC
1 TGTTGAAGAAGAGAAGTTGC
* * *
46978879 TGTTGTAGAAGAAAAAGTTGT
1 TGTTGAAGAAG-AGAAGTTGC
46978900 TGTTGAAGAAGAAGAAGTTGC
1 TGTTGAAGAAG-AGAAGTTGC
46978921 TG
1 TG
46978923 AAAATGAGAA
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
18 5 0.14
19 5 0.14
21 26 0.72
ACGTcount: A:0.34, C:0.03, G:0.34, T:0.29
Consensus pattern (20 bp):
TGTTGAAGAAGAGAAGTTGC
Found at i:46978896 original size:21 final size:21
Alignment explanation
Indices: 46978872--46978922 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
46978862 GTTGAGAAGG
*
46978872 AAGTTGCTGTTGTAGAAGAAA
1 AAGTTGCTGTTGAAGAAGAAA
* *
46978893 AAGTTGTTGTTGAAGAAGAAG
1 AAGTTGCTGTTGAAGAAGAAA
46978914 AAGTTGCTG
1 AAGTTGCTG
46978923 AAAATGAGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.35, C:0.04, G:0.31, T:0.29
Consensus pattern (21 bp):
AAGTTGCTGTTGAAGAAGAAA
Found at i:46979641 original size:21 final size:21
Alignment explanation
Indices: 46979616--46979670 Score: 87
Period size: 21 Copynumber: 2.7 Consensus size: 21
46979606 ATCTTCAAGG
46979616 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
46979637 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
*
46979658 -T-TGTAATCTTAGA
1 ATATGCAATCTTAGA
46979671 AGATATGATT
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
19 11 0.33
20 1 0.03
21 21 0.64
ACGTcount: A:0.36, C:0.09, G:0.15, T:0.40
Consensus pattern (21 bp):
ATATGCAATCTTAGATATGAT
Found at i:46979677 original size:22 final size:21
Alignment explanation
Indices: 46979628--46979706 Score: 81
Period size: 21 Copynumber: 3.7 Consensus size: 21
46979618 ATGCAATCTT
*
46979628 AGATATGATATATGCAATCTT--
1 AGATATGAT-T-TGTAATCTTAG
46979649 AGATATGATTTGTAATCTTAG
1 AGATATGATTTGTAATCTTAG
46979670 AAGATATGATTTTGTAATCTTAG
1 -AGATATGA-TTTGTAATCTTAG
* *
46979693 AGATTTAATTTGTA
1 AGATATGATTTGTA
46979707 GATACCCTTT
Statistics
Matches: 51, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
19 8 0.16
20 1 0.02
21 15 0.29
22 14 0.27
23 13 0.25
ACGTcount: A:0.35, C:0.05, G:0.16, T:0.43
Consensus pattern (21 bp):
AGATATGATTTGTAATCTTAG
Found at i:46979687 original size:23 final size:22
Alignment explanation
Indices: 46979649--46979706 Score: 82
Period size: 22 Copynumber: 2.6 Consensus size: 22
46979639 ATGCAATCTT
46979649 AGATATGATTTGTAATCTTAGA
1 AGATATGATTTGTAATCTTAGA
46979671 AGATATGATTTTGTAATCTTAG-
1 AGATATGA-TTTGTAATCTTAGA
* *
46979693 AGATTTAATTTGTA
1 AGATATGATTTGTA
46979707 GATACCCTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
21 6 0.18
22 14 0.42
23 13 0.39
ACGTcount: A:0.34, C:0.03, G:0.17, T:0.45
Consensus pattern (22 bp):
AGATATGATTTGTAATCTTAGA
Found at i:46980123 original size:23 final size:22
Alignment explanation
Indices: 46980091--46980134 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 22
46980081 ATTTGTTATT
*
46980091 TTAATTTTTTATTATTATTAAA
1 TTAATTTTTTAATATTATTAAA
46980113 TTAATTATTTTAATATTATTAA
1 TTAATT-TTTTAATATTATTAA
46980135 TACTATTATG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (22 bp):
TTAATTTTTTAATATTATTAAA
Found at i:46980142 original size:23 final size:23
Alignment explanation
Indices: 46980092--46980143 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
46980082 TTTGTTATTT
* *
46980092 TAATT-TTTTATTATTATTAAAT
1 TAATTATTTTAATATTATTAAAC
46980114 TAATTATTTTAATATTATTAATAC
1 TAATTATTTTAATATTATTAA-AC
46980138 T-ATTAT
1 TAATTAT
46980144 GTGGCATCAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
22 5 0.19
23 19 0.73
24 2 0.08
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (23 bp):
TAATTATTTTAATATTATTAAAC
Found at i:46985210 original size:24 final size:25
Alignment explanation
Indices: 46985183--46985229 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
46985173 AATGATGATG
*
46985183 GAAAAAAGGAAAAGAAA-AAGAAAA
1 GAAAAAAGAAAAAGAAAGAAGAAAA
46985207 GAAAAAAGAAAAAGAAAGAAGAA
1 GAAAAAAGAAAAAGAAAGAAGAA
46985230 GAGGAAAAGG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 16 0.76
25 5 0.24
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (25 bp):
GAAAAAAGAAAAAGAAAGAAGAAAA
Found at i:46985240 original size:6 final size:6
Alignment explanation
Indices: 46985185--46985229 Score: 56
Period size: 6 Copynumber: 7.3 Consensus size: 6
46985175 TGATGATGGA
*
46985185 AAAAAG GAAAAG AAAAAG -AAAAG AAAAAAG AAAAAG AAAGAAG AA
1 AAAAAG AAAAAG AAAAAG AAAAAG -AAAAAG AAAAAG AAA-AAG AA
46985230 GAGGAAAAGG
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
5 5 0.15
6 19 0.56
7 10 0.29
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:46986605 original size:44 final size:44
Alignment explanation
Indices: 46986542--46986839 Score: 503
Period size: 44 Copynumber: 6.8 Consensus size: 44
46986532 TGACTCCAGC
46986542 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAGT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAGT
46986586 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAA-T
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGT-AAGT
* *
46986630 CCTATCTCCCTGGTTAGCAGTGGAATAGGTTAAAGATTGTAAGT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAGT
*
46986674 CCTATCTCCTTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAGT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAGT
46986718 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAGT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAGT
46986762 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAA-T
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGT-AAGT
* *
46986806 CCTATCTCCCTGAG-CAACAGTGGAGTAGGTTGAA
1 CCTATCTCCCTG-GTCAGCAGTGGAATAGGTTGAA
46986840 AATAGCAGAT
Statistics
Matches: 242, Mismatches: 8, Indels: 8
0.94 0.03 0.03
Matches are distributed among these distances:
43 2 0.01
44 235 0.97
45 5 0.02
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.30
Consensus pattern (44 bp):
CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAGT
Found at i:46987074 original size:50 final size:50
Alignment explanation
Indices: 46987020--46987246 Score: 152
Period size: 50 Copynumber: 4.5 Consensus size: 50
46987010 ACAATTAAAA
** * *
46987020 AGATTGAAGCCGCAACGGCGAATCTTA-TCACTTTGGCATTACAGTGGAGC
1 AGATTGAAGCCGCAACGGCGAATCTTACTC-CCCTGGCAGTACAGTGGAAC
* * * * **
46987070 AGATTGAAACCACAACGGTGGATCTTACTCCCCTGGCAGTGTAGTGGAAC
1 AGATTGAAGCCGCAACGGCGAATCTTACTCCCCTGGCAGTACAGTGGAAC
* * ** ** * * * ** *
46987120 AGATTGAAGCTGCGACGGCGAATCTTGTTTCCCC-AACATTGCAATTAAAA
1 AGATTGAAGCCGCAACGGCGAATCTT-ACTCCCCTGGCAGTACAGTGGAAC
* * * **
46987170 AGATTGAACCCGCAACGGCGAATCTTACTTCCCTGGCGGTGTAGTGGAAC
1 AGATTGAAGCCGCAACGGCGAATCTTACTCCCCTGGCAGTACAGTGGAAC
** *
46987220 AGATTGAAGCTACGACGGCGAATCTTA
1 AGATTGAAGCCGCAACGGCGAATCTTA
46987247 TTTTCCCAAC
Statistics
Matches: 129, Mismatches: 45, Indels: 6
0.72 0.25 0.03
Matches are distributed among these distances:
49 4 0.03
50 118 0.91
51 7 0.05
ACGTcount: A:0.29, C:0.23, G:0.25, T:0.23
Consensus pattern (50 bp):
AGATTGAAGCCGCAACGGCGAATCTTACTCCCCTGGCAGTACAGTGGAAC
Found at i:46987165 original size:150 final size:150
Alignment explanation
Indices: 46986920--46987196 Score: 419
Period size: 150 Copynumber: 1.8 Consensus size: 150
46986910 GCAATGGAAA
* * ** * *
46986920 AGATTGAAGCCACAACGGTGAATCTTATTTGCCTAGCATTGTAGCGGAGCAGATTGAAGCCACGA
1 AGATTGAAACCACAACGGTGAATCTTACTCCCCTAGCAGTGTAGCGGAACAGATTGAAGCCACGA
* *
46986985 CGGTGAATCTTCTTTCCCCAACATTACAATTAAAAAGATTGAAGCCGCAACGGCGAATCTTATCA
66 CGGCGAATCTTCTTTCCCCAACATTACAATTAAAAAGATTGAACCCGCAACGGCGAATCTTATCA
46987050 CTTTGGCATTACAGTGGAGC
131 CTTTGGCATTACAGTGGAGC
* * * **
46987070 AGATTGAAACCACAACGGTGGATCTTACTCCCCTGGCAGTGTAGTGGAACAGATTGAAGCTGCGA
1 AGATTGAAACCACAACGGTGAATCTTACTCCCCTAGCAGTGTAGCGGAACAGATTGAAGCCACGA
* *
46987135 CGGCGAATCTTGTTTCCCCAACATTGCAATTAAAAAGATTGAACCCGCAACGGCGAATCTTA
66 CGGCGAATCTTCTTTCCCCAACATTACAATTAAAAAGATTGAACCCGCAACGGCGAATCTTA
46987197 CTTCCCTGGC
Statistics
Matches: 112, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
150 112 1.00
ACGTcount: A:0.31, C:0.23, G:0.22, T:0.24
Consensus pattern (150 bp):
AGATTGAAACCACAACGGTGAATCTTACTCCCCTAGCAGTGTAGCGGAACAGATTGAAGCCACGA
CGGCGAATCTTCTTTCCCCAACATTACAATTAAAAAGATTGAACCCGCAACGGCGAATCTTATCA
CTTTGGCATTACAGTGGAGC
Found at i:46987174 original size:100 final size:100
Alignment explanation
Indices: 46987070--46987271 Score: 314
Period size: 100 Copynumber: 2.0 Consensus size: 100
46987060 ACAGTGGAGC
* * *
46987070 AGATTGAAACCACAACGGTGGATCTTACTCCCCTGGCAGTGTAGTGGAACAGATTGAAGCTGCGA
1 AGATTGAAACCACAACGGCGAATCTTACTCCCCTGGCAGTGTAGTGGAACAGATTGAAGCTACGA
*
46987135 CGGCGAATCTTGTTTCCCCAACATTGCAATTAAAA
66 CGGCGAATCTTATTTCCCCAACATTGCAATTAAAA
* * * *
46987170 AGATTGAACCCGCAACGGCGAATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACGA
1 AGATTGAAACCACAACGGCGAATCTTACTCCCCTGGCAGTGTAGTGGAACAGATTGAAGCTACGA
* *
46987235 CGGCGAATCTTATTTTCCCAACATTGCAATTTAAA
66 CGGCGAATCTTATTTCCCCAACATTGCAATTAAAA
46987270 AG
1 AG
46987272 GCTAAAGATG
Statistics
Matches: 92, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
100 92 1.00
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.25
Consensus pattern (100 bp):
AGATTGAAACCACAACGGCGAATCTTACTCCCCTGGCAGTGTAGTGGAACAGATTGAAGCTACGA
CGGCGAATCTTATTTCCCCAACATTGCAATTAAAA
Found at i:46987216 original size:150 final size:150
Alignment explanation
Indices: 46986914--46987246 Score: 400
Period size: 150 Copynumber: 2.2 Consensus size: 150
46986904 GACGTTGCAA
* * * ** * *
46986914 TGGAAAAGATTGAAGCCACAACGGTGAATCTTATTTGCCTAGCATTGTAGCGGAGCAGATTGAAG
1 TGGAACAGATTGAAACCACAACGGTGAATCTTACTCCCCTAGCAGTGTAGCGGAACAGATTGAAG
* *
46986979 CCACGACGGTGAATCTTCTTTCCCCAACATTACAATTAAAAAGATTGAAGCCGCAACGGCGAATC
66 CCACGACGGCGAATCTTCTTTCCCCAACATTACAATTAAAAAGATTGAACCCGCAACGGCGAATC
* *
46987044 TTATCACTTTGGCATTACAG
131 TTATCACTCTGGCAGTACAG
* * * *
46987064 TGGAGCAGATTGAAACCACAACGGTGGATCTTACTCCCCTGGCAGTGTAGTGGAACAGATTGAAG
1 TGGAACAGATTGAAACCACAACGGTGAATCTTACTCCCCTAGCAGTGTAGCGGAACAGATTGAAG
** * *
46987129 CTGCGACGGCGAATCTTGTTTCCCCAACATTGCAATTAAAAAGATTGAACCCGCAACGGCGAATC
66 CCACGACGGCGAATCTTCTTTCCCCAACATTACAATTAAAAAGATTGAACCCGCAACGGCGAATC
* **
46987194 TTACTTC-C-CTGGCGGTGTAG
131 TTA--TCACTCTGGCAGTACAG
* * * *
46987214 TGGAACAGATTGAAGCTACGACGGCGAATCTTA
1 TGGAACAGATTGAAACCACAACGGTGAATCTTA
46987247 TTTTCCCAAC
Statistics
Matches: 153, Mismatches: 28, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
150 150 0.98
151 1 0.01
152 2 0.01
ACGTcount: A:0.30, C:0.22, G:0.24, T:0.24
Consensus pattern (150 bp):
TGGAACAGATTGAAACCACAACGGTGAATCTTACTCCCCTAGCAGTGTAGCGGAACAGATTGAAG
CCACGACGGCGAATCTTCTTTCCCCAACATTACAATTAAAAAGATTGAACCCGCAACGGCGAATC
TTATCACTCTGGCAGTACAG
Found at i:46987343 original size:44 final size:43
Alignment explanation
Indices: 46987285--46987716 Score: 282
Period size: 44 Copynumber: 9.9 Consensus size: 43
46987275 AAAGATGGCG
46987285 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAA
* * * *
46987328 TAATCCTATCTCCCTGAAGTTGTAGTGGAGCAGATAAAAACCACA
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCA-A
* ** * * * * * *
46987373 GATCTTATCTCTTTGAAGTTGCAGTAGAGTAGATCACA-TC-G
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAA
** * * **
46987414 GGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAA
* * * * * *
46987457 CAAGTCTTATCCCCCCTGAAATTGCAGTGGGGCAGACTGAAGATGGC-G
1 -AA-TCTTAT-CTCCCTGAAGTTGCAGTGGAGCAGA-TTAA-A-GCCAA
*
46987505 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGCCAA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAA
