Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
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: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 105 of 250
Found at i:33838844 original size:19 final size:19
Alignment explanation
Indices: 33838806--33838872 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 19
33838796 GTCCATGTTT
* *
33838806 CATGCTTAAAAGCTTCCATC
1 CATGCTTGAAA-CGTCCATC
*
33838826 CATGCTTGAAATGTCCATC
1 CATGCTTGAAACGTCCATC
*
33838845 TATGCTTGAAACGTCCATC
1 CATGCTTGAAACGTCCATC
33838864 CATGCTTGA
1 CATGCTTGA
33838873 TGCTTGAAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
19 31 0.76
20 10 0.24
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.31
Consensus pattern (19 bp):
CATGCTTGAAACGTCCATC
Found at i:33842129 original size:31 final size:29
Alignment explanation
Indices: 33842085--33842145 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 29
33842075 CCCTCAATTC
* *
33842085 TTCTTTCTAGCTCATTCTCTCTCTTTTTTTT
1 TTCTCTCTAGCTCATT-T-TCTCTTTTCTTT
*
33842116 TTCTCTCTTGCTCATTTTCTCTTTTCTTT
1 TTCTCTCTAGCTCATTTTCTCTTTTCTTT
33842145 T
1 T
33842146 CTTTTTTCTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
29 12 0.44
30 1 0.04
31 14 0.52
ACGTcount: A:0.05, C:0.26, G:0.03, T:0.66
Consensus pattern (29 bp):
TTCTCTCTAGCTCATTTTCTCTTTTCTTT
Found at i:33844431 original size:97 final size:97
Alignment explanation
Indices: 33844307--33844487 Score: 238
Period size: 97 Copynumber: 1.9 Consensus size: 97
33844297 AAAAAAATTG
* * * *
33844307 ACAAAAGAAAATTTTCAGTTCCTCCAAACCACACCAAAAG-TTGTAAAATGGCTTCAAAAACACT
1 ACAAAAGAAAATTTTCACTACCACCAAACCACACCAAAAGATT-TAAAATGACTTCAAAAACACT
* * *
33844371 AATCACATAAGAAATTTTTTATTGCAATTTTTT
65 AAACACACAAGAAAATTTTTATTGCAATTTTTT
* *** *
33844404 ACAAAAGAAAATTTTTACTACCACCAAATTGCACCAAAAGATTTAAAATGACTTCAATAACACTA
1 ACAAAAGAAAATTTTCACTACCACCAAACCACACCAAAAGATTTAAAATGACTTCAAAAACACTA
33844469 AACACACAAGAAAATTTTT
66 AACACACAAGAAAATTTTT
33844488 GCTACCGTTC
Statistics
Matches: 71, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
97 69 0.97
98 2 0.03
ACGTcount: A:0.46, C:0.19, G:0.07, T:0.28
Consensus pattern (97 bp):
ACAAAAGAAAATTTTCACTACCACCAAACCACACCAAAAGATTTAAAATGACTTCAAAAACACTA
AACACACAAGAAAATTTTTATTGCAATTTTTT
Found at i:33845446 original size:19 final size:19
Alignment explanation
Indices: 33845382--33845456 Score: 78
Period size: 19 Copynumber: 3.9 Consensus size: 19
33845372 CCATACTCCA
33845382 TGCTTGAAATCATCCATCTT
1 TGCTTGAAA-CATCCATCTT
* * *
33845402 TACTTGAAACGTCCATATT
1 TGCTTGAAACATCCATCTT
* *
33845421 TGTTTGAAACATCCATCTA
1 TGCTTGAAACATCCATCTT
* *
33845440 CGCTTGAAACACCCATC
1 TGCTTGAAACATCCATC
33845457 CATGCTTGAT
Statistics
Matches: 44, Mismatches: 11, Indels: 1
0.79 0.20 0.02
Matches are distributed among these distances:
19 36 0.82
20 8 0.18
ACGTcount: A:0.29, C:0.27, G:0.11, T:0.33
Consensus pattern (19 bp):
TGCTTGAAACATCCATCTT
Found at i:33845463 original size:19 final size:19
Alignment explanation
Indices: 33845424--33845465 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
33845414 CCATATTTGT
* *
33845424 TTGAAACATCCATCTACGC
1 TTGAAACACCCATCCACGC
*
33845443 TTGAAACACCCATCCATGC
1 TTGAAACACCCATCCACGC
33845462 TTGA
1 TTGA
33845466 TGCTTGAAGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.31, C:0.31, G:0.12, T:0.26
Consensus pattern (19 bp):
TTGAAACACCCATCCACGC
Found at i:33847903 original size:26 final size:26
Alignment explanation
Indices: 33847874--33847942 Score: 102
Period size: 26 Copynumber: 2.7 Consensus size: 26
33847864 CATTCTGACC
*
33847874 CATAGCTCGTGTGAGTAGGCGTATTT
1 CATAGCTCGTGTGAGCAGGCGTATTT
* *
33847900 CATAGCTGGTGTGAGCAGGCTTATTT
1 CATAGCTCGTGTGAGCAGGCGTATTT
*
33847926 CATAGCTCGTGTAAGCA
1 CATAGCTCGTGTGAGCA
33847943 ATAATGTAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 38 1.00
ACGTcount: A:0.22, C:0.17, G:0.29, T:0.32
Consensus pattern (26 bp):
CATAGCTCGTGTGAGCAGGCGTATTT
