Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
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: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 149 of 279
Found at i:48390716 original size:13 final size:15
Alignment explanation
Indices: 48390679--48390720 Score: 52
Period size: 13 Copynumber: 2.9 Consensus size: 15
48390669 AAGCATACCA
48390679 AAATATTCAAAGTTAC
1 AAATATTCAAAG-TAC
*
48390695 AAATCTTCAAA-T-C
1 AAATATTCAAAGTAC
48390708 AAATATTCAAAGT
1 AAATATTCAAAGT
48390721 TTCAAATCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
13 11 0.48
14 2 0.09
16 10 0.43
ACGTcount: A:0.50, C:0.14, G:0.05, T:0.31
Consensus pattern (15 bp):
AAATATTCAAAGTAC
Found at i:48390721 original size:29 final size:29
Alignment explanation
Indices: 48390679--48390740 Score: 106
Period size: 29 Copynumber: 2.1 Consensus size: 29
48390669 AAGCATACCA
48390679 AAATATTCAAAGTTACAAATCTTCAAATC
1 AAATATTCAAAGTTACAAATCTTCAAATC
* *
48390708 AAATATTCAAAGTTTCAAATCTTCAATTC
1 AAATATTCAAAGTTACAAATCTTCAAATC
48390737 AAAT
1 AAAT
48390741 TTTATATTCG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.47, C:0.16, G:0.03, T:0.34
Consensus pattern (29 bp):
AAATATTCAAAGTTACAAATCTTCAAATC
Found at i:48391205 original size:171 final size:171
Alignment explanation
Indices: 48390920--48391262 Score: 686
Period size: 171 Copynumber: 2.0 Consensus size: 171
48390910 ATTCATGGTT
48390920 CTATATTGTTTCTTGTTTCTGAATCTTTGCTCTTAGTTTTCCTTCGCATTGATTTTGAATTTGAT
1 CTATATTGTTTCTTGTTTCTGAATCTTTGCTCTTAGTTTTCCTTCGCATTGATTTTGAATTTGAT
48390985 TCAGTTTGCACCATTTCTTTGCTTCAGCCTTCCCTGGCAGGGGCTAATATGATGATAAGATTAGC
66 TCAGTTTGCACCATTTCTTTGCTTCAGCCTTCCCTGGCAGGGGCTAATATGATGATAAGATTAGC
48391050 GAAAAGAAAGTGTCGACTTCTATAGAGGTATGTTTACTTGC
131 GAAAAGAAAGTGTCGACTTCTATAGAGGTATGTTTACTTGC
48391091 CTATATTGTTTCTTGTTTCTGAATCTTTGCTCTTAGTTTTCCTTCGCATTGATTTTGAATTTGAT
1 CTATATTGTTTCTTGTTTCTGAATCTTTGCTCTTAGTTTTCCTTCGCATTGATTTTGAATTTGAT
48391156 TCAGTTTGCACCATTTCTTTGCTTCAGCCTTCCCTGGCAGGGGCTAATATGATGATAAGATTAGC
66 TCAGTTTGCACCATTTCTTTGCTTCAGCCTTCCCTGGCAGGGGCTAATATGATGATAAGATTAGC
48391221 GAAAAGAAAGTGTCGACTTCTATAGAGGTATGTTTACTTGC
131 GAAAAGAAAGTGTCGACTTCTATAGAGGTATGTTTACTTGC
48391262 C
1 C
48391263 CCATCCTTCG
Statistics
Matches: 172, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
171 172 1.00
ACGTcount: A:0.22, C:0.18, G:0.19, T:0.41
Consensus pattern (171 bp):
CTATATTGTTTCTTGTTTCTGAATCTTTGCTCTTAGTTTTCCTTCGCATTGATTTTGAATTTGAT
TCAGTTTGCACCATTTCTTTGCTTCAGCCTTCCCTGGCAGGGGCTAATATGATGATAAGATTAGC
GAAAAGAAAGTGTCGACTTCTATAGAGGTATGTTTACTTGC
Found at i:48417597 original size:68 final size:69
Alignment explanation
Indices: 48417516--48417648 Score: 171
Period size: 69 Copynumber: 1.9 Consensus size: 69
48417506 TAATAGATTG
* * * * *
48417516 AATATTTAATTTAATTTAAT-TCTTATATTGAT-AGCATTTTGTTAATTTAATATTAAAGTGATT
1 AATATTAAATTTAATCTAATAT-TTATATTGATAAGCATTATATTAATTTAATATTAAAATGATT
48417579 ATCTT
65 ATCTT
* **
48417584 AATATTAAATTTAATCTAATATTTATCTTGATAAGTGTTATATTAATTTAATATTAAAATGATTA
1 AATATTAAATTTAATCTAATATTTATATTGATAAGCATTATATTAATTTAATATTAAAATGATTA
48417649 AGTTTAATCA
Statistics
Matches: 55, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
68 27 0.49
69 28 0.51
ACGTcount: A:0.39, C:0.04, G:0.07, T:0.50
Consensus pattern (69 bp):
AATATTAAATTTAATCTAATATTTATATTGATAAGCATTATATTAATTTAATATTAAAATGATTA
TCTT
Found at i:48420105 original size:23 final size:23
Alignment explanation
Indices: 48420079--48420131 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
48420069 ATAAGTGCCA
*
48420079 CACTGATATGTAGCTGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* * *
48420102 CACTAACATGTAGCCGAAGCTAG
1 CACTGATATGTAGCCGAAGCTAC
48420125 CACTGAT
1 CACTGAT
48420132 CAATAACACT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.32, C:0.25, G:0.21, T:0.23
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:48420383 original size:18 final size:17
Alignment explanation
Indices: 48420357--48420395 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
48420347 ATTTTCCTTC
48420357 CACATTC-AATATTAATT
1 CACATTCAAATA-TAATT
48420374 CACATATCAAATATAATT
1 CACAT-TCAAATATAATT
48420392 CACA
1 CACA
48420396 ATTTATACAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 11 0.55
19 4 0.20
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
CACATTCAAATATAATT
Found at i:48425779 original size:15 final size:15
Alignment explanation
Indices: 48425743--48425785 Score: 79
Period size: 14 Copynumber: 2.9 Consensus size: 15
48425733 TATAATCCTA
48425743 TTCAAATTTTCAATT
1 TTCAAATTTTCAATT
48425758 TTC-AATTTTCAATT
1 TTCAAATTTTCAATT
48425772 TTCAAATTTTCAAT
1 TTCAAATTTTCAAT
48425786 CCTGGGAACC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
14 14 0.52
15 13 0.48
ACGTcount: A:0.33, C:0.14, G:0.00, T:0.53
Consensus pattern (15 bp):
TTCAAATTTTCAATT
Found at i:48425781 original size:8 final size:7
Alignment explanation
Indices: 48425747--48425785 Score: 69
Period size: 7 Copynumber: 5.4 Consensus size: 7
48425737 ATCCTATTCA
48425747 AATTTTC
1 AATTTTC
48425754 AATTTTC
1 AATTTTC
48425761 AATTTTC
1 AATTTTC
48425768 AATTTTC
1 AATTTTC
48425775 AAATTTTC
1 -AATTTTC
48425783 AAT
1 AAT
48425786 CCTGGGAACC
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
7 24 0.77
8 7 0.23
ACGTcount: A:0.33, C:0.13, G:0.00, T:0.54
Consensus pattern (7 bp):
AATTTTC
Found at i:48433995 original size:45 final size:45
Alignment explanation
Indices: 48433926--48434070 Score: 175
Period size: 45 Copynumber: 3.2 Consensus size: 45
48433916 TAACGGTAGC
* * **
48433926 AGTAACAGTAACAATATTCAACACACAAAGTGTTGAATCT-GTAAT
1 AGTAACAGTAACAGTATTCGACACACAAAGTGCCGAAT-TGGTAAT
** *
48433971 AGTAATGGTAACAGTATTCGACACACAAAATGCCGAATTGGTAAT
1 AGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATTGGTAAT
* ** *
48434016 AGTAACAGTAACAGTATTCGACACACAAAGTACCGAATCAGTAAC
1 AGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATTGGTAAT
48434061 AGTAACAGTA
1 AGTAACAGTA
48434071 GTCGGCACAT
Statistics
Matches: 85, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
44 1 0.01
45 84 0.99
ACGTcount: A:0.43, C:0.17, G:0.17, T:0.23
Consensus pattern (45 bp):
AGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATTGGTAAT
Found at i:48434059 original size:39 final size:38
Alignment explanation
Indices: 48434016--48434097 Score: 110
Period size: 39 Copynumber: 2.1 Consensus size: 38
48434006 AATTGGTAAT
*
48434016 AGTAACAGTAACAGTATTCGACACACAAAGTACCGAATC
1 AGTAACAGTAACAGTAGTCGACACA-AAAGTACCGAATC
* * * *
48434055 AGTAACAGTAACAGTAGTCGGCACATAAGTGCCTAATC
1 AGTAACAGTAACAGTAGTCGACACAAAAGTACCGAATC
48434093 AGTAA
1 AGTAA
48434098 GCCGGCAAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
38 15 0.39
39 23 0.61
ACGTcount: A:0.41, C:0.21, G:0.18, T:0.20
Consensus pattern (38 bp):
AGTAACAGTAACAGTAGTCGACACAAAAGTACCGAATC
Found at i:48435109 original size:12 final size:12
Alignment explanation
Indices: 48435088--48435128 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
48435078 CTGTTTCGTC
*
48435088 TCTTTCTCTGTT
1 TCTTTTTCTGTT
48435100 TCTTTTTCTG-T
1 TCTTTTTCTGTT
48435111 TCTTCTTT-TGTT
1 TCTT-TTTCTGTT
48435123 TCTTTT
1 TCTTTT
48435129 ATTTTACTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
11 9 0.35
12 17 0.65
ACGTcount: A:0.00, C:0.20, G:0.07, T:0.73
Consensus pattern (12 bp):
TCTTTTTCTGTT
Found at i:48435585 original size:25 final size:23
Alignment explanation
Indices: 48435541--48435601 Score: 61
Period size: 24 Copynumber: 2.5 Consensus size: 23
48435531 ATTTTAATTT
*
48435541 ATTTAATAATATAATATCATTATA
1 ATTTAATTATATAATATCA-TATA
48435565 ATTTAATTATCATAA-ATTCATATA
1 ATTTAATTAT-ATAATA-TCATATA
*
48435589 ATATAAATTATAT
1 AT-TTAATTATAT
48435602 TTTAATATCA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
24 18 0.56
25 14 0.44
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (23 bp):
ATTTAATTATATAATATCATATA
Found at i:48435606 original size:36 final size:34
Alignment explanation
Indices: 48435549--48435626 Score: 97
Period size: 35 Copynumber: 2.3 Consensus size: 34
48435539 TTATTTAATA
*
48435549 ATATAATAT-CATTATAATTTAATTATCATAAATT
1 ATATAATATAAATTATAATTTAA-TATCATAAATT
* *
48435583 CATATAATATAAATTATATTTTAATATCATTAATT
1 -ATATAATATAAATTATAATTTAATATCATAAATT
48435618 ATAT-ATATA
1 ATATAATATA
48435627 CTTAGACAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
33 5 0.13
34 4 0.10
35 19 0.49
36 11 0.28
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (34 bp):
ATATAATATAAATTATAATTTAATATCATAAATT
Found at i:48440838 original size:31 final size:31
Alignment explanation
Indices: 48440799--48440865 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 31
48440789 ACATAACTAG
* *
48440799 AAAAATATTGTAATTT-GGTCATTGAATTATT
1 AAAAATATT-TAATTTAAGTCATTGAACTATT
* *
48440830 CAAAATATTTTATTTAAGTCATTGAACTATT
1 AAAAATATTTAATTTAAGTCATTGAACTATT
48440861 AAAAA
1 AAAAA
48440866 CTTAAAATCA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
30 5 0.17
31 25 0.83
ACGTcount: A:0.43, C:0.06, G:0.09, T:0.42
Consensus pattern (31 bp):
AAAAATATTTAATTTAAGTCATTGAACTATT
Found at i:48445646 original size:106 final size:103
Alignment explanation
Indices: 48445515--48445726 Score: 388
Period size: 106 Copynumber: 2.0 Consensus size: 103
48445505 AAAAAGTATG
48445515 AATCAGGAAAGTATGTGTGGTGGGGTGATTGCTTATAGAAATAAGATTAGAAGTTTGATCTTTAC
1 AATCAGGAAAGTATGTGTGGTGGGGTGATTGCTTATAGAAATAAGATTAGAAGTTTGATCTTTAC
48445580 TCGTAGCAATAAGAAACTAGACTAATTGAAAGTGTGCTTGA
66 TCGT---AATAAGAAACTAGACTAATTGAAAGTGTGCTTGA
*
48445621 AATCAGGAAAGTATGTGTGGTGGGGTGATTGCTTATAGAAATAAGATTAGGAGTTTGATCTTTAC
1 AATCAGGAAAGTATGTGTGGTGGGGTGATTGCTTATAGAAATAAGATTAGAAGTTTGATCTTTAC
48445686 TCGTAATAAGAAACTAGACTAATTGAAAGTGTGCTTGA
66 TCGTAATAAGAAACTAGACTAATTGAAAGTGTGCTTGA
48445724 AAT
1 AAT
48445727 TGAAAAAATT
Statistics
Matches: 105, Mismatches: 1, Indels: 3
0.96 0.01 0.03
Matches are distributed among these distances:
103 37 0.35
106 68 0.65
ACGTcount: A:0.35, C:0.08, G:0.25, T:0.32
Consensus pattern (103 bp):
AATCAGGAAAGTATGTGTGGTGGGGTGATTGCTTATAGAAATAAGATTAGAAGTTTGATCTTTAC
TCGTAATAAGAAACTAGACTAATTGAAAGTGTGCTTGA
Found at i:48446258 original size:21 final size:22
Alignment explanation
Indices: 48446234--48446281 Score: 57
Period size: 20 Copynumber: 2.3 Consensus size: 22
48446224 AAAATTACAA
48446234 AAAAAAATTC-AAAAT-A-TTT
1 AAAAAAATTCAAAAATCATTTT
*
48446253 ATAAAAATTTCAAAAATCATTTT
1 A-AAAAAATTCAAAAATCATTTT
48446276 AAAAAA
1 AAAAAA
48446282 TTCTTAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
19 1 0.04
20 8 0.33
21 5 0.21
22 6 0.25
23 4 0.17
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.31
Consensus pattern (22 bp):
AAAAAAATTCAAAAATCATTTT
Found at i:48451262 original size:19 final size:21
Alignment explanation
Indices: 48451212--48451262 Score: 54
Period size: 19 Copynumber: 2.6 Consensus size: 21
48451202 TATTTTACTC
*
48451212 TTAAAAAAAT-TAAATATCAA
1 TTAATAAAATATAAATATCAA
*
48451232 TTAATAATATATAAAT-T-AA
1 TTAATAAAATATAAATATCAA
*
48451251 TTATTAAAATAT
1 TTAATAAAATAT
48451263 TCAAAAAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
19 12 0.46
20 9 0.35
21 5 0.19
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (21 bp):
TTAATAAAATATAAATATCAA
Found at i:48451291 original size:22 final size:22
Alignment explanation
Indices: 48451231--48451296 Score: 66
Period size: 22 Copynumber: 3.0 Consensus size: 22
48451221 TTAAATATCA
48451231 ATTAATAATATAT-AAATTAATT