* * *
46987548 TAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATAAAAACCACA
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCA-A
** * * * * * *
46987593 AATCTTATCTCTTTGAAGTTGCAGTAGAGTAGATCACA-TC-G
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAA
** * * * **
46987634 GGTCTTATCTCCTTGAAGTTGCAGTGGAGCAGACTCAAGAAAA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAA
* * *
46987677 CAAGTCTTATC-CCCTTGAAATTGCAGTGGGGCAGACTAAA
1 -AA-TCTTATCTCCC-TGAAGTTGCAGTGGAGCAGATTAAA
46987717 TAAACAAATC
Statistics
Matches: 295, Mismatches: 76, Indels: 33
0.73 0.19 0.08
Matches are distributed among these distances:
41 58 0.20
42 2 0.01
43 3 0.01
44 141 0.48
45 58 0.20
46 28 0.09
47 3 0.01
48 1 0.00
49 1 0.00
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (43 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAA
Found at i:46987658 original size:220 final size:219
Alignment explanation
Indices: 46987276--46987713 Score: 822
Period size: 220 Copynumber: 2.0 Consensus size: 219
46987266 TAAAAGGCTA
*
46987276 AAGATGGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCTATCTCC
1 AAGATGGCGAATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGCCAATAATCCTATCTCC
*
46987341 CTGAAGTTGTAGTGGAGCAGATAAAAACCACAGATCTTATCTCTTTGAAGTTGCAGTAGAGTAGA
66 CTGAAGTTGTAGTGGAGCAGATAAAAACCACAAATCTTATCTCTTTGAAGTTGCAGTAGAGTAGA
46987406 TCACATCGGGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAACAAGTCTTATCCCC
131 TCACATCGGGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAACAAGTCTTAT-CCC
46987471 CCTGAAATTGCAGTGGGGCAGACTG
195 CCTGAAATTGCAGTGGGGCAGACTG
*
46987496 AAGATGGCGAATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGCCAATAATCTTATCTCC
1 AAGATGGCGAATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGCCAATAATCCTATCTCC
46987561 CTGAAGTTGTAGTGGAGCAGATAAAAACCACAAATCTTATCTCTTTGAAGTTGCAGTAGAGTAGA
66 CTGAAGTTGTAGTGGAGCAGATAAAAACCACAAATCTTATCTCTTTGAAGTTGCAGTAGAGTAGA
*
46987626 TCACATCGGGTCTTATCTCCTTGAAGTTGCAGTGGAGCAGACTCAAGAAAACAAGTCTTATCCCC
131 TCACATCGGGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAACAAGTCTTATCCCC
*
46987691 TTGAAATTGCAGTGGGGCAGACT
196 CTGAAATTGCAGTGGGGCAGACT
46987714 AAATAAACAA
Statistics
Matches: 213, Mismatches: 5, Indels: 1
0.97 0.02 0.00
Matches are distributed among these distances:
219 26 0.12
220 187 0.88
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.26
Consensus pattern (219 bp):
AAGATGGCGAATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGCCAATAATCCTATCTCC
CTGAAGTTGTAGTGGAGCAGATAAAAACCACAAATCTTATCTCTTTGAAGTTGCAGTAGAGTAGA
TCACATCGGGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAACAAGTCTTATCCCC
CTGAAATTGCAGTGGGGCAGACTG
Found at i:46988325 original size:21 final size:19
Alignment explanation
Indices: 46988279--46988376 Score: 124
Period size: 19 Copynumber: 4.8 Consensus size: 19
46988269 AATCTTCAAG
46988279 GATATGTAATCTTAGATAT
1 GATATGTAATCTTAGATAT
*
46988298 GATATGCAATCTTAGATAT
1 GATATGTAATCTTAGATAT
*
46988317 GATATATGCAATCTTAGATAT
1 G--ATATGTAATCTTAGATAT
46988338 GATATGTAATCTTAGAAGATAT
1 GATATGTAATCTT---AGATAT
46988360 GATATTGTAATCTTAGA
1 GATA-TGTAATCTTAGA
46988377 GATTTAATTT
Statistics
Matches: 71, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
19 30 0.42
20 3 0.04
21 19 0.27
22 10 0.14
23 9 0.13
ACGTcount: A:0.38, C:0.07, G:0.16, T:0.39
Consensus pattern (19 bp):
GATATGTAATCTTAGATAT
Found at i:46988330 original size:40 final size:41
Alignment explanation
Indices: 46988280--46988376 Score: 144
Period size: 40 Copynumber: 2.4 Consensus size: 41
46988270 ATCTTCAAGG
46988280 ATATGTAATCTTAGATATGATATGCAATCTT-AGATATGAT
1 ATATGTAATCTTAGATATGATATGCAATCTTAAGATATGAT
* *
46988320 ATATGCAATCTTAGATATGATATGTAATCTTAGAAGATATGAT
1 ATATGTAATCTTAGATATGATATGCAATCTT--AAGATATGAT
46988363 AT-TGTAATCTTAGA
1 ATATGTAATCTTAGA
46988377 GATTTAATTT
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
40 29 0.57
42 11 0.22
43 11 0.22
ACGTcount: A:0.38, C:0.07, G:0.15, T:0.39
Consensus pattern (41 bp):
ATATGTAATCTTAGATATGATATGCAATCTTAAGATATGAT
Found at i:46988796 original size:15 final size:14
Alignment explanation
Indices: 46988766--46988807 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
46988756 CCTCTATTTG
*
46988766 TTATTTT-AATTTA
1 TTATTTTAAATTAA
46988779 TTATTATTAAATTAA
1 TTATT-TTAAATTAA
46988794 TTATTTTAATATTA
1 TTATTTTAA-ATTA
46988808 TTAATACTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
13 5 0.20
14 6 0.24
15 14 0.56
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (14 bp):
TTATTTTAAATTAA
Found at i:46988819 original size:23 final size:23
Alignment explanation
Indices: 46988775--46988820 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
46988765 GTTATTTTAA
* *
46988775 TTTATTATTATTAAATTAATTAT
1 TTTAATATTATTAAACTAATTAT
46988798 TTTAATATTATTAATACT-ATTAT
1 TTTAATATTATTAA-ACTAATTAT
46988821 GTGGCATCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 18 0.90
24 2 0.10
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (23 bp):
TTTAATATTATTAAACTAATTAT
Found at i:46993096 original size:19 final size:16
Alignment explanation
Indices: 46993070--46993112 Score: 50
Period size: 19 Copynumber: 2.5 Consensus size: 16
46993060 ACATAAAATG
46993070 TTATTAAAAATTTATATT
1 TTATTAAAAA-TTAT-TT
*
46993088 TTAATTAAATATTATTT
1 TT-ATTAAAAATTATTT
46993105 TTATTAAA
1 TTATTAAA
46993113 TTAGATTTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
16 6 0.26
17 4 0.17
18 6 0.26
19 7 0.30
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
TTATTAAAAATTATTT
Found at i:46993106 original size:17 final size:16
Alignment explanation
Indices: 46993077--46993114 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 16
46993067 ATGTTATTAA
46993077 AAATTTATATTTTAATT
1 AAATTTATATTTT-ATT
46993094 AAATATTAT-TTTTATT
1 AAAT-TTATATTTTATT
46993110 AAATT
1 AAATT
46993115 AGATTTTGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
15 1 0.05
16 7 0.35
17 8 0.40
18 4 0.20
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
AAATTTATATTTTATT
Found at i:46993454 original size:27 final size:27
Alignment explanation
Indices: 46993403--46993454 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
46993393 AGAATAATAA
* *
46993403 ATTTTATATACAATAAATATTTTAATT
1 ATTTTATATAAAATAAATATATTAATT
* *
46993430 ATTTTATATAAAATAACTCTATTAA
1 ATTTTATATAAAATAAATATATTAA
46993455 ATATATATAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.48
Consensus pattern (27 bp):
ATTTTATATAAAATAAATATATTAATT
Found at i:46996924 original size:47 final size:47
Alignment explanation
Indices: 46996855--46996948 Score: 188
Period size: 47 Copynumber: 2.0 Consensus size: 47
46996845 ACTTGAGCAG
46996855 ATACACGGATCCCAACCAACACACCAATTTGACACTAAGTGCCTCAT
1 ATACACGGATCCCAACCAACACACCAATTTGACACTAAGTGCCTCAT
46996902 ATACACGGATCCCAACCAACACACCAATTTGACACTAAGTGCCTCAT
1 ATACACGGATCCCAACCAACACACCAATTTGACACTAAGTGCCTCAT
46996949 TGGGACACCC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.36, C:0.34, G:0.11, T:0.19
Consensus pattern (47 bp):
ATACACGGATCCCAACCAACACACCAATTTGACACTAAGTGCCTCAT
Found at i:46997778 original size:19 final size:18
Alignment explanation
Indices: 46997749--46997784 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
46997739 AATTTGAAAC
46997749 AAAACAGAAAATCTTGGT
1 AAAACAGAAAATCTTGGT
*
46997767 AAAACTAGAAAATTTTGG
1 AAAAC-AGAAAATCTTGG
46997785 AAATAAGGGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.50, C:0.08, G:0.17, T:0.25
Consensus pattern (18 bp):
AAAACAGAAAATCTTGGT
Found at i:47003136 original size:101 final size:102
Alignment explanation
Indices: 47003021--47003205 Score: 320
Period size: 101 Copynumber: 1.8 Consensus size: 102
47003011 AAAGTGATGG
*
47003021 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATGAT-A-GGTCGCATGTGTAGT
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGG-ATGATAATGGTCACATGTGTAGT
47003084 ACTATGTGCAGGCTACTATGCGTACCGGATAGTTTCGA
65 ACTATGTGCAGGCTACTATGCGTACCGGATAGTTTCGA
* *
47003122 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGGTAATGGTCACATGTGTAGTA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATGATAATGGTCACATGTGTAGTA
47003187 CTATGTGCAGGCTACTATG
66 CTATGTGCAGGCTACTATG
47003206 TGAACCGAAC
Statistics
Matches: 79, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
100 4 0.05
101 41 0.52
102 34 0.43
ACGTcount: A:0.23, C:0.18, G:0.29, T:0.31
Consensus pattern (102 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATGATAATGGTCACATGTGTAGTA
CTATGTGCAGGCTACTATGCGTACCGGATAGTTTCGA
Found at i:47003151 original size:51 final size:51
Alignment explanation
Indices: 47003017--47003212 Score: 245
Period size: 51 Copynumber: 3.9 Consensus size: 51
47003007 AGTGAAAGTG
* *
47003017 ATGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGA-A-TG
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTA
* * *
47003066 ATAGGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGT-
1 AT-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTA
* * * * *
47003117 TTCGATCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGGTA
1 AT-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTA
* *
47003169 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGAACCG
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCG
47003213 AACATCATTG
Statistics
Matches: 124, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
49 2 0.02
50 40 0.32
51 80 0.65
52 2 0.02
ACGTcount: A:0.23, C:0.18, G:0.29, T:0.30
Consensus pattern (51 bp):
ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTA
Found at i:47003207 original size:26 final size:26
Alignment explanation
Indices: 47003127--47003207 Score: 64
Period size: 26 Copynumber: 3.2 Consensus size: 26
47003117 TTCGATCACG
47003127 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
* * *
47003153 CGTGTA-T-CGGATG-GTAATGG-TCAC-A
1 TGTGTAGTAC-TATGTG-CA-GGCT-ACTA
47003178 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
47003204 TGTG
1 TGTG
47003208 AACCGAACAT
Statistics
Matches: 40, Mismatches: 6, Indels: 18
0.62 0.09 0.28
Matches are distributed among these distances:
24 2 0.05
25 16 0.40
26 20 0.50
27 2 0.05
ACGTcount: A:0.22, C:0.15, G:0.30, T:0.33
Consensus pattern (26 bp):
TGTGTAGTACTATGTGCAGGCTACTA
Found at i:47003260 original size:45 final size:45
Alignment explanation
Indices: 47003209--47003303 Score: 163
Period size: 45 Copynumber: 2.1 Consensus size: 45
47003199 TACTATGTGA
* * *
47003209 ACCGAACATCATTGATTAGTAAGGTGGTTGCTATGTGCTGATTCC
1 ACCGAACATCATTGATTAATAAGGTGGTTACTATGTGCTGAATCC
47003254 ACCGAACATCATTGATTAATAAGGTGGTTACTATGTGCTGAATCC
1 ACCGAACATCATTGATTAATAAGGTGGTTACTATGTGCTGAATCC
47003299 ACCGA
1 ACCGA
47003304 GTATCTGTTA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.31
Consensus pattern (45 bp):
ACCGAACATCATTGATTAATAAGGTGGTTACTATGTGCTGAATCC
Found at i:47005278 original size:16 final size:16
Alignment explanation
Indices: 47005249--47005313 Score: 69
Period size: 17 Copynumber: 3.9 Consensus size: 16
47005239 GACCAGTTAA
47005249 CGGAGGTGGCGAGCTAG
1 CGGA-GTGGCGAGCTAG
*
47005266 CGGAGTGGTGAGCTAG
1 CGGAGTGGCGAGCTAG
**
47005282 TAGAGTTGGCGAGCTAG
1 CGGAG-TGGCGAGCTAG
47005299 CGGAGGTGGC-AGCTA
1 CGGA-GTGGCGAGCTA
47005314 ACGAAGTGAC
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
16 19 0.47
17 20 0.50
18 1 0.03
ACGTcount: A:0.20, C:0.15, G:0.48, T:0.17
Consensus pattern (16 bp):
CGGAGTGGCGAGCTAG
