Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01015029.1 Kokia drynarioides strain JFW-HI SEQ_130073, whole genome shotgun sequence
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: 170105
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Warning! 65 characters in sequence are not A, C, G, or T
Found at i:2870 original size:195 final size:196
Alignment explanation
Indices: 2531--2970 Score: 550
Period size: 195 Copynumber: 2.3 Consensus size: 196
2521 CGACGATGAT
* * ** * *
2531 TGAGGTATTGCATATGTTGTGAGTCCTCGACAGCTCGTGTGAGTAGCATCGTGAGTCGAGAAATG
1 TGAGGTATCGCATAAGTTGCAAGCCCTCGACAGCTCGTGTGAGTAGCATCGTGAGTCGAGAAAAG
*
2596 AGAAATGAATCCAATAATGGATTATAGGCCCTATGATGGTTGGGATTTATGCATAAGTGCATATT
66 AGAAATGAATCCAATAATGAATTATAGGCCCTATGATGGTTGGGATTTATGCATAAGTGCATATT
* * *
2661 CTCGACAGCTCGTGTGAGCAGCATCTTTAGGGAAACAATTATATGCACAGATACCGTATCGATGG
131 CTCGACAACTCGTGTGAGCAACATCGTTAGGGAAACAATTATATGCACAGATACCGTATCGATGG
2726 C
196 C
*
2727 TGAGGTATCGCATAAGTTGCAAGCCCTCGACAGCTCGTGTGAGTAGCATTGTGAGTCGA-AAAAG
1 TGAGGTATCGCATAAGTTGCAAGCCCTCGACAGCTCGTGTGAGTAGCATCGTGAGTCGAGAAAAG
* * *
2791 AGATATGAAATCCTA-AATGAATTATAGGCCCTATGATGGTTGGGATTTATGCTTGAA-TGCATA
66 AGAAATG-AATCCAATAATGAATTATAGGCCCTATGATGGTTGGGATTTATGCAT-AAGTGCATA
* * * * * *
2854 TTCTCGACAACTCGTGTGAGCAACATCGTTAGGGGATA-GATTACA-G-ACAAACACCGTACCGA
129 TTCTCGACAACTCGTGTGAGCAACATCGTTA-GGGAAACAATTATATGCACAGATACCGTATCGA
2916 TGGC
193 TGGC
* * * * ** * * *
2920 TGGGGTACCGCATATGTTGCGAGTACTCAACAGTTCGTGTGAGCAGCATCG
1 TGAGGTATCGCATAAGTTGCAAGCCCTCGACAGCTCGTGTGAGTAGCATCG
2971 AGTACTAGTA
Statistics
Matches: 211, Mismatches: 30, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
193 58 0.27
194 1 0.00
195 86 0.41
196 66 0.31
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.27
Consensus pattern (196 bp):
TGAGGTATCGCATAAGTTGCAAGCCCTCGACAGCTCGTGTGAGTAGCATCGTGAGTCGAGAAAAG
AGAAATGAATCCAATAATGAATTATAGGCCCTATGATGGTTGGGATTTATGCATAAGTGCATATT
CTCGACAACTCGTGTGAGCAACATCGTTAGGGAAACAATTATATGCACAGATACCGTATCGATGG
C
Found at i:5690 original size:79 final size:83
Alignment explanation
Indices: 5594--5794 Score: 214
Period size: 83 Copynumber: 2.5 Consensus size: 83
5584 GTTTAACCTC
* ** * *
5594 TTATTTGGATCGTGAAGGAAATTGTGGG-TTGTAT-TAAAAGTTCAAA-C-TTCGGCTTTGATTG
1 TTATTTGGATTGTGAAGGAAATTAAGGGTTTGTATGAAAAAGTTCAAACCTTTCGGCCTTGATTG
*
5655 AAACCAAATTTTGA-TTG
66 AAACCAAATTCTGATTTG
* *
5672 TTTATTTGGATTGTGAAGGAAATTAAGGGTTTGTATGAAAAAGTTTAAACCTTTTGGCCTTGATT
1 -TTATTTGGATTGTGAAGGAAATTAAGGGTTTGTATGAAAAAGTTCAAACCTTTCGGCCTTGATT
* *
5737 GAGACCAAGTTCTGATTTG
65 GAAACCAAATTCTGATTTG
* *** **
5756 TTATTTGAATTGTTTGGGAAATTGGGGGTTTGTATGAAA
1 TTATTTGGATTGTGAAGGAAATTAAGGGTTTGTATGAAA
5795 TGTTTAACCT
Statistics
Matches: 101, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
79 25 0.25
80 6 0.06
81 10 0.10
82 1 0.01
83 56 0.55
84 3 0.03
ACGTcount: A:0.28, C:0.07, G:0.25, T:0.40
Consensus pattern (83 bp):
TTATTTGGATTGTGAAGGAAATTAAGGGTTTGTATGAAAAAGTTCAAACCTTTCGGCCTTGATTG
AAACCAAATTCTGATTTG
Found at i:5761 original size:83 final size:81
Alignment explanation
Indices: 5594--5898 Score: 303
Period size: 81 Copynumber: 3.8 Consensus size: 81
5584 GTTTAACCTC
* * * * * * * * *
5594 TTATTTGGATCGTGAAGGAAATTGTGGG-TTGTATTAAAAGTTCAAAC-TTCGGCTTTGATTGAA
1 TTATTTGAATTGTGAAGGAAATTGGGGGTTTGTATGAAAAGTTTAACCTTTTGGCCTTGATTGAG
*
5657 ACCAAATTTTGA-TTG
66 ACCAAGTTTTGATTTG
* **
5672 TTTATTTGGATTGTGAAGGAAATTAAGGGTTTGTATGAAAAAGTTTAAACCTTTTGGCCTTGATT
1 -TTATTTGAATTGTGAAGGAAATTGGGGGTTTGTATG-AAAAGTTT-AACCTTTTGGCCTTGATT
*
5737 GAGACCAAGTTCTGATTTG
63 GAGACCAAGTTTTGATTTG
*** * ** * *
5756 TTATTTGAATTGTTTGGGAAATTGGGGGTTTGTATGAAATGTTTAACCTTTTGATCTTAATTAAG
1 TTATTTGAATTGTGAAGGAAATTGGGGGTTTGTATGAAAAGTTTAACCTTTTGGCCTTGATTGAG
* *
5821 ACCAAGTTTTGGTTTA
66 ACCAAGTTTTGATTTG
* * *
5837 TTATTTGAATTGTTAGGGAAATTGTGGGGTTTGTATG-AAAGTTTAACCTTTTGGTCTTGATT
1 TTATTTGAATTGTGAAGGAAATTG-GGGGTTTGTATGAAAAGTTTAACCTTTTGGCCTTGATT
5899 AAATTTTTTT
Statistics
Matches: 191, Mismatches: 29, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
79 25 0.13
80 6 0.03
81 82 0.43
82 22 0.12
83 53 0.28
84 3 0.02
ACGTcount: A:0.27, C:0.07, G:0.24, T:0.42
Consensus pattern (81 bp):
TTATTTGAATTGTGAAGGAAATTGGGGGTTTGTATGAAAAGTTTAACCTTTTGGCCTTGATTGAG
ACCAAGTTTTGATTTG
Found at i:10783 original size:16 final size:16
Alignment explanation
Indices: 10759--10798 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
10749 TATGAGTATT
10759 GATTATTTCAAGTTTC
1 GATTATTTCAAGTTTC
*
10775 GATTGTTTCAAGTTT-
1 GATTATTTCAAGTTTC
10790 GAGTTATTT
1 GA-TTATTT
10799 TGAATTCTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 2 0.10
16 19 0.90
ACGTcount: A:0.23, C:0.07, G:0.17, T:0.53
Consensus pattern (16 bp):
GATTATTTCAAGTTTC
Found at i:21091 original size:6 final size:6
Alignment explanation
Indices: 21080--21105 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
21070 TCTAACCGAT
21080 GAGTCG GAGTCG GAGTCG GAGTCG GA
1 GAGTCG GAGTCG GAGTCG GAGTCG GA
21106 ATCAAGCAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.19, C:0.15, G:0.50, T:0.15
Consensus pattern (6 bp):
GAGTCG
Found at i:21669 original size:22 final size:20
Alignment explanation
Indices: 21627--21670 Score: 52
Period size: 22 Copynumber: 2.1 Consensus size: 20
21617 GGTTGAACAG
*
21627 AAATATTTTTAATTAGTTTT
1 AAATATTTTTAATTAGGTTT
*
21647 AAATAGTTTGTTAATTTGGTTT
1 AAATA-TTT-TTAATTAGGTTT
21669 AA
1 AA
21671 TAACATTAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 5 0.25
21 3 0.15
22 12 0.60
ACGTcount: A:0.34, C:0.00, G:0.11, T:0.55
Consensus pattern (20 bp):
AAATATTTTTAATTAGGTTT
Found at i:29515 original size:55 final size:54
Alignment explanation
Indices: 29456--29589 Score: 135
Period size: 55 Copynumber: 2.5 Consensus size: 54
29446 AACAATTATC
* ** * * *
29456 AAATTTAGATTTCAATATAAAAATAATTATCAAGTTCAAAAAT-TAATTTAAAAAA
1 AAATTTAAATTTCAATATAAAAATAAAAATCAAATTC-AAAATCCAACTT-AAAAA
* ***
29511 AAATTCAAACCCCAATATAAAAATAAAAATCAAATTCAAAATCCAACTTAAAAA
1 AAATTTAAATTTCAATATAAAAATAAAAATCAAATTCAAAATCCAACTTAAAAA
* *
29565 AATTTTAAATTTTAATATAAAAATA
1 AAATTTAAATTTCAATATAAAAATA
29590 CCAAATTCAA
Statistics
Matches: 62, Mismatches: 16, Indels: 3
0.77 0.20 0.04
Matches are distributed among these distances:
54 29 0.47
55 33 0.53
ACGTcount: A:0.58, C:0.10, G:0.01, T:0.31
Consensus pattern (54 bp):
AAATTTAAATTTCAATATAAAAATAAAAATCAAATTCAAAATCCAACTTAAAAA
Found at i:38862 original size:13 final size:13
Alignment explanation
Indices: 38844--38868 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
38834 TCCACGTTCT
38844 TTAGTTAATTTAA
1 TTAGTTAATTTAA
38857 TTAGTTAATTTA
1 TTAGTTAATTTA
38869 GTTTTAATGA
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:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (13 bp):
TTAGTTAATTTAA
Found at i:44419 original size:3 final size:3
Alignment explanation
Indices: 44411--44438 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
44401 GACTACATTT
44411 TTC TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC T
44439 AGATTGCTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:45118 original size:22 final size:22
Alignment explanation
Indices: 45067--45169 Score: 134
Period size: 22 Copynumber: 4.6 Consensus size: 22
45057 AAGTACTTAA
*
45067 CAGTAAGCACACACAGTGCAAT
1 CAGTAGGCACACACAGTGCAAT
*
45089 CCAGTAGGCACACATAGTGCAAT
1 -CAGTAGGCACACACAGTGCAAT
45112 CAGTAGGCACACACAGTGCAAT
1 CAGTAGGCACACACAGTGCAAT
* * *
45134 CAGTAGGCGCACATAATGCAAAT
1 CAGTAGGCACACACAGTGC-AAT
*
45157 TAGTAGGCACACA
1 CAGTAGGCACACA
45170 AGGTGCGAAA
Statistics
Matches: 71, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
22 37 0.52
23 34 0.48
ACGTcount: A:0.38, C:0.25, G:0.21, T:0.16
Consensus pattern (22 bp):
CAGTAGGCACACACAGTGCAAT
Found at i:45131 original size:45 final size:45
Alignment explanation
Indices: 45067--45169 Score: 154
Period size: 45 Copynumber: 2.3 Consensus size: 45
45057 AAGTACTTAA
* *
45067 CAGTAAGCACACACAGTGCAATCCAGTAGGCACACATAGTGC-AAT
1 CAGTAGGCACACACAGTGCAAT-CAGTAGGCACACATAATGCAAAT
*
45112 CAGTAGGCACACACAGTGCAATCAGTAGGCGCACATAATGCAAAT
1 CAGTAGGCACACACAGTGCAATCAGTAGGCACACATAATGCAAAT
*
45157 TAGTAGGCACACA
1 CAGTAGGCACACA
45170 AGGTGCGAAA
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
44 17 0.32
45 36 0.68
ACGTcount: A:0.38, C:0.25, G:0.21, T:0.16
Consensus pattern (45 bp):
CAGTAGGCACACACAGTGCAATCAGTAGGCACACATAATGCAAAT
Found at i:45226 original size:23 final size:23
Alignment explanation
Indices: 45158--45235 Score: 86
Period size: 23 Copynumber: 3.4 Consensus size: 23
45148 AATGCAAATT
* *
45158 AGTAGGCACAC-AAGGTGCGAAAC
1 AGTAAGCACACGAA-GTACGAAAC
* * *
45181 AATAAGCACACGAAGTGCAAAAC
1 AGTAAGCACACGAAGTACGAAAC
*
45204 AGTAAGCACACGAAGTATGAAAC
1 AGTAAGCACACGAAGTACGAAAC
45227 AGTAAGCAC
1 AGTAAGCAC
45236 GCTAGCGTTC
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
23 45 0.96
24 2 0.04
ACGTcount: A:0.46, C:0.21, G:0.23, T:0.10
Consensus pattern (23 bp):
AGTAAGCACACGAAGTACGAAAC
Found at i:46990 original size:18 final size:18
Alignment explanation
Indices: 46969--47034 Score: 50
Period size: 18 Copynumber: 3.8 Consensus size: 18
46959 TATAAAATAT
46969 TTAAATAAATAAAAATTA
1 TTAAATAAATAAAAATTA
* * *
46987 TTAAATTATTAAATATTA
1 TTAAATAAATAAAAATTA
*