1 ATTAATAATATATAAAATT-ATT
*
48451253 ATTAA-AATAT-TCAAAAAATATT
1 ATTAATAATATAT--AAAATTATT
*
48451275 TTTAATAATATATAAAATTATT
1 ATTAATAATATATAAAATTATT
48451297 CGATTAATGT
Statistics
Matches: 36, Mismatches: 3, Indels: 10
0.73 0.06 0.20
Matches are distributed among these distances:
20 1 0.03
21 5 0.14
22 20 0.56
23 9 0.25
24 1 0.03
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (22 bp):
ATTAATAATATATAAAATTATT
Found at i:48452345 original size:26 final size:27
Alignment explanation
Indices: 48452311--48452362 Score: 63
Period size: 25 Copynumber: 2.0 Consensus size: 27
48452301 TGAGAGTGAT
*
48452311 TAAATCATTGTCTAATTAGAT-TTTTAA
1 TAAATCATT-TATAATTAGATATTTTAA
*
48452338 TAAA-CATTTATAATTATATATTTTA
1 TAAATCATTTATAATTAGATATTTTA
48452363 CAAATTAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
25 9 0.41
26 9 0.41
27 4 0.18
ACGTcount: A:0.40, C:0.06, G:0.04, T:0.50
Consensus pattern (27 bp):
TAAATCATTTATAATTAGATATTTTAA
Found at i:48458306 original size:33 final size:35
Alignment explanation
Indices: 48458269--48458365 Score: 89
Period size: 33 Copynumber: 2.8 Consensus size: 35
48458259 ATGGTTATAT
48458269 TTAAATATTTAAAATATAATTTATATATT-C-TAA
1 TTAAATATTTAAAATATAATTTATATATTGCTTAA
* *
48458302 TTAAAT-TTTATAA-ATAATTAATATTTATTGCTTAA
1 TTAAATATTTAAAATATAATT--TATATATTGCTTAA
*
48458337 --AAATATTTAAAATTTATATTTCATATATT
1 TTAAATATTTAAAATATA-ATTT-ATATATT
48458366 AAAATATTGA
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
31 6 0.12
32 6 0.12
33 17 0.33
34 8 0.16
35 11 0.22
36 3 0.06
ACGTcount: A:0.45, C:0.03, G:0.01, T:0.51
Consensus pattern (35 bp):
TTAAATATTTAAAATATAATTTATATATTGCTTAA
Found at i:48459373 original size:116 final size:117
Alignment explanation
Indices: 48459169--48459381 Score: 367
Period size: 116 Copynumber: 1.8 Consensus size: 117
48459159 GGGGGCTCGA
48459169 ACTTGGGTAAGCAAGAGGGAGAGACTAACACTTAATCATTAGGTTGTTGCCCATTTCTTACTTAA
1 ACTTGGGTAAGCAAGAGGGAGAGACTAACACTTAATCATTAGGTTGTTGCCCATTTCTTACTTAA
48459234 TTTCGTCGCTTAACCGAACTTATG-TTTAGGGGTGTCACAAGGGAGGAAGGC
66 TTTCGTCGCTTAACCGAACTTATGTTTTAGGGGTGTCACAAGGGAGGAAGGC
* * *
48459285 ACTTGGGTAAGCAAGGGGGAGAGACTAA-AGCTTAATCGTTAGGTTGTTGCCTATTTCTTACTTA
1 ACTTGGGTAAGCAAGAGGGAGAGACTAACA-CTTAATCATTAGGTTGTTGCCCATTTCTTACTTA
*
48459349 ATTTTGTCGCTTAACCGAACTTATGTTTTAGGG
65 ATTTCGTCGCTTAACCGAACTTATGTTTTAGGG
48459382 TGTTACAGTC
Statistics
Matches: 91, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
115 1 0.01
116 83 0.91
117 7 0.08
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.32
Consensus pattern (117 bp):
ACTTGGGTAAGCAAGAGGGAGAGACTAACACTTAATCATTAGGTTGTTGCCCATTTCTTACTTAA
TTTCGTCGCTTAACCGAACTTATGTTTTAGGGGTGTCACAAGGGAGGAAGGC
Found at i:48461362 original size:25 final size:25
Alignment explanation
Indices: 48461330--48461436 Score: 173
Period size: 25 Copynumber: 4.3 Consensus size: 25
48461320 ATGTGCTAAA
**
48461330 CAGAGAGCACTGACGTGCTAA-ATAT
1 CAGAGAGCACCAACGTGCTAATA-AT
48461355 CAGAGAGCACCAACGTGCTAAT-AT
1 CAGAGAGCACCAACGTGCTAATAAT
48461379 CAGAGAGCACCAACGTGCTAATAAT
1 CAGAGAGCACCAACGTGCTAATAAT
48461404 CAGAGAGCACCAACGTGCTAATAAT
1 CAGAGAGCACCAACGTGCTAATAAT
48461429 CAGAGAGC
1 CAGAGAGC
48461437 GCGCTAAAGT
Statistics
Matches: 78, Mismatches: 2, Indels: 4
0.93 0.02 0.05
Matches are distributed among these distances:
24 24 0.31
25 54 0.69
ACGTcount: A:0.38, C:0.23, G:0.22, T:0.16
Consensus pattern (25 bp):
CAGAGAGCACCAACGTGCTAATAAT
Found at i:48461395 original size:49 final size:49
Alignment explanation
Indices: 48461303--48461436 Score: 177
Period size: 49 Copynumber: 2.8 Consensus size: 49
48461293 TATACGGAAC
* * * **
48461303 AAATA-CAGATAGCACAAATGTGCTAA-A-CAGAGAGCACTGACGTGCT
1 AAATATCAGAGAGCACCAACGTGCTAATATCAGAGAGCACCAACGTGCT
48461349 AAATATCAGAGAGCACCAACGTGCTAATATCAGAGAGCACCAACGTGCT
1 AAATATCAGAGAGCACCAACGTGCTAATATCAGAGAGCACCAACGTGCT
48461398 -AATAATCAGAGAGCACCAACGTGCTAATAATCAGAGAGC
1 AAAT-ATCAGAGAGCACCAACGTGCTAAT-ATCAGAGAGC
48461437 GCGCTAAAGT
Statistics
Matches: 78, Mismatches: 5, Indels: 6
0.88 0.06 0.07
Matches are distributed among these distances:
46 5 0.06
47 18 0.23
48 4 0.05
49 41 0.53
50 10 0.13
ACGTcount: A:0.41, C:0.22, G:0.21, T:0.16
Consensus pattern (49 bp):
AAATATCAGAGAGCACCAACGTGCTAATATCAGAGAGCACCAACGTGCT
Found at i:48462225 original size:309 final size:309
Alignment explanation
Indices: 48461666--48462283 Score: 1236
Period size: 309 Copynumber: 2.0 Consensus size: 309
48461656 ATTCATATAT
48461666 TTTTTTTTAATTCATTTTCTACTCGAATTCATGTACAATTCAATATCAATATTCATCTTATTATT
1 TTTTTTTTAATTCATTTTCTACTCGAATTCATGTACAATTCAATATCAATATTCATCTTATTATT
48461731 ATTATTTTTTTACTAAACATATTATTCAAAATTCAACAATTATTATTAATAAATTCAATACCAAT
66 ATTATTTTTTTACTAAACATATTATTCAAAATTCAACAATTATTATTAATAAATTCAATACCAAT
48461796 ACGTATATATATTCATTCAATTCTTTCATGATACTCACCTTAATTTGCTTATCATGCATATTAAT
131 ACGTATATATATTCATTCAATTCTTTCATGATACTCACCTTAATTTGCTTATCATGCATATTAAT
48461861 TTAAATTTCAACGATTAATAATTAAATTCGAATTATAGTAATACTAACCGTAATTTTTTTCGAGT
196 TTAAATTTCAACGATTAATAATTAAATTCGAATTATAGTAATACTAACCGTAATTTTTTTCGAGT
48461926 CACTCCTTGTCCACTTTCTCCTTTCCTTTCTCGGACAATGACTCGTACA
261 CACTCCTTGTCCACTTTCTCCTTTCCTTTCTCGGACAATGACTCGTACA
48461975 TTTTTTTTAATTCATTTTCTACTCGAATTCATGTACAATTCAATATCAATATTCATCTTATTATT
1 TTTTTTTTAATTCATTTTCTACTCGAATTCATGTACAATTCAATATCAATATTCATCTTATTATT
48462040 ATTATTTTTTTACTAAACATATTATTCAAAATTCAACAATTATTATTAATAAATTCAATACCAAT
66 ATTATTTTTTTACTAAACATATTATTCAAAATTCAACAATTATTATTAATAAATTCAATACCAAT
48462105 ACGTATATATATTCATTCAATTCTTTCATGATACTCACCTTAATTTGCTTATCATGCATATTAAT
131 ACGTATATATATTCATTCAATTCTTTCATGATACTCACCTTAATTTGCTTATCATGCATATTAAT
48462170 TTAAATTTCAACGATTAATAATTAAATTCGAATTATAGTAATACTAACCGTAATTTTTTTCGAGT
196 TTAAATTTCAACGATTAATAATTAAATTCGAATTATAGTAATACTAACCGTAATTTTTTTCGAGT
48462235 CACTCCTTGTCCACTTTCTCCTTTCCTTTCTCGGACAATGACTCGTACA
261 CACTCCTTGTCCACTTTCTCCTTTCCTTTCTCGGACAATGACTCGTACA
48462284 CGACATTAGC
Statistics
Matches: 309, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
309 309 1.00
ACGTcount: A:0.33, C:0.18, G:0.06, T:0.44
Consensus pattern (309 bp):
TTTTTTTTAATTCATTTTCTACTCGAATTCATGTACAATTCAATATCAATATTCATCTTATTATT
ATTATTTTTTTACTAAACATATTATTCAAAATTCAACAATTATTATTAATAAATTCAATACCAAT
ACGTATATATATTCATTCAATTCTTTCATGATACTCACCTTAATTTGCTTATCATGCATATTAAT
TTAAATTTCAACGATTAATAATTAAATTCGAATTATAGTAATACTAACCGTAATTTTTTTCGAGT
CACTCCTTGTCCACTTTCTCCTTTCCTTTCTCGGACAATGACTCGTACA
Found at i:48462517 original size:9 final size:9
Alignment explanation
Indices: 48462503--48462537 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
48462493 TTCTATTCTG
48462503 TTTCTTTTC
1 TTTCTTTTC
*
48462512 TTTCTTTTT
1 TTTCTTTTC
*
48462521 TTTCTATTC
1 TTTCTTTTC
48462530 TTTCTTTT
1 TTTCTTTT
48462538 GTTTTATGTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.80
Consensus pattern (9 bp):
TTTCTTTTC
Found at i:48462530 original size:18 final size:19
Alignment explanation
Indices: 48462503--48462542 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
48462493 TTCTATTCTG
*
48462503 TTTCTTTTCTTTCTTTT-T
1 TTTCTATTCTTTCTTTTGT
48462521 TTTCTATTCTTTCTTTTGT
1 TTTCTATTCTTTCTTTTGT
48462540 TTT
1 TTT
48462543 ATGTAATAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.03, C:0.15, G:0.03, T:0.80
Consensus pattern (19 bp):
TTTCTATTCTTTCTTTTGT
Found at i:48462556 original size:5 final size:5
Alignment explanation
Indices: 48462548--48462590 Score: 63
Period size: 5 Copynumber: 8.8 Consensus size: 5
48462538 GTTTTATGTA
48462548 ATAAT ATAAT ATAAT ATAAT AT-AT -TAAT AATAAT ATAAT ATAA
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT -ATAAT ATAAT ATAA
48462591 AAACATAATT
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
3 1 0.03
4 4 0.11
5 26 0.74
6 4 0.11
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATAAT
Found at i:48462582 original size:19 final size:18
Alignment explanation
Indices: 48462554--48462589 Score: 63
Period size: 19 Copynumber: 1.9 Consensus size: 18
48462544 TGTAATAATA
48462554 TAATATAATATAATATAT
1 TAATATAATATAATATAT
48462572 TAATAATAATATAATATA
1 TAAT-ATAATATAATATA
48462590 AAAACATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
TAATATAATATAATATAT
Found at i:48462599 original size:24 final size:23
Alignment explanation
Indices: 48462547--48462599 Score: 63
Period size: 24 Copynumber: 2.3 Consensus size: 23
48462537 TGTTTTATGT
*
48462547 AATAATATAATATAATATAATAT
1 AATAATATAATATAATATAATAA
*
48462570 ATTAATAATAATATAATATAA-AA
1 AATAAT-ATAATATAATATAATAA
48462593 ACATAAT
1 A-ATAAT
48462600 TATTACTTAC
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
23 7 0.28
24 18 0.72
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (23 bp):
AATAATATAATATAATATAATAA
Found at i:48463782 original size:18 final size:18
Alignment explanation
Indices: 48463745--48463782 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
48463735 ACTTTAACTA
*
48463745 ATAACTATAAATTAAGTT
1 ATAACTATAAATTAAATT
48463763 ATAACTAT-AATTATAATT
1 ATAACTATAAATTA-AATT
48463781 AT
1 AT
48463783 CACAATTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (18 bp):
ATAACTATAAATTAAATT
Found at i:48464168 original size:20 final size:21
Alignment explanation
Indices: 48464131--48464172 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
48464121 TTGACTTGTT
48464131 AATTCAAATATTATAATTAAAA
1 AATTCAAATA-TATAATTAAAA
48464153 AATTCAAATA-ATAATTAAAA
1 AATTCAAATATATAATTAAAA
48464173 CATTTTTAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 10 0.50
22 10 0.50
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (21 bp):
AATTCAAATATATAATTAAAA
Found at i:48467339 original size:65 final size:65
Alignment explanation
Indices: 48467256--48467381 Score: 216
Period size: 65 Copynumber: 1.9 Consensus size: 65
48467246 ATTGATCTTA
*
48467256 TTTAATTCCGCGAGCAGTATTAACATCAGCCCAATCACATCAAAATAAGACAACTTTCCATATTG
1 TTTAATTCCACGAGCAGTATTAACATCAGCCCAATCACATCAAAATAAGACAACTTTCCATATTG
* * *
48467321 TTTAATTCCATGAGCAGTATTAACATCAGCCTAATCACATCGAAATAAGACAACTTTCCAT
1 TTTAATTCCACGAGCAGTATTAACATCAGCCCAATCACATCAAAATAAGACAACTTTCCAT
48467382 TTGCCATAGT
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
65 57 1.00
ACGTcount: A:0.37, C:0.24, G:0.10, T:0.29
Consensus pattern (65 bp):
TTTAATTCCACGAGCAGTATTAACATCAGCCCAATCACATCAAAATAAGACAACTTTCCATATTG
Found at i:48469615 original size:28 final size:28
Alignment explanation
Indices: 48469558--48469615 Score: 64
Period size: 28 Copynumber: 2.1 Consensus size: 28
48469548 ATTAAATCCG
* *
48469558 TAAACACTAAACTCTTAACACTAAATCA
1 TAAACACTAAACTCTTAACACCAAACCA
* *
48469586 TAAACCCTAAAC-CTTGAACCCCAAACCA
1 TAAACACTAAACTCTT-AACACCAAACCA
48469614 TA
1 TA
48469616 GACCTACACC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
27 3 0.12
28 22 0.88
ACGTcount: A:0.47, C:0.31, G:0.02, T:0.21
Consensus pattern (28 bp):
TAAACACTAAACTCTTAACACCAAACCA
Found at i:48470036 original size:40 final size:39
Alignment explanation
Indices: 48469991--48470074 Score: 98
Period size: 40 Copynumber: 2.1 Consensus size: 39
48469981 CTTTTTTGCA
*
48469991 GCGTTTTCCA-AAAAGCGCCGCTAATACTTGATATATAGCG
1 GCGTTTTACACAAAA-CGCCGCTAATACTTGATAT-TAGCG
* * * *
48470031 GCGTTTTACACTAAACGCCGCTATTGCTTGATCTTAGCG
1 GCGTTTTACACAAAACGCCGCTAATACTTGATATTAGCG
48470070 GCGTT
1 GCGTT
48470075 GGTTAAAAAG
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
39 10 0.26
40 25 0.66
41 3 0.08
ACGTcount: A:0.24, C:0.24, G:0.21, T:0.31
Consensus pattern (39 bp):
GCGTTTTACACAAAACGCCGCTAATACTTGATATTAGCG