Found at i:47005297 original size:17 final size:16
Alignment explanation
Indices: 47005254--47005313 Score: 59
Period size: 16 Copynumber: 3.7 Consensus size: 16
47005244 GTTAACGGAG
*
47005254 GTGGCGAGCTAGCGGA
1 GTGGCGAGCTAGCAGA
* *
47005270 GTGGTGAGCTAGTAGA
1 GTGGCGAGCTAGCAGA
*
47005286 GTTGGCGAGCTAGCGGA
1 G-TGGCGAGCTAGCAGA
47005303 GGTGGC-AGCTA
1 -GTGGCGAGCTA
47005314 ACGAAGTGAC
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
16 19 0.53
17 16 0.44
18 1 0.03
ACGTcount: A:0.20, C:0.15, G:0.47, T:0.18
Consensus pattern (16 bp):
GTGGCGAGCTAGCAGA
Found at i:47007208 original size:17 final size:17
Alignment explanation
Indices: 47007183--47007261 Score: 79
Period size: 17 Copynumber: 4.7 Consensus size: 17
47007173 AGTTAGCAGA
* *
47007183 GTGGTGAGCTAGTGAAG
1 GTGGCGAGCTAGTGGAG
47007200 GTGGCGAGCTAGTGGAG
1 GTGGCGAGCTAGTGGAG
* * *
47007217 TTGGCGAACTAGCGGAG
1 GTGGCGAGCTAGTGGAG
* **
47007234 GTGGTGAGCTAGCAGA-
1 GTGGCGAGCTAGTGGAG
47007250 GTGGCGAGCTAG
1 GTGGCGAGCTAG
47007262 AAGAGGTTGC
Statistics
Matches: 52, Mismatches: 10, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
16 11 0.21
17 41 0.79
ACGTcount: A:0.22, C:0.13, G:0.47, T:0.19
Consensus pattern (17 bp):
GTGGCGAGCTAGTGGAG
Found at i:47008141 original size:54 final size:54
Alignment explanation
Indices: 47008039--47008555 Score: 361
Period size: 54 Copynumber: 9.6 Consensus size: 54
47008029 AAGATTCTGG
* ** ** * *
47008039 AAATCTTGTAAGTATAAGGCTGAAATCTTAAATCAGCGAGCTGCAAGATTCAAA
1 AAATCTTGTAAGTATAAGGTTGCGATCTTAAATTGGAGAGCCGCAAGATTCAAA
** * *
47008093 AAATCTTGTAAGTATAAGGTTGCGATCTTAAATTGGAGAGCCATAAGATTTAGA
1 AAATCTTGTAAGTATAAGGTTGCGATCTTAAATTGGAGAGCCGCAAGATTCAAA
* * * * * *
47008147 AAATCTTATAAGTCTAAGGTTGCGGTCTTAAATTGGCA-AACCACAA-ATTCAGA
1 AAATCTTGTAAGTATAAGGTTGCGATCTTAAATTGG-AGAGCCGCAAGATTCAAA
* * * * * **
47008200 TAGTCTTGTAAGTATAAGGCTACGATCTTAAATT-GACGAGTCGCAAGATTTGAA
1 AAATCTTGTAAGTATAAGGTTGCGATCTTAAATTGGA-GAGCCGCAAGATTCAAA
** * * * *
47008254 AAATCTTGTATCTATAAGGGTGTGATCATAAATTGGCA-A-CTTGCAAGATTCAAA
1 AAATCTTGTAAGTATAAGGTTGCGATCTTAAATTGG-AGAGC-CGCAAGATTCAAA
* * * * *
47008308 AAATCTTGTAAGTATAAGGCTT-TGATATTAAA-TCGACGAGCTGCAAGATTCGAA
1 AAATCTTGTAAGTATAAGG-TTGCGATCTTAAATTGGA-GAGCCGCAAGATTCAAA
* * * *** * *
47008362 AAATCTTGTAAGTATAAGGTTGTGATCTTAAATAGGAAAATTGTAGGATTCAAA
1 AAATCTTGTAAGTATAAGGTTGCGATCTTAAATTGGAGAGCCGCAAGATTCAAA
* * * * * *
47008416 AAATCCTATAAGTATAAGGTTGCAATTTTAAATTGGCA-AACCGCAAGATTCGAA
1 AAATCTTGTAAGTATAAGGTTGCGATCTTAAATTGG-AGAGCCGCAAGATTCAAA
* * * * * *
47008470 AAATCTTTTAAGTATAA-GCTACGATCTTAAATTGGCGA-CTGTCGAGATTCAAA
1 AAATCTTGTAAGTATAAGGTTGCGATCTTAAATTGGAGAGCCG-CAAGATTCAAA
* ** *
47008523 AAATCTTGTAAGGATAAGACTGCAATCTTAAAT
1 AAATCTTGTAAGTATAAGGTTGCGATCTTAAAT
47008556 CGATGAGACA
Statistics
Matches: 362, Mismatches: 84, Indels: 34
0.75 0.17 0.07
Matches are distributed among these distances:
51 1 0.00
52 4 0.01
53 81 0.22
54 268 0.74
55 7 0.02
56 1 0.00
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (54 bp):
AAATCTTGTAAGTATAAGGTTGCGATCTTAAATTGGAGAGCCGCAAGATTCAAA
Found at i:47008176 original size:108 final size:109
Alignment explanation
Indices: 47008039--47008555 Score: 460
Period size: 108 Copynumber: 4.8 Consensus size: 109
47008029 AAGATTCTGG
* ** ** *
47008039 AAATCTTGTAAGTATAAGGCTGAAATCTTAAATCAGCGAGCTGCAAGATTCAAAAAATCTTGTAA
1 AAATCTTGTAAGTATAAGGTTGCGATCTTAAATTGGCGAACTGCAAGATTCAAAAAATCTTGTAA
** *
47008104 GTATAAGGTTGCGATCTTAAATTGGA-GAGCCATAAGATT-TAGA
66 GTATAAGGTTGCGATCTTAAATTGGACGAGCCGCAAGATTCGA-A
* * * * ** * * *
47008147 AAATCTTATAAGTCTAAGGTTGCGGTCTTAAATTGGCAAACCACAA-ATTCAGATAGTCTTGTAA
1 AAATCTTGTAAGTATAAGGTTGCGATCTTAAATTGGCGAACTGCAAGATTCAAAAAATCTTGTAA
* * * *
47008211 GTATAAGGCTACGATCTTAAATT-GACGAGTCGCAAGATTTGAA
66 GTATAAGGTTGCGATCTTAAATTGGACGAGCCGCAAGATTCGAA
** * * *
47008254 AAATCTTGTATCTATAAGGGTGTGATCATAAATTGGC-AACTTGCAAGATTCAAAAAATCTTGTA
1 AAATCTTGTAAGTATAAGGTTGCGATCTTAAATTGGCGAAC-TGCAAGATTCAAAAAATCTTGTA
* * * *
47008318 AGTATAAGGCTT-TGATATTAAA-TCGACGAGCTGCAAGATTCGAA
65 AGTATAAGG-TTGCGATCTTAAATTGGACGAGCCGCAAGATTCGAA
* * ** * * * * *
47008362 AAATCTTGTAAGTATAAGGTTGTGATCTTAAATAGGAAAATTGTAGGATTCAAAAAATCCTATAA
1 AAATCTTGTAAGTATAAGGTTGCGATCTTAAATTGGCGAACTGCAAGATTCAAAAAATCTTGTAA
* * * *
47008427 GTATAAGGTTGCAATTTTAAATTGG-CAAACCGCAAGATTCGAA
66 GTATAAGGTTGCGATCTTAAATTGGACGAGCCGCAAGATTCGAA
* * * *
47008470 AAATCTTTTAAGTATAA-GCTACGATCTTAAATTGGCG-ACTGTCGAGATTCAAAAAATCTTGTA
1 AAATCTTGTAAGTATAAGGTTGCGATCTTAAATTGGCGAACTG-CAAGATTCAAAAAATCTTGTA
* ** *
47008533 AGGATAAGACTGCAATCTTAAAT
65 AGTATAAGGTTGCGATCTTAAAT
47008556 CGATGAGACA
Statistics
Matches: 324, Mismatches: 75, Indels: 21
0.77 0.18 0.05
Matches are distributed among these distances:
106 8 0.02
107 131 0.40
108 180 0.56
109 5 0.02
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (109 bp):
AAATCTTGTAAGTATAAGGTTGCGATCTTAAATTGGCGAACTGCAAGATTCAAAAAATCTTGTAA
GTATAAGGTTGCGATCTTAAATTGGACGAGCCGCAAGATTCGAA
Found at i:47008527 original size:269 final size:267
Alignment explanation
Indices: 47008022--47008532 Score: 661
Period size: 269 Copynumber: 1.9 Consensus size: 267
47008012 CTTAAACCGA
*** *
47008022 CAACTGCAAGATTCTGGAAATCTTGTAAGTATAAGGCTGAAATCTTAAATCAGCGAGCTGCAAGA
1 CAACTGCAAGATTCAAAAAATCTTGTAAGTATAAGGCTGAAATATTAAATCAGCGAGCTGCAAGA
* * * * *
47008087 TTCAAAAAATCTTGTAAGTATAAGGTTGCGATCTTAAATTGGAGAGCCATAAGATTTAGAAAATC
66 TTCAAAAAATCTTGTAAGTATAAGGTTGCGATCTTAAATAGGAAAACCATAAGATTCAAAAAATC
* * ** * *
47008152 TTATAAGTCTAAGGTTGCGGTCTTAAATTGGCAAACCACAAATTCAGATAGTCTTGTAAGTATAA
131 CTATAAGTATAAGGTTGCAATCTTAAATTGGCAAACCACAAATTCAGAAAATCTTGTAAGTATAA
**
47008217 GGCTACGATCTTAAATTGACGAGTCGCAAGATTTGAAAAATCTTGTATCTATAAGGGTGTGATCA
196 GGCTACGATCTTAAATTGACGAGTCG-AAGATTCAAAAAATCTTGTATCTATAAGGGTGTGATCA
47008282 TAAATTGG
260 TAAATTGG
***
47008290 CAACTTGCAAGATTCAAAAAATCTTGTAAGTATAAGGCTTTGATATTAAATC-GACGAGCTGCAA
1 CAAC-TGCAAGATTCAAAAAATCTTGTAAGTATAAGGCTGAAATATTAAATCAG-CGAGCTGCAA
* * *** *
47008354 GATTCGAAAAATCTTGTAAGTATAAGGTTGTGATCTTAAATAGGAAAATTGTAGGATTCAAAAAA
64 GATTCAAAAAATCTTGTAAGTATAAGGTTGCGATCTTAAATAGGAAAACCATAAGATTCAAAAAA
* * *
47008419 TCCTATAAGTATAAGGTTGCAATTTTAAATTGGCAAACCGCAAGATTC-GAAAAATCTTTTAAGT
129 TCCTATAAGTATAAGGTTGCAATCTTAAATTGGCAAACCACAA-ATTCAG-AAAATCTTGTAAGT
*
47008483 ATAA-GCTACGATCTTAAATTGGCGACTGTCG-AGATTCAAAAAATCTTGTA
192 ATAAGGCTACGATCTTAAATTGACGA--GTCGAAGATTCAAAAAATCTTGTA
47008533 AGGATAAGAC
Statistics
Matches: 207, Mismatches: 30, Indels: 11
0.83 0.12 0.04
Matches are distributed among these distances:
268 5 0.02
269 179 0.86
270 19 0.09
271 4 0.02
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (267 bp):
CAACTGCAAGATTCAAAAAATCTTGTAAGTATAAGGCTGAAATATTAAATCAGCGAGCTGCAAGA
TTCAAAAAATCTTGTAAGTATAAGGTTGCGATCTTAAATAGGAAAACCATAAGATTCAAAAAATC
CTATAAGTATAAGGTTGCAATCTTAAATTGGCAAACCACAAATTCAGAAAATCTTGTAAGTATAA
GGCTACGATCTTAAATTGACGAGTCGAAGATTCAAAAAATCTTGTATCTATAAGGGTGTGATCAT
AAATTGG
Found at i:47008718 original size:29 final size:29
Alignment explanation
Indices: 47008672--47008754 Score: 139
Period size: 29 Copynumber: 2.9 Consensus size: 29
47008662 TGTAAGTAGC
* *
47008672 GAATTGAGGGAAGAAGAAAACCATGGAGT
1 GAATTGAGGGAAGGAGAAAATCATGGAGT
*
47008701 GAATTGAGAGAAGGAGAAAATCATGGAGT
1 GAATTGAGGGAAGGAGAAAATCATGGAGT
47008730 GAATTGAGGGAAGGAGAAAATCATG
1 GAATTGAGGGAAGGAGAAAATCATG
47008755 CCATTTTCAT
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 50 1.00
ACGTcount: A:0.45, C:0.05, G:0.35, T:0.16
Consensus pattern (29 bp):
GAATTGAGGGAAGGAGAAAATCATGGAGT
Found at i:47010185 original size:3 final size:3
Alignment explanation
Indices: 47010177--47010210 Score: 50
Period size: 3 Copynumber: 11.0 Consensus size: 3
47010167 AAGATGAAAC
*
47010177 TAA TAA TAA TTAA TAG TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA
47010211 CAACACTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 25 0.89
4 3 0.11
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:47013987 original size:29 final size:29
Alignment explanation
Indices: 47013947--47014103 Score: 199
Period size: 29 Copynumber: 5.4 Consensus size: 29
47013937 TCATCGACCA
* * *
47013947 ATGAAAGGGGATAGTTTCGGCTATCGATT
1 ATGAAAAGGGATAGCTTCGACTATCGATT
* * * *
47013976 ATGAAAAGGGAT-GGTGACGACCATCGAAT
1 ATGAAAAGGGATAGCT-TCGACTATCGATT
47014005 ATGAAAAGGGATAGCTTCGACTATCGATT
1 ATGAAAAGGGATAGCTTCGACTATCGATT
* * * *
47014034 ATGAAACGGGATAGCTTCAAGTAGCGATT
1 ATGAAAAGGGATAGCTTCGACTATCGATT
47014063 ATGAAAAGGGATAGCTTCGACTATCGATT
1 ATGAAAAGGGATAGCTTCGACTATCGATT
47014092 ATGAAAAGGGAT
1 ATGAAAAGGGAT
47014104 GGTGACGACC
Statistics
Matches: 108, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
28 2 0.02
29 104 0.96
30 2 0.02
ACGTcount: A:0.35, C:0.12, G:0.28, T:0.25
Consensus pattern (29 bp):
ATGAAAAGGGATAGCTTCGACTATCGATT
Found at i:47014010 original size:58 final size:58
Alignment explanation
Indices: 47013947--47014190 Score: 260
Period size: 58 Copynumber: 4.2 Consensus size: 58
47013937 TCATCGACCA
* * *
47013947 ATGAAAGGGGATAGTTTCGGCTATCGATTATGAAAAGGGATGGTGACGACCATCGAAT
1 ATGAAAAGGGATAGCTTCGACTATCGATTATGAAAAGGGATGGTGACGACCATCGAAT
* * * * ** * *
47014005 ATGAAAAGGGATAGCTTCGACTATCGATTATGAAACGGGATAGCT-TCAAGTAGCGATT
1 ATGAAAAGGGATAGCTTCGACTATCGATTATGAAAAGGGAT-GGTGACGACCATCGAAT
47014063 ATGAAAAGGGATAGCTTCGACTATCGATTATGAAAAGGGATGGTGACGACCATC-AACT
1 ATGAAAAGGGATAGCTTCGACTATCGATTATGAAAAGGGATGGTGACGACCATCGAA-T
* * * * * ***
47014121 ATCAAAAGGGAT-GGTGACGACCATCGATTAATGAAAAAGGATGGTTTTGACCATCGAAT
1 ATGAAAAGGGATAGCT-TCGACTATCGATT-ATGAAAAGGGATGGTGACGACCATCGAAT
47014180 ATGAAAAGGGA
1 ATGAAAAGGGA
47014191 CGGTTACGAC
Statistics
Matches: 152, Mismatches: 28, Indels: 11
0.80 0.15 0.06
Matches are distributed among these distances:
57 5 0.03
58 111 0.73
59 34 0.22
60 2 0.01
ACGTcount: A:0.36, C:0.13, G:0.27, T:0.23
Consensus pattern (58 bp):
ATGAAAAGGGATAGCTTCGACTATCGATTATGAAAAGGGATGGTGACGACCATCGAAT
Found at i:47014112 original size:29 final size:28
Alignment explanation
Indices: 47013969--47014205 Score: 195
Period size: 29 Copynumber: 8.1 Consensus size: 28
47013959 AGTTTCGGCT
47013969 ATCGATTATGAAAAGGGATGGTGACGACC
1 ATCGATTATGAAAAGGGATGGT-ACGACC
* * * *
47013998 ATCGAATATGAAAAGGGATAGCTTCGACT
1 ATCGATTATGAAAAGGGAT-GGTACGACC
* * * * **
47014027 ATCGATTATGAAACGGGATAGCTTCAAGT
1 ATCGATTATGAAAAGGGAT-GGTACGACC
* * * *
47014056 AGCGATTATGAAAAGGGATAGCTTCGACT
1 ATCGATTATGAAAAGGGAT-GGTACGACC
47014085 ATCGATTATGAAAAGGGATGGTGACGACC
1 ATCGATTATGAAAAGGGATGGT-ACGACC
* * *
47014114 ATCAACTATCAAAAGGGATGGTGACGACC
1 ATCGATTATGAAAAGGGATGGT-ACGACC
* **
47014143 ATCGATTAATGAAAAAGGATGGTTTTGACC
1 ATCGATT-ATGAAAAGGGATGG-TACGACC
* *
47014173 ATCGAATATGAAAAGGGACGGTTACGACC
1 ATCGATTATGAAAAGGGATGG-TACGACC
47014202 ATCG
1 ATCG
47014206 TTTAGCACAC
Statistics
Matches: 174, Mismatches: 30, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
28 2 0.01
29 147 0.84
30 24 0.14
31 1 0.01
ACGTcount: A:0.36, C:0.15, G:0.27, T:0.23
Consensus pattern (28 bp):
ATCGATTATGAAAAGGGATGGTACGACC
Found at i:47018125 original size:13 final size:13
Alignment explanation
Indices: 47018086--47018137 Score: 52
Period size: 13 Copynumber: 3.9 Consensus size: 13
47018076 TTTAAATTTG
47018086 TTGTTCATTTTGATA
1 TTGTTCATTTT--TA
* *
47018101 TTGTTTAGTTTTA
1 TTGTTCATTTTTA
47018114 TTGTTCATTTTTA
1 TTGTTCATTTTTA
*
47018127 -TATTCATTTTT
1 TTGTTCATTTTT
47018138 GTTAATTAGT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