47005 --AAATAAA-ATAAA-TA
1 TTAAATAAATAAAAATTA
*
47019 TTTAAAAAAATAAAAA
1 -TTAAATAAATAAAAA
47035 ATAATATGAG
Statistics
Matches: 35, Mismatches: 9, Indels: 8
0.67 0.17 0.15
Matches are distributed among these distances:
14 2 0.06
15 3 0.09
16 5 0.14
17 6 0.17
18 19 0.54
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (18 bp):
TTAAATAAATAAAAATTA
Found at i:56054 original size:30 final size:32
Alignment explanation
Indices: 56007--56065 Score: 79
Period size: 31 Copynumber: 1.9 Consensus size: 32
55997 AGTAAAAAAT
*
56007 ATATAAATTTATTAAATAT-TAAAATAATGTA
1 ATATAAATTTATTAAATATAAAAAATAATGTA
56038 ATAT-AATTT-TTAAAATATAAAAAATAAT
1 ATATAAATTTATT-AAATATAAAAAATAAT
56066 ATGGATATGC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
29 2 0.08
30 11 0.44
31 12 0.48
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.41
Consensus pattern (32 bp):
ATATAAATTTATTAAATATAAAAAATAATGTA
Found at i:64163 original size:3 final size:3
Alignment explanation
Indices: 64155--64189 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
64145 GTCCTGCTCT
64155 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
64190 CACACACTGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:68005 original size:32 final size:30
Alignment explanation
Indices: 67947--68007 Score: 77
Period size: 32 Copynumber: 2.0 Consensus size: 30
67937 AACAATAGTA
* *
67947 AAAACGCATAAAAATAACATCCAAACAACC
1 AAAACGCATAAAAATAACAGCAAAACAACC
*
67977 AAAACAGCAGTAAAAATAATAGCAAAACAAC
1 AAAAC-GCA-TAAAAATAACAGCAAAACAAC
68008 AACAAAAACA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 5 0.19
31 3 0.12
32 18 0.69
ACGTcount: A:0.62, C:0.21, G:0.07, T:0.10
Consensus pattern (30 bp):
AAAACGCATAAAAATAACAGCAAAACAACC
Found at i:68015 original size:12 final size:12
Alignment explanation
Indices: 68000--68095 Score: 83
Period size: 12 Copynumber: 8.2 Consensus size: 12
67990 AAATAATAGC
68000 AAAACAACAACA
1 AAAACAACAACA
68012 AAAACAACAA-A
1 AAAACAACAACA
* *
68023 AATAGCAGC-A-A
1 AA-AACAACAACA
68034 AAAA-AACAACA
1 AAAACAACAACA
* *
68045 AAAATAGCAACA
1 AAAACAACAACA
*
68057 AAAACTACAACA
1 AAAACAACAACA
* *
68069 AAAATAACAGCA
1 AAAACAACAACA
*
68081 AAAACAACATCA
1 AAAACAACAACA
68093 AAA
1 AAA
68096 TAGTAAAAAA
Statistics
Matches: 67, Mismatches: 13, Indels: 8
0.76 0.15 0.09
Matches are distributed among these distances:
9 2 0.03
10 2 0.03
11 12 0.18
12 51 0.76
ACGTcount: A:0.71, C:0.20, G:0.04, T:0.05
Consensus pattern (12 bp):
AAAACAACAACA
Found at i:68038 original size:24 final size:24
Alignment explanation
Indices: 68011--68095 Score: 116
Period size: 24 Copynumber: 3.5 Consensus size: 24
68001 AAACAACAAC
68011 AAAAACAACAAAAATAGCAGCAAA
1 AAAAACAACAAAAATAGCAGCAAA
*
68035 AAAAACAACAAAAATAGCAACAAA
1 AAAAACAACAAAAATAGCAGCAAA
** *
68059 AACTACAACAAAAATAACAGCAAA
1 AAAAACAACAAAAATAGCAGCAAA
* *
68083 AACAACATCAAAA
1 AAAAACAACAAAA
68096 TAGTAAAAAA
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 54 1.00
ACGTcount: A:0.71, C:0.19, G:0.05, T:0.06
Consensus pattern (24 bp):
AAAAACAACAAAAATAGCAGCAAA
Found at i:68056 original size:36 final size:35
Alignment explanation
Indices: 68000--68095 Score: 104
Period size: 36 Copynumber: 2.7 Consensus size: 35
67990 AAATAATAGC
*
68000 AAAACAACAACAAAAACAACAAAAA-TAGCAGCAAAA
1 AAAACAACAA-AAAAACAACAAAAACTA-CAACAAAA
*
68036 AAAACAACAAAAATAGCAACAAAAACTACAACAAAA
1 AAAACAACAAAAA-AACAACAAAAACTACAACAAAA
* * *
68072 ATAACAGCAAAAACAACATCAAAA
1 AAAACAACAAAAA-AACAACAAAA
68096 TAGTAAAAAA
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
35 3 0.06
36 46 0.90
37 2 0.04
ACGTcount: A:0.71, C:0.20, G:0.04, T:0.05
Consensus pattern (35 bp):
AAAACAACAAAAAAACAACAAAAACTACAACAAAA
Found at i:68104 original size:21 final size:20
Alignment explanation
Indices: 68074--68197 Score: 108
Period size: 20 Copynumber: 6.2 Consensus size: 20
68064 CAACAAAAAT
* * *
68074 AACAGCAAAAACAACATCAA
1 AACAGTAAAAAAAACACCAA
* *
68094 AATAGTAAAAAAAGCACCAA
1 AACAGTAAAAAAAACACCAA
* *
68114 AACAATAAAAAAAGGCACCAA
1 AACAGTAAAAAAA-ACACCAA
* *
68135 AATAGTAAAAAAAATACCAA
1 AACAGTAAAAAAAACACCAA
* * *
68155 AACAG-CAAAAAAGCAACTAA
1 AACAGTAAAAAAAAC-ACCAA
68175 AACAGT-AAAAAAACACCAA
1 AACAGTAAAAAAAACACCAA
68194 AACA
1 AACA
68198 ACAATATAAA
Statistics
Matches: 83, Mismatches: 18, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
19 14 0.17
20 51 0.61
21 18 0.22
ACGTcount: A:0.67, C:0.19, G:0.07, T:0.07
Consensus pattern (20 bp):
AACAGTAAAAAAAACACCAA
Found at i:68114 original size:20 final size:20
Alignment explanation
Indices: 68091--68197 Score: 119
Period size: 20 Copynumber: 5.3 Consensus size: 20
68081 AAAACAACAT
*
68091 CAAAATAGTAAAAAAAGCAC
1 CAAAACAGTAAAAAAAGCAC
*
68111 CAAAACAATAAAAAAAGGCAC
1 CAAAACAGTAAAAAAA-GCAC
* **
68132 CAAAATAGTAAAAAAAATAC
1 CAAAACAGTAAAAAAAGCAC
*
68152 CAAAACAG-CAAAAAAGCAAC
1 CAAAACAGTAAAAAAAGC-AC
*
68172 TAAAACAGTAAAAAAA-CAC
1 CAAAACAGTAAAAAAAGCAC
68191 CAAAACA
1 CAAAACA
68198 ACAATATAAA
Statistics
Matches: 71, Mismatches: 13, Indels: 7
0.78 0.14 0.08
Matches are distributed among these distances:
19 14 0.20
20 33 0.46
21 24 0.34
ACGTcount: A:0.67, C:0.18, G:0.07, T:0.07
Consensus pattern (20 bp):
CAAAACAGTAAAAAAAGCAC
Found at i:68136 original size:41 final size:40
Alignment explanation
Indices: 68091--68198 Score: 130
Period size: 39 Copynumber: 2.7 Consensus size: 40
68081 AAAACAACAT
*
68091 CAAAATAGTAAAAAAAGCACCAAAACAATAAAAAAAGGC-AC
1 CAAAATAGTAAAAAAA-CACCAAAACAAGAAAAAAA-GCAAC
* *
68132 CAAAATAGTAAAAAAAATACCAAAAC-AGCAAAAAAGCAAC
1 CAAAATAGT-AAAAAAACACCAAAACAAGAAAAAAAGCAAC
* *
68172 TAAAACAGTAAAAAAACACCAAAACAA
1 CAAAATAGTAAAAAAACACCAAAACAA
68199 CAATATAAAT
Statistics
Matches: 58, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
39 17 0.29
40 17 0.29
41 17 0.29
42 7 0.12
ACGTcount: A:0.68, C:0.18, G:0.07, T:0.07
Consensus pattern (40 bp):
CAAAATAGTAAAAAAACACCAAAACAAGAAAAAAAGCAAC
Found at i:70132 original size:36 final size:36
Alignment explanation
Indices: 70092--70175 Score: 96
Period size: 36 Copynumber: 2.3 Consensus size: 36
70082 CCAAGCAGTG
* ** * *
70092 TCTAACTGAGACATAAATTCTTCCTTAGCATTACGC
1 TCTAACCGAGACATAAACACTTCCATAGCAATACGC
* * *
70128 TCTAACCGAGACGTAAGCACTTCCATAGCAATATGC
1 TCTAACCGAGACATAAACACTTCCATAGCAATACGC
70164 TCTAACCGAGAC
1 TCTAACCGAGAC
70176 GTAAGCGATC
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
36 40 1.00
ACGTcount: A:0.32, C:0.27, G:0.14, T:0.26
Consensus pattern (36 bp):
TCTAACCGAGACATAAACACTTCCATAGCAATACGC
Found at i:70176 original size:36 final size:36
Alignment explanation
Indices: 70111--70225 Score: 117
Period size: 36 Copynumber: 3.2 Consensus size: 36
70101 GACATAAATT
* *
70111 CTTCCTTAGCATTACGCTCTAACCGAGACGTAAGCA
1 CTTCCATAGCAATACGCTCTAACCGAGACGTAAGCA
*
70147 CTTCCATAGCAATATGCTCTAACCGAGACGTAAGCGA
1 CTTCCATAGCAATACGCTCTAACCGAGACGTAAGC-A
* * * * * *
70184 --TCACACAACATTACGCTCTAGCCGAGATGTAAGCT
1 CTTC-CATAGCAATACGCTCTAACCGAGACGTAAGCA
70219 CTTCCAT
1 CTTCCAT
70226 TAAAGAAATC
Statistics
Matches: 64, Mismatches: 11, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
35 2 0.03
36 59 0.92
37 3 0.05
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.24
Consensus pattern (36 bp):
CTTCCATAGCAATACGCTCTAACCGAGACGTAAGCA
Found at i:71087 original size:24 final size:21
Alignment explanation
Indices: 71039--71092 Score: 65
Period size: 20 Copynumber: 2.5 Consensus size: 21
71029 TTCATAATTA
71039 ACTTAATTAATCCACCTTAAC
1 ACTTAATTAATCCACCTTAAC
*
71060 -CTTAGTTAATCTCACCTGTAATC
1 ACTTAATTAATC-CACCT-TAA-C
71083 ACTTAATTAA
1 ACTTAATTAA
71093 CATAAAAATC
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
20 10 0.37
21 5 0.19
22 3 0.11
23 1 0.04
24 8 0.30
ACGTcount: A:0.35, C:0.24, G:0.04, T:0.37
Consensus pattern (21 bp):
ACTTAATTAATCCACCTTAAC
Found at i:73230 original size:2 final size:2
Alignment explanation
Indices: 73225--73265 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
73215 TTTTTTACAA
73225 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
73266 TTTTATTATT
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:73302 original size:19 final size:18
Alignment explanation
Indices: 73255--73302 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 18
73245 ATATATATAT
*
73255 ATATATAATATTTTTATTA
1 ATATA-AATATTTTTAATA
*
73274 TTATTAAATATTTTTAATA
1 ATA-TAAATATTTTTAATA
73293 ATATACAATA
1 ATATA-AATA
73303 AATATTAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
18 2 0.08
19 20 0.83
20 2 0.08
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (18 bp):
ATATAAATATTTTTAATA
Found at i:73401 original size:19 final size:20
Alignment explanation
Indices: 73359--73401 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
73349 AATTATATTT
*
73359 TTTAATAATAAATTATAACA
1 TTTAATAATAAATTATAAAA
*
73379 -TTAATAAT-AATTTTAAAA
1 TTTAATAATAAATTATAAAA
73397 TTTAA
1 TTTAA
73402 ATAGTATTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (20 bp):
TTTAATAATAAATTATAAAA
Found at i:73502 original size:23 final size:23
Alignment explanation
Indices: 73464--73508 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
73454 ATAATTTACA
*
73464 TTTTATAATATAAAATATAAATG
1 TTTTATAATATAAAATACAAATG
73487 TTTTAGTAATAT-AAATACAAAT
1 TTTTA-TAATATAAAATACAAAT
73509 ATTTATCTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.42