Found at i:48470045 original size:157 final size:153
Alignment explanation
Indices: 48469735--48470096 Score: 374
Period size: 157 Copynumber: 2.3 Consensus size: 153
48469725 TTCTAGAAAG
* * * * * *
48469735 GCGCCGCTAATTCTCGATCTTTTGCAGCGTTTGTTAAGAAGCGCCGCTAACGCCACTAAAACTCA
1 GCGCCGCTATTTCTTGATCTTTTGCGGCGTTTGTTAAAAAGCGTCGCTAATGCCACTAAAACTCA
* * * * *
48469800 AAAAGAAAACGATGTCGTTTTGTTCAACGTTTTTACGGTGTTTTCTCAAAAAACGCCGCTAATGC
66 AAAAGAAAAC-ATGACGTTTTGCTCAACGTTTTTACAGCGTTTTCTCAAAAAACGCCGCTAATAC
*
48469865 TTCATCTATAACGACATTTCTAAAAA
130 TTCATATATAACGACATTTCT--AAA
* * * *
48469891 TGCGCCGCTATTTCTTGATCTTTTTCGGCGTTTGTTAAAAAGCATCGTTAATGCCACTAAAGCTC
1 -GCGCCGCTATTTCTTGATCTTTTGCGGCGTTTGTTAAAAAGCGTCGCTAATGCCACTAAAACTC
* * * *
48469956 AAAAA-TAAA-ATGACGTTTTGCTCAACTTTTTTGCAGCGTTTTC-CAAAAAGCGCCGCTAATAC
65 AAAAAGAAAACATGACGTTTTGCTCAACGTTTTTACAGCGTTTTCTCAAAAAACGCCGCTAATAC
* * * *
48470018 TTGATATATAGCGGCGTTTTACACTAAA
130 TTCATATATAACGAC-ATTT---CTAAA
* * *
48470046 -CGCCGCTATTGCTTGATC-TTAGCGGCGTTGGTTAAAAAGCGTCGCTAATGC
1 GCGCCGCTATTTCTTGATCTTTTGCGGCGTTTGTTAAAAAGCGTCGCTAATGC
48470097 TCAATTTATT
Statistics
Matches: 171, Mismatches: 30, Indels: 13
0.80 0.14 0.06
Matches are distributed among these distances:
152 28 0.16
153 45 0.26
154 31 0.18
155 3 0.02
156 3 0.02
157 61 0.36
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (153 bp):
GCGCCGCTATTTCTTGATCTTTTGCGGCGTTTGTTAAAAAGCGTCGCTAATGCCACTAAAACTCA
AAAAGAAAACATGACGTTTTGCTCAACGTTTTTACAGCGTTTTCTCAAAAAACGCCGCTAATACT
TCATATATAACGACATTTCTAAA
Found at i:48470288 original size:29 final size:29
Alignment explanation
Indices: 48470255--48470315 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 29
48470245 TTATTTTTTA
*
48470255 AAATTATTTGTAGATGTAGAATATATAAC
1 AAATTATTTGTAGATATAGAATATATAAC
* * *
48470284 AAATTATTTGTTGATATGGCATATATAAC
1 AAATTATTTGTAGATATAGAATATATAAC
48470313 AAA
1 AAA
48470316 CAATGTCATG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.44, C:0.05, G:0.13, T:0.38
Consensus pattern (29 bp):
AAATTATTTGTAGATATAGAATATATAAC
Found at i:48470689 original size:25 final size:24
Alignment explanation
Indices: 48470656--48470706 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 24
48470646 TAACTCTATT
*
48470656 TTAAAATTAGAAT-TATATTTTAAA
1 TTAAAATTAGAATATA-AGTTTAAA
*
48470680 TTAATAATTATAATATAAGTTTAAA
1 TTAA-AATTAGAATATAAGTTTAAA
48470705 TT
1 TT
48470707 GTTTTTAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 4 0.17
25 17 0.74
26 2 0.09
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (24 bp):
TTAAAATTAGAATATAAGTTTAAA
Found at i:48473968 original size:21 final size:21
Alignment explanation
Indices: 48473938--48473981 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
48473928 ATTAATAGTA
48473938 ATACTAATAT-TACATAAAGAT
1 ATACTAATATATA-ATAAAGAT
* *
48473959 ATACTTATATATATTAAAGAT
1 ATACTAATATATAATAAAGAT
48473980 AT
1 AT
48473982 GTGCATATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 18 0.90
22 2 0.10
ACGTcount: A:0.50, C:0.07, G:0.05, T:0.39
Consensus pattern (21 bp):
ATACTAATATATAATAAAGAT
Found at i:48474481 original size:3 final size:3
Alignment explanation
Indices: 48474473--48474595 Score: 246
Period size: 3 Copynumber: 41.0 Consensus size: 3
48474463 ACAAAAGAAC
48474473 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
48474521 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
48474569 ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA
48474596 TGAAAATAAC
Statistics
Matches: 120, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 120 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:48476102 original size:73 final size:73
Alignment explanation
Indices: 48475951--48476204 Score: 395
Period size: 73 Copynumber: 3.5 Consensus size: 73
48475941 ACATGTGAAC
* * *
48475951 TGAGGCTCAACTCACTTT-TCGCAATATGAGTTGATTTTTTTTACAACAGAAATTGAAATTACCT
1 TGAGGCTCAACTCA-TTTCTCGCAATATGAGTTGA-ATTTTTGAAAACAGAAATTGAAATTACCT
* *
48476015 CAGCGTGTCC
64 CAACGTGTCT
* *
48476025 TGAGGCTCAACTCATTTCTCGCAATATGAGTT-AAATTTTGAAAAGCAGAAATTGAAAATACCTC
1 TGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTTGAAAA-CAGAAATTGAAATTACCTC
48476089 AACGTGTCT
65 AACGTGTCT
48476098 TGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTTGAAAACAGAAATTGAAATTACCTCA
1 TGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTTGAAAACAGAAATTGAAATTACCTCA
*
48476163 ATGTGTCT
66 ACGTGTCT
48476171 TGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
1 TGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
48476205 TTCTTTCAAA
Statistics
Matches: 167, Mismatches: 10, Indels: 7
0.91 0.05 0.04
Matches are distributed among these distances:
72 7 0.04
73 121 0.72
74 39 0.23
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Consensus pattern (73 bp):
TGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTTGAAAACAGAAATTGAAATTACCTCA
ACGTGTCT
Found at i:48476286 original size:88 final size:83
Alignment explanation
Indices: 48476137--48476627 Score: 335
Period size: 88 Copynumber: 5.9 Consensus size: 83
48476127 GTTGAATTTT
* ** * * **
48476137 TGAAAACAGAAATTGAAATTACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGT
1 TGAAAACA-AAA-TGAAAATACCTCGGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGT
*
48476202 TGATTCTTTCAAAAACATAATAA
64 TGATT-TTTGAAAAACA-AA-AA
48476225 TGAAAACAGAAATGGAAAATACCTCGGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGT
1 TGAAAACA-AAAT-GAAAATACCTCGGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGT
*
48476290 TGATTTTTTTTTTGAAAAACAGAAA
64 TGA-----TTTTTGAAAAACAAAAA
* * * *
48476315 TCAAAAGGCTTAATTGAAAATACCTCGGCGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
1 TGAAAA--C-AAAATGAAAATACCTC-G-GTGTGACCTGAGGCTCAACTCACCTCTCGCAATATG
48476380 AGTTGATTTTTTG-AAAACAAAAA
61 AGTTGA-TTTTTGAAAAACAAAAA
** ** * * *
48476403 T----TTAAAA-G-AAATACCTCGGCATGACCCGAGGCTCAACTCACCTCT-GTATTATGAGTTG
1 TGAAAACAAAATGAAAATACCTCGGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
*
48476461 ATTTTTGAAAAACAGAAAT
66 ATTTTTGAAAAACA-AAAA
*
48476480 TG-----AAAA-G-AAATACCTCGGCATGTGATCC-AAGGCTCAACTCACCTCTCGCAATATGAG
1 TGAAAACAAAATGAAAATACCTCGG--TGTGA-CCTGAGGCTCAACTCACCTCTCGCAATATGAG
*
48476537 TTGATTTTTGAAAAACGAAAA
63 TTGATTTTTGAAAAACAAAAA
*** * ** * * *
48476558 T----TTGAAA-G-AAATACTTCGGCATGACCCGAGGCTCAACTCACCTCT-GTATTATGAGTTG
1 TGAAAACAAAATGAAAATACCTCGGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
48476616 ATTTTTGAAAAA
66 ATTTTTGAAAAA
48476628 AGTAGAAATT
Statistics
Matches: 343, Mismatches: 39, Indels: 54
0.79 0.09 0.12
Matches are distributed among these distances:
75 6 0.02
76 59 0.17
77 47 0.14
78 25 0.07
79 49 0.14
80 1 0.00
81 2 0.01
87 1 0.00
88 69 0.20
89 7 0.02
90 7 0.02
91 12 0.03
92 15 0.04
93 43 0.13
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (83 bp):
TGAAAACAAAATGAAAATACCTCGGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
ATTTTTGAAAAACAAAAA
Found at i:48476473 original size:76 final size:77
Alignment explanation
Indices: 48476353--48476627 Score: 403
Period size: 76 Copynumber: 3.6 Consensus size: 77
48476343 CGTGTGTCCT
48476353 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG-AAAACAAAAATTTAAAAGAAATAC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAACAAAAATTTAAAAGAAATAC
48476417 CTCGGCATGACCC
65 CTCGGCATGACCC
* * * *
48476430 GAGGCTCAACTCACCTCT-GTATTATGAGTTGATTTTTGAAAAACAGAAATTGAAAAGAAATACC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAAAAATTTAAAAGAAATACC
*
48476494 TCGGCATGTGATCC
66 TCGGCA--TGACCC
* * * *
48476508 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACGAAAATTTGAAAGAAATACT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAAAAATTTAAAAGAAATACC
48476573 TCGGCATGACCC
66 TCGGCATGACCC
* *
48476585 GAGGCTCAACTCACCTCT-GTATTATGAGTTGATTTTTGAAAAA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAA
48476628 AGTAGAAATT
Statistics
Matches: 177, Mismatches: 17, Indels: 9
0.87 0.08 0.04
Matches are distributed among these distances:
75 6 0.03
76 64 0.36
77 40 0.23
78 22 0.12
79 45 0.25
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (77 bp):
GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAAAAATTTAAAAGAAATACC
TCGGCATGACCC
Found at i:48476614 original size:155 final size:155
Alignment explanation
Indices: 48476332--48476627 Score: 515
Period size: 155 Copynumber: 1.9 Consensus size: 155
48476322 GCTTAATTGA
* *
48476332 AAATACCTCGGCGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAA
1 AAATACCTCGGCATGTGTCCTAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAA
48476397 CAAAAATTTAAAAGAAATACCTCGGCATGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGA
66 CAAAAATTTAAAAGAAATACCTCGGCATGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGA
48476462 TTTTTGAAAAACAGAAATTGAAAAG
131 TTTTTGAAAAACAGAAATTGAAAAG
48476487 AAATACCTCGGCATGTGATCC-AAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAA
1 AAATACCTCGGCATGTG-TCCTAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG-AA
* * *
48476550 AACGAAAATTTGAAAGAAATACTTCGGCATGACCCGAGGCTCAACTCACCTCTGTATTATGAGTT
64 AACAAAAATTTAAAAGAAATACCTCGGCATGACCCGAGGCTCAACTCACCTCTGTATTATGAGTT
48476615 GATTTTTGAAAAA
129 GATTTTTGAAAAA
48476628 AGTAGAAATT
Statistics
Matches: 134, Mismatches: 5, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
154 6 0.04
155 125 0.93
156 3 0.02
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.28
Consensus pattern (155 bp):
AAATACCTCGGCATGTGTCCTAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAA
CAAAAATTTAAAAGAAATACCTCGGCATGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGA
TTTTTGAAAAACAGAAATTGAAAAG
Found at i:48476889 original size:217 final size:219
Alignment explanation
Indices: 48476487--48476889 Score: 582
Period size: 220 Copynumber: 1.8 Consensus size: 219
48476477 AATTGAAAAG
* * ** *
48476487 AAATACCTCGGCATGTGATCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAA
1 AAATACCTCGGCATGTGACCCAAGGCTCAACTCACCTCTCACAATATGAGTTGATAATTAAAAAA
* * * * * * *
48476552 CGAAAATTTGAAAGAAATACTTCGGCATGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGA
66 CAAAAAATTG-AAGAAATACCTCAGCATGACCCGAGGCTCAACTCACCTCTGCAATATGAGCTGA
*
48476617 TTTTTGAAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTTTTGAAC
130 ATTTTGAAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTTTTGAAC
48476682 ACAGAATTTGCCAAACAGATTTTGA
195 ACAGAATTTGCCAAACAGATTTTGA
*
48476707 AAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCACAATATGAGTTGA-AATTAAAACA
1 AAATACCTCGGCATGTGACCCAAGGCTCAACTCACCTCTCACAATATGAGTTGATAATTAAAA-A
* * *
48476771 CACAAAAAATTG-A-AAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTTTAGCAATATGAGCT
65 -ACAAAAAATTGAAGAAATACCTCAGCATGACCCGAGGCTCAACTCACCTCT-GCAATATGAGCT
48476834 -AATTTTG-AAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGA
128 GAATTTTGAAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGA
48476890 AATTAAAACA
Statistics
Matches: 163, Mismatches: 17, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
217 49 0.30
218 38 0.23
219 15 0.09
220 52 0.32
221 9 0.06
ACGTcount: A:0.36, C:0.22, G:0.17, T:0.26
Consensus pattern (219 bp):
AAATACCTCGGCATGTGACCCAAGGCTCAACTCACCTCTCACAATATGAGTTGATAATTAAAAAA
CAAAAAATTGAAGAAATACCTCAGCATGACCCGAGGCTCAACTCACCTCTGCAATATGAGCTGAA
TTTTGAAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTTTTGAACA
CAGAATTTGCCAAACAGATTTTGA
Found at i:48476963 original size:129 final size:129
Alignment explanation