12 10 0.31
13 13 0.41
15 9 0.28
ACGTcount: A:0.17, C:0.06, G:0.10, T:0.67
Consensus pattern (13 bp):
TTGTTCATTTTTA
Found at i:47018544 original size:20 final size:20
Alignment explanation
Indices: 47018508--47018545 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
47018498 AATTTATAAA
*
47018508 TTTTAATTAAAGTTAAAATG
1 TTTTAATTAAAGATAAAATG
47018528 TTTTATATTAAA-ATAAAA
1 TTTTA-ATTAAAGATAAAA
47018546 AATTATAATC
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (20 bp):
TTTTAATTAAAGATAAAATG
Found at i:47018546 original size:21 final size:20
Alignment explanation
Indices: 47018508--47018546 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
47018498 AATTTATAAA
* *
47018508 TTTTAATTAAAGTTAAAATG
1 TTTTAATTAAAATAAAAATG
47018528 TTTTATATTAAAATAAAAA
1 TTTTA-ATTAAAATAAAAA
47018547 ATTATAATCT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (20 bp):
TTTTAATTAAAATAAAAATG
Found at i:47021156 original size:22 final size:23
Alignment explanation
Indices: 47021122--47021167 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
47021112 AAATATATGA
47021122 AAAAAATAGAAATATGTATATAT
1 AAAAAATAGAAATATGTATATAT
* *
47021145 AAAAATTA-AAATATGTATGTAT
1 AAAAAATAGAAATATGTATATAT
47021167 A
1 A
47021168 TAGGTATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 14 0.67
23 7 0.33
ACGTcount: A:0.59, C:0.00, G:0.09, T:0.33
Consensus pattern (23 bp):
AAAAAATAGAAATATGTATATAT
Found at i:47021593 original size:3 final size:3
Alignment explanation
Indices: 47021585--47021637 Score: 63
Period size: 3 Copynumber: 17.0 Consensus size: 3
47021575 ATATGTAAGT
*
47021585 ATA ATA ATA ATA GTA AGTA AT- ATA ATA ATA ATTA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA A-TA ATA ATA ATA ATA
47021631 AGTA ATA
1 A-TA ATA
47021638 GTAGCAATGA
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
2 2 0.05
3 33 0.75
4 9 0.20
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:47021602 original size:18 final size:17
Alignment explanation
Indices: 47021580--47021637 Score: 70
Period size: 16 Copynumber: 3.6 Consensus size: 17
47021570 TATATATATG
*
47021580 TAAGTATAATAATAATAG
1 TAAGT-TAATAATAATAA
47021598 TAAG-TAAT-ATAATAA
1 TAAGTTAATAATAATAA
47021613 TAA-TTAATAATAATAA
1 TAAGTTAATAATAATAA
47021629 TAAG-TAATA
1 TAAGTTAATA
47021638 GTAGCAATGA
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
15 13 0.36
16 19 0.53
18 4 0.11
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.34
Consensus pattern (17 bp):
TAAGTTAATAATAATAA
Found at i:47022927 original size:45 final size:45
Alignment explanation
Indices: 47022877--47023499 Score: 558
Period size: 45 Copynumber: 14.0 Consensus size: 45
47022867 ATAAGACTTG
* *
47022877 TATCTTCGATCTACTTCGCCACCAATATAGGAAGACAAGATCTGC
1 TATCTTCGATCTACTTCGCCGCCAATACAGGAAGACAAGATCTGC
* * *
47022922 TATCTTCGATCTACTTC-ACTCCAATACATGAAGACAAGATCTGC
1 TATCTTCGATCTACTTCGCCGCCAATACAGGAAGACAAGATCTGC
* * *
47022966 TATCTTCGATCTACTTC-ACACCAATACATGAAGACAAGATCTGC
1 TATCTTCGATCTACTTCGCCGCCAATACAGGAAGACAAGATCTGC
* * ** * *
47023010 AATCCTCTGATCTACTTC-ATGCTAGA-ACATGAAGACAAGATCTGC
1 TATCTTC-GATCTACTTCGCCGCCA-ATACAGGAAGACAAGATCTGC
* * * * **
47023055 TTTCTTCGATCTACTTGGCCACCAGTATGGGAAGACAAGATCTGC
1 TATCTTCGATCTACTTCGCCGCCAATACAGGAAGACAAGATCTGC
** * * *
47023100 TATCTTTAATCTGCTTC-ACGCCAATACATGAAGACAAGATCTGC
1 TATCTTCGATCTACTTCGCCGCCAATACAGGAAGACAAGATCTGC
* * * * * * * **
47023144 TTTATTTGATCTACTTCGCTGCCAGTACAAGAAGACAAGATTTAT
1 TATCTTCGATCTACTTCGCCGCCAATACAGGAAGACAAGATCTGC
* * * *
47023189 TTTCTTCGATCTACTTCGCCACCAGTATAGGAAGACAAGATCTGC
1 TATCTTCGATCTACTTCGCCGCCAATACAGGAAGACAAGATCTGC
* * ** *
47023234 TATCTTTGATCTACGTC-ATGCCAATACATGAAGACAAGATCTGC
1 TATCTTCGATCTACTTCGCCGCCAATACAGGAAGACAAGATCTGC
* * * * * * *
47023278 TTTATTAGATCTACTTCGCTGTCAGTACAGGAAGACAAGATCTGT
1 TATCTTCGATCTACTTCGCCGCCAATACAGGAAGACAAGATCTGC
* * * * **
47023323 TTTCTTTGATCTACTTCGCCACCAACATGGGAAGACAAGATCTGC
1 TATCTTCGATCTACTTCGCCGCCAATACAGGAAGACAAGATCTGC
* * *
47023368 TATCTTCGATCTACTTC-ACGCGAATACATGAAGACAAGATCTGC
1 TATCTTCGATCTACTTCGCCGCCAATACAGGAAGACAAGATCTGC
* * * ** *
47023412 TATCTTCAATCTACTTCACCGCCAGTATGGGAAGACAAGATTTGC
1 TATCTTCGATCTACTTCGCCGCCAATACAGGAAGACAAGATCTGC
* * * *
47023457 TATCTTTGATCTACTTCACTGCCAGTACAGGAAGACAAGATCT
1 TATCTTCGATCTACTTCGCCGCCAATACAGGAAGACAAGATCT
47023500 ATTGCCTTTT
Statistics
Matches: 467, Mismatches: 104, Indels: 14
0.80 0.18 0.02
Matches are distributed among these distances:
44 184 0.39
45 282 0.60
46 1 0.00
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.29
Consensus pattern (45 bp):
TATCTTCGATCTACTTCGCCGCCAATACAGGAAGACAAGATCTGC
Found at i:47023028 original size:89 final size:89
Alignment explanation
Indices: 47022877--47023499 Score: 519
Period size: 89 Copynumber: 7.0 Consensus size: 89
47022867 ATAAGACTTG
* * *
47022877 TATCTTCGATCTACTTCGCCACCAATATAGGAAGACAAGATCTGCTATCTTC-GATCTACTTCAC
1 TATCTTCGATCTACTTC-ACACCAATACAGGAAGACAAGATCTGCTATCCTCTGATCTACTTCAC
47022941 TCCAATACATGAAGACAAGATCTGC
65 TCCAATACATGAAGACAAGATCTGC
* *
47022966 TATCTTCGATCTACTTCACACCAATACATGAAGACAAGATCTGCAATCCTCTGATCTACTTCA-T
1 TATCTTCGATCTACTTCACACCAATACAGGAAGACAAGATCTGCTATCCTCTGATCTACTTCACT
*
47023030 GCTAGA-ACATGAAGACAAGATCTGC
66 -CCA-ATACATGAAGACAAGATCTGC
* * ** * * *
47023055 TTTCTTCGATCTACTTGGC-CACCAGTATGGGAAGACAAGATCTGCTAT-CTTTAATCTGCTTCA
1 TATCTTCGATCTACTT--CACACCAATACAGGAAGACAAGATCTGCTATCCTCTGATCTACTTCA
*
47023118 CGCCAATACATGAAGACAAGATCTGC
64 CTCCAATACATGAAGACAAGATCTGC
* * * * * * * * ** * * *
47023144 TTTATTTGATCTACTTCGCTGCCAGTACAAGAAGACAAGATTTATTTTCTTC-GATCTACTTCGC
1 TATCTTCGATCTACTTCAC-ACCAATACAGGAAGACAAGATCTGCTATCCTCTGATCTACTTC-A
* * * *
47023208 CACCAGTATAGGAAGACAAGATCTGC
64 CTCCAATACATGAAGACAAGATCTGC
* * ** * ** *
47023234 TATCTTTGATCTACGTCATGCCAATACATGAAGACAAGATCTGCT-TTAT-TAGATCTACTTCGC
1 TATCTTCGATCTACTTCACACCAATACAGGAAGACAAGATCTGCTATCCTCT-GATCTACTTCAC
* * * *
47023297 TGTCAGTACAGGAAGACAAGATCTGT
65 T-CCAATACATGAAGACAAGATCTGC
* * * * ** *
47023323 TTTCTTTGATCTACTTCGCCACCAACATGGGAAGACAAGATCTGCTATCTTC-GATCTACTTCAC
1 TATCTTCGATCTACTTC-ACACCAATACAGGAAGACAAGATCTGCTATCCTCTGATCTACTTCAC
* *
47023387 GCGAATACATGAAGACAAGATCTGC
65 TCCAATACATGAAGACAAGATCTGC
* * * ** * *
47023412 TATCTTCAATCTACTTCACCGCCAGTATGGGAAGACAAGATTTGCTAT-CTTTGATCTACTTCAC
1 TATCTTCGATCTACTTCA-CACCAATACAGGAAGACAAGATCTGCTATCCTCTGATCTACTTCAC
* *
47023476 TGCCAGTACAGGAAGACAAGATCT
65 T-CCAATACATGAAGACAAGATCT
47023500 ATTGCCTTTT
Statistics
Matches: 429, Mismatches: 85, Indels: 39
0.78 0.15 0.07
Matches are distributed among these distances:
87 1 0.00
88 36 0.08
89 276 0.64
90 113 0.26
91 3 0.01
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.29
Consensus pattern (89 bp):
TATCTTCGATCTACTTCACACCAATACAGGAAGACAAGATCTGCTATCCTCTGATCTACTTCACT
CCAATACATGAAGACAAGATCTGC
Found at i:47023124 original size:134 final size:134
Alignment explanation
Indices: 47022907--47023499 Score: 640
Period size: 134 Copynumber: 4.4 Consensus size: 134
47022897 ACCAATATAG
* * * * *
47022907 GAAGACAAGATCTGCTATCTTCGATCTACTTC-ACTCCAATACATGAAGACAAGATCTGCTATCT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATAGGAAGACAAGATCTGCTATCT
* *
47022971 TCGATCTACTTCACACCAATACATGAAGACAAGATCTGCAATCCTCTGATCTACTTC-ATGCTAG
66 TCGATCTACTTCACGCCAATACATGAAGACAAGATCTGC-ATCATCTGATCTACTTCGATGCTAG
* *
47023035 AACAT
130 TACAA
* * *
47023040 GAAGACAAGATCTGCTTTCTTCGATCTACTTGGCCACCAGTATGGGAAGACAAGATCTGCTATCT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATAGGAAGACAAGATCTGCTATCT
** * * * * * *
47023105 TTAATCTGCTTCACGCCAATACATGAAGACAAGATCTGCTTTATTTGATCTACTTCGCTGCCAGT
66 TCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCATCATCTGATCTACTTCGATGCTAGT
47023170 ACAA
131 ACAA
* ** *
47023174 GAAGACAAGATTTATTTTCTTCGATCTACTTCGCCACCAGTATAGGAAGACAAGATCTGCTATCT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATAGGAAGACAAGATCTGCTATCT
* * * * * *
47023239 TTGATCTACGTCATGCCAATACATGAAGACAAGATCTGCTTTAT-TAGATCTACTTCGCTG-TCA
66 TCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCATCATCT-GATCTACTTCGATGCT-A
*
47023302 GTACAG
129 GTACAA
* * * *
47023308 GAAGACAAGATCTGTTTTCTTTGATCTACTTCGCCACCAACATGGGAAGACAAGATCTGCTATCT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATAGGAAGACAAGATCTGCTATCT
* * * * *
47023373 TCGATCTACTTCACGCGAATACATGAAGACAAGATCTGCTATCTTC-AATCTACTTC-ACCGCCA
66 TCGATCTACTTCACGCCAATACATGAAGACAAGATCTGC-ATCATCTGATCTACTTCGA-TGCTA
***
47023436 GTATGG
129 GTACAA
* * * * ** * *
47023442 GAAGACAAGATTTGCTATCTTTGATCTACTTCACTGCCAGTACAGGAAGACAAGATCT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATAGGAAGACAAGATCT
47023500 ATTGCCTTTT
Statistics
Matches: 392, Mismatches: 60, Indels: 15
0.84 0.13 0.03
Matches are distributed among these distances:
133 44 0.11
134 346 0.88
135 2 0.01
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.29
Consensus pattern (134 bp):
GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATAGGAAGACAAGATCTGCTATCT
TCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCATCATCTGATCTACTTCGATGCTAGT
ACAA
Found at i:47023317 original size:268 final size:267
Alignment explanation
Indices: 47022907--47023499 Score: 751
Period size: 268 Copynumber: 2.2 Consensus size: 267
47022897 ACCAATATAG
* * * * * *
47022907 GAAGACAAGATCTGCTATCTTCGATCTACTTCACTCCAATACATGAAGACAAGATCTGCTATCTT
1 GAAGACAAGATTTACTATCTTCGATCTACTTCCCACCAGTACAGGAAGACAAGATCTGCTATCTT
* *
47022972 CGATCTACTTCACACCAATACATGAAGACAAGATCTGCAATCCTCTGATCTACTTCATGCTAGAA
66 CGATCTACGTCACACCAATACATGAAGACAAGATCTGCAATCATCTGATCTACTTCATGCTAGAA
* * **
47023037 CATGAAGACAAGATCTGCTTTCTTCGATCTACTTGGCCACCAGTATGGGAAGACAAGATCTGCTA
131 CAGGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAACATGGGAAGACAAGATCTGCTA
* * * ** * *
47023102 TCTTTAATCTGCTTCACGCCAATACATGAAGACAAGATCTGCTTTATTTGATCTACTTCGCTGCC
196 TCTTCAATCTACTTCACGCCAATACATGAAGACAAGATCTGCTATATTCAATCTACTTCACCGCC
47023167 AGTACAA
261 AGTACAA
* * *
47023174 GAAGACAAGATTTATTTTCTTCGATCTACTTCGCCACCAGTATAGGAAGACAAGATCTGCTATCT
1 GAAGACAAGATTTACTATCTTCGATCTACTTC-CCACCAGTACAGGAAGACAAGATCTGCTATCT
* ** * * *
47023239 TTGATCTACGTCATGCCAATACATGAAGACAAGATCTGC-TTTAT-TAGATCTACTTCGCTG-TC
65 TCGATCTACGTCACACCAATACATGAAGACAAGATCTGCAATCATCT-GATCTACTTC-ATGCT-
* * *
47023301 AGTACAGGAAGACAAGATCTGTTTTCTTTGATCTACTTCGCCACCAACATGGGAAGACAAGATCT
127 AGAACAGGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAACATGGGAAGACAAGATCT
* * *
47023366 GCTATCTTCGATCTACTTCACGCGAATACATGAAGACAAGATCTGCTATCTTCAATCTACTTCAC
192 GCTATCTTCAATCTACTTCACGCCAATACATGAAGACAAGATCTGCTATATTCAATCTACTTCAC
***
47023431 CGCCAGTATGG
257 CGCCAGTACAA
* * **
47023442 GAAGACAAGATTTGCTATCTTTGATCTACTTCACTGCCAGTACAGGAAGACAAGATCT
1 GAAGACAAGATTTACTATCTTCGATCTACTTC-CCACCAGTACAGGAAGACAAGATCT
47023500 ATTGCCTTTT
Statistics
Matches: 277, Mismatches: 45, Indels: 7
0.84 0.14 0.02
Matches are distributed among these distances:
266 1 0.00
267 41 0.15
268 235 0.85
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.29
Consensus pattern (267 bp):
GAAGACAAGATTTACTATCTTCGATCTACTTCCCACCAGTACAGGAAGACAAGATCTGCTATCTT
CGATCTACGTCACACCAATACATGAAGACAAGATCTGCAATCATCTGATCTACTTCATGCTAGAA
CAGGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAACATGGGAAGACAAGATCTGCTA
TCTTCAATCTACTTCACGCCAATACATGAAGACAAGATCTGCTATATTCAATCTACTTCACCGCC
AGTACAA
Found at i:47024816 original size:28 final size:28
Alignment explanation
Indices: 47024784--47024848 Score: 89