Consensus pattern (23 bp):
TTTTATAATATAAAATACAAATG
Found at i:78853 original size:21 final size:21
Alignment explanation
Indices: 78827--78895 Score: 72
Period size: 21 Copynumber: 3.4 Consensus size: 21
78817 GTTGCTTAAG
78827 CAGCAACAGAAACTGGAGGAA
1 CAGCAACAGAAACTGGAGGAA
*** *
78848 CAGCAACAGTTGCT-GCGG--
1 CAGCAACAGAAACTGGAGGAA
*
78866 CAACAACAGAAACTGGAGGAA
1 CAGCAACAGAAACTGGAGGAA
78887 CAGCAACAG
1 CAGCAACAG
78896 TTGTTGCGAC
Statistics
Matches: 35, Mismatches: 10, Indels: 6
0.69 0.20 0.12
Matches are distributed among these distances:
18 10 0.29
19 3 0.09
20 3 0.09
21 19 0.54
ACGTcount: A:0.42, C:0.23, G:0.28, T:0.07
Consensus pattern (21 bp):
CAGCAACAGAAACTGGAGGAA
Found at i:78860 original size:39 final size:39
Alignment explanation
Indices: 78817--78898 Score: 128
Period size: 39 Copynumber: 2.1 Consensus size: 39
78807 AAAAGATGAT
* *
78817 GTTGCTTAAGCAGCAACAGAAACTGGAGGAACAGCAACA
1 GTTGCTGAAGCAACAACAGAAACTGGAGGAACAGCAACA
**
78856 GTTGCTGCGGCAACAACAGAAACTGGAGGAACAGCAACA
1 GTTGCTGAAGCAACAACAGAAACTGGAGGAACAGCAACA
78895 GTTG
1 GTTG
78899 TTGCGACAAC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.38, C:0.21, G:0.28, T:0.13
Consensus pattern (39 bp):
GTTGCTGAAGCAACAACAGAAACTGGAGGAACAGCAACA
Found at i:78909 original size:39 final size:39
Alignment explanation
Indices: 78830--78912 Score: 148
Period size: 39 Copynumber: 2.1 Consensus size: 39
78820 GCTTAAGCAG
*
78830 CAACAGAAACTGGAGGAACAGCAACAGTTGCTGCGGCAA
1 CAACAGAAACTGGAGGAACAGCAACAGTTGCTGCGACAA
*
78869 CAACAGAAACTGGAGGAACAGCAACAGTTGTTGCGACAA
1 CAACAGAAACTGGAGGAACAGCAACAGTTGCTGCGACAA
78908 CAACA
1 CAACA
78913 ATTGCTTTCA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.41, C:0.23, G:0.25, T:0.11
Consensus pattern (39 bp):
CAACAGAAACTGGAGGAACAGCAACAGTTGCTGCGACAA
Found at i:97743 original size:14 final size:13
Alignment explanation
Indices: 97719--97752 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
97709 AAAAATTCAG
97719 AAAATATATAATAAT
1 AAAA-ATATAA-AAT
97734 AAAAATATAAAAT
1 AAAAATATAAAAT
97747 AAAAAT
1 AAAAAT
97753 TCATTAATTC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 9 0.47
14 6 0.32
15 4 0.21
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (13 bp):
AAAAATATAAAAT
Found at i:100545 original size:21 final size:21
Alignment explanation
Indices: 100514--100567 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
100504 GGAGTTTTTA
* *
100514 GTATTGGTAGAAG-CATGACTT
1 GTATCGGTAGAAGTCA-CACTT
*
100535 GTTTCGGTAGAAGTCACACTT
1 GTATCGGTAGAAGTCACACTT
100556 GTATCGGTAGAA
1 GTATCGGTAGAA
100568 CTATCACAAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 26 0.93
22 2 0.07
ACGTcount: A:0.28, C:0.13, G:0.28, T:0.31
Consensus pattern (21 bp):
GTATCGGTAGAAGTCACACTT
Found at i:101310 original size:10 final size:10
Alignment explanation
Indices: 101297--101323 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
101287 CCATTACTTG
101297 CCACCATGCT
1 CCACCATGCT
101307 CCACCATGCT
1 CCACCATGCT
101317 CCACCAT
1 CCACCAT
101324 CAGTCATCAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.22, C:0.52, G:0.07, T:0.19
Consensus pattern (10 bp):
CCACCATGCT
Found at i:101392 original size:19 final size:19
Alignment explanation
Indices: 101359--101397 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
101349 TGAGTCCAAG
*
101359 TTTTATCATTCTCTT-ATT
1 TTTTACCATTCTCTTCATT
101377 TTTTACCATATCTCTTCATT
1 TTTTACCAT-TCTCTTCATT
101397 T
1 T
101398 CCCGCATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 8 0.44
19 6 0.33
20 4 0.22
ACGTcount: A:0.18, C:0.21, G:0.00, T:0.62
Consensus pattern (19 bp):
TTTTACCATTCTCTTCATT
Found at i:104196 original size:37 final size:38
Alignment explanation
Indices: 104130--104205 Score: 136
Period size: 38 Copynumber: 2.0 Consensus size: 38
104120 AATATTTTTT
104130 TTAGTAAAAAAAATTTAAGTAATATTTTTTTACGAGAA
1 TTAGTAAAAAAAATTTAAGTAATATTTTTTTACGAGAA
*
104168 TTAGTAAAAATAATTTAAGTAATA-TTTTTTACGAGAA
1 TTAGTAAAAAAAATTTAAGTAATATTTTTTTACGAGAA
104205 T
1 T
104206 ATAAAACCAC
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
37 14 0.38
38 23 0.62
ACGTcount: A:0.46, C:0.03, G:0.11, T:0.41
Consensus pattern (38 bp):
TTAGTAAAAAAAATTTAAGTAATATTTTTTTACGAGAA
Found at i:120566 original size:13 final size:13
Alignment explanation
Indices: 120550--120604 Score: 51
Period size: 13 Copynumber: 4.3 Consensus size: 13
120540 TTTTTAATTT
120550 ATTTTAAGTTTAA
1 ATTTTAAGTTTAA
120563 ATTTT-AGATTTAA
1 ATTTTAAG-TTTAA
* * * *
120576 GTTTAAATTTTAG
1 ATTTTAAGTTTAA
120589 A-TTTAAGTTTAA
1 ATTTTAAGTTTAA
120601 ATTT
1 ATTT
120605 ATTTTTAAAT
Statistics
Matches: 31, Mismatches: 8, Indels: 6
0.69 0.18 0.13
Matches are distributed among these distances:
12 11 0.35
13 19 0.61
14 1 0.03
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.55
Consensus pattern (13 bp):
ATTTTAAGTTTAA
Found at i:120576 original size:19 final size:19
Alignment explanation
Indices: 120552--120622 Score: 108
Period size: 19 Copynumber: 3.8 Consensus size: 19
120542 TTTAATTTAT
120552 TTTAAGTTTAAATTTTAGA
1 TTTAAGTTTAAATTTTAGA
120571 TTTAAGTTTAAATTTTAGA
1 TTTAAGTTTAAATTTTAGA
**
120590 TTTAAGTTTAAA-TTTATT
1 TTTAAGTTTAAATTTTAGA
*
120608 TTTAAATTTAAATTT
1 TTTAAGTTTAAATTT
120623 ATTCTAAATT
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
18 15 0.31
19 33 0.69
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.56
Consensus pattern (19 bp):
TTTAAGTTTAAATTTTAGA
Found at i:120617 original size:6 final size:6
Alignment explanation
Indices: 120552--120638 Score: 70
Period size: 6 Copynumber: 14.3 Consensus size: 6
120542 TTTAATTTAT
* * * * *
120552 TTTAAG TTTAAA TTTTAGA TTTAAG TTTAAA TTTTAGA TTTAAG TTTAAA
1 TTTAAA TTTAAA -TTTAAA TTTAAA TTTAAA -TTTAAA TTTAAA TTTAAA
**
120602 TTTATT TTTAAA TTTAAA TTT--A TTCTAAA TTTAAA TT
1 TTTAAA TTTAAA TTTAAA TTTAAA TT-TAAA TTTAAA TT
120639 AAAAGTTCAA
Statistics
Matches: 63, Mismatches: 13, Indels: 10
0.73 0.15 0.12
Matches are distributed among these distances:
4 3 0.05
5 1 0.02
6 46 0.73
7 13 0.21
ACGTcount: A:0.38, C:0.01, G:0.06, T:0.55
Consensus pattern (6 bp):
TTTAAA
Found at i:122463 original size:30 final size:30
Alignment explanation
Indices: 122424--122739 Score: 239
Period size: 30 Copynumber: 10.8 Consensus size: 30
122414 GTTCCCGAAC
* * * *
122424 TCTCTAAAAATTACATGTTAACCTCTGAACT
1 TCTC-AAAAATTACATTTTTACCCCTAAACT
* *
122455 TCTCAAAAATTACA--TTTGCCCCCAAACT
1 TCTCAAAAATTACATTTTTACCCCTAAACT
* * *
122483 TATCAAAAATTATATTTTGACCCCTAAACT
1 TCTCAAAAATTACATTTTTACCCCTAAACT
* * *
122513 T-TTAAAAATTACA-TTTT-GCACTCAAACT
1 TCTCAAAAATTACATTTTTACCCCT-AAACT
* *
122541 TCTTAAAAATTACATTTTT-TCCCTCAAACT
1 TCTCAAAAATTACATTTTTACCCCT-AAACT
* *
122571 TC-CAAAAATTACATTTTGATCCCTAAACT
1 TCTCAAAAATTACATTTTTACCCCTAAACT
122600 T-TCCAAAAATTACATTTTTACCTCCT-AACT
1 TCT-CAAAAATTACATTTTTACC-CCTAAACT
*
122630 TC-CAAAAA-TACATTTTTACCCTCT-TACT
1 TCTCAAAAATTACATTTTTACCC-CTAAACT
* * **
122658 TC-CAAAAATCATATTTTTACCCCCGAACT
1 TCTCAAAAATTACATTTTTACCCCTAAACT
* *
122687 TCTCAAAAATTACTTTTTTACCCCTCGAACT
1 TCTCAAAAATTACATTTTTACCCCT-AAACT
*
122718 TC-CAAAAATCACCA-TTTTACCC
1 TCTCAAAAATTA-CATTTTTACCC
122740 TCGAGCATCA
Statistics
Matches: 237, Mismatches: 32, Indels: 33
0.78 0.11 0.11
Matches are distributed among these distances:
27 4 0.02
28 56 0.24
29 64 0.27
30 98 0.41
31 15 0.06
ACGTcount: A:0.35, C:0.26, G:0.03, T:0.36
Consensus pattern (30 bp):
TCTCAAAAATTACATTTTTACCCCTAAACT
Found at i:122580 original size:87 final size:88
Alignment explanation
Indices: 122429--122741 Score: 291
Period size: 87 Copynumber: 3.6 Consensus size: 88
122419 CGAACTCTCT
* * ** * * *
122429 AAAAATTACATGTTAACCTCTGAACTTCTCAAAAATTACA--TTTGCCCCCAAACTTATCAAAAA
1 AAAAATTACATTTTCACCTCCAAACTTCTCAAAAATTACATTTTTACCCTCAAACTT-CCAAAAA
*
122492 TTATATTTTGACCCCTAAACTTTT
65 TTATATTTTGACCCCTAAACTTTC
* *
122516 AAAAATTACATTTTGCA-CT-CAAACTTCTTAAAAATTACATTTTTTCCCTCAAACTTCCAAAAA
1 AAAAATTACATTTT-CACCTCCAAACTTCTCAAAAATTACATTTTTACCCTCAAACTTCCAAAAA
* *
122579 TTACATTTTGATCCCTAAACTTTCC
65 TTATATTTTGACCCCTAAACTTT-C
* * **
122604 AAAAATTACATTTTTACCTCCTAACTTC-CAAAAA-TACATTTTTACCCTCTTACTTCCAAAAAT
1 AAAAATTACATTTTCACCTCCAAACTTCTCAAAAATTACATTTTTACCCTCAAACTTCCAAAAAT
* * **
122667 CATATTTTTACCCCCGAACTTCTC
66 TATATTTTGACCCCTAAACTT-TC
* * * * *
122691 AAAAATTACTTTTTTACCCCTCGAACTTC-CAAAAATCACCA-TTTTACCCTC
1 AAAAATTACATTTTCACCTC-CAAACTTCTCAAAAATTA-CATTTTTACCCTC
122742 GAGCATCAAA
Statistics
Matches: 189, Mismatches: 27, Indels: 18
0.81 0.12 0.08
Matches are distributed among these distances:
86 17 0.09
87 103 0.54
88 49 0.26
89 18 0.10
90 2 0.01
ACGTcount: A:0.35, C:0.26, G:0.03, T:0.36
Consensus pattern (88 bp):
AAAAATTACATTTTCACCTCCAAACTTCTCAAAAATTACATTTTTACCCTCAAACTTCCAAAAAT
TATATTTTGACCCCTAAACTTTC
Found at i:122741 original size:29 final size:28
Alignment explanation
Indices: 122419--122769 Score: 226
Period size: 29 Copynumber: 12.0 Consensus size: 28
122409 AGAAGGTTCC
* * *
122419 CGAACTCTCTAAAAATTACATGTTAACCT
1 CGAACT-TCCAAAAATTACATTTTACCCT
* *
122448 CTGAACTTCTCAAAAATTACA-TTTGCCCC
1 C-GAACTTC-CAAAAATTACATTTTACCCT
* * *
122477 CAAACTTATCAAAAATTATATTTTGACCC-
1 CGAACTT-CCAAAAATTACATTTT-ACCCT
* ** * *
122506 CTAAACTTTTAAAAATTACATTTTGCACT