Found at i:33849848 original size:27 final size:28
Alignment explanation
Indices: 33849781--33849851 Score: 74
Period size: 28 Copynumber: 2.6 Consensus size: 28
33849771 TTGGCTGGAG
* *
33849781 CTAAAACATATTAAAATTATGTAATAGG
1 CTAAGACATATTAAAATTATGTAATAGA
* * *
33849809 CTAAGAAAAATTAATAA-TATGTATTA-A
1 CTAAGACATATTAA-AATTATGTAATAGA
33849836 CTAAGACATATTAAAA
1 CTAAGACATATTAAAA
33849852 ACATGCATTA
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
26 2 0.06
27 12 0.34
28 19 0.54
29 2 0.06
ACGTcount: A:0.54, C:0.07, G:0.08, T:0.31
Consensus pattern (28 bp):
CTAAGACATATTAAAATTATGTAATAGA
Found at i:33864481 original size:43 final size:43
Alignment explanation
Indices: 33864384--33864491 Score: 112
Period size: 43 Copynumber: 2.5 Consensus size: 43
33864374 ACCGAGATGT
* * * * *
33864384 GATTACATGTAAGACCATCTCTGGGACATTGGCATTGTATTGT
1 GATTTCATGTAAGACCATGTCTGGGACATTGGCATCGTAATGC
* *
33864427 GACTAT-GTGTAAGACCATGTCTGGGACATTGGCATCGTTAAT-C
1 GA-TTTCATGTAAGACCATGTCTGGGACATTGGCATCG-TAATGC
*
33864470 GATTTCATGTAAGACCCTGTCT
1 GATTTCATGTAAGACCATGTCT
33864492 AGAACAGTGT
Statistics
Matches: 52, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
42 2 0.04
43 46 0.88
44 4 0.08
ACGTcount: A:0.25, C:0.19, G:0.23, T:0.33
Consensus pattern (43 bp):
GATTTCATGTAAGACCATGTCTGGGACATTGGCATCGTAATGC
Found at i:33865924 original size:40 final size:40
Alignment explanation
Indices: 33865842--33866062 Score: 281
Period size: 40 Copynumber: 5.6 Consensus size: 40
33865832 TATTCAGATG
* *
33865842 ATATCCGGGCTAAGTCCCGAAGGCA-TGGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCAGTTGTGCTATTGACT
33865881 ATATCCGGGCTAAGTCCCGAAGGCAGTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCAGTTGTGCTATTGACT
*
33865921 ATATCCGGGCTAAGTCCCGAAGGC-GTTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCAG-TTGTGCTA-TTGACT
** *
33865961 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCAGTTGTGCTATTGACT
* * *
33866001 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCAGTTGTGCTA-TTGACT
* *
33866041 ATATCC-GGCTAAATCCTGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
33866063 TACTTGGGTT
Statistics
Matches: 163, Mismatches: 13, Indels: 12
0.87 0.07 0.06
Matches are distributed among these distances:
39 41 0.25
40 117 0.72
41 5 0.03
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCAGTTGTGCTATTGACT
Found at i:33865982 original size:80 final size:79
Alignment explanation
Indices: 33865842--33866062 Score: 320
Period size: 80 Copynumber: 2.8 Consensus size: 79
33865832 TATTCAGATG
* * *
33865842 ATATCCGGGCTAAGTCCCGAAGGCATGGTGCTAG-TGACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCTTTGTGCGAGTTG-CTATATCCGGGCTAAGTCCCGAAGGCA
*
33865906 GTTGTGCTATTGACT
65 GTTGTGCTAGTGACT
*
33865921 ATATCCGGGCTAAGTCCCGAAGGCGTTTGTGCGAGTTGCTATATCCGGGCTAAGTCCCGAAGGCT
1 ATATCCGGGCTAAGTCCCGAAGGC-TTTGTGCGAGTTGCTATATCCGGGCTAAGTCCCGAAGGCA
*
33865986 TTTGTGCTAGTGACT
65 GTTGTGCTAGTGACT
* * *
33866001 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCC-GGCTAAATCCTGAAGG
1 ATATCCGGGCTAAGTCCCGAAGGC-TTTGTGCGAGTTGCTATATCCGGGCTAAGTCCCGAAGG
33866063 TACTTGGGTT
Statistics
Matches: 130, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
79 38 0.29
80 90 0.69
81 2 0.02
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.26
Consensus pattern (79 bp):
ATATCCGGGCTAAGTCCCGAAGGCTTTGTGCGAGTTGCTATATCCGGGCTAAGTCCCGAAGGCAG
TTGTGCTAGTGACT
Found at i:33872645 original size:40 final size:40
Alignment explanation
Indices: 33872563--33872782 Score: 261
Period size: 40 Copynumber: 5.5 Consensus size: 40
33872553 TATTCAGATG
* *
33872563 ATATCCGGGCTAAGTCCCGAAGGCA-TGGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCAGTTGTGCTATTGACT
33872602 ATATCCGGGCTAAGTCCCGAAGGCAGTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCAGTTGTGCTATTGACT
* *
33872642 ATATCCGGGCTAAGTCTCGAAGGC-GTTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCAG-TTGTGCTA-TTGACT
* ** *