Period size: 28 Copynumber: 2.3 Consensus size: 28
47024774 TTATCCTCTC
47024784 CATTTTACTTTTTCCA-TTTTTCATTTC-T
1 CATTTTAC-TTTT-CATTTTTTCATTTCAT
47024812 CATTTTCACTTTTCATTTTTTCATTTCAT
1 CATTTT-ACTTTTCATTTTTTCATTTCAT
47024841 CATTTTAC
1 CATTTTAC
47024849 GACTCAAAGT
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
27 2 0.06
28 23 0.68
29 9 0.26
ACGTcount: A:0.17, C:0.22, G:0.00, T:0.62
Consensus pattern (28 bp):
CATTTTACTTTTCATTTTTTCATTTCAT
Found at i:47035504 original size:19 final size:19
Alignment explanation
Indices: 47035480--47035519 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
47035470 TTCCAGGGAA
* *
47035480 ATACTTTTAGAAATACTCT
1 ATACTTTCAAAAATACTCT
47035499 ATACTTTCAAAAATACTCT
1 ATACTTTCAAAAATACTCT
47035518 AT
1 AT
47035520 CGCAAATTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.40, C:0.17, G:0.03, T:0.40
Consensus pattern (19 bp):
ATACTTTCAAAAATACTCT
Found at i:47046909 original size:12 final size:12
Alignment explanation
Indices: 47046894--47046926 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
47046884 TAAAATAAAA
47046894 AATATATAATAT
1 AATATATAATAT
47046906 AATATATAATAT
1 AATATATAATAT
47046918 -ATA-ATAATA
1 AATATATAATA
47046927 AAAAACTCGA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 6 0.29
11 3 0.14
12 12 0.57
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (12 bp):
AATATATAATAT
Found at i:47049519 original size:13 final size:13
Alignment explanation
Indices: 47049480--47049522 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
47049470 TTTTTGGTGC
*
47049480 TATATATATTTGT
1 TATATATAGTTGT
* *
47049493 TGTTTATAGCTTGT
1 TATATATAG-TTGT
47049507 TATATATAGTTGT
1 TATATATAGTTGT
47049520 TAT
1 TAT
47049523 TTTTAGTATT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
13 13 0.54
14 11 0.46
ACGTcount: A:0.26, C:0.02, G:0.14, T:0.58
Consensus pattern (13 bp):
TATATATAGTTGT
Found at i:47052448 original size:31 final size:30
Alignment explanation
Indices: 47052410--47052469 Score: 84
Period size: 31 Copynumber: 2.0 Consensus size: 30
47052400 AGAGCCACCA
* *
47052410 AACTATTCGATAGTTTTAATTTAAGTCACTG
1 AACTATTCGAAAATTTTAATTTAA-TCACTG
*
47052441 AACTATTCGAAAATTTTTATTTAATCACT
1 AACTATTCGAAAATTTTAATTTAATCACT
47052470 TATTTGTTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 5 0.19
31 21 0.81
ACGTcount: A:0.35, C:0.13, G:0.08, T:0.43
Consensus pattern (30 bp):
AACTATTCGAAAATTTTAATTTAATCACTG
Found at i:47056764 original size:30 final size:30
Alignment explanation
Indices: 47056728--47056788 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
47056718 CAATGTCCTA
47056728 GTCCACAAGCTTACCTCACTCGAAGACCTC
1 GTCCACAAGCTTACCTCACTCGAAGACCTC
47056758 GTCCACAAGCTTACCTCACTCGAAGACCTC
1 GTCCACAAGCTTACCTCACTCGAAGACCTC
47056788 G
1 G
47056789 CCAGTCTTGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.26, C:0.39, G:0.15, T:0.20
Consensus pattern (30 bp):
GTCCACAAGCTTACCTCACTCGAAGACCTC
Found at i:47061795 original size:40 final size:40
Alignment explanation
Indices: 47061750--47061873 Score: 132
Period size: 40 Copynumber: 3.2 Consensus size: 40
47061740 CACCCAATTC
*
47061750 CTCATCGGATAATTCGAAGTAGTAAATTGACACCCAGTGT
1 CTCATCGGATAATACGAAGTAGTAAATTGACACCCAGTGT
* * *
47061790 CTCATCGGTTAA-ACTG-A--AGTAAATTGGCACCC-GTGC
1 CTCATCGGATAATAC-GAAGTAGTAAATTGACACCCAGTGT
* * *
47061826 CTCATCGAATAAATCCGAAGTAGTAAATTGACACCTAGTGT
1 CTCATCGGAT-AATACGAAGTAGTAAATTGACACCCAGTGT
47061867 CTCATCG
1 CTCATCG
47061874 ACTCGAAGTC
Statistics
Matches: 67, Mismatches: 10, Indels: 13
0.74 0.11 0.14
Matches are distributed among these distances:
36 11 0.16
37 17 0.25
38 2 0.03
39 2 0.03
40 25 0.37
41 10 0.15
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (40 bp):
CTCATCGGATAATACGAAGTAGTAAATTGACACCCAGTGT
Found at i:47062779 original size:22 final size:23
Alignment explanation
Indices: 47062754--47062798 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
47062744 CGTCTATTTC
*
47062754 TTTC-TCCTTTTCTTTCTTTTTT
1 TTTCTTCCTTTCCTTTCTTTTTT
*
47062776 TTTCTTTCTTTCCTTTCTTTTTT
1 TTTCTTCCTTTCCTTTCTTTTTT
47062799 CCTTTTGGCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (23 bp):
TTTCTTCCTTTCCTTTCTTTTTT
Found at i:47064287 original size:40 final size:40
Alignment explanation
Indices: 47064243--47064415 Score: 251
Period size: 40 Copynumber: 4.3 Consensus size: 40
47064233 ATCCAATGTT
* *
47064243 TCATTTTATATATCTATTTCCATATAACCGATTCATATAA
1 TCATTTCATATATCTATTTCCATATAACTGATTCATATAA
47064283 TCATTTCATATATCTATTTCCATATAACTGATTCATATAA
1 TCATTTCATATATCTATTTCCATATAACTGATTCATATAA
* * *
47064323 TCATTTCATATATTTACTTCCATATAACTGATTCGTATAA
1 TCATTTCATATATCTATTTCCATATAACTGATTCATATAA
* *
47064363 CCATCTT-ATATATCTATTTCCATATAAATGATTCATATAA
1 TCAT-TTCATATATCTATTTCCATATAACTGATTCATATAA
47064403 -CTATTTCATATAT
1 TC-ATTTCATATAT
47064416 TCATTATTCA
Statistics
Matches: 120, Mismatches: 10, Indels: 6
0.88 0.07 0.04
Matches are distributed among these distances:
39 3 0.03
40 115 0.96
41 2 0.02
ACGTcount: A:0.35, C:0.17, G:0.03, T:0.45
Consensus pattern (40 bp):
TCATTTCATATATCTATTTCCATATAACTGATTCATATAA
Found at i:47064410 original size:13 final size:13
Alignment explanation
Indices: 47064245--47064414 Score: 93
Period size: 13 Copynumber: 12.8 Consensus size: 13
47064235 CCAATGTTTC
* *
47064245 ATTTTATATATCT
1 ATTTCATATAACT
*
47064258 ATTTCCATATAACCG
1 ATTT-CATATAA-CT
47064273 A-TTCATATAA-T
1 ATTTCATATAACT
*
47064284 CATTTCATATATCT
1 -ATTTCATATAACT
47064298 ATTTCCATATAACT
1 ATTT-CATATAACT
47064312 GA-TTCATATAA-T
1 -ATTTCATATAACT
**
47064324 CATTTCATATATTT
1 -ATTTCATATAACT
*
47064338 ACTTCCATATAACT
1 A-TTTCATATAACT
* *
47064352 GA-TTCGTATAACC
1 -ATTTCATATAACT
*
47064365 ATCTT-ATATATCT
1 AT-TTCATATAACT
*
47064378 ATTTCCATATAAAT
1 ATTT-CATATAACT
47064392 GA-TTCATATAACT
1 -ATTTCATATAACT
47064405 ATTTCATATA
1 ATTTCATATA
47064415 TTCATTATTC
Statistics
Matches: 120, Mismatches: 20, Indels: 34
0.69 0.11 0.20
Matches are distributed among these distances:
12 7 0.06
13 70 0.58
14 38 0.32
15 5 0.04
ACGTcount: A:0.35, C:0.17, G:0.03, T:0.45
Consensus pattern (13 bp):
ATTTCATATAACT
Found at i:47066937 original size:50 final size:50
Alignment explanation
Indices: 47066862--47067065 Score: 196
Period size: 50 Copynumber: 4.1 Consensus size: 50
47066852 CAAACCAAAC
*
47066862 AAAGCCTTTGTGGCAAGTTATCTGAAAGGCCTATGCGACATATTATCTGG
1 AAAGCCTTTGTGGCAAGTTATCTGAAAGGCCTATGCGACATATTATTTGG
* * * * * *
47066912 AAAGCTTTTGTGGCGAGTTATCTGAAAGGCCTATGTGGCATATTTTTTAG
1 AAAGCCTTTGTGGCAAGTTATCTGAAAGGCCTATGCGACATATTATTTGG
* * * * * * * *
47066962 AAAACCTTTGTGGCAAGTTACCTAAAAGACCAATGTGGCATATTATTTGA
1 AAAGCCTTTGTGGCAAGTTATCTGAAAGGCCTATGCGACATATTATTTGG
* * * *
47067012 AAATCCTTAGTGGCGAAGTTATCTAGAAA-GCCTTTGCGACA-AGTCATTTGG
1 AAAGCCTTTGTGGC-AAGTTATCT-GAAAGGCCTATGCGACATA-TTATTTGG
47067063 AAA
1 AAA
47067066 ACTTGTATGG
Statistics
Matches: 123, Mismatches: 28, Indels: 5
0.79 0.18 0.03
Matches are distributed among these distances:
50 96 0.78
51 24 0.20
52 3 0.02
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.31
Consensus pattern (50 bp):
AAAGCCTTTGTGGCAAGTTATCTGAAAGGCCTATGCGACATATTATTTGG
Found at i:47066948 original size:25 final size:24
Alignment explanation
Indices: 47066865--47066951 Score: 77
Period size: 25 Copynumber: 3.5 Consensus size: 24
47066855 ACCAAACAAA
*
47066865 GCCTTTGTGGCAAGTTATCTGAAAG
1 GCCTATGTGGC-AGTTATCTGAAAG
* * *
47066890 GCCTATGCGACATATTATCTGGAAA-
1 GCCTATGTGGCA-GTTATCT-GAAAG
* *
47066915 GCTTTTGTGGCGAGTTATCTGAAAG
1 GCCTATGTGGC-AGTTATCTGAAAG
47066940 GCCTATGTGGCA
1 GCCTATGTGGCA
47066952 TATTTTTTAG
Statistics
Matches: 47, Mismatches: 11, Indels: 9
0.70 0.16 0.13
Matches are distributed among these distances:
24 6 0.13
25 36 0.77
26 5 0.11
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.31
Consensus pattern (24 bp):
GCCTATGTGGCAGTTATCTGAAAG
Found at i:47072193 original size:18 final size:17
Alignment explanation
Indices: 47072151--47072194 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
47072141 TGTTGTTTGT
47072151 TTTCAAAACATTATTCA
1 TTTCAAAACATTATTCA
* *
47072168 TTTACAAATCGTTATTCAA
1 TTT-CAAAACATTATTC-A
47072187 TTTCAAAA
1 TTTCAAAA
47072195 AGTTTTTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
17 3 0.14
18 15 0.68
19 4 0.18
ACGTcount: A:0.41, C:0.16, G:0.02, T:0.41
Consensus pattern (17 bp):
TTTCAAAACATTATTCA
Found at i:47072534 original size:20 final size:19
Alignment explanation
Indices: 47072487--47072534 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
47072477 CATAGGGACT
47072487 AAATTT-GAGGCAAAAGCA
1 AAATTTAGAGGCAAAAGCA
* *
47072505 AAATTAAGAGTCAAAAGCA
1 AAATTTAGAGGCAAAAGCA
*
47072524 TGAATTTAGAG
1 -AAATTTAGAG
47072535 ATAAAATGGG
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
18 5 0.21
19 11 0.46
20 8 0.33
ACGTcount: A:0.50, C:0.08, G:0.21, T:0.21
Consensus pattern (19 bp):
AAATTTAGAGGCAAAAGCA
Found at i:47079101 original size:7 final size:7
Alignment explanation
Indices: 47079085--47079172 Score: 88
Period size: 7 Copynumber: 11.9 Consensus size: 7
47079075 CAACCCAATT
47079085 TTTATT-
1 TTTATTA
47079091 TTTATTA
1 TTTATTA
47079098 TTTATTA
1 TTTATTA
47079105 TTTATTA
1 TTTATTA
47079112 TTTATTA
1 TTTATTA
* *
47079119 TTTTTTC
1 TTTATTA
47079126 TTTACTTTA
1 TTTA--TTA
47079135 TTTATTA
1 TTTATTA
47079142 CTTTATTTTA
1 -TTTA--TTA
47079152 TTTTATTA
1 -TTTATTA
47079160 TTTATTA
1 TTTATTA
*
47079167 CTTATT
1 TTTATT
47079173 TGGATATTAA
Statistics
Matches: 70, Mismatches: 6, Indels: 11
0.80 0.07 0.13
Matches are distributed among these distances:
6 6 0.09
7 44 0.63
8 7 0.10
9 6 0.09
10 7 0.10
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.73
Consensus pattern (7 bp):
TTTATTA
Found at i:47079109 original size:4 final size:4
Alignment explanation
Indices: 47079085--47079165 Score: 57
Period size: 4 Copynumber: 20.5 Consensus size: 4
47079075 CAACCCAATT
* *
47079085 TTTA TTTT TATTA TTTA -TTA TTTA -TTA TTTA -TTA TTT- TTTC TTTA
1 TTTA TTTA T-TTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
47079130 CTTTA TTTA -TTA CTTTA TTTTA TTT- TATTA TTTA TT
1 -TTTA TTTA TTTA -TTTA -TTTA TTTA T-TTA TTTA TT
47079166 ACTTATTTGG
Statistics
Matches: 63, Mismatches: 4, Indels: 20
0.72 0.05 0.23
Matches are distributed among these distances:
3 16 0.25
4 32 0.51
5 15 0.24
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:47079286 original size:19 final size:19
Alignment explanation
Indices: 47079262--47079306 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
47079252 AGCACATTGA
*
47079262 GGCCAGTTTTGAAACCTTC
1 GGCCAGTCTTGAAACCTTC
47079281 GGCCAGTCTTGAAACCTTC
1 GGCCAGTCTTGAAACCTTC
47079300 GGCCAGT
1 GGCCAGT
47079307 AATTGACCAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.27
Consensus pattern (19 bp):
GGCCAGTCTTGAAACCTTC
Found at i:47080220 original size:4 final size:4
Alignment explanation
Indices: 47080207--47080258 Score: 65
Period size: 4 Copynumber: 13.2 Consensus size: 4
47080197 GTATAAAAAT
47080207 ATAA AT-A ATAA ATAA AT-- ATAA ATCAAA ATAA ATAA ATAA ATAA ATAA
1 ATAA ATAA ATAA ATAA ATAA ATAA AT--AA ATAA ATAA ATAA ATAA ATAA
47080254 ATAA A
1 ATAA A
47080259 GAAAGAAAAA
Statistics
Matches: 43, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
2 2 0.05
3 3 0.07
4 34 0.79
6 4 0.09
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (4 bp):
ATAA
Found at i:47080854 original size:15 final size:15
Alignment explanation