1 C-GAACTTCCAAAAATTACATTTTACCCT
* * *
122535 CAAACTTCTTAAAAATTACATTTTTTCCCT
1 CGAACTTC-CAAAAATTACA-TTTTACCCT
*
122565 CAAACTTCCAAAAATTACATTTTGATCCCT
1 CGAACTTCCAAAAATTACATTTT-A-CCCT
*
122595 -AAACTTTCCAAAAATTACATTTTTA-CCT
1 CGAAC-TTCCAAAAATTACA-TTTTACCCT
*
122623 CCTAACTTCCAAAAA-TACATTTTTACCCT
1 -CGAACTTCCAAAAATTACA-TTTTACCCT
** * * *
122652 CTTACTTCCAAAAATCATATTTTTACCCC
1 CGAACTTCCAAAAATTACA-TTTTACCCT
*
122681 CGAACTTCTCAAAAATTACTTTTTTACCCCT
1 CGAACTTC-CAAAAATTAC-ATTTTA-CCCT
*
122712 CGAACTTCCAAAAATCACCATTTTACCCT
1 CGAACTTCCAAAAATTA-CATTTTACCCT
* * *
122741 CGAGCATCAAAAAATTACCATTTTACCCT
1 CGAACTTCCAAAAATTA-CATTTTACCCT
122770 TAATTTTCCA
Statistics
Matches: 266, Mismatches: 35, Indels: 42
0.78 0.10 0.12
Matches are distributed among these distances:
28 53 0.20
29 110 0.41
30 87 0.33
31 16 0.06
ACGTcount: A:0.35, C:0.26, G:0.03, T:0.35
Consensus pattern (28 bp):
CGAACTTCCAAAAATTACATTTTACCCT
Found at i:128070 original size:25 final size:26
Alignment explanation
Indices: 128013--128077 Score: 87
Period size: 25 Copynumber: 2.5 Consensus size: 26
128003 AGACTCCTCT
* *
128013 AAACGCTCCGTTTTACTTAAAACCCA
1 AAACGCACCGTTTTACTTAAAACACA
* *
128039 AAGCGCACCGTTTTA-TTTAAACACA
1 AAACGCACCGTTTTACTTAAAACACA
128064 AAACGCACCGTTTT
1 AAACGCACCGTTTT
128078 CTACTGTTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
25 21 0.62
26 13 0.38
ACGTcount: A:0.34, C:0.28, G:0.11, T:0.28
Consensus pattern (26 bp):
AAACGCACCGTTTTACTTAAAACACA
Found at i:129669 original size:19 final size:19
Alignment explanation
Indices: 129647--129703 Score: 52
Period size: 19 Copynumber: 3.2 Consensus size: 19
129637 CCTCTCCAAA
129647 TAAACCTGTCAGTTCCATT
1 TAAACCTGTCAGTTCCATT
**
129666 TAAATCC--TC---TCCAAA
1 TAAA-CCTGTCAGTTCCATT
129681 TAAACCTGTCAGTTCCATT
1 TAAACCTGTCAGTTCCATT
129700 TAAA
1 TAAA
129704 TCCCCATCAA
Statistics
Matches: 28, Mismatches: 4, Indels: 12
0.64 0.09 0.27
Matches are distributed among these distances:
14 2 0.07
15 8 0.29
16 2 0.07
18 2 0.07
19 12 0.43
20 2 0.07
ACGTcount: A:0.33, C:0.26, G:0.07, T:0.33
Consensus pattern (19 bp):
TAAACCTGTCAGTTCCATT
Found at i:129671 original size:34 final size:34
Alignment explanation
Indices: 129633--129706 Score: 148
Period size: 34 Copynumber: 2.2 Consensus size: 34
129623 GGTTTTCTTA
129633 AAATCCTCTCCAAATAAACCTGTCAGTTCCATTT
1 AAATCCTCTCCAAATAAACCTGTCAGTTCCATTT
129667 AAATCCTCTCCAAATAAACCTGTCAGTTCCATTT
1 AAATCCTCTCCAAATAAACCTGTCAGTTCCATTT
129701 AAATCC
1 AAATCC
129707 CCATCAAACA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 40 1.00
ACGTcount: A:0.34, C:0.30, G:0.05, T:0.31
Consensus pattern (34 bp):
AAATCCTCTCCAAATAAACCTGTCAGTTCCATTT
Found at i:134219 original size:14 final size:14
Alignment explanation
Indices: 134200--134229 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
134190 AGCACAAATG
*
134200 AATAAATATACGAA
1 AATAAATATAAGAA
134214 AATAAATATAAGAA
1 AATAAATATAAGAA
134228 AA
1 AA
134230 AAAAATAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.70, C:0.03, G:0.07, T:0.20
Consensus pattern (14 bp):
AATAAATATAAGAA
Found at i:134444 original size:29 final size:28
Alignment explanation
Indices: 134385--134493 Score: 139
Period size: 29 Copynumber: 3.8 Consensus size: 28
134375 AAAGTTTTAA
* *
134385 GGGTAAAAATGTCATTTTTGGGAGAGATCG
1 GGGTAAAAATGTGATTTTT-GGA-AGTTCG
134415 GGGTAAAAATGTGATTTTTGAGAAGTTCG
1 GGGTAAAAATGTGATTTTTG-GAAGTTCG
* *
134444 GGATAAAAATGTGATTTTTGGAAGTT-T
1 GGGTAAAAATGTGATTTTTGGAAGTTCG
*
134471 GGGCAAAAATGTGATTTTTGGAA
1 GGGTAAAAATGTGATTTTTGGAA
134494 AAATGTGATT
Statistics
Matches: 72, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
27 21 0.29
28 6 0.08
29 25 0.35
30 20 0.28
ACGTcount: A:0.32, C:0.04, G:0.30, T:0.34
Consensus pattern (28 bp):
GGGTAAAAATGTGATTTTTGGAAGTTCG
Found at i:134513 original size:44 final size:45
Alignment explanation
Indices: 134448--134539 Score: 123
Period size: 46 Copynumber: 2.0 Consensus size: 45
134438 AGTTCGGGAT
** * *
134448 AAAAATGTGATTTTTGGAAGTT-TGGGCAAAAATGTGATTTTTGG
1 AAAAATGTGATTTTTAAAAGTTCAGGGCAAAAATGTGATTTTAGG
*
134492 AAAAATGTGATTTTTAAAAGTTCGAGGGTAAAAATGTGATTTTAGG
1 AAAAATGTGATTTTTAAAAGTTC-AGGGCAAAAATGTGATTTTAGG
134538 AA
1 AA
134540 GTTCGGGTGC
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
44 20 0.49
46 21 0.51
ACGTcount: A:0.37, C:0.02, G:0.25, T:0.36
Consensus pattern (45 bp):
AAAAATGTGATTTTTAAAAGTTCAGGGCAAAAATGTGATTTTAGG
Found at i:134534 original size:29 final size:29
Alignment explanation
Indices: 134492--134733 Score: 249
Period size: 29 Copynumber: 8.3 Consensus size: 29
134482 TGATTTTTGG
*
134492 AAAAATGTGATTTTTAAAAGTTCGAGGGT
1 AAAAATGTGATTTTTAGAAGTTCGAGGGT
*
134521 AAAAATGTGA-TTTTAGGAAGTTCG-GGTGC
1 AAAAATGTGATTTTTA-GAAGTTCGAGG-GT
* * * *
134550 AAAAATGTAATTTTTGGAAGTTTGAGGGC
1 AAAAATGTGATTTTTAGAAGTTCGAGGGT
*
134579 AAAATTGTGATTTTT-GAAAGTTCGAGGGT
1 AAAAATGTGATTTTTAG-AAGTTCGAGGGT
* *
134608 AAAAATGTGATTTTTTTGAAGTTCG-GGAGC
1 AAAAATGTGA-TTTTTAGAAGTTCGAGG-GT
* * * *
134638 AAAAATGTAATTTTTGGAAGTTTGGGGGT
1 AAAAATGTGATTTTTAGAAGTTCGAGGGT
*
134667 TAAAATGTGATTTTTAGAAGTTCGAGGGT
1 AAAAATGTGATTTTTAGAAGTTCGAGGGT
* *
134696 AAAAATATAATTTTTGAGAAGTTCGAGGGT
1 AAAAATGTGATTTTT-AGAAGTTCGAGGGT
*
134726 CAAAATGT
1 AAAAATGT
134734 AAATTCTAGA
Statistics
Matches: 178, Mismatches: 25, Indels: 19
0.80 0.11 0.09
Matches are distributed among these distances:
28 8 0.04
29 119 0.67
30 50 0.28
31 1 0.01
ACGTcount: A:0.34, C:0.04, G:0.27, T:0.35
Consensus pattern (29 bp):
AAAAATGTGATTTTTAGAAGTTCGAGGGT
Found at i:134540 original size:73 final size:75
Alignment explanation
Indices: 134419--134656 Score: 232
Period size: 73 Copynumber: 3.0 Consensus size: 75
134409 AGATCGGGGT
* * *
134419 AAAAATGTGATTTTTGAGAAGTTCGGGATAAAAATGTGATTTTTGGAAGTT-TGG-GCAAAAATG
1 AAAAATGTGATTTTTGAAAAGTTCGGGATAAAAATGTGATTTTAGGAAGTTCGGGTGCAAAAATG
*
134482 TGATTTTTGG
66 TAATTTTTGG
*
134492 AAAAATGTGATTTTT-AAAAGTTCGAGGGTAAAAATGTGATTTTAGGAAGTTCGGGTGCAAAAAT
1 AAAAATGTGATTTTTGAAAAGTTCG-GGATAAAAATGTGATTTTAGGAAGTTCGGGTGCAAAAAT
134556 GTAATTTTTGGAAGTTTG
65 GTAATTTTT----G---G
* ** *
134574 AGGGCAAAATTGTGATTTTTG-AAAGTTCGAGGGTAAAAATGTGATTTTTTTGAAGTTCGGGAGC
1 A----AAAA-TGTGATTTTTGAAAAGTTCG-GGATAAAAATGTGA-TTTTAGGAAGTTCGGGTGC
134638 AAAAATGTAATTTTTGG
59 AAAAATGTAATTTTTGG
134655 AA
1 AA
134657 GTTTGGGGGT
Statistics
Matches: 140, Mismatches: 8, Indels: 30
0.79 0.04 0.17
Matches are distributed among these distances:
72 8 0.06
73 39 0.28
74 2 0.01
75 16 0.11
77 1 0.01
79 1 0.01
81 2 0.01
82 2 0.01
84 1 0.01
86 4 0.03
87 33 0.24
88 31 0.22
ACGTcount: A:0.34, C:0.04, G:0.26, T:0.36
Consensus pattern (75 bp):
AAAAATGTGATTTTTGAAAAGTTCGGGATAAAAATGTGATTTTAGGAAGTTCGGGTGCAAAAATG
TAATTTTTGG
Found at i:134731 original size:88 final size:86
Alignment explanation
Indices: 134493--134735 Score: 323
Period size: 88 Copynumber: 2.8 Consensus size: 86
134483 GATTTTTGGA
* *
134493 AAAATGTGATTTTTAAAAGTTCGAGGGTAAAAATGTGATTTTAGGAAGTTC-GGGTGCAAAAATG
1 AAAATGTGATTTTTAGAAGTTCGAGGGTAAAAATGTGATTTTTGGAAGTTCGGGGT-CAAAAATG
134557 TAATTTTTGGAAGTTTGAGGGC
65 TAATTTTTGGAAGTTTGAGGGC
*
134579 AAAATTGTGATTTTT-GAAAGTTCGAGGGTAAAAATGTGATTTTTTTGAAGTTCGGGAG-CAAAA
1 AAAA-TGTGATTTTTAG-AAGTTCGAGGGTAAAAATGTGA-TTTTTGGAAGTTCGGG-GTCAAAA
* *
134642 ATGTAATTTTTGGAAGTTTGGGGGTT
62 ATGTAATTTTTGGAAGTTTGAGGG-C
* *
134668 AAAATGTGATTTTTAGAAGTTCGAGGGTAAAAATATAATTTTTGAGAAGTTCGAGGGTC-AAAAT
1 AAAATGTGATTTTTAGAAGTTCGAGGGTAAAAATGTGATTTTTG-GAAGTTCG-GGGTCAAAAAT
134732 GTAA
64 GTAA
134736 ATTCTAGATA
Statistics
Matches: 139, Mismatches: 8, Indels: 18
0.84 0.05 0.11
Matches are distributed among these distances:
86 4 0.03
87 37 0.27
88 87 0.63
89 10 0.07
90 1 0.01
ACGTcount: A:0.34, C:0.04, G:0.27, T:0.35
Consensus pattern (86 bp):
AAAATGTGATTTTTAGAAGTTCGAGGGTAAAAATGTGATTTTTGGAAGTTCGGGGTCAAAAATGT
AATTTTTGGAAGTTTGAGGGC
Found at i:136649 original size:6 final size:6
Alignment explanation
Indices: 136638--136702 Score: 80
Period size: 6 Copynumber: 11.2 Consensus size: 6
136628 AATTTTGGAC
** *
136638 ATTTAA ATTTAA ATTTAA AAATAA ATTTAA ACTTAA A-TTAA ATTTAA
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA
*
136685 ATTTAA A-ATAA ATTTAA A
1 ATTTAA ATTTAA ATTTAA A
136703 AATGGGTTTA
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
5 9 0.18
6 41 0.82
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (6 bp):
ATTTAA
Found at i:136681 original size:17 final size:17
Alignment explanation
Indices: 136641--136702 Score: 97
Period size: 17 Copynumber: 3.6 Consensus size: 17
136631 TTTGGACATT
136641 TAAATTTAAATTTAAAAA
1 TAAATTTAAATTT-AAAA
* *
136659 TAAATTTAAACTTAAAT
1 TAAATTTAAATTTAAAA
136676 TAAATTTAAATTTAAAA
1 TAAATTTAAATTTAAAA
136693 TAAATTTAAA
1 TAAATTTAAA
136703 AATGGGTTTA
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
17 28 0.70
18 12 0.30
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (17 bp):
TAAATTTAAATTTAAAA
Found at i:136703 original size:11 final size:11
Alignment explanation
Indices: 136647--136703 Score: 62
Period size: 11 Copynumber: 5.0 Consensus size: 11
136637 CATTTAAATT
136647 TAAATTTAAAAA
1 TAAATTT-AAAA
*
136659 TAAATTTAAACT
1 TAAATTTAAA-A
*
136671 TAAA-TTAAATT
1 TAAATTTAAA-A
136682 TAAATTTAAAA
1 TAAATTTAAAA
136693 TAAATTTAAAA
1 TAAATTTAAAA