33872682 ATATCTGGGCTAAGTCCCGAAGGCTTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCAGTTGTGCTATTGACT
* * * *
33872722 ATATTCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCAGTTGTGCTA-TTGACT
*
33872762 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
33872783 ATACTTGGGT
Statistics
Matches: 157, Mismatches: 18, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
39 41 0.26
40 111 0.71
41 5 0.03
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCAGTTGTGCTATTGACT
Found at i:33872703 original size:80 final size:78
Alignment explanation
Indices: 33872563--33872782 Score: 289
Period size: 80 Copynumber: 2.8 Consensus size: 78
33872553 TATTCAGATG
* * *
33872563 ATATCCGGGCTAAGTCCCGAAGGCATGGTGCTAG-TGACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCTTTGTGCGAGTTG-CTATAT-CGGGCTAAGTCCCGAAGGCA
*
33872627 GTTGTGCTATTGACT
64 GTTGTGCTAGTGACT
* *
33872642 ATATCCGGGCTAAGTCTCGAAGGCGTTTGTGCGAGTTGCTATATCTGGGCTAAGTCCCGAAGGCT
1 ATATCCGGGCTAAGTCCCGAAGGC-TTTGTGCGAGTTGCTATATC-GGGCTAAGTCCCGAAGGCA
*
33872707 TTTGTGCTAGTGACT
64 GTTGTGCTAGTGACT
* * * *
33872722 ATATTCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAGGC-TTTGTGCGAGTTGCTATATCGGGCTAAGTCCCGAAG
33872783 ATACTTGGGT
Statistics
Matches: 125, Mismatches: 13, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
79 38 0.30
80 85 0.68
81 2 0.02
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (78 bp):
ATATCCGGGCTAAGTCCCGAAGGCTTTGTGCGAGTTGCTATATCGGGCTAAGTCCCGAAGGCAGT
TGTGCTAGTGACT
Found at i:33875363 original size:15 final size:14
Alignment explanation
Indices: 33875340--33875375 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
33875330 AAATAATCCA
*
33875340 AATAAAAATGAATT
1 AATAAAAATGAATG
33875354 AATAAGAAATGAATG
1 AATAA-AAATGAATG
33875369 AATAAAA
1 AATAAAA
33875376 GAAGAAAAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.67, C:0.00, G:0.11, T:0.22
Consensus pattern (14 bp):
AATAAAAATGAATG
Found at i:33876676 original size:24 final size:24
Alignment explanation
Indices: 33876624--33876680 Score: 87
Period size: 24 Copynumber: 2.4 Consensus size: 24
33876614 AAATGACTTT
*
33876624 GGCACTATGTGTGCGAATTTGAAT
1 GGCACTATGTGTGCGAATTTGAAC
* *
33876648 AGCACTATGTGTGCGAATTTGTAC
1 GGCACTATGTGTGCGAATTTGAAC
33876672 GGCACTATG
1 GGCACTATG
33876681 AGGCATTTTC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.32
Consensus pattern (24 bp):
GGCACTATGTGTGCGAATTTGAAC
Found at i:33876969 original size:27 final size:27
Alignment explanation
Indices: 33876939--33877116 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
33876929 ATATTAAGTC
* * *
33876939 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
* *
33876966 CGCACACTTAGTGCCACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
33876994 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
** * *
33877021 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
* **
33877048 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAACT
* *
33877075 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAACT
33877102 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
33877117 GTACAATTTA
Statistics
Matches: 131, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
27 105 0.80
28 26 0.20
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:33877023 original size:55 final size:54
Alignment explanation
Indices: 33876939--33877116 Score: 232
Period size: 54 Copynumber: 3.3 Consensus size: 54
33876929 ATATTAAGTC
* * *
33876939 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCCACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCACATAGTCAAA-T
* * * *
33876994 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCACATAGTCAAAT
* ** *
33877048 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTA-CATAATCAACTCGCACACTTAGTGCCACATAGTCAAAT
33877102 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
33877117 GTACAATTTA
Statistics
Matches: 107, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
53 1 0.01
54 60 0.56