Indices: 48476733--48477018 Score: 536
Period size: 129 Copynumber: 2.2 Consensus size: 129
48476723 GACCCGAGGC
* *
48476733 TCAACTCACCTCTCACAATATGAGTTGAAATTAAAACACACAAAAAATTGAAAATACCTCAGCGT
1 TCAACCCACCTCTCGCAATATGAGTTGAAATTAAAACACACAAAAAATTGAAAATACCTCAGCGT
* *
48476798 GCCCCGAGGCTCAACTCACCTTTAGCAATATGAGCTAATTTTGAAAAAGTAGAAATTAAAAGGT
66 GCCCCGAGACTCAACTCACCTTTACCAATATGAGCTAATTTTGAAAAAGTAGAAATTAAAAGGT
48476862 TCAACCCACCTCTCGCAATATGAGTTGAAATTAAAACACACAAAAAATTGAAAATACCTCAGCGT
1 TCAACCCACCTCTCGCAATATGAGTTGAAATTAAAACACACAAAAAATTGAAAATACCTCAGCGT
48476927 GCCCCGAGACTCAACTCACCTTTACCAATATGAGCTAATTTTGAAAAAGTAGAAATTAAAAGGT
66 GCCCCGAGACTCAACTCACCTTTACCAATATGAGCTAATTTTGAAAAAGTAGAAATTAAAAGGT
48476991 TCAACCCACCTCTCGCAATATGAGTTGA
1 TCAACCCACCTCTCGCAATATGAGTTGA
48477019 TTTTTTTGAA
Statistics
Matches: 153, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
129 153 1.00
ACGTcount: A:0.40, C:0.23, G:0.14, T:0.24
Consensus pattern (129 bp):
TCAACCCACCTCTCGCAATATGAGTTGAAATTAAAACACACAAAAAATTGAAAATACCTCAGCGT
GCCCCGAGACTCAACTCACCTTTACCAATATGAGCTAATTTTGAAAAAGTAGAAATTAAAAGGT
Found at i:48477083 original size:74 final size:76
Alignment explanation
Indices: 48476991--48477176 Score: 216
Period size: 75 Copynumber: 2.5 Consensus size: 76
48476981 ATTAAAAGGT
* *** ** * * *
48476991 TCAACCCACCTCTCGCAATATGAGTTGATTTTTTTGA-A-AGTAGAATTTGAAAATACCTCGGCG
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAACACACAAAAAATTGAAAATACCTCAGCG
48477054 TGCCCCGAGGC
66 TGCCCCGAGGC
* **
48477065 TTAACTCACCTCTCGCAATATGAGTTGA-AATTAAAACACACAAAAAATTGAAAATACCTCAGCG
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAACACACAAAAAATTGAAAATACCTCAGCG
48477129 TGCCCCGAGGC
66 TGCCCCGAGGC
* * *
48477140 TCAACTCACCTCTAGCAATATGAGCTGATTTTGAAAA
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAA
48477177 AGTAGAAATT
Statistics
Matches: 91, Mismatches: 18, Indels: 4
0.81 0.16 0.04
Matches are distributed among these distances:
73 3 0.03
74 27 0.30
75 56 0.62
76 5 0.05
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.26
Consensus pattern (76 bp):
TCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAACACACAAAAAATTGAAAATACCTCAGCG
TGCCCCGAGGC
Found at i:48477091 original size:203 final size:202
Alignment explanation
Indices: 48476862--48477290 Score: 777
Period size: 203 Copynumber: 2.1 Consensus size: 202
48476852 ATTAAAAGGT
*
48476862 TCAACCCACCTCTCGCAATATGAGTTGAAATTAAAACACACAAAAAATTGAAAATACCTCAGCGT
1 TCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACACAAAAAATTGAAAATACCTCAGCGT
*
48476927 GCCCCGAGACTCAACTCACCTTTACCAATATGAGCTAATTTTGAAAAAGTAGAAATTAAAAGGTT
66 GCCCCGAGACTCAACTCACCTCTACCAATATGAGCTAATTTTGAAAAAGTAGAAATTAAAAGGTT
48476992 CAACCCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGTAGAATTTGAAAATACCTCGGCGTGC
131 CAACCCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAGTAGAATTTGAAAATACCTCGGCGTGC
48477057 CCCGAGGC
195 CCCGAGGC
*
48477065 TTAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACACAAAAAATTGAAAATACCTCAGCGT
1 TCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACACAAAAAATTGAAAATACCTCAGCGT
* * *
48477130 GCCCCGAGGCTCAACTCACCTCTAGCAATATGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTT
66 GCCCCGAGACTCAACTCACCTCTACCAATATGAGCTAATTTTGAAAAAGTAGAAATTAAAAGGTT
48477195 CAACCCACCTCTCGCAATATGAGTTGATTTTTTGAAAGTAGAATTTGAAAATACCTCGGCGTGCC
131 CAACCCACCTCTCGCAATATGAGTTGATTTTTTGAAAGTAGAATTTGAAAATACCTCGGCGTGCC
48477260 CCGAGGC
196 CCGAGGC
* *
48477267 TCAACTCGCCTCTAGCAATATGAG
1 TCAACTCACCTCTCGCAATATGAG
48477291 CTGATTTTGA
Statistics
Matches: 217, Mismatches: 9, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
202 66 0.30
203 151 0.70
ACGTcount: A:0.35, C:0.23, G:0.17, T:0.25
Consensus pattern (202 bp):
TCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACACAAAAAATTGAAAATACCTCAGCGT
GCCCCGAGACTCAACTCACCTCTACCAATATGAGCTAATTTTGAAAAAGTAGAAATTAAAAGGTT
CAACCCACCTCTCGCAATATGAGTTGATTTTTTGAAAGTAGAATTTGAAAATACCTCGGCGTGCC
CCGAGGC
Found at i:48477441 original size:129 final size:129
Alignment explanation
Indices: 48477112--48477623 Score: 588
Period size: 127 Copynumber: 3.9 Consensus size: 129
48477102 ACACAAAAAA
*
48477112 TTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGCTGATTTTGAAAA
1 TTGAAAATACCTCGGCGTGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGCTGATTTTGAAAA
*
48477177 AGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGA--TTTTTTGAAAGTAGAAT
66 AGCAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAGTAGAAT
*
48477239 TTGAAAATACCTCGGCGTGCCCCGAGGCTCAACTCGCCTCTAGCAATATGAGCTGATTTTGAAAA
1 TTGAAAATACCTCGGCGTGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGCTGATTTTGAAAA
*
48477304 AGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAGTAGAAT
66 AGCAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAGTAGAAT
* *
48477368 TTGAAAATACCTCGGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA
1 TTGAAAATACCTCGGCGTGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGCTGA-TTTTGAAA
** * * * * * * * * **
48477433 AA-CAGAAATTGAAATTA-CCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTCA
65 AAGCAGAAATT-AAA--AGGTTCAAC----CC--A-CCTC-TCGCA-ATAT-G-AGT-TGATTTT
* * *
48477496 ATTTAAAACATA-AA-
115 TTTTGAAA-GTAGAAT
* * * * *
48477510 CTAAAAATACCTCGGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAA
1 TTGAAAATACCTCGGCGTGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGCTGATTTTGAAAA
48477575 A-CAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTTTT
66 AGCAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTTTT
48477624 GAAAACCAGA
Statistics
Matches: 328, Mismatches: 37, Indels: 40
0.81 0.09 0.10
Matches are distributed among these distances:
127 112 0.34
128 2 0.01
129 78 0.24
130 15 0.05
131 7 0.02
132 4 0.01
133 1 0.00
135 4 0.01
137 1 0.00
138 4 0.01
139 7 0.02
140 5 0.02
141 19 0.06
142 55 0.17
143 12 0.04
144 2 0.01
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.28
Consensus pattern (129 bp):
TTGAAAATACCTCGGCGTGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGCTGATTTTGAAAA
AGCAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAGTAGAAT
Found at i:48477470 original size:73 final size:71
Alignment explanation
Indices: 48477321--48477587 Score: 324
Period size: 73 Copynumber: 3.7 Consensus size: 71
48477311 ATTAAAAGGT
* ** *
48477321 TCAACCCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAGTAGAATTTGAAAATACCTCGGCGT
1 TCAACTCACCTCTCGCAATATGAGTTGA----TTTTGAAAACAGAAATTGAAAATACCTCGGCGT
48477386 GCCCCGAGGC
62 GCCCCGAGGC
* * *
48477396 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAATTACCTCAGCGTGT
1 TCAACTCACCTCTCGCAATATGAGTTGA-TTTTG-AAAACAGAAATTGAAAATACCTCGGCGTGC
*
48477461 CCTGAGGC
64 CCCGAGGC
* * * * *
48477469 TCAACTCACCTCTCGCAATATGAG-TCAATTT-AAAACATAAACTAAAAATACCTCGGCGTGCCC
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAACAGAAATTGAAAATACCTCGGCGTGCCC
48477532 CGAGGC
66 CGAGGC
*
48477538 TCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAAACAGAAATT-AAAA
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTG-AAAACAGAAATTGAAAA
48477588 GGTTCAACCC
Statistics
Matches: 166, Mismatches: 22, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
69 54 0.33
70 5 0.03
71 7 0.04
72 18 0.11
73 55 0.33
75 27 0.16
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.27
Consensus pattern (71 bp):
TCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAACAGAAATTGAAAATACCTCGGCGTGCCC
CGAGGC
Found at i:48477542 original size:69 final size:71
Alignment explanation
Indices: 48477371--48477587 Score: 269
Period size: 69 Copynumber: 3.0 Consensus size: 71
48477361 GTAGAATTTG
* *
48477371 AAAATACCTCGGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAC
1 AAAATACCTCGGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAG-TCATATTT-AAAAAC
* *
48477436 AGAAATTG
64 AGAAACTA
* * * * *
48477444 AAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTCA-ATTT-AAAACAT
1 AAAATACCTCGGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTCATATTTAAAAACAG
48477507 AAACTA
66 AAACTA
* *
48477513 AAAATACCTCGGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGAT-TTTGAAAAAC
1 AAAATACCTCGGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAG-TCATATTT-AAAAAC
*
48477577 AGAAATTA
64 AGAAACTA
48477585 AAA
1 AAA
48477588 GGTTCAACCC
Statistics
Matches: 123, Mismatches: 17, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
69 54 0.44
70 5 0.04
71 3 0.02
72 16 0.13
73 45 0.37
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.25
Consensus pattern (71 bp):
AAAATACCTCGGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTCATATTTAAAAACAG
AAACTA
Found at i:48477648 original size:54 final size:54
Alignment explanation
Indices: 48477538--48477789 Score: 393
Period size: 53 Copynumber: 4.7 Consensus size: 54
48477528 GCCCCGAGGC
*
48477538 TCAACTCACTTCTCGCAATATGAGTTGA-TTTTGAAAAACAGAAATTAAAAGGT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGT
* *
48477591 TCAACCCACCTCTCGCAATATGAGTTGATTTTTGAAAACCAGAAATTAAAAGGT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGT
* * *
48477645 TCAACTCACCTCTCGCAATATGAG-TCAATTTTGAAAACCAGAAATTAAAAGGT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGT
*
48477698 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGGAATTAAAAGGCT
1 TCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAACAGAAATTAAAAGG-T
*
48477754 T-AACTCACCTCTCGTAATATGAGTTGATTTTTGAAA
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA
48477790 CTTAATTTGA
Statistics
Matches: 184, Mismatches: 11, Indels: 7
0.91 0.05 0.03
Matches are distributed among these distances:
53 77 0.42
54 58 0.32
55 47 0.26
56 2 0.01
ACGTcount: A:0.37, C:0.18, G:0.15, T:0.30
Consensus pattern (54 bp):
TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGT
Found at i:48477724 original size:107 final size:109
Alignment explanation
Indices: 48477534--48477777 Score: 388
Period size: 107 Copynumber: 2.3 Consensus size: 109
48477524 GCGTGCCCCG
* **
48477534 AGGC-TCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAAACAGAAATTAAAAGGTTCAACCC
1 AGGCTTCAACTCACCTCTCGCAATATGAGTCAATTTTGAAAAACAGAAATTAAAAGGTTCAACCC
*
48477598 ACCTCTCGCAATATGAGTTGA-TTTTTGAAAACCAGAAATTAAA
66 ACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTAAA
* *
48477641 AGG-TTCAACTCACCTCTCGCAATATGAGTCAATTTTGAAAACCAGAAATTAAAAGGTTCAACTC
1 AGGCTTCAACTCACCTCTCGCAATATGAGTCAATTTTGAAAAACAGAAATTAAAAGGTTCAACCC
*
48477705 ACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGGAATTAAA
66 ACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTAAA
*
48477749 AGGCTT-AACTCACCTCTCGTAATATGAGT
1 AGGCTTCAACTCACCTCTCGCAATATGAGT
48477778 TGATTTTTGA
Statistics
Matches: 126, Mismatches: 8, Indels: 5
0.91 0.06 0.04
Matches are distributed among these distances:
107 79 0.63
108 45 0.36
109 2 0.02
ACGTcount: A:0.37, C:0.19, G:0.15, T:0.29
Consensus pattern (109 bp):
AGGCTTCAACTCACCTCTCGCAATATGAGTCAATTTTGAAAAACAGAAATTAAAAGGTTCAACCC
ACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTAAA
Found at i:48477910 original size:72 final size:73
Alignment explanation
Indices: 48477795--48477955 Score: 261
Period size: 72 Copynumber: 2.2 Consensus size: 73
48477785 TGAAACTTAA
** * *
48477795 TTTGAAAAGCAGATTTTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGTAAAATG
1 TTTGAAAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAAAATG
48477860 AGTTGAAT
66 AGTTGAAT
* *