136704 ATGGGTTTAG
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
11 24 0.60
12 16 0.40
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.39
Consensus pattern (11 bp):
TAAATTTAAAA
Found at i:137228 original size:39 final size:39
Alignment explanation
Indices: 137185--137679 Score: 340
Period size: 39 Copynumber: 12.7 Consensus size: 39
137175 GATGGTTGCA
* *
137185 ATCTGCCCCAGGCTCGGGATAAGAGATTGGCTGATGGTG
1 ATCTGCCCCAAGCTCGGGGTAAGAGATTGGCTGATGGTG
* * * **
137224 ATCTGCCCTAGGCTCGAGGTAAGAGA-T--CAAATGGTTG
1 ATCTGCCCCAAGCTCGGGGTAAGAGATTGGCTGATGG-TG
*
137261 CAATCTGCCCCAAGCTCGGGGTAAGTGA-T--C-GAATGGCTG
1 --ATCTGCCCCAAGCTCGGGGTAAGAGATTGGCTG-ATGG-TG
*
137300 CAATCTGCCCC-AGTCTCGGAGTAAGAGATTGGCTGATGGTG
1 --ATCTGCCCCAAG-CTCGGGGTAAGAGATTGGCTGATGGTG
* * * * *
137341 ATCTACCTCAGGCTCGAGGTAAAAG-TT--C-GAATGGTTG
1 ATCTGCCCCAAGCTCGGGGTAAGAGATTGGCTG-ATGG-TG
* **
137378 CAATCTGTCCCAAGCTCAAGGTAAGAGATTGGCTGATGGTG
1 --ATCTGCCCCAAGCTCGGGGTAAGAGATTGGCTGATGGTG
* * * * * *
137419 ATCTGCCCTAGGTTCGGGGTAAGAGATCGGAT-A-GTTG
1 ATCTGCCCCAAGCTCGGGGTAAGAGATTGGCTGATGGTG
* * ** *
137456 CAATTTACCTTAAGCTCGAGGTAAGAGATTGGCTGATGGTG
1 --ATCTGCCCCAAGCTCGGGGTAAGAGATTGGCTGATGGTG
* * * * * **
137497 ATCTGCCTCAAGCTCGGGGTAAGAGATCGGATGGTTGCA
1 ATCTGCCCCAAGCTCGGGGTAAGAGATTGGCTGATGGTG
* * *
137536 ATCTGCCTCAGGCTTGGGGTAAGAGATTGGCTGATGGTG
1 ATCTGCCCCAAGCTCGGGGTAAGAGATTGGCTGATGGTG
* *
137575 ATTTGCCCCAAGCTCGGGGTAAGAGA-T--CAGATGGTTG
1 ATCTGCCCCAAGCTCGGGGTAAGAGATTGGCTGATGG-TG
*
137612 CAATCTGCCCCAAGCTCGGGGTAAGAGATTGGTTGATGGTG
1 --ATCTGCCCCAAGCTCGGGGTAAGAGATTGGCTGATGGTG
*
137653 ATCTGCCCCAAGCTTGGGGTAAGAGAT
1 ATCTGCCCCAAGCTCGGGGTAAGAGAT
137680 CGGAATCTTC
Statistics
Matches: 358, Mismatches: 70, Indels: 56
0.74 0.14 0.12
Matches are distributed among these distances:
35 1 0.00
36 16 0.04
37 9 0.03
38 7 0.02
39 293 0.82
40 6 0.02
41 9 0.03
42 15 0.04
43 2 0.01
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (39 bp):
ATCTGCCCCAAGCTCGGGGTAAGAGATTGGCTGATGGTG
Found at i:137306 original size:78 final size:77
Alignment explanation
Indices: 137224--137699 Score: 475
Period size: 78 Copynumber: 6.1 Consensus size: 77
137214 GCTGATGGTG
* ** *
137224 ATCTGCCCTAGGCTCGAGGTAAGAGA-T-CAAATGGTTGCAATCTGCCCCAAGCTCGGGGTAAGT
1 ATCTGCCCTAAGCTCGAGGTAAGAGATTGCTGATGG-TG--ATCTGCCCCAAGCTCGGGGTAAGA
*
137287 GATCGAATGGCTGCA
63 GATCGAATGGTTGCA
* * * * * *
137302 ATCTGCCC-CAGTCTCG-GAGTAAGAGATTGGCTGATGGTGATCTACCTCAGGCTCGAGGTAAAA
1 ATCTGCCCTAAG-CTCGAG-GTAAGAGATT-GCTGATGGTGATCTGCCCCAAGCTCGGGGTAAGA
*
137365 GTTCGAATGGTTGCA
63 GATCGAATGGTTGCA
* * * *
137380 ATCTGTCCC-AAGCTCAAGGTAAGAGATTGGCTGATGGTGATCTGCCCTAGGTTCGGGGTAAGAG
1 ATCTG-CCCTAAGCTCGAGGTAAGAGATT-GCTGATGGTGATCTGCCCCAAGCTCGGGGTAAGAG
* *
137444 ATCGGATAGTTGCA
64 ATCGAATGGTTGCA
* * * *
137458 ATTTACCTTAAGCTCGAGGTAAGAGATTGGCTGATGGTGATCTGCCTCAAGCTCGGGGTAAGAGA
1 ATCTGCCCTAAGCTCGAGGTAAGAGATT-GCTGATGGTGATCTGCCCCAAGCTCGGGGTAAGAGA
*
137523 TCGGATGGTTGCA
65 TCGAATGGTTGCA
* * * *
137536 ATCTG-CCTCAGGCTTGGGGTAAGAGATTGGCTGATGGTGATTTGCCCCAAGCTCGGGGTAAGAG
1 ATCTGCCCT-AAGCTCGAGGTAAGAGATT-GCTGATGGTGATCTGCCCCAAGCTCGGGGTAAGAG
137600 ATC-AGATGGTTGCA
64 ATCGA-ATGGTTGCA
* * * *
137614 ATCTGCCCCAAGCTCGGGGTAAGAGATTGGTTGATGGTGATCTGCCCCAAGCTTGGGGTAAGAGA
1 ATCTGCCCTAAGCTCGAGGTAAGAGATT-GCTGATGGTGATCTGCCCCAAGCTCGGGGTAAGAGA
*
137679 TCGGAAT-CTT-CA
65 TC-GAATGGTTGCA
137691 ATCTGCCCT
1 ATCTGCCCT
137700 TCTTGATTAA
Statistics
Matches: 336, Mismatches: 49, Indels: 27
0.82 0.12 0.07
Matches are distributed among these distances:
77 16 0.05
78 301 0.90
79 11 0.03
80 3 0.01
81 5 0.01
ACGTcount: A:0.24, C:0.20, G:0.31, T:0.25
Consensus pattern (77 bp):
ATCTGCCCTAAGCTCGAGGTAAGAGATTGCTGATGGTGATCTGCCCCAAGCTCGGGGTAAGAGAT
CGAATGGTTGCA
Found at i:137390 original size:117 final size:116
Alignment explanation
Indices: 137175--137640 Score: 478
Period size: 117 Copynumber: 4.0 Consensus size: 116
137165 TGAGCGATTG
* * *
137175 GATGGTTGCAATCTGCCCCAGGCTCGGGATAAGAGATTGGCTGATGGTGATCTGCC-CTAGGCTC
1 GATGGTTGCAATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTACCTC-AAGCTC
* *
137239 GAGGTAAGAGATCAAATGGTTGCAATCTGCCCCAAGCTCGGGGTAAGTGATC
65 GAGGTAAGAGATCGAATGGTTGCAATCTGCCCCAAGCTCGGGGTAAGAGATC
* * * *
137291 GAATGGCTGCAATCTGCCCCAGTCTCGGAGTAAGAGATTGGCTGATGGTGATCTACCTCAGGCTC
1 G-ATGGTTGCAATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTACCTCAAGCTC
* * * **
137356 GAGGTAAAAGTTCGAATGGTTGCAATCTGTCCCAAGCTCAAGGTAAGAGATTGGC
65 GAGGTAAGAGATCGAATGGTTGCAATCTGCCCCAAGCTCGGGGTAAGAGA-T--C
* * * * * * *
137411 TGATGG-TG--ATCTGCCCTAGGTTCGGGGTAAGAGATCGGAT-A-GTTGCAATTTACCTTAAGC
1 -GATGGTTGCAATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTG--ATCTACCTCAAGC
* ** * * ** *
137471 TCGAGGTAAGAGATTGGCTGATGGTGATCTGCCTCAAGCTCGGGGTAAGAGATC
63 TCGAGGTAAGAGATCGAATGGTTGCAATCTGCCCCAAGCTCGGGGTAAGAGATC
* * * * *
137525 GGATGGTTGCAATCTGCCTCAGGCTTGGGGTAAGAGATTGGCTGATGGTGATTTGCCCCAAGCTC
1 -GATGGTTGCAATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTACCTCAAGCTC
*
137590 GGGGTAAGAGATC-AGATGGTTGCAATCTGCCCCAAGCTCGGGGTAAGAGAT
65 GAGGTAAGAGATCGA-ATGGTTGCAATCTGCCCCAAGCTCGGGGTAAGAGAT
137641 TGGTTGATGG
Statistics
Matches: 281, Mismatches: 55, Indels: 27
0.77 0.15 0.07
Matches are distributed among these distances:
114 6 0.02
115 5 0.02
116 3 0.01
117 253 0.90
118 3 0.01
119 5 0.02
120 5 0.02
121 1 0.00
ACGTcount: A:0.24, C:0.20, G:0.32, T:0.25
Consensus pattern (116 bp):
GATGGTTGCAATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTACCTCAAGCTCG
AGGTAAGAGATCGAATGGTTGCAATCTGCCCCAAGCTCGGGGTAAGAGATC
Found at i:138003 original size:50 final size:50
Alignment explanation
Indices: 137942--138683 Score: 433
Period size: 50 Copynumber: 15.1 Consensus size: 50
137932 CCATCTTGAT
* *
137942 TTCTAAGGTACCAGGTTCGCCGTTTCGGCCTCAACCTTTCCCTTCATATC
1 TTCTAAGGTACCAGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCACATC
* * * * * *
137992 TTCTAAGGTACCAGGTTCGCCATTGCAGCCTCAACCTTTCCTTTAAAATA
1 TTCTAAGGTACCAGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCACATC
* * * * * * *
138042 TTC-ATGGTATC-GAGTTCACCATTACGACCTCAACCTTTCCCATCACAT-
1 TTCTAAGGTACCAG-GTTCGCCGTTGCGGCCTCAACCTTTCCCTTCACATC
* * * * ** * * *
138090 TT-GATGGTATC-GGATTCGTCGTTGTAGTCTCAATCTTTCCCATCACATC
1 TTCTAAGGTACCAGG-TTCGCCGTTGCGGCCTCAACCTTTCCCTTCACATC
* * * * * ** * *
138139 TTTTGAGGTATCGGGTTCGCCATTATGGCCTCAGCCTTTCCCGTCACATC
1 TTCTAAGGTACCAGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCACATC
* * * * * *
138189 TTTTAAGGTATCGGGTTCGCCGTTGTGGCCTTAACCTTTCCCTTCAAATC
1 TTCTAAGGTACCAGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCACATC
* * * * * *
138239 TT-TATGGTA-CTGGATTCACCGTTACGGCCTCAACCTTTCTCATCACAT-
1 TTCTAAGGTACCAGG-TTCGCCGTTGCGGCCTCAACCTTTCCCTTCACATC
* * * * * *
138287 TTC-ATGGTACTAGATTCGCCGTTGCGGTCTCAATCTTTCCCATCACATC
1 TTCTAAGGTACCAGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCACATC
* * ** * *
138336 TTCTGAGGTACC-GGATTCGTCGTCACGGCCTCAATCC-TTCCCTTCAAAAC
1 TTCTAAGGTACCAGG-TTCGCCGTTGCGGCCTCAA-CCTTTCCCTTCACATC
* * * *
138386 TTC-ATGGTACCGGGTTCGTCGTTGCGGCCTCAACCTTT-CTTGTCACATC
1 TTCTAAGGTACCAGGTTCGCCGTTGCGGCCTCAACCTTTCCCT-TCACATC
*** * * *
138435 TTCTAAGGTACCAGGTTCGCCGTTATAGCCTCAACTTTTCCCTTAAAATC
1 TTCTAAGGTACCAGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCACATC
* * * * * *
138485 TTC-ATGGTACCGGGTTCGTCATTGCAGCCTCAACCTTTCCCATCACATC
1 TTCTAAGGTACCAGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCACATC
* * ** ** *
138534 TTTTAAGGTATCAAATTCATCGTTGCGGCCTCAATCC-TTCCCTTTA-A-C
1 TTCTAAGGTACCAGGTTCGCCGTTGCGGCCTCAA-CCTTTCCCTTCACATC
* *** ** * * * *
138582 TTC-ATGGTATTGGGTTCGCTATTGCAGCCTCAACCTTTCTCATCGCATC
1 TTCTAAGGTACCAGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCACATC
* * * *
138631 TTCTTAGGTACCAGGTTCGTCGTTGCTGCCTTC-ACCTTTCCCTTCATATC
1 TTCTAAGGTACCAGGTTCGCCGTTGCGGCC-TCAACCTTTCCCTTCACATC
138681 TTC
1 TTC
138684 ATGTTTTCTC
Statistics
Matches: 528, Mismatches: 139, Indels: 50
0.74 0.19 0.07
Matches are distributed among these distances:
46 2 0.00
47 26 0.05
48 85 0.16
49 149 0.28
50 257 0.49
51 9 0.02
ACGTcount: A:0.19, C:0.30, G:0.17, T:0.35
Consensus pattern (50 bp):
TTCTAAGGTACCAGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTCACATC
Found at i:138272 original size:197 final size:196
Alignment explanation
Indices: 137955--138545 Score: 600
Period size: 197 Copynumber: 3.0 Consensus size: 196
137945 TAAGGTACCA
* * * * *
137955 GGTTCGCCGTT-TCGGCCTCAACCTTTCCCTTCATATCTTCTAAGGTACCAGGTTCGCCATTGCA
1 GGTTCGCCGTTAT-GGCCTCAACCTTTCCCTTCAAATCTTTTAAGGTACCGGGTTCGCCGTTGCG
* * * * * *
138019 GCCTCAACCTTTCCTTTAAAATATTCATGGTA-TCGAGTTCACCATTACGACCTCAACCTTTCCC
65 GCCTCAACCTTTCCTTTCAAATCTTTATGGTACTGGA-TTCACCGTTACGGCCTCAACCTTTCCC
* *
138083 ATCACATTTGATGGTATCGGATTCGTCGTTGTAGTCTCAATCTTTCCCATCACATCTTTTGAGGT
129 ATCACATTTCATGGTA-CGGATTCGTCGTTGCAGTCTCAATCTTTCCCATCACATCTTTTGAGGT
138148 ATCG
193 ATCG
* * * * * *
138152 GGTTCGCCATTATGGCCTCAGCCTTTCCCGTCACATCTTTTAAGGTATCGGGTTCGCCGTTGTGG
1 GGTTCGCCGTTATGGCCTCAACCTTTCCCTTCAAATCTTTTAAGGTACCGGGTTCGCCGTTGCGG
* * *
138217 CCTTAACCTTTCCCTTCAAATCTTTATGGTACTGGATTCACCGTTACGGCCTCAACCTTTCTCAT
66 CCTCAACCTTTCCTTTCAAATCTTTATGGTACTGGATTCACCGTTACGGCCTCAACCTTTCCCAT
* * * * *
138282 CACATTTCATGGTACTAGATTCGCCGTTGCGGTCTCAATCTTTCCCATCACATCTTCTGAGGTAC