55 46 0.43
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCACATAGTCAAAT
Found at i:33877105 original size:81 final size:82
Alignment explanation
Indices: 33876960--33877115 Score: 235
Period size: 81 Copynumber: 1.9 Consensus size: 82
33876950 TGCTATATAA
* *
33876960 TCAACTCGCACACTTAGTGCCACATAATCAAACTCGCACACTTAGTGCTACATAGTCAACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAACTCGCACACTTAGTGCAACATAGTCAAATCGCA
33877025 CACTTAGTGCCGCATGG
66 CACTTAGTGCCGCATGG
* * **
33877042 TCAATTCGCACACTTAGTG-CATCATATTC-ATTTCGCACACTTAGTGCAACATAGTCAAATCGC
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAACTCGCACACTTAGTGCAACATAGTCAAATCGC
33877105 ACACTTAGTGC
65 ACACTTAGTGC
33877116 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 43 0.64
82 24 0.36
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.26
Consensus pattern (82 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAACTCGCACACTTAGTGCAACATAGTCAAATCGCA
CACTTAGTGCCGCATGG
Found at i:33885033 original size:28 final size:27
Alignment explanation
Indices: 33884970--33885148 Score: 198
Period size: 27 Copynumber: 6.6 Consensus size: 27
33884960 ATATTGAGTC
* * *
33884970 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
* *
33884997 CGCACACTTAGTGCTACGTAATCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
33885025 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
** * *
33885053 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
* **
33885080 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAACT
* *
33885107 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAACT
33885134 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
33885149 GTACAATTTA
Statistics
Matches: 132, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
27 81 0.61
28 51 0.39
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:33885083 original size:55 final size:54
Alignment explanation
Indices: 33884970--33885148 Score: 207
Period size: 55 Copynumber: 3.3 Consensus size: 54
33884960 ATATTGAGTC
* * * * *
33884970 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACGTAATCAAACT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCAACATAGTCAAA-T
* ** * *
33885025 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATC-AACTCGCACACTTAGTGCAACATAGTCAAAT
* **
33885080 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTA-CATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
33885134 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
33885149 GTACAATTTA
Statistics
Matches: 105, Mismatches: 16, Indels: 6
0.83 0.13 0.05
Matches are distributed among these distances:
54 40 0.38
55 41 0.39
56 24 0.23
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
Found at i:33891081 original size:11 final size:11
Alignment explanation
Indices: 33891050--33891083 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
33891040 CGAGTCATAA
**
33891050 AATTTATTTAA
1 AATTTATTTGC
33891061 AATTTATTTGC
1 AATTTATTTGC
33891072 AATTTATTTGC
1 AATTTATTTGC
33891083 A
1 A
33891084 TATCTTCTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.35, C:0.06, G:0.06, T:0.53
Consensus pattern (11 bp):
AATTTATTTGC
Found at i:33891374 original size:15 final size:14
Alignment explanation
Indices: 33891351--33891386 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
33891341 AAATAATCCA
*
33891351 AATAAAAATGAATT
1 AATAAAAATGAATG
33891365 AATAAGAAATGAATG
1 AATAA-AAATGAATG
33891380 AATAAAA
1 AATAAAA
33891387 GAAGAAAAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.67, C:0.00, G:0.11, T:0.22
Consensus pattern (14 bp):
AATAAAAATGAATG
Found at i:33892660 original size:24 final size:24
Alignment explanation
Indices: 33892633--33892691 Score: 91
Period size: 24 Copynumber: 2.5 Consensus size: 24
33892623 GAAATGACTT
33892633 TGGCACTATGTGTGCGAATTTGAA
1 TGGCACTATGTGTGCGAATTTGAA
*
33892657 TGGCACTATGTGTGCGGATTTGAA
1 TGGCACTATGTGTGCGAATTTGAA
* *
33892681 TGTCAATATGT
1 TGGCACTATGT