Indices: 47080829--47080863 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
47080819 TACTCTATTT
*
47080829 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
47080843 TAATTAATATTAAGA
1 TAATTAATATTAAGA
47080858 TAATTA
1 TAATTA
47080864 TTAATAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:47084210 original size:43 final size:43
Alignment explanation
Indices: 47084102--47084283 Score: 224
Period size: 43 Copynumber: 4.3 Consensus size: 43
47084092 TTTTAGAAAT
* *
47084102 AAACGCCGCTATAGATCAGGACCTTTAGCGGCGC--TTCTACAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGACGCTTTTCT-CAC
* * *
47084144 AAACGCCGCTATAGATCAGGACCTTTAGTGACGCTTTTCTTAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGACGCTTTTCTCAC
* * *
47084187 AAACGCCGCTATAGCTCAAGACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGACGCTTTTCTCAC
* * ** *
47084230 AAACGCCGCTATAGATTAAGACATTTAGCGACGCTTTGATTAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGACGCTTTTCTCAC
47084273 AAACGCCGCTA
1 AAACGCCGCTA
47084284 AAAATACCGT
Statistics
Matches: 121, Mismatches: 17, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
42 32 0.26
43 85 0.70
44 4 0.03
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.25
Consensus pattern (43 bp):
AAACGCCGCTATAGATCAAGACCTTTAGCGACGCTTTTCTCAC
Found at i:47084265 original size:86 final size:85
Alignment explanation
Indices: 47084102--47084283 Score: 265
Period size: 86 Copynumber: 2.1 Consensus size: 85
47084092 TTTTAGAAAT
* * *
47084102 AAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTCTACACAAACGCCGCTATAGATCAGGACC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTCTACACAAACGCCGCTATAGATCAAGACA
* **
47084167 TTTAGTGACGCTTTTCTTAC
66 TTTAGCGACGCTTTGATTAC
* * * *
47084187 AAACGCCGCTATAGCTCAAGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATTAAGAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTCT-ACACAAACGCCGCTATAGATCAAGAC
47084252 ATTTAGCGACGCTTTGATTAC
65 ATTTAGCGACGCTTTGATTAC
47084273 AAACGCCGCTA
1 AAACGCCGCTA
47084284 AAAATACCGT
Statistics
Matches: 86, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
85 35 0.41
86 51 0.59
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.25
Consensus pattern (85 bp):
AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTCTACACAAACGCCGCTATAGATCAAGACA
TTTAGCGACGCTTTGATTAC
Found at i:47089648 original size:77 final size:74
Alignment explanation
Indices: 47089565--47089753 Score: 236
Period size: 73 Copynumber: 2.5 Consensus size: 74
47089555 AGACAAATAA
* * *
47089565 TTTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTCGAAAGGTCAGAAAACGGCGTCGTT
1 TTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCC-CGAAAGCTCAGAAAACGGCCTCGTT
* *
47089630 TAACTTATGTTTT
65 GAACTTA-G--TG
* * **
47089643 TTTTTTTGCGGCGCTTTATTAAAAACGCCGCTAACTCCCCGAAAGCTCAGAAAACGGCCTCGTTG
1 TTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCCGAAAGCTCAGAAAACGGCCTCGTTG
**
47089708 GGCTTAG-G
66 AACTTAGTG
47089716 TTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCC
1 TTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCC
47089754 TGAGCATTAG
Statistics
Matches: 96, Mismatches: 15, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
73 34 0.35
76 1 0.01
77 27 0.28
78 34 0.35
ACGTcount: A:0.23, C:0.26, G:0.21, T:0.30
Consensus pattern (74 bp):
TTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCCGAAAGCTCAGAAAACGGCCTCGTTG
AACTTAGTG
Found at i:47089851 original size:113 final size:114
Alignment explanation
Indices: 47089663--47089975 Score: 486
Period size: 113 Copynumber: 2.8 Consensus size: 114
47089653 GCGCTTTATT
* *
47089663 AAAAACGCCGCTAACTCCCCGAAAGCTCAGAAAACGGCCTCGTTGGGCTTAGGTTTTTTTGCGGC
1 AAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCATCGTTGGGCTTAGGTTTTTTTGCGGC
*
47089728 GCTTTCTCAAAAACGCCGCTAAAG-CCTGAGCATTAGCTGCGCTTCCTA
66 GCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTCCTA
* * *
47089776 AAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGACATCGTTAGGCTTAGGTTTTTTTACGGC
1 AAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCATCGTTGGGCTTAGGTTTTTTTGCGGC
* *
47089841 GCTTTCTCAAAAACACCGCTAAAGCCCTGAGCATTAGCGGCGCTTCCTC
66 GCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTCCTA
* * *
47089890 AAAAACGCCACTAAATCCCCGAATGCTCAGAAAACGGCGTCGTTGGGCTTAGG-TTTTTTGCGGC
1 AAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCATCGTTGGGCTTAGGTTTTTTTGCGGC
* **
47089954 GCTTTTTGGAAAACGCCGCTAA
66 GCTTTCTCAAAAACGCCGCTAA
47089976 TACTTATTTT
Statistics
Matches: 181, Mismatches: 18, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
113 111 0.61
114 70 0.39
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.24
Consensus pattern (114 bp):
AAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCATCGTTGGGCTTAGGTTTTTTTGCGGC
GCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTCCTA
Found at i:47093837 original size:61 final size:59
Alignment explanation
Indices: 47093757--47093889 Score: 162
Period size: 61 Copynumber: 2.2 Consensus size: 59
47093747 TCGAAAAATA
* * * **
47093757 ATATTATTTTAAT-ATATTTAATATTATATTTAATTTAATATTTATCTTATAGATAAATATT
1 ATATTAATTTAATAATATTTAATAATAGATTTAAACTAATATTTATC-T-T-GATAAATATT
* *
47093818 CTATTAA-TTAATAATATTTAATAATAGATTTAAACTAATATTTATCTTGATAAGTATT
1 ATATTAATTTAATAATATTTAATAATAGATTTAAACTAATATTTATCTTGATAAATATT
47093876 ATATTAATTTAATA
1 ATATTAATTTAATA
47093890 TTAAAGTGAT
Statistics
Matches: 62, Mismatches: 8, Indels: 6
0.82 0.11 0.08
Matches are distributed among these distances:
58 15 0.24
59 7 0.11
60 6 0.10
61 34 0.55
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.51
Consensus pattern (59 bp):
ATATTAATTTAATAATATTTAATAATAGATTTAAACTAATATTTATCTTGATAAATATT
Found at i:47094464 original size:24 final size:25
Alignment explanation
Indices: 47094437--47094487 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
47094427 CCTAGAAGGG
47094437 AATTGAATGAT-GTTAGACAATTTT
1 AATTGAATGATAGTTAGACAATTTT
47094461 AATTGAATGATAGTTAGACAATTTT
1 AATTGAATGATAGTTAGACAATTTT
47094486 AA
1 AA
47094488 GTATTAAGTG
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 11 0.42
25 15 0.58
ACGTcount: A:0.41, C:0.04, G:0.16, T:0.39
Consensus pattern (25 bp):
AATTGAATGATAGTTAGACAATTTT
Found at i:47097124 original size:19 final size:19
Alignment explanation
Indices: 47097096--47097134 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
47097086 CAATGTCGCC
47097096 ATTGAAAAACACAGTCTTA
1 ATTGAAAAACACAGTCTTA
* *
47097115 ATTGAGAAACATAGTCTTA
1 ATTGAAAAACACAGTCTTA
47097134 A
1 A
47097135 CATCCATCTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.46, C:0.13, G:0.13, T:0.28
Consensus pattern (19 bp):
ATTGAAAAACACAGTCTTA
Found at i:47102444 original size:35 final size:35
Alignment explanation
Indices: 47102397--47102527 Score: 129
Period size: 35 Copynumber: 3.6 Consensus size: 35
47102387 ATATTTGTCG
47102397 GTTTAT-TCGACTAGCGCTGGGCACAACTTTCGTCA
1 GTTTATCT-GACTAGCGCTGGGCACAACTTTCGTCA
* * *
47102432 GTTTATCTGACTAGTGCTGGGCACATCATTATATCTGTCT
1 GTTTATCTGACTAGCGCTGGGCACA--ACT-T-TC-GTCA
* * * *
47102472 GTTTATCCGGCTAGCACTAGGCACAACTTTCGTCA
1 GTTTATCTGACTAGCGCTGGGCACAACTTTCGTCA
*
47102507 GTTTATCTGACTAGTGCTGGG
1 GTTTATCTGACTAGCGCTGGG
47102528 TACATCGTTA
Statistics
Matches: 75, Mismatches: 15, Indels: 12
0.74 0.15 0.12
Matches are distributed among these distances:
35 41 0.55
36 3 0.04
37 3 0.04
38 3 0.04
39 2 0.03
40 23 0.31
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.34
Consensus pattern (35 bp):
GTTTATCTGACTAGCGCTGGGCACAACTTTCGTCA
Found at i:47102477 original size:75 final size:75
Alignment explanation
Indices: 47102354--47102636 Score: 343
Period size: 75 Copynumber: 3.8 Consensus size: 75
47102344 ACGAATATCA
** * * * * *
47102354 TCAGTTTATCTTCCTAGTGTTAGGCACA-CGATTATATTTGTCGGTTTATTCGACTAGCGCTGGG
1 TCAGTTTATCTGACTAGTGCTGGGCACATC-ATTATATCTGTCGGTTTATCCGACTAGCACTGGG
47102418 CACAACTTTCG
65 CACAACTTTCG
* * *
47102429 TCAGTTTATCTGACTAGTGCTGGGCACATCATTATATCTGTCTGTTTATCCGGCTAGCACTAGGC
1 TCAGTTTATCTGACTAGTGCTGGGCACATCATTATATCTGTCGGTTTATCCGACTAGCACTGGGC
47102494 ACAACTTTCG
66 ACAACTTTCG
* * * * *
47102504 TCAGTTTATCTGACTAGTGCTGGGTACATCGTTATATCTATCGGTTTATCCAACTAGCACTGGGT
1 TCAGTTTATCTGACTAGTGCTGGGCACATCATTATATCTGTCGGTTTATCCGACTAGCACTGGGC
* **
47102569 GCAACTTTTT
66 ACAACTTTCG
* * * * *
47102579 TCAGTTTATATGACTAGTGATGGGCACATCAATATATATGTCGGTTTATCTGACTAGC
1 TCAGTTTATCTGACTAGTGCTGGGCACATCATTATATCTGTCGGTTTATCCGACTAGC
47102637 GTGGGGCGCA
Statistics
Matches: 177, Mismatches: 30, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
75 176 0.99
76 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.20, T:0.37
Consensus pattern (75 bp):
TCAGTTTATCTGACTAGTGCTGGGCACATCATTATATCTGTCGGTTTATCCGACTAGCACTGGGC
ACAACTTTCG
Found at i:47109208 original size:47 final size:47
Alignment explanation
Indices: 47109139--47109237 Score: 153
Period size: 47 Copynumber: 2.1 Consensus size: 47
47109129 TTATTGGACG
* * *
47109139 TTTATCTATGATTTTGGTGGCTTGTCCACGATATTGATTGTTGGCAA
1 TTTATCTACGATTTTAGTGGCTTGTCCACGATATTGATTATTGGCAA
* *
47109186 TTTATCTGCGATTTTAGTGGCTTGTCCACGATATTGATTATTGGCAG
1 TTTATCTACGATTTTAGTGGCTTGTCCACGATATTGATTATTGGCAA
47109233 TTTAT
1 TTTAT
47109238 AAGTGTTACT
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.19, C:0.13, G:0.22, T:0.45
Consensus pattern (47 bp):
TTTATCTACGATTTTAGTGGCTTGTCCACGATATTGATTATTGGCAA
Found at i:47111465 original size:34 final size:33
Alignment explanation
Indices: 47111422--47111486 Score: 89
Period size: 34 Copynumber: 1.9 Consensus size: 33
47111412 ACATGCGACA
47111422 CCTTTATTTTTTTTAATCTATTT-TTT-TTTCTTT
1 CCTTTATTTTTTTT--TCTATTTCTTTCTTTCTTT
47111455 CCTTTCATTTTTTTTTCTATTTCTTTCTTTCT
1 CCTTT-ATTTTTTTTTCTATTTCTTTCTTTCT
47111487 AATTTCCCCT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
32 7 0.24
33 8 0.28
34 14 0.48
ACGTcount: A:0.09, C:0.17, G:0.00, T:0.74
Consensus pattern (33 bp):
CCTTTATTTTTTTTTCTATTTCTTTCTTTCTTT
Found at i:47113500 original size:42 final size:41
Alignment explanation
Indices: 47113426--47113534 Score: 112
Period size: 42 Copynumber: 2.6 Consensus size: 41
47113416 AGCTCTCACG
* * * * *
47113426 AGCTTCTGTTTAACTCATATGAGTTTCTGTTCAGTTCTATTA-
1 AGCTTCTGTTTAACCCTTATGGGTTCCCGTTCAG--CTATTAC
*
47113468 AGCTTCTGTTTAACCCTTATGGGTTCCCGTTCAGCTCTTAC
1 AGCTTCTGTTTAACCCTTATGGGTTCCCGTTCAGCTATTAC
* *
47113509 GAGCTTCCGTTCAACCCTTATGGGTT
1 -AGCTTCTGTTTAACCCTTATGGGTT
47113535 TCTATTTAGC
Statistics
Matches: 57, Mismatches: 8, Indels: 4
0.83 0.12 0.06
Matches are distributed among these distances:
40 5 0.09
42 52 0.91
ACGTcount: A:0.17, C:0.24, G:0.17, T:0.41
Consensus pattern (41 bp):
AGCTTCTGTTTAACCCTTATGGGTTCCCGTTCAGCTATTAC
Found at i:47113528 original size:21 final size:21
Alignment explanation
Indices: 47113468--47113528 Score: 52
Period size: 21 Copynumber: 2.9 Consensus size: 21
47113458 AGTTCTATTA
* * *
47113468 AGCTTCTGTTTAACCCTTATG
1 AGCTTCCGTTCAACCCTTACG
* * *
47113489 -GGTTCCCGTTCAGCTCTTACG
1 AGCTT-CCGTTCAACCCTTACG
47113510 AGCTTCCGTTCAACCCTTA
1 AGCTTCCGTTCAACCCTTA
47113529 TGGGTTTCTA
Statistics
Matches: 29, Mismatches: 9, Indels: 4
0.69 0.21 0.10
Matches are distributed among these distances:
20 3 0.10
21 23 0.79
22 3 0.10
ACGTcount: A:0.16, C:0.31, G:0.16, T:0.36
Consensus pattern (21 bp):
AGCTTCCGTTCAACCCTTACG
Found at i:47113546 original size:42 final size:42
Alignment explanation
Indices: 47113468--47113566 Score: 126