131 CACATTTCATGGTAC-GGATTCGTCGTTGCAGTCTCAATCTTTCCCATCACATCTTTTGAGGTAT
138347 CG
195 CG
* * * * * * * *
138349 GATTCGTCGTCACGGCCTCAATCC-TTCCCTTCAAAAC-TTCATGGTACCGGGTTCGTCGTTGCG
1 GGTTCGCCGTTATGGCCTCAA-CCTTTCCCTTCAAATCTTTTAAGGTACCGGGTTCGCCGTTGCG
* * * * ** *
138412 GCCTCAACCTTT-CTTGTCACATCTTCTAAGGTACCAGG-TTCGCCGTTATAGCCTCAACTTTTC
65 GCCTCAACCTTTCCTT-TCAAATCTT-TATGGTA-CTGGATTCACCGTTACGGCCTCAACCTTTC
* * * * * * * *
138475 CCTTAAAATCTTCATGGTACCGGGTTCGTCATTGCAGCCTCAACCTTTCCCATCACATCTTTTAA
127 CCATCACAT-TTCATGGTA-CGGATTCGTCGTTGCAGTCTCAATCTTTCCCATCACATCTTTTGA
138540 GGTATC
190 GGTATC
138546 AAATTCATCG
Statistics
Matches: 322, Mismatches: 63, Indels: 17
0.80 0.16 0.04
Matches are distributed among these distances:
195 2 0.01
196 41 0.13
197 220 0.68
198 58 0.18
199 1 0.00
ACGTcount: A:0.19, C:0.30, G:0.17, T:0.34
Consensus pattern (196 bp):
GGTTCGCCGTTATGGCCTCAACCTTTCCCTTCAAATCTTTTAAGGTACCGGGTTCGCCGTTGCGG
CCTCAACCTTTCCTTTCAAATCTTTATGGTACTGGATTCACCGTTACGGCCTCAACCTTTCCCAT
CACATTTCATGGTACGGATTCGTCGTTGCAGTCTCAATCTTTCCCATCACATCTTTTGAGGTATC
G
Found at i:138306 original size:147 final size:149
Alignment explanation
Indices: 138118--138502 Score: 355
Period size: 147 Copynumber: 2.6 Consensus size: 149
138108 TCGTTGTAGT
* * * * * * * * * *
138118 CTCAATCTTTCCCATCACATCTTTTGAGGTATCGGGTTCGCCATTATGGCCTCAGCCTTTCCCGT
1 CTCAACCTTTCTCATCACATCTTCTAAGGTACCAGATTCGCCGTTATGGCCTCAACCTTTCCCAT
* * * *** * * *
138183 CACATCTTTTAAGGTATCGGGTTCGCCGTTGTGGCCTTAA-CCTTTCCCTTCAAATCTTTATGGT
66 CACATCTTCTAAGGTACCGGATTCGCCGTCACGGCCTCAATCC-TTCCCTTCAAAACTTCATGGT
*
138247 ACTGGATTCACCGTTACGGC
130 ACCGGATTCACCGTTACGGC
* * ** * *
138267 CTCAACCTTTCTCATCACAT-TTC-ATGGTACTAGATTCGCCGTTGCGGTCTCAATCTTTCCCAT
1 CTCAACCTTTCTCATCACATCTTCTAAGGTACCAGATTCGCCGTTATGGCCTCAACCTTTCCCAT
* *
138330 CACATCTTCTGAGGTACCGGATTCGTCGTCACGGCCTCAATCCTTCCCTTCAAAACTTCATGGTA
66 CACATCTTCTAAGGTACCGGATTCGCCGTCACGGCCTCAATCCTTCCCTTCAAAACTTCATGGTA
* ** *
138395 CCGGGTTCGTCGTTGCGGC
131 CCGGATTCACCGTTACGGC
** * * * *
138414 CTCAACCTTTCTTGTCACATCTTCTAAGGTACCAGGTTCGCCGTTATAGCCTCAACTTTTCCCTT
1 CTCAACCTTTCTCATCACATCTTCTAAGGTACCAGATTCGCCGTTATGGCCTCAACCTTTCCCAT
* * * *
138479 AAAATCTTC-ATGGTACCGGGTTCG
66 CACATCTTCTAAGGTACCGGATTCG
138503 TCATTGCAGC
Statistics
Matches: 184, Mismatches: 49, Indels: 7
0.77 0.20 0.03
Matches are distributed among these distances:
147 110 0.60
148 19 0.10
149 55 0.30
ACGTcount: A:0.18, C:0.30, G:0.18, T:0.34
Consensus pattern (149 bp):
CTCAACCTTTCTCATCACATCTTCTAAGGTACCAGATTCGCCGTTATGGCCTCAACCTTTCCCAT
CACATCTTCTAAGGTACCGGATTCGCCGTCACGGCCTCAATCCTTCCCTTCAAAACTTCATGGTA
CCGGATTCACCGTTACGGC
Found at i:138466 original size:99 final size:98
Alignment explanation
Indices: 137907--138654 Score: 397
Period size: 99 Copynumber: 7.6 Consensus size: 98
137897 TGGTATAAGA
* * * * ** * *
137907 TTCGTCATTACAGCTTCAATCTTTTCCATCTTGAT-TTCTAAGGTACCAGGTTCGCCGTTTCGGC
1 TTCGTCATTGCAGCCTCAACCTTTCCCATC-ACATCTTCTAAGGTACCAGGTTCGTCGTTACGGC
* * * *
137971 CTCAA-CCTTTCCCTTCATATCTTCTAAGGTACCAGG
65 CTCAATCC-TTCCCTT-AAAACTTC-ATGGTACCGGG
* ** * * * * * ** * *
138007 TTCGCCATTGCAGCCTCAACCTTTCCTTTAAAATATTC-ATGGTATC-GAGTTCACCATTACGAC
1 TTCGTCATTGCAGCCTCAACCTTTCCCATCACATCTTCTAAGGTACCAG-GTTCGTCGTTACGGC
* * * * * * *
138070 CTCAA-CCTTTCCCATCACATTTGATGGTATCGGA
65 CTCAATCC-TTCCCTTAAAACTTCATGGTACCGGG
* * * * * * * * * * *
138104 TTCGTCGTTGTAGTCTCAATCTTTCCCATCACATCTTTTGAGGTATCGGGTTCGCCATTATGGCC
1 TTCGTCATTGCAGCCTCAACCTTTCCCATCACATCTTCTAAGGTACCAGGTTCGTCGTTACGGCC
* * * * * * *
138169 TC-AGCCTTTCCCGTCACATCTTTTAAGGTATCGGG
66 TCAATCC-TTCCC-TTAAAAC-TTCATGGTACCGGG
* * ** * * * * * **
138204 TTCGCCGTTGTGGCCTTAACCTTTCCCTTCAAATCTT-TATGGTA-CTGGATTCACCGTTACGGC
1 TTCGTCATTGCAGCCTCAACCTTTCCCATCACATCTTCTAAGGTACCAGG-TTCGTCGTTACGGC
* * * * * ** *
138267 CTCAA-CCTTTCTCATCACATTTCATGGTACTAGA
65 CTCAATCC-TTCCCTTAAAACTTCATGGTACCGGG
* * * * * * *
138301 TTCGCCGTTGCGGTCTCAATCTTTCCCATCACATCTTCTGAGGTACC-GGATTCGTCGTCACGGC
1 TTCGTCATTGCAGCCTCAACCTTTCCCATCACATCTTCTAAGGTACCAGG-TTCGTCGTTACGGC
138365 CTCAATCCTTCCCTTCAAAACTTCATGGTACCGGG
65 CTCAATCCTTCCCTT-AAAACTTCATGGTACCGGG
* * *** * **
138400 TTCGTCGTTGCGGCCTCAACCTTTCTTGTCACATCTTCTAAGGTACCAGGTTCGCCGTTATAGCC
1 TTCGTCATTGCAGCCTCAACCTTTCCCATCACATCTTCTAAGGTACCAGGTTCGTCGTTACGGCC
*
138465 TCAA-CTTTTCCCTTAAAATCTTCATGGTACCGGG
66 TCAATC-CTTCCCTTAAAA-CTTCATGGTACCGGG
* * ** * *
138499 TTCGTCATTGCAGCCTCAACCTTTCCCATCACATCTTTTAAGGTATCAAATTCATCGTTGCGGCC
1 TTCGTCATTGCAGCCTCAACCTTTCCCATCACATCTTCTAAGGTACCAGGTTCGTCGTTACGGCC
* **
138564 TCAATCCTTCCCTT-TAACTTCATGGTATTGGG
66 TCAATCCTTCCCTTAAAACTTCATGGTACCGGG
* * *
138596 TTCG-CTATTGCAGCCTCAACCTTTCTCATCGCATCTTCTTAGGTACCAGGTTCGTCGTT
1 TTCGTC-ATTGCAGCCTCAACCTTTCCCATCACATCTTCTAAGGTACCAGGTTCGTCGTT
138655 GCTGCCTTCA
Statistics
Matches: 493, Mismatches: 137, Indels: 39
0.74 0.20 0.06
Matches are distributed among these distances:
96 1 0.00
97 136 0.28
98 71 0.14
99 215 0.44
100 70 0.14
ACGTcount: A:0.19, C:0.29, G:0.17, T:0.35
Consensus pattern (98 bp):
TTCGTCATTGCAGCCTCAACCTTTCCCATCACATCTTCTAAGGTACCAGGTTCGTCGTTACGGCC
TCAATCCTTCCCTTAAAACTTCATGGTACCGGG
Found at i:138673 original size:196 final size:197
Alignment explanation
Indices: 138315--138686 Score: 473
Period size: 196 Copynumber: 1.9 Consensus size: 197
138305 CCGTTGCGGT
* * ** *
138315 CTCAATCTTTCCCATCACATCTTCTGAGGTACCGGATTCGTCGTCACGGCCTCAATCCTTCCCTT
1 CTCAACCTTTCCCATCACATCTTCTAAGGTACCAAATTCATCGTCACGGCCTCAATCCTTCCCTT
* * **
138380 CAAAACTTCATGGTACCGGGTTCGTCGTTGCGGCCTCAACCTTTCTTGTCACATCTTCTAAGGTA
66 -AAAACTTCATGGTACCGGGTTCGTCATTGCAGCCTCAACCTTTCTCATCACATCTTCTAAGGTA
*
138445 CCAGGTTCGCCGTTATAGCCTCAACTTTTCCCTTAAAATCTTCATGGTACCGGGTTCGTCATTGC
130 CCAGGTTCGCCGTTATAGCCTCAACCTTTCCCTTAAAATCTTCATGGTACCGGGTTCGTCATTGC
138510 AGC
195 AGC
* * **
138513 CTCAACCTTTCCCATCACATCTTTTAAGGTATCAAATTCATCGTTGCGGCCTCAATCCTTCCCTT
1 CTCAACCTTTCCCATCACATCTTCTAAGGTACCAAATTCATCGTCACGGCCTCAATCCTTCCCTT
* ** * *
138578 -TAACTTCATGGTATTGGGTTCG-CTATTGCAGCCTCAACCTTTCTCATCGCATCTTCTTAGGTA
66 AAAACTTCATGGTACCGGGTTCGTC-ATTGCAGCCTCAACCTTTCTCATCACATCTTCTAAGGTA
* * * *
138641 CCAGGTTCGTCGTTGCT-GCCTTC-ACCTTTCCCTTCATATCTTCATG
130 CCAGGTTCGCCGTT-ATAGCC-TCAACCTTTCCCTTAAAATCTTCATG
138687 TTTTCTCAAC
Statistics
Matches: 148, Mismatches: 23, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
195 1 0.01
196 88 0.59
197 3 0.02
198 56 0.38
ACGTcount: A:0.18, C:0.31, G:0.16, T:0.35
Consensus pattern (197 bp):
CTCAACCTTTCCCATCACATCTTCTAAGGTACCAAATTCATCGTCACGGCCTCAATCCTTCCCTT
AAAACTTCATGGTACCGGGTTCGTCATTGCAGCCTCAACCTTTCTCATCACATCTTCTAAGGTAC
CAGGTTCGCCGTTATAGCCTCAACCTTTCCCTTAAAATCTTCATGGTACCGGGTTCGTCATTGCA
GC
Found at i:139635 original size:27 final size:28
Alignment explanation
Indices: 139588--139659 Score: 80
Period size: 27 Copynumber: 2.7 Consensus size: 28
139578 TCACCTCGAC
**
139588 CTCTCT-TTTTTTT-TTCCTCTT-TTCT
1 CTCTCTATTTTTTTCTTTTTCTTATTCT
*
139613 CTCTCTATTTTTTTCTTTTTCTTATTTT
1 CTCTCTATTTTTTTCTTTTTCTTATTCT
*
139641 TTCT-TATTTTTTTCTTTTT
1 CTCTCTATTTTTTTCTTTTT
139660 TCCTTTTTTC
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
25 6 0.15
26 7 0.17
27 21 0.52
28 6 0.15
ACGTcount: A:0.04, C:0.19, G:0.00, T:0.76
Consensus pattern (28 bp):
CTCTCTATTTTTTTCTTTTTCTTATTCT
Found at i:139643 original size:10 final size:10
Alignment explanation
Indices: 139597--139692 Score: 80
Period size: 10 Copynumber: 10.0 Consensus size: 10
139587 CCTCTCTTTT
*
139597 TTTTTTCCTC
1 TTTTTTCTTC
*
139607 TTTTCTCTCTC
1 TTTTTTCT-TC
139618 TATTTTT-TTC
1 T-TTTTTCTTC
*
139628 -TTTTTCTTA
1 TTTTTTCTTC
139637 TTTTTTCTT-
1 TTTTTTCTTC
*
139646 ATTTTT-TTC
1 TTTTTTCTTC
139655 TTTTTTC--C
1 TTTTTTCTTC
139663 TTTTTTCTTC
1 TTTTTTCTTC
139673 TTTTTTCTT-
1 TTTTTTCTTC
139682 TTATTTTCTTC
1 TT-TTTTCTTC
139693 ATCGAATCTG
Statistics
Matches: 70, Mismatches: 6, Indels: 19
0.74 0.06 0.20
Matches are distributed among these distances:
8 15 0.21
9 14 0.20
10 33 0.47
11 4 0.06
12 4 0.06
ACGTcount: A:0.04, C:0.19, G:0.00, T:0.77
Consensus pattern (10 bp):
TTTTTTCTTC
Found at i:139650 original size:26 final size:26
Alignment explanation
Indices: 139618--139683 Score: 89
Period size: 27 Copynumber: 2.5 Consensus size: 26
139608 TTTCTCTCTC
*
139618 TATTTTTTTCTTTTTCTTATTTTTTCT
1 TATTTTTTTCTTTTT-TCATTTTTTCT
*
139645 TATTTTTTTCTTTTTTCCTTTTTTCT
1 TATTTTTTTCTTTTTTCATTTTTTCT
*
139671 T-CTTTTTTCTTTT
1 TATTTTTTTCTTTT
139684 ATTTTCTTCA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
25 11 0.31
26 10 0.28
27 15 0.42
ACGTcount: A:0.05, C:0.14, G:0.00, T:0.82
Consensus pattern (26 bp):
TATTTTTTTCTTTTTTCATTTTTTCT
Found at i:139667 original size:27 final size:28
Alignment explanation
Indices: 139593--139683 Score: 93
Period size: 30 Copynumber: 3.3 Consensus size: 28
139583 TCGACCTCTC
*
139593 TTTT-TTTTTTCCTCTTTTCTCTCTCTATTT
1 TTTTCTTTTTTCCTATTTT-T-TCT-TATTT
*
139623 TTTTC-TTTTTCTTATTTTTTCTTATTT
1 TTTTCTTTTTTCCTATTTTTTCTTATTT
*
139650 TTTTCTTTTTTCC--TTTTTTCTT-CTT
1 TTTTCTTTTTTCCTATTTTTTCTTATTT
139675 TTTTCTTTT
1 TTTTCTTTT
139684 ATTTTCTTCA
Statistics
Matches: 55, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
25 11 0.20
26 9 0.16
27 10 0.18
28 9 0.16
29 1 0.02
30 15 0.27
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (28 bp):