33892692 ATCTGAATTA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.24, C:0.12, G:0.29, T:0.36
Consensus pattern (24 bp):
TGGCACTATGTGTGCGAATTTGAA
Found at i:33917783 original size:37 final size:37
Alignment explanation
Indices: 33917733--33917808 Score: 152
Period size: 37 Copynumber: 2.1 Consensus size: 37
33917723 TAATTAAGAA
33917733 TTATAGTTTATATGCCTAGATTCCTTATTGAGTCTAG
1 TTATAGTTTATATGCCTAGATTCCTTATTGAGTCTAG
33917770 TTATAGTTTATATGCCTAGATTCCTTATTGAGTCTAG
1 TTATAGTTTATATGCCTAGATTCCTTATTGAGTCTAG
33917807 TT
1 TT
33917809 TTAAATGAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.24, C:0.13, G:0.16, T:0.47
Consensus pattern (37 bp):
TTATAGTTTATATGCCTAGATTCCTTATTGAGTCTAG
Found at i:33918929 original size:24 final size:24
Alignment explanation
Indices: 33918874--33918949 Score: 66
Period size: 24 Copynumber: 3.0 Consensus size: 24
33918864 AAAAATATTG
33918874 AATAAATTTTAAATATAAAA-T-ATT
1 AATAAATTTT--ATATAAAACTCATT
* *
33918898 CATCAATTTTATATAAAACTCATT
1 AATAAATTTTATATAAAACTCATT
*
33918922 AATAAATTCTATAAATAAAAACTCATT
1 AATAAATT-T-TATAT-AAAACTCATT
33918949 A
1 A
33918950 TTCAATAAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
22 8 0.19
23 1 0.02
24 17 0.40
25 1 0.02
26 4 0.10
27 11 0.26
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.38
Consensus pattern (24 bp):
AATAAATTTTATATAAAACTCATT
Found at i:33919080 original size:5 final size:6
Alignment explanation
Indices: 33919065--33919103 Score: 51
Period size: 6 Copynumber: 6.0 Consensus size: 6
33919055 TGAGTGACTT
33919065 TTTTTA TTTTTA TTTTTA TATTTTAA TTTTTA TCTTTTA
1 TTTTTA TTTTTA TTTTTA T-TTTT-A TTTTTA T-TTTTA
33919104 AATGTGAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
6 15 0.50
7 13 0.43
8 2 0.07
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.77
Consensus pattern (6 bp):
TTTTTA
Found at i:33919086 original size:14 final size:14
Alignment explanation
Indices: 33919063--33919104 Score: 57
Period size: 14 Copynumber: 3.0 Consensus size: 14
33919053 AATGAGTGAC
* *
33919063 TTTTTTTATTTTTA
1 TTTTTATATTTTAA
33919077 TTTTTATATTTTAA
1 TTTTTATATTTTAA
*
33919091 TTTTTATCTTTTAA
1 TTTTTATATTTTAA
33919105 ATGTGAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.76
Consensus pattern (14 bp):
TTTTTATATTTTAA
Found at i:33919739 original size:6 final size:6
Alignment explanation
Indices: 33919728--33919780 Score: 61
Period size: 6 Copynumber: 8.5 Consensus size: 6
33919718 ATAATTTAAT
* * *
33919728 AAATAA AAATAA ATATCTAA AACTAA AACTAA AAATAA AAATAA AAATAA
1 AAATAA AAATAA A-A-ATAA AAATAA AAATAA AAATAA AAATAA AAATAA
33919778 AAA
1 AAA
33919781 ACATATAATT
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
6 37 0.86
7 2 0.05
8 4 0.09
ACGTcount: A:0.75, C:0.06, G:0.00, T:0.19
Consensus pattern (6 bp):
AAATAA
Found at i:33919821 original size:9 final size:9
Alignment explanation
Indices: 33919809--33919840 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
33919799 ATAATTTGGA
33919809 TAATTCGGT
1 TAATTCGGT
*
33919818 TAATTCGAT
1 TAATTCGGT
33919827 TAATTCGGT
1 TAATTCGGT
33919836 TAATT
1 TAATT
33919841 TTATACTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.28, C:0.09, G:0.16, T:0.47
Consensus pattern (9 bp):
TAATTCGGT
Found at i:33920420 original size:19 final size:19
Alignment explanation
Indices: 33920380--33920422 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
33920370 ATTTAAAATA
* *
33920380 AAAAAGGGAAATAAACGTG
1 AAAAAGGGAAACAAAAGTG
33920399 AAAAA-GGAAACAAAAGTAG
1 AAAAAGGGAAACAAAAGT-G
33920418 AAAAA
1 AAAAA
33920423 AAAGGGGGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 10 0.48
19 11 0.52
ACGTcount: A:0.67, C:0.05, G:0.21, T:0.07
Consensus pattern (19 bp):
AAAAAGGGAAACAAAAGTG
Found at i:33921843 original size:32 final size:30
Alignment explanation
Indices: 33921778--33921844 Score: 73
Period size: 31 Copynumber: 2.2 Consensus size: 30
33921768 CTTTCAAACA
*
33921778 AAAATTTTATCAATAGTTAATAAATTTAATT