48477868 TTTGAAAA-CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATG
1 TTTGAAAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAAAATG
48477932 AGTTGAAT
66 AGTTGAAT
48477940 TTTGAAAAGCAGAAAT
1 TTTGAAAAGCAGAAAT
48477956 AAAAGCATCA
Statistics
Matches: 81, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
72 66 0.81
73 15 0.19
ACGTcount: A:0.35, C:0.16, G:0.17, T:0.32
Consensus pattern (73 bp):
TTTGAAAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAAAATG
AGTTGAAT
Found at i:48480165 original size:26 final size:26
Alignment explanation
Indices: 48480136--48480191 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
48480126 TTTTTTAATT
*
48480136 TTTTTTCTTGTCCTT-TTTTCTTTTTG
1 TTTTTTCTTGT-CTTGTTTTCTTTTTC
* *
48480162 TTTTTTTTTGTTTTGTTTTCTTTTTC
1 TTTTTTCTTGTCTTGTTTTCTTTTTC
48480188 TTTT
1 TTTT
48480192 CATGACTGTC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 2 0.08
26 24 0.92
ACGTcount: A:0.00, C:0.11, G:0.07, T:0.82
Consensus pattern (26 bp):
TTTTTTCTTGTCTTGTTTTCTTTTTC
Found at i:48480167 original size:15 final size:16
Alignment explanation
Indices: 48480149--48480191 Score: 61
Period size: 16 Copynumber: 2.7 Consensus size: 16
48480139 TTTCTTGTCC
48480149 TTTTTTCTTTTTGTTT
1 TTTTTTCTTTTTGTTT
*
48480165 TTTTTT-GTTTTGTTT
1 TTTTTTCTTTTTGTTT
48480180 TCTTTTTCTTTT
1 T-TTTTTCTTTT
48480192 CATGACTGTC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
15 9 0.39
16 11 0.48
17 3 0.13
ACGTcount: A:0.00, C:0.07, G:0.07, T:0.86
Consensus pattern (16 bp):
TTTTTTCTTTTTGTTT
Found at i:48482271 original size:50 final size:50
Alignment explanation
Indices: 48482213--48482312 Score: 200
Period size: 50 Copynumber: 2.0 Consensus size: 50
48482203 GAGTGATTCC
48482213 TCTCGAGACCTTACCATCAGATCTCTCGTTTTCTGCTGTGATTTAGCCAA
1 TCTCGAGACCTTACCATCAGATCTCTCGTTTTCTGCTGTGATTTAGCCAA
48482263 TCTCGAGACCTTACCATCAGATCTCTCGTTTTCTGCTGTGATTTAGCCAA
1 TCTCGAGACCTTACCATCAGATCTCTCGTTTTCTGCTGTGATTTAGCCAA
48482313 CTGTTCTTGC
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.20, C:0.28, G:0.16, T:0.36
Consensus pattern (50 bp):
TCTCGAGACCTTACCATCAGATCTCTCGTTTTCTGCTGTGATTTAGCCAA
Found at i:48484214 original size:21 final size:21
Alignment explanation
Indices: 48484184--48484227 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
48484174 ATTAATAGTA
48484184 ATACTAATAT-TACATAAAGAT
1 ATACTAATATATA-ATAAAGAT
* *
48484205 ATACTTATATATATTAAAGAT
1 ATACTAATATATAATAAAGAT
48484226 AT
1 AT
48484228 GTGCATATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 18 0.90
22 2 0.10
ACGTcount: A:0.50, C:0.07, G:0.05, T:0.39
Consensus pattern (21 bp):
ATACTAATATATAATAAAGAT
Found at i:48484729 original size:3 final size:3
Alignment explanation
Indices: 48484721--48484750 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
48484711 ACAAAAGAAC
48484721 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
48484751 TGAAAATAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:48494759 original size:30 final size:30
Alignment explanation
Indices: 48494725--48494840 Score: 128
Period size: 30 Copynumber: 3.9 Consensus size: 30
48494715 TAAAAAATAA
*
48494725 AAATTGCATTTTGACCCCTAAACTTTTC-CT
1 AAATTTCATTTTGACCCCTAAAC-TTTCACT
* **
48494755 AAATTTCATTTTGACCCTTAAACTTTCTTT
1 AAATTTCATTTTGACCCCTAAACTTTCACT
* * *
48494785 AAATTTCACTTAGACCCCTAAACTTTCATT
1 AAATTTCATTTTGACCCCTAAACTTTCACT
* *
48494815 AAATTTCATTTT-AACCCTAAATTTTC
1 AAATTTCATTTTGACCCCTAAACTTTC
48494841 TAAAAATTAC
Statistics
Matches: 74, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
29 16 0.22
30 58 0.78
ACGTcount: A:0.30, C:0.23, G:0.03, T:0.43
Consensus pattern (30 bp):
AAATTTCATTTTGACCCCTAAACTTTCACT
Found at i:48494847 original size:29 final size:29
Alignment explanation
Indices: 48494722--48494854 Score: 94
Period size: 30 Copynumber: 4.5 Consensus size: 29
48494712 ATTTAAAAAA
* *
48494722 TAAAAATTGCATTTTGACCCCTAAACTTTTCC
1 TAAAAATTTCATTTT-AACCCTAAAC-TTT-C
*
48494754 T--AAATTTCATTTTGACCCTTAAACTTTC
1 TAAAAATTTCATTTTAACCC-TAAACTTTC
** *
48494782 TTTAAATTTCA-CTTAGACCCCTAAACTTTC
1 TAAAAATTTCATTTTA-A-CCCTAAACTTTC
* *
48494812 -ATTAAATTTCATTTTAACCCTAAATTTTC
1 TA-AAAATTTCATTTTAACCCTAAACTTTC
*
48494841 TAAAAATTACATTT
1 TAAAAATTTCATTT
48494855 AGCCCCAAAA
Statistics
Matches: 83, Mismatches: 10, Indels: 19
0.74 0.09 0.17
Matches are distributed among these distances:
28 2 0.02
29 29 0.35
30 45 0.54
31 6 0.07
32 1 0.01
ACGTcount: A:0.33, C:0.21, G:0.03, T:0.43
Consensus pattern (29 bp):
TAAAAATTTCATTTTAACCCTAAACTTTC
Found at i:48495099 original size:18 final size:19
Alignment explanation
Indices: 48495073--48495115 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
48495063 AAAGTTTCGA
* *
48495073 AAAAAAGAAAAAGGA-AGG
1 AAAAGAGAAAAAGGAGAAG
*
48495091 AAAAGAGAAAGAGGAGAAG
1 AAAAGAGAAAAAGGAGAAG
48495110 AAAAGA
1 AAAAGA
48495116 AAGAGTACCG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 13 0.62
19 8 0.38
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (19 bp):
AAAAGAGAAAAAGGAGAAG
Found at i:48495193 original size:10 final size:10
Alignment explanation
Indices: 48495178--48495206 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
48495168 AGACTTTGAA
48495178 GAAGAAGAAG
1 GAAGAAGAAG
48495188 GAAGAAGAAG
1 GAAGAAGAAG
48495198 GAAGAAGAA
1 GAAGAAGAA
48495207 AAGAGNNNNN
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (10 bp):
GAAGAAGAAG
Found at i:48500283 original size:52 final size:51
Alignment explanation
Indices: 48500212--48500518 Score: 391
Period size: 52 Copynumber: 6.1 Consensus size: 51
48500202 ATCAAGTGAT
* * *
48500212 AAAGTGATAAGTGGTAGCTTTATCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGT-G
* * *
48500264 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTG---A-T-
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
* * *
48500310 AAAGTGATAAGTTATAGCTTCGGCTATACTTATCTGATCAAGTGAC-----
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
48500356 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGT-G
*
48500408 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
* *
48500459 AAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGTG
1 -AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGAC-AAGTG
48500512 ATAAGTG
1 A-AAGTG
48500519 GCTACACTTA
Statistics
Matches: 230, Mismatches: 14, Indels: 21
0.87 0.05 0.08
Matches are distributed among these distances:
46 86 0.37
48 1 0.00
49 1 0.00
51 1 0.00
52 131 0.57
53 10 0.04
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (51 bp):
AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
Found at i:48500318 original size:98 final size:97
Alignment explanation
Indices: 48500198--48500518 Score: 427
Period size: 98 Copynumber: 3.3 Consensus size: 97
48500188 TTTGAGTACT
* ***
48500198 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTTATCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGT-
* * *
48500263 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
65 GAAAGTGATAAGTGATAGCTTCAGCTACACTTA
* *
48500296 TCTGATCAAGTGATAAAGTGATAAGTTATAGCTTCGGCTATACTTATCTGATCAAGTGAC-----
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
48500356 AAAGTGATAAGTGATAGCTTCAGCTACACTTA
66 AAAGTGATAAGTGATAGCTTCAGCTACACTTA
48500388 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
1 TCTGATCAAGTG---A-T--AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
*
48500453 CAAGTGAAAAGTGATAAGTGATAGCTTTAGCTACACTTA
60 CAAGTG-AAAGTGATAAGTGATAGCTTCAGCTACACTTA
* *
48500492 TCTGATCAAGAGACAAAGTGATAAGTG
1 TCTGATCAAGTGATAAAGTGATAAGTG
48500519 GCTACACTTA
Statistics
Matches: 197, Mismatches: 14, Indels: 24
0.84 0.06 0.10
Matches are distributed among these distances:
92 41 0.21
95 1 0.01
96 1 0.01
98 111 0.56
101 1 0.01
104 42 0.21
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.30
Consensus pattern (97 bp):
TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
AAAGTGATAAGTGATAGCTTCAGCTACACTTA
Found at i:48500327 original size:46 final size:46
Alignment explanation
Indices: 48500264--48500518 Score: 312
Period size: 46 Copynumber: 5.3 Consensus size: 46
48500254 TGACAAGTGG
* *
48500264 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAT
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAT
* * *
48500310 AAAGTGATAAGTTATAGCTTCGGCTATACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAT
*
48500356 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGT
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTG---A-T
48500406 GGAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGT
1 --AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTG---A-T
** * *
48500458 GAAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC
1 --AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAT
48500506 AAAGTGATAAGTG
1 AAAGTGATAAGTG
48500519 GCTACACTTA
Statistics
Matches: 191, Mismatches: 12, Indels: 12
0.89 0.06 0.06
Matches are distributed among these distances:
46 98 0.51
49 2 0.01
52 91 0.48
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (46 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAT
Found at i:48500526 original size:37 final size:37
Alignment explanation
Indices: 48500482--48500591 Score: 195
Period size: 37 Copynumber: 3.0 Consensus size: 37
48500472 GATAGCTTTA
48500482 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
*
48500519 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
*
48500556 GCTACACTTATCTGATCAAGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
48500592 ATCATACGTA
Statistics
Matches: 70, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
36 12 0.17
37 58 0.83
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
Found at i:48507555 original size:17 final size:18
Alignment explanation
Indices: 48507533--48507567 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
48507523 TGCTGAGGTA
*
48507533 TTTTCAATTTATG-TTTT
1 TTTTCAATCTATGCTTTT
48507550 TTTTCAATCTATGCTTTT
1 TTTTCAATCTATGCTTTT
48507568 CAAAAATCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.17, C:0.11, G:0.06, T:0.66
Consensus pattern (18 bp):
TTTTCAATCTATGCTTTT
Found at i:48507744 original size:72 final size:72
Alignment explanation
Indices: 48507564--48507923 Score: 621
Period size: 72 Copynumber: 5.0 Consensus size: 72
48507554 CAATCTATGC
* * ** *
48507564 TTTTCAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAAGGCACGTTGAGGTAATTTTC
1 TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAA-TTTC
*
48507629 AATTTCTG
65 AATTTTTG
*
48507637 CTTCTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTC
1 -TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTC
48507702 AATTTTTG
65 AATTTTTG
48507710 TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCA
1 TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCA
48507775 ATTTTTG
66 ATTTTTG
48507782 TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCA
1 TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCA
48507847 ATTTTTG
66 ATTTTTG
* *
48507854 TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTATTTTCA
1 TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCA
48507919 ATTTT
66 ATTTT
48507924 GCGAGAAATG
Statistics
Matches: 276, Mismatches: 10, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
72 211 0.76
73 11 0.04
74 54 0.20
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.34
Consensus pattern (72 bp):
TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCA
ATTTTTG