TTTTCTTTTTTCCTATTTTTTCTTATTT
Found at i:139668 original size:36 final size:34
Alignment explanation
Indices: 139620--139691 Score: 99
Period size: 36 Copynumber: 2.1 Consensus size: 34
139610 TCTCTCTCTA
* *
139620 TTTTTTTCTTTTTCTTATTTTTTCTTATTTTTTTC
1 TTTTTTCCTTTTTCTTATTTTTTCTT-TTATTTTC
*
139655 TTTTTTCCTTTTTTCTTCTTTTTTCTTTTATTTTC
1 TTTTTTCC-TTTTTCTTATTTTTTCTTTTATTTTC
139690 TT
1 TT
139692 CATCGAATCT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
35 16 0.48
36 17 0.52
ACGTcount: A:0.04, C:0.14, G:0.00, T:0.82
Consensus pattern (34 bp):
TTTTTTCCTTTTTCTTATTTTTTCTTTTATTTTC
Found at i:144502 original size:14 final size:15
Alignment explanation
Indices: 144483--144521 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
144473 AGCATGAATG
144483 AATAAATATACG-AA
1 AATAAATATACGAAA
*
144497 AATAAATATAAGAAA
1 AATAAATATACGAAA
144512 AATAAA-ATAC
1 AATAAATATAC
144522 AAATTATGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
14 14 0.64
15 8 0.36
ACGTcount: A:0.69, C:0.05, G:0.05, T:0.21
Consensus pattern (15 bp):
AATAAATATACGAAA
Found at i:144665 original size:28 final size:27
Alignment explanation
Indices: 144634--144953 Score: 189
Period size: 29 Copynumber: 11.1 Consensus size: 27
144624 AGTTTCGAAG
* *
144634 AGTTTGGGGTTAAAATGTAATTTTGGAA
1 AGTTCGGGGTAAAAATGTAATTTTGG-A
* *
144662 AGTTTTAGGGGTAAAAATGTCATTTTGGGA
1 AG--TTCGGGGTAAAAATGTAATTTT-GGA
* * *
144692 GAGATCAGGGTAAAAATGTGATTTTTGAGA
1 -AGTTCGGGGTAAAAATGT-AATTTTG-GA
* *
144722 AGTTCGAGGTAAAAATGTGATTTTTGGA
1 AGTTCGGGGTAAAAATGT-AATTTTGGA
* * * *
144750 AGTTTGAAGG-CAAAATGTAATTTT--T
1 AGTTCG-GGGTAAAAATGTAATTTTGGA
* *
144775 AGATCGAGGGTAAAAATGTGATTTTTGGA
1 AGTTCG-GGGTAAAAATGT-AATTTTGGA
*
144804 AGTTCGAGGGT-AAAATGTGATTTTTGGA
1 AGTTCG-GGGTAAAAATGT-AATTTTGGA
144832 AGTTCGAGGGTAAAAATGTAATTTTTGGA
1 AGTTCG-GGGTAAAAATGTAA-TTTTGGA
* * *
144861 AGTTTAGGGGTAAAAATGTGATTTTTAGA
1 AG-TTCGGGGTAAAAATGT-AATTTTGGA
* *
144890 AGTTCATGGGTAAAAATATAATTTTTGAGA
1 AGTTC-GGGGTAAAAATGTAA-TTTTG-GA
* * *
144920 AGTTCGATGGTCAAAATGTGATTTTTGGA
1 AGTTCG-GGGTAAAAATGT-AATTTTGGA
144949 TAGTT
1 -AGTT
144954 TAGGGACTTT
Statistics
Matches: 235, Mismatches: 36, Indels: 40
0.76 0.12 0.13
Matches are distributed among these distances:
25 7 0.03
26 7 0.03
27 10 0.04
28 48 0.20
29 103 0.44
30 55 0.23
31 5 0.02
ACGTcount: A:0.33, C:0.03, G:0.28, T:0.36
Consensus pattern (27 bp):
AGTTCGGGGTAAAAATGTAATTTTGGA
Found at i:144702 original size:29 final size:28
Alignment explanation
Indices: 144670--144958 Score: 284
Period size: 29 Copynumber: 10.1 Consensus size: 28
144660 AAAGTTTTAG
* * *
144670 GGGTAAAAATGTCATTTTGGGAGAGATCA
1 GGGTAAAAATGTGATTTTTGGA-AGTTCA
144699 GGGTAAAAATGTGATTTTTGAGAAGTTC-
1 GGGTAAAAATGTGATTTTTG-GAAGTTCA
*
144727 GAGGTAAAAATGTGATTTTTGGAAGTTTGA
1 G-GGTAAAAATGTGATTTTTGGAAG-TTCA
* * * *
144757 AGG-CAAAATGTAATTTTT---AGATCGA
1 GGGTAAAAATGTGATTTTTGGAAGTTC-A
144782 GGGTAAAAATGTGATTTTTGGAAGTTCGA
1 GGGTAAAAATGTGATTTTTGGAAGTTC-A
144811 GGGT-AAAATGTGATTTTTGGAAGTTCGA
1 GGGTAAAAATGTGATTTTTGGAAGTTC-A
* *
144839 GGGTAAAAATGTAATTTTTGGAAGTTTA
1 GGGTAAAAATGTGATTTTTGGAAGTTCA
*
144867 GGGGTAAAAATGTGATTTTTAGAAGTTCA
1 -GGGTAAAAATGTGATTTTTGGAAGTTCA
* *
144896 TGGGTAAAAATATAATTTTTGAGAAGTTCGA
1 -GGGTAAAAATGTGATTTTTG-GAAGTTC-A
* * *
144927 TGGTCAAAATGTGATTTTTGGATAGTTTA
1 GGGTAAAAATGTGATTTTTGGA-AGTTCA
144956 GGG
1 GGG
144959 ACTTTTTGGG
Statistics
Matches: 218, Mismatches: 28, Indels: 28
0.80 0.10 0.10
Matches are distributed among these distances:
24 1 0.00
25 5 0.02
26 13 0.06
28 47 0.22
29 122 0.56
30 29 0.13
31 1 0.00
ACGTcount: A:0.33, C:0.03, G:0.28, T:0.35
Consensus pattern (28 bp):
GGGTAAAAATGTGATTTTTGGAAGTTCA
Found at i:146871 original size:6 final size:6
Alignment explanation
Indices: 146860--146940 Score: 89
Period size: 6 Copynumber: 14.2 Consensus size: 6
146850 AATTTTGGAT
* *
146860 ATTTAA ATTTAA ATTT-A ATCTAA ATTTAA ATTTAA A-ATAA ATTTAA
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA
* * *
146906 ACTTAA A-ATAA ATTTAA ATTTAA A-ATAA ATTTAA A
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA A
146941 AATGGGTTTA
Statistics
Matches: 62, Mismatches: 9, Indels: 8
0.78 0.11 0.10
Matches are distributed among these distances:
5 16 0.26
6 46 0.74
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (6 bp):
ATTTAA
Found at i:146885 original size:17 final size:17
Alignment explanation
Indices: 146863--146940 Score: 129
Period size: 17 Copynumber: 4.6 Consensus size: 17
146853 TTTGGATATT
**
146863 TAAATTTAAATTTAATC
1 TAAATTTAAATTTAAAA
146880 TAAATTTAAATTTAAAA
1 TAAATTTAAATTTAAAA
*
146897 TAAATTTAAACTTAAAA
1 TAAATTTAAATTTAAAA
146914 TAAATTTAAATTTAAAA
1 TAAATTTAAATTTAAAA
146931 TAAATTTAAA
1 TAAATTTAAA
146941 AATGGGTTTA
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 57 1.00
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (17 bp):
TAAATTTAAATTTAAAA
Found at i:150694 original size:13 final size:12
Alignment explanation
Indices: 150667--150702 Score: 56
Period size: 12 Copynumber: 3.0 Consensus size: 12
150657 CAAAGAACAT
150667 GATGGGGAA-AA
1 GATGGGGAAGAA
150678 GATGGGGGAAGAA
1 GAT-GGGGAAGAA
150691 GATGGGGAAGAA
1 GATGGGGAAGAA
150703 ACAATGAGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 3 0.13
12 15 0.65
13 5 0.22
ACGTcount: A:0.42, C:0.00, G:0.50, T:0.08
Consensus pattern (12 bp):
GATGGGGAAGAA
Found at i:150789 original size:32 final size:30
Alignment explanation
Indices: 150753--150827 Score: 98
Period size: 30 Copynumber: 2.4 Consensus size: 30
150743 ATCAAAATTA
150753 TTTAATAATTTTATTATT-TCAAACATAATAAT
1 TTTAATAATTTTA-TATTCTCAAA-A-AATAAT
*
150785 TTTAATAATTTTATATTCTTAAAAAATAAT
1 TTTAATAATTTTATATTCTCAAAAAATAAT
*
150815 CTTAATAATTTTA
1 TTTAATAATTTTA
150828 AAATCATTTG
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
30 18 0.45
31 5 0.12
32 17 0.43
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (30 bp):
TTTAATAATTTTATATTCTCAAAAAATAAT
Found at i:154780 original size:109 final size:111
Alignment explanation
Indices: 154587--154791 Score: 324
Period size: 109 Copynumber: 1.9 Consensus size: 111
154577 CTTTTATTGA
* * *
154587 TTTAAATAGGATACTCGATTATTTAGATTCAAAGGAAAAAAATCATACCCAGTATGTTTGAGTAC
1 TTTAAATAGGATACTCGATTATTTAGATTCAAAGGAAAAAAATCATACCCAATACGTTTGAGCAC
*
154652 AATTTCTTGAATTACCTAAATAAAAGAACATCGAACATTTATATAT
66 AATTTCTCGAATTACCTAAATAAAAGAACATCGAACATTTATATAT
* *
154698 TTTAAATAGGATACTCGATTATTTAGGTTCAAA-G-AAAAAATCATACCCAATACGTTTGAGCAT
1 TTTAAATAGGATACTCGATTATTTAGATTCAAAGGAAAAAAATCATACCCAATACGTTTGAGCAC
* *
154761 AATTTCTCGAATTCCCTAAATAAAATAACAT
66 AATTTCTCGAATTACCTAAATAAAAGAACAT
154792 TGTCCTTTTT
Statistics
Matches: 86, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
109 53 0.62
110 1 0.01
111 32 0.37
ACGTcount: A:0.42, C:0.14, G:0.11, T:0.33
Consensus pattern (111 bp):
TTTAAATAGGATACTCGATTATTTAGATTCAAAGGAAAAAAATCATACCCAATACGTTTGAGCAC
AATTTCTCGAATTACCTAAATAAAAGAACATCGAACATTTATATAT
Found at i:155052 original size:13 final size:12
Alignment explanation
Indices: 155029--155070 Score: 50
Period size: 13 Copynumber: 3.5 Consensus size: 12
155019 ATTAGCGATG
155029 TAATAACAAATA
1 TAATAACAAATA
155041 TAATACACAAATA
1 TAATA-ACAAATA
* *
155054 TAA-AAAAAAAA
1 TAATAACAAATA
155065 TAATAA
1 TAATAA
155071 TAATTAAGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
11 8 0.31
12 8 0.31
13 10 0.38
ACGTcount: A:0.71, C:0.07, G:0.00, T:0.21
Consensus pattern (12 bp):
TAATAACAAATA
Found at i:155289 original size:60 final size:58
Alignment explanation
Indices: 155225--155368 Score: 157
Period size: 60 Copynumber: 2.4 Consensus size: 58
155215 ACAAATGAAA
* *
155225 AGGGATTTAATTAAAAATAAAATAGATTAAAGGGGGAAATTTAAAACAATAAAA-ATGTGG
1 AGGGATTAAATTAAAAATAAAATAGAATAAA-GGGGAAATTTAAAA-AATAAAACAT-TGG
* * **
155285 AGGGATTAAATTAGAAATTAAAATAGAATAGAGGGTCAATTTAAAAAATAAAATCATTGG
1 AGGGATTAAATTA-AAAATAAAATAGAATAAAGGGGAAATTTAAAAAATAAAA-CATTGG
*
155345 -GAGGACTAAATTAAAAATAAAATA
1 AG-GGATTAAATTAAAAATAAAATA
155369 AAATTTTAAG
Statistics
Matches: 72, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
59 18 0.25
60 37 0.51
61 17 0.24
ACGTcount: A:0.54, C:0.03, G:0.18, T:0.25
Consensus pattern (58 bp):
AGGGATTAAATTAAAAATAAAATAGAATAAAGGGGAAATTTAAAAAATAAAACATTGG
Found at i:158497 original size:13 final size:13
Alignment explanation
Indices: 158479--158503 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
158469 AATAATTAAT
158479 TAACTAAACAAAA
1 TAACTAAACAAAA
158492 TAACTAAACAAA
1 TAACTAAACAAA
158504 TAAATAAAGC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.16, G:0.00, T:0.16
Consensus pattern (13 bp):
TAACTAAACAAAA
Found at i:161934 original size:26 final size:25
Alignment explanation
Indices: 161889--161938 Score: 59
Period size: 26 Copynumber: 2.0 Consensus size: 25
161879 AAAAAAACAT
161889 AAATATAAATAGACATTAAAGTAAAC
1 AAATATAAATAGACATTAAA-TAAAC
161915 AAATATGAAATAAGA-A-TAAATAAA
1 AAATAT-AAAT-AGACATTAAATAAA
161939 AATTATGTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
25 4 0.18
26 10 0.45
27 5 0.23
28 3 0.14
ACGTcount: A:0.66, C:0.04, G:0.08, T:0.22
Consensus pattern (25 bp):
AAATATAAATAGACATTAAATAAAC
Found at i:162548 original size:20 final size:20
Alignment explanation
Indices: 162519--162562 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