1 AAAATTTTATCAATAG-TAATAAATTAAATT
*
33921809 AAAATTTTAATCAATA-TAATAGTATTAAATT
1 AAAATTTT-ATCAATAGTAATA-AATTAAATT
*
33921840 TAAAT
1 AAAAT
33921845 ATGTACTTGT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
30 5 0.16
31 19 0.61
32 7 0.23
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.43
Consensus pattern (30 bp):
AAAATTTTATCAATAGTAATAAATTAAATT
Found at i:33923985 original size:18 final size:20
Alignment explanation
Indices: 33923948--33923987 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
33923938 ATTTCTAGAA
33923948 AATGAATAATGAATAAATTAC
1 AATGAATAA-GAATAAATTAC
33923969 AATGAATAA-AA-AAATTAC
1 AATGAATAAGAATAAATTAC
33923987 A
1 A
33923988 TAAACTTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 8 0.42
19 2 0.11
21 9 0.47
ACGTcount: A:0.62, C:0.05, G:0.07, T:0.25
Consensus pattern (20 bp):
AATGAATAAGAATAAATTAC
Found at i:33926375 original size:18 final size:18
Alignment explanation
Indices: 33926341--33926377 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
33926331 TTAATCTTCA
**
33926341 AATTTGAATAACTCGAAT
1 AATTTGAATAAAACGAAT
33926359 AATTTGAATAAAACGAAT
1 AATTTGAATAAAACGAAT
33926377 A
1 A
33926378 CCAAACTATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.08, G:0.11, T:0.30
Consensus pattern (18 bp):
AATTTGAATAAAACGAAT
Found at i:33926908 original size:18 final size:18
Alignment explanation
Indices: 33926880--33926915 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
33926870 TTCATTAAAA
33926880 AATAAATTTTTTTATATTT
1 AATAAATTTTTTTA-ATTT
33926899 AATAAA-TTTTTTAATTT
1 AATAAATTTTTTTAATTT
33926916 CAAAATACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.24
18 7 0.41
19 6 0.35
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (18 bp):
AATAAATTTTTTTAATTT
Found at i:33926959 original size:112 final size:115
Alignment explanation
Indices: 33926837--33927064 Score: 381
Period size: 115 Copynumber: 2.0 Consensus size: 115
33926827 TTTATGTTGG
33926837 TATCAATTTCACATTTTATCTTTAAGATAACTTTTCATTAAAAAAT-AAA-TTTTTTTATATTTA
1 TATCAATTTCACATTTTATCTTTAAGATAACTTTTCATTAAAAAATCAAATTTTTTTTATATTTA
*
33926900 ATA-AATTTTTTAATTTCAAAATACATAGTGACAAAAACCAGAAGATATT
66 ATATAATTTTTTAATTTCAAAATACATAGTAACAAAAACCAGAAGATATT
* * *
33926949 TATCAATTTCACATTTTATCTTTAAGATAACTTTTTATTAAGACATCAAATTTTTTTTATATTTA
1 TATCAATTTCACATTTTATCTTTAAGATAACTTTTCATTAAAAAATCAAATTTTTTTTATATTTA
* *
33927014 ATATATTTTTTTAATTTCAAAATACATAGTAACAAAAATCAGAAGATATT
66 ATATAATTTTTTAATTTCAAAATACATAGTAACAAAAACCAGAAGATATT
33927064 T
1 T
33927065 GAAGCAACTA
Statistics
Matches: 107, Mismatches: 6, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
112 43 0.40
113 3 0.03
114 17 0.16
115 44 0.41
ACGTcount: A:0.41, C:0.10, G:0.04, T:0.45
Consensus pattern (115 bp):
TATCAATTTCACATTTTATCTTTAAGATAACTTTTCATTAAAAAATCAAATTTTTTTTATATTTA
ATATAATTTTTTAATTTCAAAATACATAGTAACAAAAACCAGAAGATATT
Found at i:33932729 original size:44 final size:44
Alignment explanation
Indices: 33932681--33932794 Score: 111
Period size: 44 Copynumber: 2.6 Consensus size: 44
33932671 CAATCTACTC
*
33932681 CACTGTAACTTTAGAAAGACTAGACTCATAGCTTTAATATGCTT
1 CACTGCAACTTTAGAAAGACTAGACTCATAGCTTTAATATGCTT
* ** * ** *
33932725 CACTGCAAGTTTAGGGAGGCTAGACTTGTAGCTTTAATCTGCTT
1 CACTGCAACTTTAGAAAGACTAGACTCATAGCTTTAATATGCTT
* * * **
33932769 TACTACAACTTCAGGGAGACTAGACT
1 CACTGCAACTTTAGAAAGACTAGACT
33932795 TGTAGCTTCA
Statistics
Matches: 57, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
44 57 1.00
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32
Consensus pattern (44 bp):
CACTGCAACTTTAGAAAGACTAGACTCATAGCTTTAATATGCTT
Found at i:33932795 original size:44 final size:44
Alignment explanation
Indices: 33932697--33932802 Score: 140
Period size: 44 Copynumber: 2.4 Consensus size: 44
33932687 AACTTTAGAA
** * * *
33932697 AGACTAGACTCATAGCTTTAATATGCTTCACTGCAAGTTTAGGG
1 AGACTAGACTTGTAGCTTTAATATGCTTCACTACAACTTCAGGG
* * *
33932741 AGGCTAGACTTGTAGCTTTAATCTGCTTTACTACAACTTCAGGG