Found at i:48507938 original size:48 final size:48
Alignment explanation
Indices: 48507874--48507971 Score: 178
Period size: 48 Copynumber: 2.0 Consensus size: 48
48507864 TCAACTCATA
*
48507874 TTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTATTTTCAATT
1 TTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTAATTTCAATT
*
48507922 TTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATT
1 TTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTAATTTCAATT
48507970 TT
1 TT
48507972 TGTTTTCAAA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.31, C:0.14, G:0.23, T:0.32
Consensus pattern (48 bp):
TTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTAATTTCAATT
Found at i:48508015 original size:120 final size:120
Alignment explanation
Indices: 48507802--48508043 Score: 466
Period size: 120 Copynumber: 2.0 Consensus size: 120
48507792 TCAACTCATA
48507802 TTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTTTGTTTTCAAAATTCA
1 TTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTTTGTTTTCAAAATTCA
*
48507867 ACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTATTTTCAATT
66 ACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTAATTTCAATT
48507922 TTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTTTGTTTTCAAAATTCA
1 TTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTTTGTTTTCAAAATTCA
*
48507987 ACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATT
66 ACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTAATTTCAATT
48508042 TT
1 TT
48508044 TGTTTTCAAA
Statistics
Matches: 120, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
120 120 1.00
ACGTcount: A:0.31, C:0.15, G:0.20, T:0.33
Consensus pattern (120 bp):
TTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTTTGTTTTCAAAATTCA
ACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTAATTTCAATT
Found at i:48508039 original size:72 final size:72
Alignment explanation
Indices: 48507922--48508229 Score: 562
Period size: 72 Copynumber: 4.3 Consensus size: 72
48507912 ATTTTCAATT
48507922 TTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTTTGTTTTCAAAATTCA
1 TTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTTTGTTTTCAAAATTCA
48507987 ACTCATA
66 ACTCATA
48507994 TTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTTTGTTTTCAAAATTCA
1 TTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTTTGTTTTCAAAATTCA
48508059 ACTCATA
66 ACTCATA
48508066 TTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTTTGTTTTCAAAATTCA
1 TTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTTTGTTTTCAAAATTCA
48508131 ACTCATA
66 ACTCATA
* * *
48508138 TTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTGTTTTTCAAAAATC
1 TTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTTTG-TTTTCAAAATTC
48508203 AACTCATA
65 AACTCATA
**
48508211 TTGCGAGAGGTGAGTTGAG
1 TTGCGAGAAATGAGTTGAG
48508230 ACTTTTAATT
Statistics
Matches: 230, Mismatches: 5, Indels: 1
0.97 0.02 0.00
Matches are distributed among these distances:
72 194 0.84
73 36 0.16
ACGTcount: A:0.31, C:0.15, G:0.20, T:0.34
Consensus pattern (72 bp):
TTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTTTGTTTTCAAAATTCA
ACTCATA
Found at i:48508057 original size:192 final size:192
Alignment explanation
Indices: 48507730--48508115 Score: 754
Period size: 192 Copynumber: 2.0 Consensus size: 192
48507720 TCAACTCATA
48507730 TTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTTTGTTTTCAAAATTCA
1 TTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTTTGTTTTCAAAATTCA
48507795 ACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTTTGTTTTCA
66 ACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTTTGTTTTCA
*
48507860 AAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTATTTTCAATT
131 AAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTAATTTCAATT
48507922 TTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTTTGTTTTCAAAATTCA
1 TTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTTTGTTTTCAAAATTCA
48507987 ACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTTTGTTTTCA
66 ACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTTTGTTTTCA
*
48508052 AAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATT
131 AAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTAATTTCAATT
48508114 TT
1 TT
48508116 TGTTTTCAAA
Statistics
Matches: 192, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
192 192 1.00
ACGTcount: A:0.32, C:0.15, G:0.19, T:0.34
Consensus pattern (192 bp):
TTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTTTGTTTTCAAAATTCA
ACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTTTGTTTTCA
AAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTAATTTCAATT
Found at i:48508128 original size:264 final size:264
Alignment explanation
Indices: 48507658--48508186 Score: 1049
Period size: 264 Copynumber: 2.0 Consensus size: 264
48507648 TCAACTCATA
48507658 TTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTTTGTTTTCAAAATTCA
1 TTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTTTGTTTTCAAAATTCA
48507723 ACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTTTGTTTTCA
66 ACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTTTGTTTTCA
48507788 AAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTTT
131 AAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTTT
48507853 GTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTATTTTC
196 GTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTATTTTC
48507918 AATT
261 AATT
48507922 TTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTTTGTTTTCAAAATTCA
1 TTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTTTGTTTTCAAAATTCA
48507987 ACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTTTGTTTTCA
66 ACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTTTGTTTTCA
48508052 AAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTTT
131 AAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTTT
*
48508117 GTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTC
196 GTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTATTTTC
48508182 AATT
261 AATT
48508186 T
1 T
48508187 CTGTTTTTCA
Statistics
Matches: 264, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
264 264 1.00
ACGTcount: A:0.32, C:0.15, G:0.19, T:0.34
Consensus pattern (264 bp):
TTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTTTGTTTTCAAAATTCA
ACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTTTGTTTTCA
AAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTTT
GTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTATTTTC
AATT
Found at i:48508252 original size:54 final size:54
Alignment explanation
Indices: 48508177--48508397 Score: 388
Period size: 54 Copynumber: 4.1 Consensus size: 54
48508167 CGTTGAGGTA
* * *
48508177 TTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGAC
1 TTTT-AATTTCTATTTTTCAAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCC
48508232 TTTTAATTTCTATTTTTCAAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCC
1 TTTTAATTTCTATTTTTCAAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCC
* *
48508286 TTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
1 TTTTAATTTCTATTTTTCAAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCC
48508340 TTTTAATTTCTATTTTTCAAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCC
1 TTTTAATTTCTATTTTTCAAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCC
48508394 TTTT
1 TTTT
48508398 TCTACTCGTT
Statistics
Matches: 159, Mismatches: 7, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
54 155 0.97
55 4 0.03
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.39
Consensus pattern (54 bp):
TTTTAATTTCTATTTTTCAAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCC
Found at i:48509162 original size:30 final size:30
Alignment explanation
Indices: 48509128--48509243 Score: 119
Period size: 30 Copynumber: 3.9 Consensus size: 30
48509118 TAAAAAATAA
*
48509128 AAATTGCATTTTGACCCCTAAACTTTTC-CT
1 AAATTTCATTTTGACCCCTAAAC-TTTCACT
* * **
48509158 AAATTTTATTTTGACCCTTAAACTTTCTTT
1 AAATTTCATTTTGACCCCTAAACTTTCACT
* * *
48509188 AAATTTCACTTAGACCCCTAAACTTTCATT
1 AAATTTCATTTTGACCCCTAAACTTTCACT
* *
48509218 AAATTTCATTTT-AACCCTAAATTTTC
1 AAATTTCATTTTGACCCCTAAACTTTC
48509244 TAAAAATTAC
Statistics
Matches: 72, Mismatches: 13, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
29 16 0.22
30 56 0.78
ACGTcount: A:0.30, C:0.22, G:0.03, T:0.44
Consensus pattern (30 bp):
AAATTTCATTTTGACCCCTAAACTTTCACT
Found at i:48509250 original size:29 final size:29
Alignment explanation
Indices: 48509125--48509257 Score: 85
Period size: 30 Copynumber: 4.5 Consensus size: 29
48509115 ATTTAAAAAA
* *
48509125 TAAAAATTGCATTTTGACCCCTAAACTTTTCC
1 TAAAAATTTCATTTT-AACCCTAAAC-TTT-C
* *
48509157 T--AAATTTTATTTTGACCCTTAAACTTTC
1 TAAAAATTTCATTTTAACCC-TAAACTTTC
** *
48509185 TTTAAATTTCA-CTTAGACCCCTAAACTTTC
1 TAAAAATTTCATTTTA-A-CCCTAAACTTTC
* *
48509215 -ATTAAATTTCATTTTAACCCTAAATTTTC
1 TA-AAAATTTCATTTTAACCCTAAACTTTC
*
48509244 TAAAAATTACATTT
1 TAAAAATTTCATTT
48509258 AGCCCCAAAA
Statistics
Matches: 81, Mismatches: 12, Indels: 19
0.72 0.11 0.17
Matches are distributed among these distances:
28 2 0.02
29 29 0.36
30 43 0.53
31 6 0.07
32 1 0.01
ACGTcount: A:0.33, C:0.20, G:0.03, T:0.44
Consensus pattern (29 bp):
TAAAAATTTCATTTTAACCCTAAACTTTC
Found at i:48510024 original size:17 final size:17
Alignment explanation
Indices: 48509997--48510196 Score: 156
Period size: 17 Copynumber: 11.5 Consensus size: 17
48509987 NNNNNNNNNN
48509997 TTTCAAAAAATTTTCGTG
1 TTTC-AAAAATTTTCGTG
*
48510015 TTTCAAAAATCTTCGTG
1 TTTCAAAAATTTTCGTG
48510032 TTTTCAAAAA-TTTCGGTG
1 -TTTCAAAAATTTTC-GTG
*
48510050 TTTCAAAGATTTTCGTG
1 TTTCAAAAATTTTCGTG
* *
48510067 TTTTCAAAAA-CTCCGGTG
1 -TTTCAAAAATTTTC-GTG
* ***
48510085 ATTTTAAAAAAAATCGT-
1 -TTTCAAAAATTTTCGTG
*
48510102 TTTCTAAAAAATTTCCGTG
1 TTTC--AAAAATTTTCGTG
48510121 TTTCAAAAATTTTCGTG
1 TTTCAAAAATTTTCGTG
*
48510138 TTTTAAAAATTTTCGTG
1 TTTCAAAAATTTTCGTG
*** *
48510155 TTTTTGAAATTTCCGTG
1 TTTCAAAAATTTTCGTG
*
48510172 TTT-AAAAATTCTCGTG
1 TTTCAAAAATTTTCGTG
*
48510188 TTTTAAAAA
1 TTTCAAAAA
48510197 AAAACTTTCA
Statistics
Matches: 147, Mismatches: 25, Indels: 21
0.76 0.13 0.11
Matches are distributed among these distances:
16 15 0.10
17 78 0.53
18 49 0.33
19 5 0.03
ACGTcount: A:0.32, C:0.12, G:0.12, T:0.44
Consensus pattern (17 bp):
TTTCAAAAATTTTCGTG
Found at i:48510051 original size:35 final size:34
Alignment explanation
Indices: 48509997--48510196 Score: 165
Period size: 35 Copynumber: 5.7 Consensus size: 34
48509987 NNNNNNNNNN
*
48509997 TTTCAAAAAATTTTCGTGTTTCAAAAATCTTCGTGT
1 TTTC-AAAAA-TTTCGTGTTTCAAAAATTTTCGTGT
*
48510033 TTTCAAAAATTTCGGTGTTTCAAAGATTTTCGTGT
1 TTTCAAAAATTTC-GTGTTTCAAAAATTTTCGTGT
* * * ***
48510068 TTTCAAAAACTCCGGTGATTTTAAAAAAAATCGT-T
1 TTTCAAAAATTTC-GTG-TTTCAAAAATTTTCGTGT
*
48510103 TTCTAAAAAATTTCCGTGTTTCAAAAATTTTCGTGT
1 TT-TCAAAAATTT-CGTGTTTCAAAAATTTTCGTGT
*** *
48510139 TTT-AAAAATTTTCGTGTTTTTGAAATTTCCGTG-
1 TTTCAAAAA-TTTCGTGTTTCAAAAATTTTCGTGT
*
48510172 TTT-AAAAATTCTCGTGTTTTAAAAA
1 TTTCAAAAATT-TCGTGTTTCAAAAA
48510197 AAAACTTTCA
Statistics
Matches: 135, Mismatches: 22, Indels: 17
0.78 0.13 0.10
Matches are distributed among these distances:
32 2 0.01
33 20 0.15
34 26 0.19
35 58 0.43
36 28 0.21
37 1 0.01
ACGTcount: A:0.32, C:0.12, G:0.12, T:0.44
Consensus pattern (34 bp):
TTTCAAAAATTTCGTGTTTCAAAAATTTTCGTGT