Period size: 42 Copynumber: 2.4 Consensus size: 42
47113458 AGTTCTATTA
* * *
47113468 AGCTTCTGTTTAACCCTTATGGGTTCCCGTTCAGCTCTTACG
1 AGCTTCTGTTCAACCCTTATGGGTTCCCATTCAGCTCTCACG
* * * * *
47113510 AGCTTCCGTTCAACCCTTATGGGTTTCTATTTAGCTCTCATG
1 AGCTTCTGTTCAACCCTTATGGGTTCCCATTCAGCTCTCACG
47113552 AGCTTCTGTTCAACC
1 AGCTTCTGTTCAACC
47113567 TTCAGGCTTC
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.16, C:0.28, G:0.17, T:0.38
Consensus pattern (42 bp):
AGCTTCTGTTCAACCCTTATGGGTTCCCATTCAGCTCTCACG
Found at i:47113556 original size:84 final size:84
Alignment explanation
Indices: 47113410--47113566 Score: 190
Period size: 84 Copynumber: 1.9 Consensus size: 84
47113400 TGTTTACTTT
* * * * * *
47113410 CCGTTTAGCTCTCACGAGCTTCTGTTTAACTCATATGAGTTTCTGTTCAGTTCTATTAAGCTTCT
1 CCGTTCAGCTCTCACGAGCTTCCGTTCAACCCATATGAGTTTCTATTCAGCTCTATTAAGCTTCT
*
47113475 GTTTAACCCTTATGGGTTC
66 GTTCAACCCTTATGGGTTC
* * * * *
47113494 CCGTTCAGCTCTTACGAGCTTCCGTTCAACCCTTATGGGTTTCTATTTAGCTCTCA-TGAGCTTC
1 CCGTTCAGCTCTCACGAGCTTCCGTTCAACCCATATGAGTTTCTATTCAGCTCT-ATTAAGCTTC
47113558 TGTTCAACC
65 TGTTCAACC
47113567 TTCAGGCTTC
Statistics
Matches: 60, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
84 59 0.98
85 1 0.02
ACGTcount: A:0.17, C:0.26, G:0.17, T:0.40
Consensus pattern (84 bp):
CCGTTCAGCTCTCACGAGCTTCCGTTCAACCCATATGAGTTTCTATTCAGCTCTATTAAGCTTCT
GTTCAACCCTTATGGGTTC
Found at i:47114956 original size:11 final size:11
Alignment explanation
Indices: 47114940--47114982 Score: 59
Period size: 11 Copynumber: 3.6 Consensus size: 11
47114930 AAATGATGCT
47114940 AGGAAAAAAGA
1 AGGAAAAAAGA
47114951 AGGAAAACCAATGA
1 AGGAAAA--AA-GA
47114965 AGGAAAAAAGA
1 AGGAAAAAAGA
47114976 AGGAAAA
1 AGGAAAA
47114983 GCAATGAAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
11 16 0.55
12 2 0.07
13 2 0.07
14 9 0.31
ACGTcount: A:0.67, C:0.05, G:0.26, T:0.02
Consensus pattern (11 bp):
AGGAAAAAAGA
Found at i:47114968 original size:14 final size:13
Alignment explanation
Indices: 47114940--47114995 Score: 57
Period size: 11 Copynumber: 4.5 Consensus size: 13
47114930 AAATGATGCT
47114940 AGGAAAA-AA-GA
1 AGGAAAACAATGA
47114951 AGGAAAACCAATGA
1 AGGAAAA-CAATGA
47114965 AGGAAAA-AA-GA
1 AGGAAAACAATGA
47114976 AGGAAAAGCAATGA
1 AGGAAAA-CAATGA
*
47114990 AAGAAA
1 AGGAAA
47114996 TTTTGCCAGG
Statistics
Matches: 38, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
11 16 0.42
12 2 0.05
13 4 0.11
14 16 0.42
ACGTcount: A:0.66, C:0.05, G:0.25, T:0.04
Consensus pattern (13 bp):
AGGAAAACAATGA
Found at i:47114974 original size:25 final size:25
Alignment explanation
Indices: 47114940--47114995 Score: 94
Period size: 25 Copynumber: 2.2 Consensus size: 25
47114930 AAATGATGCT
47114940 AGGAAAAAAGAAGGAAAACCAATGA
1 AGGAAAAAAGAAGGAAAACCAATGA
*
47114965 AGGAAAAAAGAAGGAAAAGCAATGA
1 AGGAAAAAAGAAGGAAAACCAATGA
*
47114990 AAGAAA
1 AGGAAA
47114996 TTTTGCCAGG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.66, C:0.05, G:0.25, T:0.04
Consensus pattern (25 bp):
AGGAAAAAAGAAGGAAAACCAATGA
Found at i:47123724 original size:26 final size:26
Alignment explanation
Indices: 47123686--47123742 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
47123676 CAGCTATGGC
47123686 AACATAGAGAGTCCACC-GAGACAGTA
1 AACATAGAGAGTCCACCAG-GACAGTA
* *
47123712 AACATA-AGAAGTCCGCCAGGACATTA
1 AACATAGAG-AGTCCACCAGGACAGTA
47123738 AACAT
1 AACAT
47123743 GGAACCTTAC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 2 0.07
26 24 0.89
27 1 0.04
ACGTcount: A:0.44, C:0.23, G:0.19, T:0.14
Consensus pattern (26 bp):
AACATAGAGAGTCCACCAGGACAGTA
Found at i:47126902 original size:14 final size:13
Alignment explanation
Indices: 47126881--47126917 Score: 56
Period size: 14 Copynumber: 2.8 Consensus size: 13
47126871 AAGAAAAATA
47126881 TAAAAATATATAT
1 TAAAAATATATAT
*
47126894 TATAAAATATGTAT
1 TA-AAAATATATAT
47126908 TAAAAATATA
1 TAAAAATATA
47126918 AGTATATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
13 9 0.43
14 12 0.57
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (13 bp):
TAAAAATATATAT
Found at i:47127283 original size:20 final size:23
Alignment explanation
Indices: 47127258--47127307 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
47127248 AAATAAATTT
47127258 AAAAAAACA-A-CAAACAGT-AA
1 AAAAAAACAGACCAAACAGTCAA
*
47127278 AAAAAAA-AGACCAAATAGTCAA
1 AAAAAAACAGACCAAACAGTCAA
47127300 AAAAAAAC
1 AAAAAAAC
47127308 TAAAATAACA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 1 0.04
20 8 0.32
21 7 0.28
22 9 0.36
ACGTcount: A:0.74, C:0.14, G:0.06, T:0.06
Consensus pattern (23 bp):
AAAAAAACAGACCAAACAGTCAA
Found at i:47127284 original size:21 final size:21
Alignment explanation
Indices: 47127258--47127307 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
47127248 AAATAAATTT
47127258 AAAAAAACAACAAACAGTAAA
1 AAAAAAACAACAAACAGTAAA
* * * *
47127279 AAAAAAAGACCAAATAGTCAA
1 AAAAAAACAACAAACAGTAAA
47127300 AAAAAAAC
1 AAAAAAAC
47127308 TAAAATAACA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.74, C:0.14, G:0.06, T:0.06
Consensus pattern (21 bp):
AAAAAAACAACAAACAGTAAA
Found at i:47129110 original size:39 final size:38
Alignment explanation
Indices: 47129048--47129123 Score: 107
Period size: 39 Copynumber: 2.0 Consensus size: 38
47129038 TTGTTTGAAA
*
47129048 TTATATTTAAGTATTTAAATAAATTATATTAAGTTAAC
1 TTATATTTAAGTATCTAAATAAATTATATTAAGTTAAC
* * *
47129086 TTATATTTTAAGTCTCTAAGTAAATTATGTTAAGTTAA
1 TTATA-TTTAAGTATCTAAATAAATTATATTAAGTTAA
47129124 TAATTAAATT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
38 5 0.15
39 28 0.85
ACGTcount: A:0.41, C:0.04, G:0.08, T:0.47
Consensus pattern (38 bp):
TTATATTTAAGTATCTAAATAAATTATATTAAGTTAAC
Found at i:47129119 original size:22 final size:22
Alignment explanation
Indices: 47129102--47129145 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
47129092 TTTAAGTCTC
47129102 TAAGTAAATTATGTTAAGTTAA
1 TAAGTAAATTATGTTAAGTTAA
* *
47129124 TAATTAAATTATGGTAAGTTAA
1 TAAGTAAATTATGTTAAGTTAA
47129146 ATTATATTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.45, C:0.00, G:0.14, T:0.41
Consensus pattern (22 bp):
TAAGTAAATTATGTTAAGTTAA
Found at i:47137626 original size:13 final size:13
Alignment explanation
Indices: 47137608--47137680 Score: 76
Period size: 13 Copynumber: 5.5 Consensus size: 13
47137598 CATAAGTATA
*
47137608 TTCATATAAACAC
1 TTCATATAAACAT
*
47137621 TTCATATAACCAT
1 TTCATATAAACAT
*
47137634 TTCATAT-ATCTAT
1 TTCATATAAAC-AT
47137647 TTCCATATAAACAT
1 TT-CATATAAACAT
**
47137661 TTCATATATCCAT
1 TTCATATAAACAT
47137674 TTCATAT
1 TTCATAT
47137681 TACCATTTCT
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
12 2 0.04
13 38 0.75
14 9 0.18
15 2 0.04
ACGTcount: A:0.37, C:0.21, G:0.00, T:0.42
Consensus pattern (13 bp):
TTCATATAAACAT
Found at i:47137653 original size:27 final size:26
Alignment explanation
Indices: 47137621--47137689 Score: 102
Period size: 27 Copynumber: 2.6 Consensus size: 26
47137611 ATATAAACAC
*
47137621 TTCATATAACCATTTCATATATCTAT
1 TTCATATAACCATTTCATATATCCAT
*
47137647 TTCCATATAAACATTTCATATATCCAT
1 TT-CATATAACCATTTCATATATCCAT
*
47137674 TTCATATTACCATTTC
1 TTCATATAACCATTTC
47137690 TGTTTACTCA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
26 14 0.37
27 24 0.63
ACGTcount: A:0.33, C:0.22, G:0.00, T:0.45
Consensus pattern (26 bp):
TTCATATAACCATTTCATATATCCAT
Found at i:47137686 original size:13 final size:13
Alignment explanation
Indices: 47137621--47137689 Score: 61
Period size: 13 Copynumber: 5.2 Consensus size: 13
47137611 ATATAAACAC
*
47137621 TTCATATAACCAT
1 TTCATATTACCAT
*
47137634 TTCATA-TATCTAT
1 TTCATATTA-CCAT
* *
47137647 TTCCATATAAACAT
1 TT-CATATTACCAT
47137661 TTCATA-TATCCAT
1 TTCATATTA-CCAT
47137674 TTCATATTACCAT
1 TTCATATTACCAT
47137687 TTC
1 TTC
47137690 TGTTTACTCA
Statistics
Matches: 44, Mismatches: 7, Indels: 10
0.72 0.11 0.16
Matches are distributed among these distances:
12 2 0.05
13 31 0.70
14 10 0.23
15 1 0.02
ACGTcount: A:0.33, C:0.22, G:0.00, T:0.45
Consensus pattern (13 bp):
TTCATATTACCAT
Found at i:47137689 original size:40 final size:40
Alignment explanation
Indices: 47137610--47137689 Score: 117
Period size: 40 Copynumber: 2.0 Consensus size: 40
47137600 TAAGTATATT
*
47137610 CATATAAACACTTCATATAACCATTTCATATATCTATTTC
1 CATATAAACACTTCATATAACCATTTCATATATCCATTTC
* *
47137650 CATATAAACATTTCATATATCCATTTCATAT-TACCATTTC
1 CATATAAACACTTCATATAACCATTTCATATAT-CCATTTC
47137690 TGTTTACTCA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
39 1 0.03
40 35 0.97
ACGTcount: A:0.36, C:0.23, G:0.00, T:0.41
Consensus pattern (40 bp):
CATATAAACACTTCATATAACCATTTCATATATCCATTTC
Found at i:47137813 original size:25 final size:25
Alignment explanation
Indices: 47137748--47137805 Score: 98
Period size: 25 Copynumber: 2.3 Consensus size: 25
47137738 ACGCAAGAAC
*
47137748 AATGCTCACACAAGCTGTGACGGTA
1 AATGCTCACACAAGCTGTGACAGTA
*
47137773 AATGCTCACACGAGCTGTGACAGTA
1 AATGCTCACACAAGCTGTGACAGTA
47137798 AATGCTCA
1 AATGCTCA
47137806 TGAAAGCTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.33, C:0.24, G:0.22, T:0.21
Consensus pattern (25 bp):
AATGCTCACACAAGCTGTGACAGTA
Found at i:47144180 original size:51 final size:51
Alignment explanation
Indices: 47144060--47144244 Score: 162
Period size: 51 Copynumber: 3.6 Consensus size: 51
47144050 AGTTGCTGGG
* * * * * * * *
47144060 TCACGTGTGTAGTGCTATGTGTAGGCTACTACGTGTATCGGAATGATAA-G-
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCAG-ATGACAATGA
* *
47144110 TCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGAT-AGC-TTCGA
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGATGA-CAAT-GA
* * * * * *
47144161 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGACAATGG
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGATGACAATGA
*
47144212 TCACATGTGTAGTACTATGTGCAGGATACTATG
1 TCACATGTGTAGTACTATGTGCAGGCTACTATG
47144245 TGAACCGGGT
Statistics
Matches: 108, Mismatches: 21, Indels: 11
0.77 0.15 0.08
Matches are distributed among these distances:
48 1 0.01
49 2 0.02
50 34 0.31
51 69 0.64
52 2 0.02
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.31
Consensus pattern (51 bp):
TCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGATGACAATGA
Found at i:47144283 original size:102 final size:100
Alignment explanation
Indices: 47144062--47144250 Score: 263
Period size: 101 Copynumber: 1.9 Consensus size: 100
47144052 TTGCTGGGTC
* * * *
47144062 ACGTGTGTAGTGCTATGTGTAGGCTACTACGTGTATCGGAATGATAAGTCGCATGTGTAGTACTA
1 ACGTGTGTA-TACTATGTGCAGGCTACTACGTGTATCGGAATGACAAGTCACATGTGTAGTACTA
* * *
47144127 TGTGCAGGCTACTATGCGTACCAGATAGCTTCGATC
65 TGTGCAGGATACTATGCGAACCAGATAGCTTCGATA
47144163 ACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGG-ATGACAATGGTCACATGTGTAGTAC
1 ACGTGTGTA-TACTATGTGCAGGCTACTACGTGTATCGGAATGACAA--GTCACATGTGTAGTAC
*
47144227 TATGTGCAGGATACTATGTGAACC
63 TATGTGCAGGATACTATGCGAACC
47144251 GGGTATCATT
Statistics
Matches: 79, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
100 6 0.08
101 37 0.47
102 36 0.46
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (100 bp):
ACGTGTGTATACTATGTGCAGGCTACTACGTGTATCGGAATGACAAGTCACATGTGTAGTACTAT
GTGCAGGATACTATGCGAACCAGATAGCTTCGATA
Found at i:47151057 original size:19 final size:19
Alignment explanation
Indices: 47151006--47151070 Score: 71
Period size: 19 Copynumber: 3.4 Consensus size: 19
47150996 GAAGATTGGT
* *
47151006 ACATTTTGTTCATATGGGGA
1 ACATTTTGTTGATA-AGGGA