1 AGACTAGACTTGTAGCTTTAATATGCTTCACTACAACTTCAGGG
33932785 AGACTAGACTTGTAGCTT
1 AGACTAGACTTGTAGCTT
33932803 CAATTACCCC
Statistics
Matches: 53, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
44 53 1.00
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.33
Consensus pattern (44 bp):
AGACTAGACTTGTAGCTTTAATATGCTTCACTACAACTTCAGGG
Found at i:33932919 original size:45 final size:45
Alignment explanation
Indices: 33932870--33933639 Score: 256
Period size: 45 Copynumber: 17.2 Consensus size: 45
33932860 TGAACTTAAA
* * *
33932870 GGAGATAAGAATTGGTAACTTTAACCTGCTCCACTGTAACTTCAG
1 GGAGATAAGAATTGGTATCTTTAGCCTGCTCCACTGCAACTTCAG
** * * * *
33932915 GGAGATAAGGTTTGTGTATTTTTATCCTGCTCTACTGCAACTTTAG
1 GGAGATAAGAATTG-GTATCTTTAGCCTGCTCCACTGCAACTTCAG
* * ** * ** * * *
33932961 AGAGATAAGGATT-GTGGCTTTGGTATGCTCCAATGTAATTTCAG
1 GGAGATAAGAATTGGTATCTTTAGCCTGCTCCACTGCAACTTCAG
* * * * *
33933005 GGAG--AAG-ATCTGCTATCTTCAGTCTACTCCACTGCAACTTTAG
1 GGAGATAAGAAT-TGGTATCTTTAGCCTGCTCCACTGCAACTTCAG
* * * ** *
33933048 GGAGATAAGACTTGCTATCTTCAGTTTGCTCCATTGCAACTTCAG
1 GGAGATAAGAATTGGTATCTTTAGCCTGCTCCACTGCAACTTCAG
* * ** * * *
33933093 GAAGATAAGACTTACTA-CTTCAACCTACTCCACTGCAACTTCAG
1 GGAGATAAGAATTGGTATCTTTAGCCTGCTCCACTGCAACTTCAG
* * * * *
33933137 GGAGATAAG-GTTTGTATTTTTACCCTGCTCTACTGCAACTTCAG
1 GGAGATAAGAATTGGTATCTTTAGCCTGCTCCACTGCAACTTCAG
* * * * *
33933181 AGAGATAAGGATTATGGTTTCGATT----TGCTCCACTACAACTTCAG
1 GGAGATAA-GAAT-TGGTATC-TTTAGCCTGCTCCACTGCAACTTCAG
* * * ** *
33933225 GGAGAT-----CTGCTATCTTCAGTATGCTCCACTGCAACTTTAG
1 GGAGATAAGAATTGGTATCTTTAGCCTGCTCCACTGCAACTTCAG
* * * * *
33933265 GGAGATAAGACTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAT
1 GGAGATAAGAATTGGTATCTTTAGCCTGCTCCACTGCAACTTCAG
* * * * * * * *
33933310 AGAGATAAGATTTCTGTATTTTTATCCTGCTCTACTGTAACTTTAG
1 GGAGATAAGAATT-GGTATCTTTAGCCTGCTCCACTGCAACTTCAG
* * * ** *
33933356 AGAGATAAGGATTATGG--T-TTCAATCTGCTCCACTACAACTTCAG
1 GGAGATAA-GAAT-TGGTATCTTTAGCCTGCTCCACTGCAACTTCAG
* * * ** * * * *
33933400 GGAGATAAG-ATCTGCTATCTTCAGTCTATTCTACTACAAATTTAG
1 GGAGATAAGAAT-TGGTATCTTTAGCCTGCTCCACTGCAACTTCAG
* * * * *
33933445 GGAGATAAGACTTGCTTAT-TTATAGCTTCAATCTGTTTCACTGCAATTTCAG
1 GGAGATAAGAATTG-GTATCTT-TAG---C---CTGCTCCACTGCAACTTCAG
* * ** * * *
33933497 GGAAATGAG-ATTCTCTATCTTTAGTCTGCTCCACTACAACTTTAG
1 GGAGATAAGAATT-GGTATCTTTAGCCTGCTCCACTGCAACTTCAG
* * * * *
33933542 GGAGATAAGACTT--TAACTTCAACCTGCTCCACTGCTACTTCAG
1 GGAGATAAGAATTGGTATCTTTAGCCTGCTCCACTGCAACTTCAG
** * ** **
33933585 GGAGATAAGGTTTAGTGGCTTTAATCTAG-TCCACTGCAACTTCAG
1 GGAGATAAGAATTGGTATCTTTAGCCT-GCTCCACTGCAACTTCAG
33933630 GGAGATAAGA
1 GGAGATAAGA
33933640 TTTGCCATTA
Statistics
Matches: 540, Mismatches: 144, Indels: 82
0.70 0.19 0.11
Matches are distributed among these distances:
36 1 0.00
37 5 0.01
40 23 0.04
41 2 0.00
42 7 0.01
43 63 0.12
44 130 0.24
45 189 0.35
46 77 0.14
47 9 0.02
48 3 0.01
51 8 0.01
52 23 0.04
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.33
Consensus pattern (45 bp):
GGAGATAAGAATTGGTATCTTTAGCCTGCTCCACTGCAACTTCAG
Found at i:33933260 original size:40 final size:42
Alignment explanation
Indices: 33932983--33933308 Score: 162
Period size: 44 Copynumber: 7.5 Consensus size: 42
33932973 TGTGGCTTTG
* * * *
33932983 GTATGCTCCAATGTAATTTCAGGGAGA-AGATCTGCTATCTTCA
1 GTATGCTCCACTGCAACTTCAGGGAGATA-CT-TGCTATCTTCA
* * *
33933026 GTCTACTCCACTGCAACTTTAGGGAGATAAGACTTGCTATCTTCA
1 GTATGCTCCACTGCAACTTCAGGGAGAT---ACTTGCTATCTTCA
* * * *
33933071 GTTTGCTCCATTGCAACTTCAGGAAGATAAGACTTACTA-CTTCA
1 GTATGCTCCACTGCAACTTCAGGGAGAT---ACTTGCTATCTTCA
*** * * * *
33933115 ACCTACTCCACTGCAACTTCAGGGAGATAAGGTTTG-TATTTTTA
1 GTATGCTCCACTGCAACTTCAGGGAGAT-A--CTTGCTATCTTCA
*** * * ** * *
33933159 CCCTGCTCTACTGCAACTTCAGAGAGATA-AGGATTATGGTTTC-
1 GTATGCTCCACTGCAACTTCAGGGAGATACTTG-CTAT--CTTCA
* *
33933202 GATTTGCTCCACTACAACTTCAGGGAGAT-C-TGCTATCTTCA
1 G-TATGCTCCACTGCAACTTCAGGGAGATACTTGCTATCTTCA
*
33933243 GTATGCTCCACTGCAACTTTAGGGAGATAAGACTTGCTATCTTCA