Found at i:48510200 original size:21 final size:20
Alignment explanation
Indices: 48510175--48510227 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
48510165 TTCCGTGTTT
48510175 AAAAATTCTCGTGTTTTAAAA
1 AAAAATT-TCGTGTTTTAAAA
* *
48510196 AAAAACTTTCAT-TTTTTAAA
1 AAAAA-TTTCGTGTTTTAAAA
48510216 AAAAATTTCGTG
1 AAAAATTTCGTG
48510228 CTTCAAAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
19 5 0.19
20 12 0.44
21 8 0.30
22 2 0.07
ACGTcount: A:0.43, C:0.09, G:0.08, T:0.40
Consensus pattern (20 bp):
AAAAATTTCGTGTTTTAAAA
Found at i:48510235 original size:16 final size:17
Alignment explanation
Indices: 48510216--48510252 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
48510206 ATTTTTTAAA
48510216 AAAAATT-TCGTG-CTT
1 AAAAATTCTCGTGTCTT
*
48510231 CAAAATTCTCGTGTCTT
1 AAAAATTCTCGTGTCTT
48510248 AAAAA
1 AAAAA
48510253 AAGTTTTCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
15 6 0.33
16 5 0.28
17 7 0.39
ACGTcount: A:0.38, C:0.16, G:0.11, T:0.35
Consensus pattern (17 bp):
AAAAATTCTCGTGTCTT
Found at i:48516424 original size:28 final size:29
Alignment explanation
Indices: 48516365--48516425 Score: 70
Period size: 28 Copynumber: 2.1 Consensus size: 29
48516355 TGAAAAAAAT
* * * *
48516365 TTAATTCTAACTCTTTTTTTTTTGGTTAA
1 TTAACTCTAACTCTTTTTTTGTTAGATAA
*
48516394 TTAACTCTAAC-CTTTTTTTGTTAGATGA
1 TTAACTCTAACTCTTTTTTTGTTAGATAA
48516422 TTAA
1 TTAA
48516426 ATTTGGAGCT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
28 17 0.63
29 10 0.37
ACGTcount: A:0.25, C:0.11, G:0.08, T:0.56
Consensus pattern (29 bp):
TTAACTCTAACTCTTTTTTTGTTAGATAA
Found at i:48517684 original size:16 final size:16
Alignment explanation
Indices: 48517659--48517689 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
48517649 ATATTTTTAG
*
48517659 TTAATTTTCAATTGAA
1 TTAATATTCAATTGAA
48517675 TTAATATTCAATTGA
1 TTAATATTCAATTGA
48517690 TTCATGACAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.06, G:0.06, T:0.48
Consensus pattern (16 bp):
TTAATATTCAATTGAA
Found at i:48522399 original size:17 final size:18
Alignment explanation
Indices: 48522374--48522414 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
48522364 CCGCCCGTTT
*
48522374 TTAAGTTTATATA-TATG
1 TTAATTTTATATATTATG
48522391 TTAATTTTATATATTATG
1 TTAATTTTATATATTATG
48522409 -TAATTT
1 TTAATTT
48522415 AAAACACATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 18 0.82
18 4 0.18
ACGTcount: A:0.34, C:0.00, G:0.07, T:0.59
Consensus pattern (18 bp):
TTAATTTTATATATTATG
Found at i:48522932 original size:25 final size:24
Alignment explanation
Indices: 48522887--48522933 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
48522877 ATATTTTATG
* *
48522887 TATCATTATATTAAATTATTTAAA
1 TATCATTAAATTAAATAATTTAAA
*
48522911 TATCATATAAATTAACTAATTTA
1 TATCAT-TAAATTAAATAATTTA
48522934 TTTTATTTTC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 6 0.32
25 13 0.68
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (24 bp):
TATCATTAAATTAAATAATTTAAA
Found at i:48524419 original size:27 final size:27
Alignment explanation
Indices: 48524384--48524439 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
48524374 CTTAAAGCAC
48524384 CAAAAGAATTTTCAGTTGCACCATGCA
1 CAAAAGAATTTTCAGTTGCACCATGCA
48524411 CAAAAGAATTTTCAGTTGCACCATGCA
1 CAAAAGAATTTTCAGTTGCACCATGCA
48524438 CA
1 CA
48524440 TTGTTATCTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.38, C:0.23, G:0.14, T:0.25
Consensus pattern (27 bp):
CAAAAGAATTTTCAGTTGCACCATGCA
Found at i:48531874 original size:91 final size:91
Alignment explanation
Indices: 48531760--48531941 Score: 355
Period size: 91 Copynumber: 2.0 Consensus size: 91
48531750 TTTTCAACAG
48531760 TCATCAAACAAAATATGAATAACAGTAACCATTTTCTTTGTAATACTTGACAAATCTTTCATTTT
1 TCATCAAACAAAATATGAATAACAGTAACCATTTTCTTTGTAATACTTGACAAATCTTTCATTTT
*
48531825 CAGGATTTAGTGAAAATAGACATTCT
66 CAGGATTCAGTGAAAATAGACATTCT
48531851 TCATCAAACAAAATATGAATAACAGTAACCATTTTCTTTGTAATACTTGACAAATCTTTCATTTT
1 TCATCAAACAAAATATGAATAACAGTAACCATTTTCTTTGTAATACTTGACAAATCTTTCATTTT
48531916 CAGGATTCAGTGAAAATAGACATTCT
66 CAGGATTCAGTGAAAATAGACATTCT
48531942 CATTCTCATC
Statistics
Matches: 90, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
91 90 1.00
ACGTcount: A:0.38, C:0.16, G:0.10, T:0.36
Consensus pattern (91 bp):
TCATCAAACAAAATATGAATAACAGTAACCATTTTCTTTGTAATACTTGACAAATCTTTCATTTT
CAGGATTCAGTGAAAATAGACATTCT
Found at i:48534157 original size:18 final size:18
Alignment explanation
Indices: 48534126--48534164 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
48534116 ACATTTCATT
* * *
48534126 TAAGATTTTTAAAATTAA
1 TAAGAATTTAAAAATAAA
48534144 TAAGAATTTAAAAATAAA
1 TAAGAATTTAAAAATAAA
48534162 TAA
1 TAA
48534165 TTGAGCATAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (18 bp):
TAAGAATTTAAAAATAAA
Found at i:48534629 original size:18 final size:18
Alignment explanation
Indices: 48534608--48534649 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
48534598 GAAACATTTA
48534608 TTTTAATGT-TTATAGTAT
1 TTTTAATGTATTATA-TAT
* *
48534626 TTTTGATGTATTATATTT
1 TTTTAATGTATTATATAT
48534644 TTTTAA
1 TTTTAA
48534650 AAAAATATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.26, C:0.00, G:0.10, T:0.64
Consensus pattern (18 bp):
TTTTAATGTATTATATAT
Found at i:48542940 original size:32 final size:32
Alignment explanation
Indices: 48542899--48542960 Score: 124
Period size: 32 Copynumber: 1.9 Consensus size: 32
48542889 TCTCATGTTG
48542899 GTTTATCTAGGTTATTTGTTTGATTTTTTTTA
1 GTTTATCTAGGTTATTTGTTTGATTTTTTTTA
48542931 GTTTATCTAGGTTATTTGTTTGATTTTTTT
1 GTTTATCTAGGTTATTTGTTTGATTTTTTT
48542961 AAACTTTGTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.15, C:0.03, G:0.16, T:0.66
Consensus pattern (32 bp):
GTTTATCTAGGTTATTTGTTTGATTTTTTTTA
Found at i:48556715 original size:17 final size:18
Alignment explanation
Indices: 48556693--48556729 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
48556683 TCTCACTTAA
*
48556693 TATATATTATTTATT-TT
1 TATATATAATTTATTATT
48556710 TATATATAATTTATTATT
1 TATATATAATTTATTATT
48556728 TA
1 TA
48556730 AATGGTTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (18 bp):
TATATATAATTTATTATT
Found at i:48560187 original size:34 final size:34
Alignment explanation
Indices: 48560119--48560187 Score: 79
Period size: 34 Copynumber: 2.0 Consensus size: 34
48560109 CACTTATTTA
* * *
48560119 TTATTAATTATTATTTAATTATATTTAAATAAAT
1 TTATTAATTATTATTTAATAATATTAAAAAAAAT
48560153 TTATTAA-TATTTATTT-ATAATATTCAAAAAAAAT
1 TTATTAATTA-TTATTTAATAATATT-AAAAAAAAT
48560187 T
1 T
48560188 AATCCGAACA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
33 9 0.30
34 21 0.70
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.52
Consensus pattern (34 bp):
TTATTAATTATTATTTAATAATATTAAAAAAAAT
Found at i:48561273 original size:86 final size:87
Alignment explanation
Indices: 48561030--48561301 Score: 361
Period size: 87 Copynumber: 3.1 Consensus size: 87
48561020 GAAGAAGAAG
* * * ** *
48561030 CAATTAAGCCCCTCATTTTTTTTTGCACTCAATT-GAGCACTTGAACTTTCAAAATACATTAAAA
1 CAATTAAGCCCCT-A-ATTTTTTT-CACTCAATTGGA-TACTTGAACTTTAAAAATGTATAAAAA
* * *
48561094 AGGCCCTCAAAA-TTCTTCAAAAAAA
62 AGACCCTTAAAATTTTTTCAAAAAAA
*
48561119 GCAATTAAGCCCCTAATTTTTTTCATTCAATTGGATACTTGAACTTTAAAAATGTATAAAAAAGA
1 -CAATTAAGCCCCTAATTTTTTTCACTCAATTGGATACTTGAACTTTAAAAATGTATAAAAAAGA
48561184 CCCTTAAAATTTTTTCAAAAAAA
65 CCCTTAAAATTTTTTCAAAAAAA
*
48561207 CAATTAAGCGCCTAATTTTTTTCACTCAATTGGATACTTGAACTTT-AAAATGTATAAAAAAGAC
1 CAATTAAGCCCCTAATTTTTTTCACTCAATTGGATACTTGAACTTTAAAAATGTATAAAAAAGAC
**
48561271 CCTTAATTTTTTTTCAAAAAAA
66 CCTTAAAATTTTTTCAAAAAAA
48561293 CAATTAAGC
1 CAATTAAGC
48561302 TCATGCTCTT
Statistics
Matches: 166, Mismatches: 14, Indels: 8
0.88 0.07 0.04
Matches are distributed among these distances:
86 47 0.28
87 84 0.51
88 21 0.13
89 1 0.01
90 13 0.08
ACGTcount: A:0.40, C:0.18, G:0.08, T:0.34
Consensus pattern (87 bp):
CAATTAAGCCCCTAATTTTTTTCACTCAATTGGATACTTGAACTTTAAAAATGTATAAAAAAGAC
CCTTAAAATTTTTTCAAAAAAA
Found at i:48561711 original size:20 final size:20
Alignment explanation
Indices: 48561682--48561728 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
48561672 AAATTTTATA
* *
48561682 ATTTTTTTATATTTCTACAT
1 ATTTTATTATATTTCTAAAT
* *
48561702 ATTTTATTATTTTTTTAAAT
1 ATTTTATTATATTTCTAAAT
48561722 ATTTTAT
1 ATTTTAT
48561729 AAAATTTTAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.28, C:0.04, G:0.00, T:0.68
Consensus pattern (20 bp):
ATTTTATTATATTTCTAAAT
Found at i:48561773 original size:21 final size:21
Alignment explanation
Indices: 48561747--48561789 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
48561737 ACAATTTTTA
* *
48561747 TTTTTTTATGATTTTT-ATAT
1 TTTTTTTCTAATTTTTAATAT
48561767 TTTTTTTCTAATTTTTAATAT
1 TTTTTTTCTAATTTTTAATAT
48561788 TT
1 TT
48561790 GAATTTTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.74
Consensus pattern (21 bp):
TTTTTTTCTAATTTTTAATAT
Found at i:48565548 original size:6 final size:7
Alignment explanation
Indices: 48565531--48565557 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
48565521 AACAGTTCCG
48565531 CCCCCCT
1 CCCCCCT
48565538 CCCCCCT
1 CCCCCCT
48565545 CCCCCCT
1 CCCCCCT
48565552 CCCCCC
1 CCCCCC
48565558 AATTTGGTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.00, C:0.89, G:0.00, T:0.11
Consensus pattern (7 bp):
CCCCCCT
Found at i:48581744 original size:26 final size:26
Alignment explanation
Indices: 48581709--48581764 Score: 87
Period size: 26 Copynumber: 2.2 Consensus size: 26
48581699 AGTTTCAGTA
*
48581709 AGTTTAAGGTAGGCAACTCGCTT-AG
1 AGTTTAAGGTAGGCAACTCCCTTAAG
48581734 AGTTTCAAGGTAGGCAACTCCCTTAAG
1 AGTTT-AAGGTAGGCAACTCCCTTAAG
48581761 AGTT
1 AGTT
48581765 CAATAACCAC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
25 5 0.18
26 17 0.61
27 6 0.21
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.29
Consensus pattern (26 bp):
AGTTTAAGGTAGGCAACTCCCTTAAG
Found at i:48584343 original size:28 final size:29
Alignment explanation
Indices: 48584311--48584370 Score: 104
Period size: 30 Copynumber: 2.1 Consensus size: 29
48584301 TCCCTATTGC
48584311 TCCCCATT-CCTGTATCGGTTCTATTATT
1 TCCCCATTGCCTGTATCGGTTCTATTATT
48584339 TCCCCATTGGCCTGTATCGGTTCTATTATT
1 TCCCCATT-GCCTGTATCGGTTCTATTATT
48584369 TC
1 TC
48584371 GTTATGTTCC
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
28 8 0.27
30 22 0.73
ACGTcount: A:0.13, C:0.28, G:0.13, T:0.45
Consensus pattern (29 bp):
TCCCCATTGCCTGTATCGGTTCTATTATT
Found at i:48590225 original size:50 final size:50
Alignment explanation
Indices: 48590160--48590261 Score: 204
Period size: 50 Copynumber: 2.0 Consensus size: 50
48590150 GAGAGCATGA
48590160 GAATGCAAAATATGACTCATCTATTTCACTAGGGCAAGTGGGAGACTTTG
1 GAATGCAAAATATGACTCATCTATTTCACTAGGGCAAGTGGGAGACTTTG
48590210 GAATGCAAAATATGACTCATCTATTTCACTAGGGCAAGTGGGAGACTTTG
1 GAATGCAAAATATGACTCATCTATTTCACTAGGGCAAGTGGGAGACTTTG
48590260 GA
1 GA
48590262 TCTGGTGCCC
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 52 1.00
ACGTcount: A:0.32, C:0.16, G:0.25, T:0.27
Consensus pattern (50 bp):
GAATGCAAAATATGACTCATCTATTTCACTAGGGCAAGTGGGAGACTTTG
Found at i:48592493 original size:20 final size:20
Alignment explanation
Indices: 48592447--48592498 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 20
48592437 ATTTTTAGTT
* *
48592447 TATTTTATTTATTATTATAT
1 TATTTTATTTATCATTATAG
48592467 TAGTTTTA-TTATCATTATTAG
1 TA-TTTTATTTATCATTA-TAG
48592488 TATTTTTATTT
1 TA-TTTTATTT