*
47151026 CCATTTT-TTGATAAGGGA
1 ACATTTTGTTGATAAGGGA
47151044 ACATTTTGTTGATAA-GGA
1 ACATTTTGTTGATAAGGGA
47151062 CACATTTTG
1 -ACATTTTG
47151071 AGGATATTGA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
18 13 0.33
19 20 0.51
20 6 0.15
ACGTcount: A:0.28, C:0.11, G:0.22, T:0.40
Consensus pattern (19 bp):
ACATTTTGTTGATAAGGGA
Found at i:47151076 original size:19 final size:19
Alignment explanation
Indices: 47151035--47151076 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
47151025 ACCATTTTTT
**
47151035 GATAAGGGAACATTTTGTT
1 GATAAGGGAACATTTTGAG
47151054 GATAA-GGACACATTTTGAG
1 GATAAGGGA-ACATTTTGAG
47151073 GATA
1 GATA
47151077 TTGAAGATTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 3 0.15
19 17 0.85
ACGTcount: A:0.36, C:0.07, G:0.26, T:0.31
Consensus pattern (19 bp):
GATAAGGGAACATTTTGAG
Found at i:47160731 original size:14 final size:14
Alignment explanation
Indices: 47160712--47160742 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
47160702 AGGACACAAC
47160712 ATATTGAATTTCCG
1 ATATTGAATTTCCG
47160726 ATATTGAATTTCCG
1 ATATTGAATTTCCG
47160740 ATA
1 ATA
47160743 ACAAGCTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.32, C:0.13, G:0.13, T:0.42
Consensus pattern (14 bp):
ATATTGAATTTCCG
Found at i:47160962 original size:13 final size:13
Alignment explanation
Indices: 47160944--47160968 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
47160934 ATAAATGTCG
47160944 CAATAACAAATAA
1 CAATAACAAATAA
47160957 CAATAACAAATA
1 CAATAACAAATA
47160969 CAACAATGGC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.16, G:0.00, T:0.16
Consensus pattern (13 bp):
CAATAACAAATAA
Found at i:47163141 original size:45 final size:45
Alignment explanation
Indices: 47163090--47163213 Score: 117
Period size: 45 Copynumber: 2.8 Consensus size: 45
47163080 TTGTTTATTC
* * * * **
47163090 AGTCTGCCCCACTGCAATTTCAGGGGGATGAGACTTGCTTTCTTG
1 AGTCTGCCCCACTGCAACTTCAAGGAGATAAGACTCACTTTCTTG
**
47163135 AGTCTGCTTCACTGCAACTTCAAGGAGATAAGACTCACTTTCTTG
1 AGTCTGCCCCACTGCAACTTCAAGGAGATAAGACTCACTTTCTTG
* * *
47163180 GGTC-GACTCCACTACAA-TTACAAGGAGATAAGAC
1 AGTCTG-CCCCACTGCAACTT-CAAGGAGATAAGAC
47163214 CTGCTATGAT
Statistics
Matches: 66, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
44 3 0.05
45 63 0.95
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.27
Consensus pattern (45 bp):
AGTCTGCCCCACTGCAACTTCAAGGAGATAAGACTCACTTTCTTG
Found at i:47163307 original size:44 final size:44
Alignment explanation
Indices: 47163234--47163342 Score: 157
Period size: 44 Copynumber: 2.5 Consensus size: 44
47163224 ATGCTCTCTA
* * *
47163234 CAACTTTAGAGAGATAAGATCTA-TCACTTTAATCCGCTCCACTG
1 CAACTTCAGGGAGATAAGAT-TATTGACTTTAATCCGCTCCACTG
* *
47163278 CAACTTCAGGGAGATAGGATTATTGACTTTAATCTGCTCCACTG
1 CAACTTCAGGGAGATAAGATTATTGACTTTAATCCGCTCCACTG
47163322 CAACTTCAGGGAGATAAGATT
1 CAACTTCAGGGAGATAAGATT
47163343 CGCCATCTTC
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
43 2 0.03
44 56 0.97
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.29
Consensus pattern (44 bp):
CAACTTCAGGGAGATAAGATTATTGACTTTAATCCGCTCCACTG
Found at i:47163461 original size:51 final size:51
Alignment explanation
Indices: 47163403--47163559 Score: 134
Period size: 51 Copynumber: 3.1 Consensus size: 51
47163393 TCGTGGTTTC
47163403 AATCTGCTCCACCGTAATGCCAAAGAGATAGGATTCGCTGCCCTCAGCTTT
1 AATCTGCTCCACCGTAATGCCAAAGAGATAGGATTCGCTGCCCTCAGCTTT
* * * ** * ** * * * * * * *
47163454 AATCTGCTCCGCTGCAACACTAGGGAAACAAGATTTGCTACCTTTAGCTTT
1 AATCTGCTCCACCGTAATGCCAAAGAGATAGGATTCGCTGCCCTCAGCTTT
** * * *
47163505 AATCTATTCAACCATAATGCCAAAGAGATAGGATTCGCTGCCCACAGCTTT
1 AATCTGCTCCACCGTAATGCCAAAGAGATAGGATTCGCTGCCCTCAGCTTT
47163556 AATC
1 AATC
47163560 CGTTCCACTT
Statistics
Matches: 71, Mismatches: 35, Indels: 0
0.67 0.33 0.00
Matches are distributed among these distances:
51 71 1.00
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.27
Consensus pattern (51 bp):
AATCTGCTCCACCGTAATGCCAAAGAGATAGGATTCGCTGCCCTCAGCTTT
Found at i:47163648 original size:51 final size:51
Alignment explanation
Indices: 47163587--47163737 Score: 133
Period size: 51 Copynumber: 3.0 Consensus size: 51
47163577 TTCAAGTGTT
* *
47163587 AACGCCAGAGAGATAAGATTCGCTGCCTCCAGCTTTAATCTGCTCCACTGC
1 AACGCCAGAGAGATAAGATTCGCTGCCTACAGCTTTAATCTGCTCCACTAC
* * * * * ** * *
47163638 AACGCTAGAGAAACAAGATTCACTACCTTTAGCTTTAATCTGTTCCACTAT
1 AACGCCAGAGAGATAAGATTCGCTGCCTACAGCTTTAATCTGCTCCACTAC
* * * * * *
47163689 AATGCGAAAGAGAT-AGTATTCGCTGCCTACAGTTTTATTCCGCTCCACT
1 AACGCCAGAGAGATAAG-ATTCGCTGCCTACAGCTTTAATCTGCTCCACT
47163738 TCAGCTATTT
Statistics
Matches: 76, Mismatches: 23, Indels: 2
0.75 0.23 0.02
Matches are distributed among these distances:
50 2 0.03
51 74 0.97
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.28
Consensus pattern (51 bp):
AACGCCAGAGAGATAAGATTCGCTGCCTACAGCTTTAATCTGCTCCACTAC
Found at i:47163712 original size:169 final size:169
Alignment explanation
Indices: 47163421--47163973 Score: 874
Period size: 169 Copynumber: 3.3 Consensus size: 169
47163411 CCACCGTAAT
* * *
47163421 GCCAAAGAGATAGGATTCGCTGCCCTCAGCTTTAATCTGCTCCGCTGCAACACTAGGGAAACAAG
1 GCCAGAGAGATAAGATTCGCTGCCCTCAGCTTTAATCTGCTCCGCTGCAACGCTAGGGAAACAAG
* * * *
47163486 ATTTGCTACCTTTAGCTTTAATCTATTCAACCATAATGCCAAAGAGATAGGATTCGCTGCCCACA
66 ATTCGCTACCTTTAGCTTTAATCTGTTCCACTATAATGCCAAAGAGATAGGATTCGCTGCCCACA
* *
47163551 GCTTTAATCCGTTCCACTTCAGCTATTTCAAGTGTTAAC
131 GCTTTAATCCGCTCCACTTCAGCTATTTCAAGTCTTAAC
* *
47163590 GCCAGAGAGATAAGATTCGCTG-CCTCCAGCTTTAATCTGCTCCACTGCAACGCTAGAGAAACAA
1 GCCAGAGAGATAAGATTCGCTGCCCT-CAGCTTTAATCTGCTCCGCTGCAACGCTAGGGAAACAA
* * * *
47163654 GATTCACTACCTTTAGCTTTAATCTGTTCCACTATAATGCGAAAGAGATAGTATTCGCTGCCTAC
65 GATTCGCTACCTTTAGCTTTAATCTGTTCCACTATAATGCCAAAGAGATAGGATTCGCTGCCCAC
* *
47163719 AGTTTTATTCCGCTCCACTTCAGCTATTTCAAGTCTTAAC
130 AGCTTTAATCCGCTCCACTTCAGCTATTTCAAGTCTTAAC
*
47163759 GCCAGAGAGATAAGATTCGCTGCCCTCAGCTTTAATCTGCTCCGCTGCAACGCTAGGGAAACAAT
1 GCCAGAGAGATAAGATTCGCTGCCCTCAGCTTTAATCTGCTCCGCTGCAACGCTAGGGAAACAAG
* *
47163824 ATTCGCTACCTTTAGCTTTAATTTGTTCCAATATAATGCCAAAGAGATAGGATTCGCTGCCCACA
66 ATTCGCTACCTTTAGCTTTAATCTGTTCCACTATAATGCCAAAGAGATAGGATTCGCTGCCCACA
47163889 GCTTTAATCCGCTCCACTTCAGCTATTTCAAGTCTTAAC
131 GCTTTAATCCGCTCCACTTCAGCTATTTCAAGTCTTAAC
* * * *
47163928 GCCAGGGAGATAAGATTTGCTGCCCTCAGCCTTAATCTGCTTCGCT
1 GCCAGAGAGATAAGATTCGCTGCCCTCAGCTTTAATCTGCTCCGCT
47163974 ATAACGTCAG
Statistics
Matches: 350, Mismatches: 32, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
168 3 0.01
169 344 0.98
170 3 0.01
ACGTcount: A:0.27, C:0.26, G:0.17, T:0.29
Consensus pattern (169 bp):
GCCAGAGAGATAAGATTCGCTGCCCTCAGCTTTAATCTGCTCCGCTGCAACGCTAGGGAAACAAG
ATTCGCTACCTTTAGCTTTAATCTGTTCCACTATAATGCCAAAGAGATAGGATTCGCTGCCCACA
GCTTTAATCCGCTCCACTTCAGCTATTTCAAGTCTTAAC
Found at i:47164055 original size:37 final size:37
Alignment explanation
Indices: 47164005--47164239 Score: 179
Period size: 44 Copynumber: 5.9 Consensus size: 37
47163995 TCGCAATCTT
* *
47164005 CAACCTATTCCACTGTTAACCAGGGAGATAGGATTCA
1 CAACCTATTCCACTGCTGACCAGGGAGATAGGATTCA
* *
47164042 CAACCTATTCCACTGCTGACCAGGGAGATATGA--CT
1 CAACCTATTCCACTGCTGACCAGGGAGATAGGATTCA
*
47164077 C-ACCTATTCCACTGCTAACCAGGGAGATAGGACTTACAATA
1 CAACCTATTCCACTGCTGACCAGGGAGATAGGA-TT-C---A
* * *
47164118 TTCAACCTATTCCTCTGTTGACCAGGGAGATAGGACTCA
1 --CAACCTATTCCACTGCTGACCAGGGAGATAGGATTCA
47164157 CAATCTTCAACATATTCCACTGCTGACCAGGGAGATAGGATTCA
1 CAA----C--C-TATTCCACTGCTGACCAGGGAGATAGGATTCA
*
47164201 CAATCTTCAGCCTATTCCACTGCTGTCCAGGGAGATAGG
1 C-A-----A-CCTATTCCACTGCTGACCAGGGAGATAGG
47164240 GCTAGTTTAT
Statistics
Matches: 159, Mismatches: 16, Indels: 39
0.74 0.07 0.18
Matches are distributed among these distances:
34 29 0.18
35 2 0.01
37 33 0.21
38 1 0.01
39 1 0.01
41 1 0.01
42 1 0.01
43 3 0.02
44 84 0.53
45 2 0.01
47 1 0.01
50 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.25
Consensus pattern (37 bp):
CAACCTATTCCACTGCTGACCAGGGAGATAGGATTCA
Found at i:47164087 original size:34 final size:35
Alignment explanation
Indices: 47164004--47164110 Score: 153
Period size: 34 Copynumber: 3.0 Consensus size: 35
47163994 TTCGCAATCT
*
47164004 TCAACCTATTCCACTGTTAACCAGGGAGATAGGATTC
1 TCAACCTATTCCACTGCTAACCAGGGAGATAGGA--C
* * *
47164041 ACAACCTATTCCACTGCTGACCAGGGAGATATGAC
1 TCAACCTATTCCACTGCTAACCAGGGAGATAGGAC
47164076 TC-ACCTATTCCACTGCTAACCAGGGAGATAGGAC
1 TCAACCTATTCCACTGCTAACCAGGGAGATAGGAC
47164110 T
1 T
47164111 TACAATATTC
Statistics
Matches: 63, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
34 31 0.49
35 2 0.03
37 30 0.48
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (35 bp):
TCAACCTATTCCACTGCTAACCAGGGAGATAGGAC
Found at i:47164141 original size:78 final size:83
Alignment explanation
Indices: 47164042--47164239 Score: 237
Period size: 88 Copynumber: 2.4 Consensus size: 83
47164032 ATAGGATTCA
*
47164042 CAACCTATTCCACTGCTGACCAGGGAGATATGACT-C-A-C-C-TATTCCACTGCTAACCAGGGA
1 CAACCTATTCCACTGCTGACCAGGGAGATAGGACTACAATCACATATTCCACTGCTAACCAGGGA
47164102 GATAGGACTT-ACAATATT
66 GATAGGA-TTCACAATATT
* * *
47164120 CAACCTATTCCTCTGTTGACCAGGGAGATAGGACTCACAATCTTCAACATATTCCACTGCTGACC
1 CAACCTATTCCACTGCTGACCAGGGAGATAGGACT-ACAA---TC-ACATATTCCACTGCTAACC
*
47164185 AGGGAGATAGGATTCACAATCTT
61 AGGGAGATAGGATTCACAATATT
* *
47164208 CAGCCTATTCCACTGCTGTCCAGGGAGATAGG
1 CAACCTATTCCACTGCTGACCAGGGAGATAGG
47164240 GCTAGTTTAT
Statistics
Matches: 100, Mismatches: 9, Indels: 12
0.83 0.07 0.10
Matches are distributed among these distances:
78 32 0.32
80 1 0.01
81 1 0.01
85 1 0.01
87 3 0.03
88 62 0.62
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.25
Consensus pattern (83 bp):
CAACCTATTCCACTGCTGACCAGGGAGATAGGACTACAATCACATATTCCACTGCTAACCAGGGA
GATAGGATTCACAATATT
Found at i:47164142 original size:44 final size:44
Alignment explanation
Indices: 47164078--47164239 Score: 236
Period size: 44 Copynumber: 3.7 Consensus size: 44
47164068 GATATGACTC
* *
47164078 ACCTATTCCACTGCTAACCAGGGAGATAGGACTTACAATATTCA
1 ACCTATTCCACTGCTGACCAGGGAGATAGGACTTACAATCTTCA
* * *
47164122 ACCTATTCCTCTGTTGACCAGGGAGATAGGACTCACAATCTTCA
1 ACCTATTCCACTGCTGACCAGGGAGATAGGACTTACAATCTTCA
*
47164166 ACATATTCCACTGCTGACCAGGGAGATAGGA-TTCACAATCTTCA
1 ACCTATTCCACTGCTGACCAGGGAGATAGGACTT-ACAATCTTCA
* *
47164210 GCCTATTCCACTGCTGTCCAGGGAGATAGG
1 ACCTATTCCACTGCTGACCAGGGAGATAGG
47164240 GCTAGTTTAT
Statistics
Matches: 105, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
43 1 0.01
44 104 0.99
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.25
Consensus pattern (44 bp):
ACCTATTCCACTGCTGACCAGGGAGATAGGACTTACAATCTTCA
Found at i:47172603 original size:3 final size:3
Alignment explanation
Indices: 47172595--47172645 Score: 75
Period size: 3 Copynumber: 16.3 Consensus size: 3
47172585 GTGCATGTAT
*
47172595 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ACA ACTTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A--TA ATA
47172642 ATA A
1 ATA A
47172646 ATAAAGATTA
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
3 42 0.95
5 2 0.05
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:47173232 original size:5 final size:5
Alignment explanation
Indices: 47173222--47173246 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
47173212 CCCTTTTTTG
47173222 TATTT TATTT TATTT TATTT TATTT
1 TATTT TATTT TATTT TATTT TATTT
47173247 ACTTGTAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TATTT
Done.