162509 TCTTTTGATT
162519 AAAA-CAAAATCACTATTTC
1 AAAATCAAAATCACTATTTC
**
162538 AAAATCAAAATTTCTATTTC
1 AAAATCAAAATCACTATTTC
*
162558 GAAAT
1 AAAAT
162563 AGTTAAAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.50, C:0.16, G:0.02, T:0.32
Consensus pattern (20 bp):
AAAATCAAAATCACTATTTC
Found at i:162644 original size:146 final size:144
Alignment explanation
Indices: 162481--162900 Score: 386
Period size: 146 Copynumber: 2.8 Consensus size: 144
162471 CTCTTTCTTC
* *
162481 TTTTTTTTTTTTAAAAAAACAAAAGTTTTCTTTTGATTAAAACAAAATCACTATTTCAAAATCAA
1 TTTTTATTTTTT-AAAAAACAAAACTTTTCTTTT-ATTAAAACAAAATCACTATTTCAAAATCAA
162546 AATTTCTATTTCGAAATAGTT-AAAAAAATCAAAATTTTGTTTAAAAATTTAAACTTTTCTTTAA
64 AATTT-TATTTCGAAATAGTTAAAAAAAATCAAAATTTTGTTTAAAAATTTAAACTTTTCTTTAA
*
162610 AATCACTAAAAAAAT-AGA
128 AATAACT--AAAAATCAGA
* * ** ** * *
162628 TTTTTATTTTTTAAAAATCTAAACTTTT-TTTTATTGAAAATCACTA-CTTTACTTAAAAATCTA
1 TTTTTATTTTTTAAAAAACAAAACTTTTCTTTTATT-AAAA-CAAAATCACTATTTCAAAATC-A
* * * *
162691 AACTTTTATTTTGAAATAGTTAAAAAAAATCAAAATTTTATTT-AAAATTTAAACTTTTTTTTTT
63 AAATTTTATTTCGAAATAGTTAAAAAAAATCAAAATTTTGTTTAAAAATTTAAAC--TTTTCTTT
*
162755 CAAATAACTAAAAATCAGA
126 AAAATAACTAAAAATCAGA
* * * ** * *
162774 TTTTTATTTTTGAAAATATAAATTTTTTTCTTTT-TT-AAAGAAAATTACTATTTTACTTAAAAA
1 TTTTTATTTTTTAAAAAACAAA-ACTTTTCTTTTATTAAAACAAAATCACTA-TTT-C---AAAA
* * * *
162837 TCCAAATTTTTATTTCGAAATAATTAAAAAAAAATCAAAACTTTGTTTAAAATTTTAAACTTTT
60 T-CAAAATTTTATTTCGAAATAGTT-AAAAAAAATCAAAATTTTGTTTAAAAATTTAAACTTTT
162901 TCTAAAAAAC
Statistics
Matches: 218, Mismatches: 37, Indels: 33
0.76 0.13 0.11
Matches are distributed among these distances:
144 5 0.02
145 55 0.25
146 64 0.29
147 31 0.14
148 4 0.02
150 28 0.13
151 21 0.10
152 10 0.05
ACGTcount: A:0.44, C:0.09, G:0.03, T:0.45
Consensus pattern (144 bp):
TTTTTATTTTTTAAAAAACAAAACTTTTCTTTTATTAAAACAAAATCACTATTTCAAAATCAAAA
TTTTATTTCGAAATAGTTAAAAAAAATCAAAATTTTGTTTAAAAATTTAAACTTTTCTTTAAAAT
AACTAAAAATCAGA
Found at i:162688 original size:145 final size:143
Alignment explanation
Indices: 162538--163015 Score: 491
Period size: 139 Copynumber: 3.3 Consensus size: 143
162528 TCACTATTTC
162538 AAAATCAAAATTTCTATTTCGAAATAGTT-AAAAAAATCAAAATTTTGTTTAAAAATTTAAACTT
1 AAAATCAAAATTT-TATTTCGAAATAGTTAAAAAAAATCAAAATTTTGTTTAAAAATTTAAACTT
*
162602 TTCTTTAAAATCACTAAAAAAATAGATTTTTATTTTTTAAAAATCTAAACTTTTT-TTTATT-GA
65 TT-TTT-AAAT-ACTAAAAAAATAGATTTTTA-TTTTTAAAAATCTAAACTTTTTCTTTTTTAGA
*
162665 AAATCACTACTTTACTTA
126 AAATCACTATTTTACTTA
* * *
162683 AAAATCTAAACTTTTATTTTGAAATAGTTAAAAAAAATCAAAATTTTATTT-AAAATTTAAACTT
1 AAAATC-AAAATTTTATTTCGAAATAGTTAAAAAAAATCAAAATTTTGTTTAAAAATTTAAAC--
* * *
162747 TTTTTTTTCAAATAACT--AAAAATCAGATTTTTATTTTTGAAAATATAAATTTTTTTCTTTTTT
63 -TTTTTTT-AAAT-ACTAAAAAAAT-AGATTTTTATTTTTAAAAATCTAAA-CTTTTTCTTTTTT
*
162810 AAAGAAAATTACTATTTTACTTA
123 --AGAAAATCACTATTTTACTTA
* * * *
162833 AAAATCCAAATTTTTATTTCGAAATAATTAAAAAAAAATCAAAACTTTGTTTAAAATTTTAAAC-
1 AAAAT-CAAAATTTTATTTCGAAATAGTT-AAAAAAAATCAAAATTTTGTTTAAAAATTTAAACT
*
162897 --TTTT---T-CTAAAAAACA-A-CTTTTTATTTTTAAAAATCTAAACTTTTTCTTTTTTAAAGA
64 TTTTTTAAATACTAAAAAA-ATAGATTTTTATTTTTAAAAATCTAAACTTTTTCTTTTTT--AGA
*
162954 AAATCATTATTTTACTTA
126 AAATCACTATTTTACTTA
* * *
162972 AAAATCAAAACTTTTATTTCGAAATTGTTTTAAAAAAACCAAAA
1 AAAATCAAAA-TTTTATTTCGAAATAG-TTAAAAAAAATCAAAA
163016 CATTTCTCAA
Statistics
Matches: 286, Mismatches: 28, Indels: 44
0.80 0.08 0.12
Matches are distributed among these distances:
138 4 0.01
139 64 0.22
140 24 0.08
141 1 0.00
142 5 0.02
143 1 0.00
145 51 0.18
146 44 0.15
147 15 0.05
148 4 0.01
150 42 0.15
151 21 0.07
152 10 0.03
ACGTcount: A:0.44, C:0.09, G:0.03, T:0.44
Consensus pattern (143 bp):
AAAATCAAAATTTTATTTCGAAATAGTTAAAAAAAATCAAAATTTTGTTTAAAAATTTAAACTTT
TTTTAAATACTAAAAAAATAGATTTTTATTTTTAAAAATCTAAACTTTTTCTTTTTTAGAAAATC
ACTATTTTACTTA
Found at i:163064 original size:139 final size:139
Alignment explanation
Indices: 162635--163070 Score: 304
Period size: 139 Copynumber: 3.1 Consensus size: 139
162625 AGATTTTTAT
* * *
162635 TTTTTAA-AAATCTAAACTTTTT-TTTATT---GAAAATCACTACTTTACTTAAAAATCTAAACT
1 TTTTTAACAAATCTAAACTTTTTCTTTTTTAAAGAAAATCACTATTTTACTTAAAAATCAAAACT
* * * * ** * * *
162695 TTTATTTTGAAATAGTT-AAAAAAAATCAAAATTTTATTTAAAATTTAAACTTTTTTTTTTCAAA
66 TTTATTTCGAAATAATTAAAAAAAAACCAAAACTTTGCTCAAAATTCAAAC-----TTTTTCTAA
* *
162759 TAACTAAAAATCAGATTTTTA
126 -AA--AACAA-CA-A--GTTA
* * * * * *
162780 TTTTTGA-AAATATAAATTTTTTTCTTTTTTAAAGAAAATTACTATTTTACTTAAAAATCCAAAT
1 TTTTTAACAAATCTAAA-CTTTTTCTTTTTTAAAGAAAATCACTATTTTACTTAAAAATCAAAAC
* * * *
162844 TTTTATTTCGAAATAATTAAAAAAAAATCAAAACTTTGTTTAAAATTTTAAACTTTTTCTAAAAA
65 TTTTATTTCGAAATAATTAAAAAAAAACCAAAACTTTGCTCAAAA-TTCAAACTTTTTCTAAAAA
***
162909 ACAACTTTTTA
129 ACAACAAGTTA
*
162920 TTTTTAA-AAATCTAAACTTTTTCTTTTTTAAAGAAAATCATTATTTTACTTAAAAATCAAAACT
1 TTTTTAACAAATCTAAACTTTTTCTTTTTTAAAGAAAATCACTATTTTACTTAAAAATCAAAACT
** ** *
162984 TTTATTTCGAAATTGTTTTAAAAAAACCAAAACATTT-CTCAAAA-TCAAGCTATTTTTCTTTTA
66 TTTATTTCGAAATAATTAAAAAAAAACCAAAAC-TTTGCTCAAAATTCAAAC--TTTTTC---TA
163047 AAAAA-AA-AAGTTA
125 AAAAACAACAAGTTA
163060 -TTTTAACAAAT
1 TTTTTAACAAAT
163071 GAAAAGGAAA
Statistics
Matches: 242, Mismatches: 35, Indels: 33
0.78 0.11 0.11
Matches are distributed among these distances:
137 4 0.02
139 88 0.36
140 28 0.12
141 2 0.01
142 7 0.03
143 1 0.00
144 4 0.02
145 14 0.06
146 7 0.03
147 13 0.05
150 43 0.18
151 24 0.10
152 7 0.03
ACGTcount: A:0.43, C:0.10, G:0.03, T:0.44
Consensus pattern (139 bp):
TTTTTAACAAATCTAAACTTTTTCTTTTTTAAAGAAAATCACTATTTTACTTAAAAATCAAAACT
TTTATTTCGAAATAATTAAAAAAAAACCAAAACTTTGCTCAAAATTCAAACTTTTTCTAAAAAAC
AACAAGTTA
Found at i:166474 original size:62 final size:63
Alignment explanation
Indices: 166406--166576 Score: 201
Period size: 62 Copynumber: 2.8 Consensus size: 63
166396 GTGTTGGCGT
* *
166406 ATAAAAAAATTTCAATTTTTTTTGGTATTGGCCATGTAATGGTCGACACCCCC-TTTTCTCGG
1 ATAAAAAAATTTCAATTTTTTTTGGTGTTGGCCATGTAATGGTCGACACCCCCTTTTTATCGG
* * * **
166468 ATAAAAAATTTTCAAATTTTTTTT-GTGTTGGTCATGCAATGGTCGACACCCCCTTTTTATTTG
1 ATAAAAAAATTTC-AATTTTTTTTGGTGTTGGCCATGTAATGGTCGACACCCCCTTTTTATCGG
* * *
166531 -TTAAAAAA-TT-AA-ATTTTTTGGTGTTGGCCATGTAATGGCCGACACC
1 ATAAAAAAATTTCAATTTTTTTTGGTGTTGGCCATGTAATGGTCGACACC
166577 AACTTCCCCT
Statistics
Matches: 93, Mismatches: 13, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
58 6 0.06
59 25 0.27
61 2 0.02
62 44 0.47
63 16 0.17
ACGTcount: A:0.27, C:0.17, G:0.16, T:0.40
Consensus pattern (63 bp):
ATAAAAAAATTTCAATTTTTTTTGGTGTTGGCCATGTAATGGTCGACACCCCCTTTTTATCGG
Found at i:166702 original size:38 final size:38
Alignment explanation
Indices: 166660--166736 Score: 136
Period size: 38 Copynumber: 2.0 Consensus size: 38
166650 AAAATAACAA
166660 GAAAATAAGAATGTTTTATTATTTATCATTAGATGAGT
1 GAAAATAAGAATGTTTTATTATTTATCATTAGATGAGT
* *
166698 GAAAATGAGAGTGTTTTATTATTTATCATTAGATGAGT
1 GAAAATAAGAATGTTTTATTATTTATCATTAGATGAGT
166736 G
1 G
166737 TTTTGTTTTG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.36, C:0.03, G:0.19, T:0.42
Consensus pattern (38 bp):
GAAAATAAGAATGTTTTATTATTTATCATTAGATGAGT
Found at i:167449 original size:17 final size:16
Alignment explanation
Indices: 167429--167482 Score: 53
Period size: 17 Copynumber: 3.5 Consensus size: 16
167419 AAATAATAAT
167429 AATTAGAATATACAGGA
1 AATTAGAATATACA-GA
167446 AATTAGAA-A-A-A-A
1 AATTAGAATATACAGA
*
167458 AATTAAAATATACATGA
1 AATTAGAATATACA-GA
167475 AATTAGAA
1 AATTAGAA
167483 ATTAAATTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
12 8 0.27
13 1 0.03
14 2 0.07
15 2 0.07
16 1 0.03
17 16 0.53
ACGTcount: A:0.61, C:0.04, G:0.11, T:0.24
Consensus pattern (16 bp):
AATTAGAATATACAGA
Found at i:167496 original size:30 final size:30
Alignment explanation
Indices: 167435--167525 Score: 112
Period size: 30 Copynumber: 3.1 Consensus size: 30
167425 TAATAATTAG
* * *
167435 AATATACAGGAAATTAGAAA-AAAAATTAA
1 AATATACACGAAATTAGAAATTAAATTTAA
*
167464 AATATACATGAAATTAGAAATTAAATTTAA
1 AATATACACGAAATTAGAAATTAAATTTAA
* * *
167494 AATAAAAACGAAATTACAAATTAAATTTAA
1 AATATACACGAAATTAGAAATTAAATTTAA
167524 AA
1 AA
167526 AGTAAACGGA
Statistics
Matches: 54, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
29 19 0.35
30 35 0.65
ACGTcount: A:0.63, C:0.04, G:0.07, T:0.26
Consensus pattern (30 bp):
AATATACACGAAATTAGAAATTAAATTTAA
Found at i:168905 original size:12 final size:12
Alignment explanation
Indices: 168888--168917 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
168878 TGAAAAATTG
168888 AAAAATAATTAA
1 AAAAATAATTAA
168900 AAAAATAATTAA
1 AAAAATAATTAA
*
168912 TAAAAT
1 AAAAAT
168918 TAAAAAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (12 bp):
AAAAATAATTAA
Found at i:169848 original size:22 final size:21
Alignment explanation
Indices: 169800--169859 Score: 68
Period size: 22 Copynumber: 2.8 Consensus size: 21
169790 CGAGGTGTTG
* *
169800 GTGAGCTGGAATTTTGGTTTT
1 GTGAGCTGGAATATTGGTTTA
169821 GCTGAGCTGGAATATTGGTTTAA
1 G-TGAGCTGGAATATTGGTTT-A
*
169844 GTGAGGTGGAA-ATTGG
1 GTGAGCTGGAATATTGG
169860 GTGGTCTAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
21 6 0.18
22 27 0.79
23 1 0.03
ACGTcount: A:0.22, C:0.05, G:0.37, T:0.37
Consensus pattern (21 bp):
GTGAGCTGGAATATTGGTTTA
Done.