48592499 TTTATTTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 10 0.38
21 14 0.54
22 2 0.08
ACGTcount: A:0.27, C:0.02, G:0.04, T:0.67
Consensus pattern (20 bp):
TATTTTATTTATCATTATAG
Found at i:48595900 original size:16 final size:16
Alignment explanation
Indices: 48595879--48595909 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
48595869 AATTGGGTTG
*
48595879 TGAAAAATTATTTAAA
1 TGAAAAATTAATTAAA
48595895 TGAAAAATTAATTAA
1 TGAAAAATTAATTAA
48595910 TTTAAATAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.35
Consensus pattern (16 bp):
TGAAAAATTAATTAAA
Found at i:48596494 original size:20 final size:20
Alignment explanation
Indices: 48596448--48596499 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 20
48596438 ATTTTTAGTT
* *
48596448 TATTTTATTTATTATTATAT
1 TATTTTATTTATCATTATAG
48596468 TAGTTTTA-TTATCATTATTAG
1 TA-TTTTATTTATCATTA-TAG
48596489 TATTTTTATTT
1 TA-TTTTATTT
48596500 TTTATTTGTA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 10 0.38
21 14 0.54
22 2 0.08
ACGTcount: A:0.27, C:0.02, G:0.04, T:0.67
Consensus pattern (20 bp):
TATTTTATTTATCATTATAG
Found at i:48599725 original size:4 final size:4
Alignment explanation
Indices: 48599712--48599742 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
48599702 AAGTTCTTTG
48599712 AATT -ATT AATT AATT AATT AATT AATT AATT
1 AATT AATT AATT AATT AATT AATT AATT AATT
48599743 TAAGTTCAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.12
4 23 0.88
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (4 bp):
AATT
Found at i:48600219 original size:20 final size:19
Alignment explanation
Indices: 48600189--48600229 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
48600179 AATTAATGGG
* *
48600189 AAATTTATTTTCTAGGTAT
1 AAATTTATTTTATAGGAAT
48600208 AAATTCTATTTTATAGGAAT
1 AAATT-TATTTTATAGGAAT
48600228 AA
1 AA
48600230 CAATTAATCT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.39, C:0.05, G:0.10, T:0.46
Consensus pattern (19 bp):
AAATTTATTTTATAGGAAT
Found at i:48602490 original size:7 final size:6
Alignment explanation
Indices: 48602456--48602489 Score: 59
Period size: 6 Copynumber: 5.5 Consensus size: 6
48602446 CAAAGCTTAA
48602456 TTTCTTT TTTCTT TTTCTT TTTCTT TTTCTT TTT
1 TTTC-TT TTTCTT TTTCTT TTTCTT TTTCTT TTT
48602490 TTGCATTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 23 0.85
7 4 0.15
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTCTT
Found at i:48612121 original size:5 final size:5
Alignment explanation
Indices: 48612111--48612143 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
48612101 TTTTTAATGA
48612111 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
48612144 CTTGAGTTGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:48612644 original size:96 final size:96
Alignment explanation
Indices: 48612475--48612759 Score: 392
Period size: 96 Copynumber: 3.0 Consensus size: 96
48612465 TACAGGGAGG
* * * * * *
48612475 AATTATTTTTTGGATCTTTCCCACCACATCATCCATGTTCTCTTTCCAATTATTTAATAACATTT
1 AATTATTTTATGGACCATTCCCACCACATCATCCATGATCCCTTTCTAATTATTTAATAACATTT
* *
48612540 CAATAATTTTTTTCATGTCTTTTATACGAGA
66 CAATAATTTTTTTCATGTCATTCATACGAGA
* * *
48612571 TATTATTTTATGGACCATTCCCACCACATCATCCATGATCCCTTTCTAATCATTTAATGACATTT
1 AATTATTTTATGGACCATTCCCACCACATCATCCATGATCCCTTTCTAATTATTTAATAACATTT
*
48612636 CAACAATTTTTTCTC-TGTCATTCATACGAGA
66 CAATAATTTTTT-TCATGTCATTCATACGAGA
* * * *
48612667 AATTATTTTATGAACCCTTCCCACCACATCATCCATGATCCCTTTCTAATTATTGAACAACATTT
1 AATTATTTTATGGACCATTCCCACCACATCATCCATGATCCCTTTCTAATTATTTAATAACATTT
*
48612732 CAGTAATTTTTTTCCATGTCATTCATAC
66 CAATAATTTTTTT-CATGTCATTCATAC
48612760 ATAATTCTGG
Statistics
Matches: 165, Mismatches: 21, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
95 1 0.01
96 150 0.91
97 14 0.08
ACGTcount: A:0.28, C:0.24, G:0.06, T:0.42
Consensus pattern (96 bp):
AATTATTTTATGGACCATTCCCACCACATCATCCATGATCCCTTTCTAATTATTTAATAACATTT
CAATAATTTTTTTCATGTCATTCATACGAGA
Found at i:48614798 original size:16 final size:16
Alignment explanation
Indices: 48614765--48614794 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
48614755 GAACACATTT
48614765 AATAAAAATATTTATA
1 AATAAAAATATTTATA
48614781 AATAAAAA-ATTTAT
1 AATAAAAATATTTAT
48614795 TAAAGTTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (16 bp):
AATAAAAATATTTATA
Found at i:48622753 original size:30 final size:30
Alignment explanation
Indices: 48622690--48622753 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 30
48622680 AGCTTAAATA
* *
48622690 TTTATAATTTTTAGAGGATTAAATCACATT
1 TTTATAATTTTTAGAGGATGAAATCACAAT
* *
48622720 TTTATCATTTTTAGAGGAGTGAAGT-ACAAT
1 TTTATAATTTTTAGAGGA-TGAAATCACAAT
48622750 TTTA
1 TTTA
48622754 CCTTTACTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 25 0.86
31 4 0.14
ACGTcount: A:0.34, C:0.06, G:0.14, T:0.45
Consensus pattern (30 bp):
TTTATAATTTTTAGAGGATGAAATCACAAT
Found at i:48623180 original size:4 final size:4
Alignment explanation
Indices: 48623171--48623196 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
48623161 TCAGCATAAT
48623171 TAGC TAGC TAGC TAGC TAGC TAGC TA
1 TAGC TAGC TAGC TAGC TAGC TAGC TA
48623197 CCCCCGGTGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (4 bp):
TAGC
Found at i:48628660 original size:40 final size:41
Alignment explanation
Indices: 48628616--48628712 Score: 103
Period size: 40 Copynumber: 2.4 Consensus size: 41
48628606 GTTACTAATA
** *
48628616 GCATGTT-AAATCATTTTCGTTGTATCTGATAAATTTGAAT-
1 GCATGTTAAAATCATGCTCATTGTATCTGATAAATTTG-ATC
*
48628656 GCATGTTGAAAA--ATGCTCATTGTTTCTGATAAATTTGATC
1 GCATGTT-AAAATCATGCTCATTGTATCTGATAAATTTGATC
*
48628696 ACATGTTAAAATCATGC
1 GCATGTTAAAATCATGC
48628713 CTACTGTATT
Statistics
Matches: 47, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
39 6 0.13
40 34 0.72
41 4 0.09
42 3 0.06
ACGTcount: A:0.32, C:0.12, G:0.15, T:0.40
Consensus pattern (41 bp):
GCATGTTAAAATCATGCTCATTGTATCTGATAAATTTGATC
Found at i:48632135 original size:23 final size:23
Alignment explanation
Indices: 48632109--48632206 Score: 153
Period size: 23 Copynumber: 4.3 Consensus size: 23
48632099 ATAAGTGCCA
48632109 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
48632132 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
48632155 CACTG-GATGTAGCCAAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
48632177 CACTGAAATGTAGCCGAAGTTAC
1 CACTGATATGTAGCCGAAGCTAC
48632200 CACTGAT
1 CACTGAT
48632207 CAATAACACT
Statistics
Matches: 68, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
22 20 0.29
23 48 0.71
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.21
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:48632174 original size:45 final size:45
Alignment explanation
Indices: 48632116--48632204 Score: 151
Period size: 45 Copynumber: 2.0 Consensus size: 45
48632106 CCACACTGAT
* *
48632116 ATGTAGCCGAAGCTACCACTGATATGTAGCCGAAGCTACCACTGG
1 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
*
48632161 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGTTACCACTG
1 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
48632205 ATCAATAACA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.31, C:0.26, G:0.22, T:0.20
Consensus pattern (45 bp):
ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
Found at i:48636069 original size:26 final size:24
Alignment explanation
Indices: 48636040--48636087 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 24
48636030 TTTTTAAAAG
48636040 ATTTTAAAATTTTTTAATAAATATAA
1 ATTTTAAAA-TTTTT-ATAAATATAA
*
48636066 ATTTTAGAATTTTTATAAATAT
1 ATTTTAAAATTTTTATAAATAT
48636088 TTTGATTTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 8 0.38
25 5 0.24
26 8 0.38
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (24 bp):
ATTTTAAAATTTTTATAAATATAA
Found at i:48637788 original size:4 final size:4
Alignment explanation
Indices: 48637779--48637818 Score: 71
Period size: 4 Copynumber: 10.0 Consensus size: 4
48637769 TATTAGATAG
*
48637779 CATA CATA CATA CATA CATA CATA CATA CATA CGTA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
48637819 TATGCATAGA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.47, C:0.25, G:0.03, T:0.25
Consensus pattern (4 bp):
CATA
Found at i:48638734 original size:6 final size:6
Alignment explanation
Indices: 48638723--48638747 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
48638713 TTATGCGTGT
48638723 GTGAGA GTGAGA GTGAGA GTGAGA G
1 GTGAGA GTGAGA GTGAGA GTGAGA G
48638748 AAAGTCTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.52, T:0.16
Consensus pattern (6 bp):
GTGAGA
Found at i:48645696 original size:19 final size:19
Alignment explanation
Indices: 48645646--48645692 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 19
48645636 CAAACTAAAA
48645646 TATTTGAATCCATTTTATT
1 TATTTGAATCCATTTTATT
* *
48645665 TATATGTAT--ATTTT-TT
1 TATTTGAATCCATTTTATT
48645681 TATTTGAATCCA
1 TATTTGAATCCA
48645693 ATTTCATTGA
Statistics
Matches: 22, Mismatches: 4, Indels: 5
0.71 0.13 0.16
Matches are distributed among these distances:
16 9 0.41
17 5 0.23
18 1 0.05
19 7 0.32
ACGTcount: A:0.28, C:0.09, G:0.06, T:0.57
Consensus pattern (19 bp):
TATTTGAATCCATTTTATT
Found at i:48647263 original size:36 final size:38
Alignment explanation
Indices: 48647186--48647265 Score: 103
Period size: 38 Copynumber: 2.2 Consensus size: 38
48647176 AATATCTTAT
* * *
48647186 TTTTAGGGACTGAATTGTAAAAGTGTGTAAATTTGGGA
1 TTTTAGAGACTAAATTGTAAAAGTGTGTAAATTTGGAA
48647224 TTTTAGAGACTAAATTGTAAAA-T-TGTAAAATTT-GAA
1 TTTTAGAGACTAAATTGTAAAAGTGTGT-AAATTTGGAA
48647260 TTTTAG
1 TTTTAG
48647266 GGATTCTTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
36 11 0.29
37 7 0.18
38 20 0.53
ACGTcount: A:0.36, C:0.03, G:0.21, T:0.40
Consensus pattern (38 bp):
TTTTAGAGACTAAATTGTAAAAGTGTGTAAATTTGGAA
Found at i:48649733 original size:36 final size:38
Alignment explanation
Indices: 48649656--48649735 Score: 103
Period size: 38 Copynumber: 2.2 Consensus size: 38
48649646 AATATCTTAT
* * *
48649656 TTTTAGGGACTGAATTGTAAAAGTGTGTAAATTTGGGA
1 TTTTAGAGACTAAATTGTAAAAGTGTGTAAATTTGGAA
48649694 TTTTAGAGACTAAATTGTAAAA-T-TGTAAAATTT-GAA
1 TTTTAGAGACTAAATTGTAAAAGTGTGT-AAATTTGGAA
48649730 TTTTAG
1 TTTTAG
48649736 GGATTCTTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
36 11 0.29
37 7 0.18
38 20 0.53
ACGTcount: A:0.36, C:0.03, G:0.21, T:0.40
Consensus pattern (38 bp):
TTTTAGAGACTAAATTGTAAAAGTGTGTAAATTTGGAA
Found at i:48652203 original size:36 final size:38
Alignment explanation
Indices: 48652126--48652205 Score: 103
Period size: 38 Copynumber: 2.2 Consensus size: 38
48652116 AATATCTTAT
* * *
48652126 TTTTAGGGACTGAATTGTAAAAGTGTGTAAATTTGGGA
1 TTTTAGAGACTAAATTGTAAAAGTGTGTAAATTTGGAA
48652164 TTTTAGAGACTAAATTGTAAAA-T-TGTAAAATTT-GAA
1 TTTTAGAGACTAAATTGTAAAAGTGTGT-AAATTTGGAA
48652200 TTTTAG
1 TTTTAG
48652206 GGATTCTTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
36 11 0.29
37 7 0.18
38 20 0.53
ACGTcount: A:0.36, C:0.03, G:0.21, T:0.40
Consensus pattern (38 bp):
TTTTAGAGACTAAATTGTAAAAGTGTGTAAATTTGGAA
Found at i:48672264 original size:13 final size:13
Alignment explanation
Indices: 48672246--48672270 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
48672236 AATAATAAAG
48672246 AAAGAAAGAAAAT
1 AAAGAAAGAAAAT
48672259 AAAGAAAGAAAA
1 AAAGAAAGAAAA
48672271 ATCTCTACCT
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:0.80, C:0.00, G:0.16, T:0.04
Consensus pattern (13 bp):
AAAGAAAGAAAAT
Done.