1 GTATGCTCCACTGCAACTTCAGGGAGAT---ACTTGCTATCTTCA
*
33933288 GTCTGCTCCACTGCAACTTCA
1 GTATGCTCCACTGCAACTTCA
33933309 TAGAGATAAG
Statistics
Matches: 219, Mismatches: 45, Indels: 36
0.73 0.15 0.12
Matches are distributed among these distances:
40 28 0.13
41 1 0.00
42 7 0.03
43 25 0.11
44 82 0.37
45 74 0.34
46 1 0.00
47 1 0.00
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (42 bp):
GTATGCTCCACTGCAACTTCAGGGAGATACTTGCTATCTTCA
Found at i:33933289 original size:217 final size:222
Alignment explanation
Indices: 33932887--33933308 Score: 649
Period size: 217 Copynumber: 1.9 Consensus size: 222
33932877 AGAATTGGTA
* * * *
33932887 ACTTTAACCTGCTCCACTGTAACTTCAGGGAGATAAGGTTTGTGTATTTTTATCCTGCTCTACTG
1 ACTTCAACCTACTCCACTGCAACTTCAGGGAGATAAGGTTTGTGTATTTTTACCCTGCTCTACTG
* * * ** *
33932952 CAACTTTAGAGAGATAAGGATTGTGGCTTTGGTATGCTCCAATGTAATTTCAGGGAGAAGATCTG
66 CAACTTCAGAGAGATAAGGATTATGGCTTTGATATGCTCCAATACAACTTCAGGGAGAAGATCTG
* * *
33933017 CTATCTTCAGTCTACTCCACTGCAACTTTAGGGAGATAAGACTTGCTATCTTCAGTTTGCTCCAT
131 CTATCTTCAGTATACTCCACTGCAACTTTAGGGAGATAAGACTTGCTATCTTCAGTCTGCTCCAC
33933082 TGCAACTTCAGGAAGATAAGACTTACT
196 TGCAACTTCAGGAAGATAAGACTTACT
33933109 ACTTCAACCTACTCCACTGCAACTTCAGGGAGATAAGG-TT-TGTATTTTTACCCTGCTCTACTG
1 ACTTCAACCTACTCCACTGCAACTTCAGGGAGATAAGGTTTGTGTATTTTTACCCTGCTCTACTG
* *
33933172 CAACTTCAGAGAGATAAGGATTATGG-TTTCGATTTGCTCCACTACAACTTCA-GG-G-AGATCT
66 CAACTTCAGAGAGATAAGGATTATGGCTTT-GATATGCTCCAATACAACTTCAGGGAGAAGATCT
*
33933233 GCTATCTTCAGTATGCTCCACTGCAACTTTAGGGAGATAAGACTTGCTATCTTCAGTCTGCTCCA
130 GCTATCTTCAGTATACTCCACTGCAACTTTAGGGAGATAAGACTTGCTATCTTCAGTCTGCTCCA
33933298 CTGCAACTTCA
195 CTGCAACTTCA
33933309 TAGAGATAAG
Statistics
Matches: 183, Mismatches: 16, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
217 78 0.43
218 1 0.01
219 5 0.03
220 62 0.34
221 2 0.01
222 35 0.19
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.33
Consensus pattern (222 bp):
ACTTCAACCTACTCCACTGCAACTTCAGGGAGATAAGGTTTGTGTATTTTTACCCTGCTCTACTG
CAACTTCAGAGAGATAAGGATTATGGCTTTGATATGCTCCAATACAACTTCAGGGAGAAGATCTG
CTATCTTCAGTATACTCCACTGCAACTTTAGGGAGATAAGACTTGCTATCTTCAGTCTGCTCCAC
TGCAACTTCAGGAAGATAAGACTTACT
Found at i:33933370 original size:175 final size:175
Alignment explanation
Indices: 33933022--33933460 Score: 544
Period size: 175 Copynumber: 2.5 Consensus size: 175
33933012 ATCTGCTATC
* * * * * *
33933022 TTCAGTCTACTCCACTGCAACTTTAGGGAGATAAGA-CTTGCTATCTTCAGTTTGCTCCATTGCA
1 TTCAATCTGCTCCACTACAACTTCAGGGAG--AAGATC-TGCTATCTTCAGTATGCTCCACTGCA
* * * *
33933086 ACTTCAGGAAGATAAGACTTACTACTTCAACCTACTCCACTGCAACTTCAGGGAGATAAGGTTTG
63 ACTTTAGGGAGATAAGACTTGCTACTTCAACCTACTCCACTGCAACTTCAGAGAGATAAGGTTTG
33933151 TATTTTTACCCTGCTCTACTGCAACTTCAGAGAGATAAGGATTATGGT
128 TATTTTTACCCTGCTCTACTGCAACTTCAGAGAGATAAGGATTATGGT
* *
33933199 TTCGATTTGCTCCACTACAACTTCA-GG-G-AGATCTGCTATCTTCAGTATGCTCCACTGCAACT
1 TTCAATCTGCTCCACTACAACTTCAGGGAGAAGATCTGCTATCTTCAGTATGCTCCACTGCAACT
** * * *
33933261 TTAGGGAGATAAGACTTGCTATCTTCAGTCTGCTCCACTGCAACTTCATAGAGATAAGATTTCTG
66 TTAGGGAGATAAGACTTGCTA-CTTCAACCTACTCCACTGCAACTTCAGAGAGATAAG-GTT-TG
* * *
33933326 TATTTTTATCCTGCTCTACTGTAACTTTAGAGAGATAAGGATTATGGT
128 TATTTTTACCCTGCTCTACTGCAACTTCAGAGAGATAAGGATTATGGT
* ** * *
33933374 TTCAATCTGCTCCACTACAACTTCAGGGAGATAAGATCTGCTATCTTCAGTCTATTCTACTACAA
1 TTCAATCTGCTCCACTACAACTTCAGGGAG--AAGATCTGCTATCTTCAGTATGCTCCACTGCAA
*
33933439 ATTTAGGGAGATAAGACTTGCT
64 CTTTAGGGAGATAAGACTTGCT
33933461 TATTTATAGC
Statistics
Matches: 225, Mismatches: 28, Indels: 15
0.84 0.10 0.06
Matches are distributed among these distances:
172 48 0.21
173 32 0.14
174 2 0.01
175 71 0.32
176 4 0.02
177 20 0.09
180 48 0.21
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.33
Consensus pattern (175 bp):
TTCAATCTGCTCCACTACAACTTCAGGGAGAAGATCTGCTATCTTCAGTATGCTCCACTGCAACT
TTAGGGAGATAAGACTTGCTACTTCAACCTACTCCACTGCAACTTCAGAGAGATAAGGTTTGTAT
TTTTACCCTGCTCTACTGCAACTTCAGAGAGATAAGGATTATGGT
Found at i:33933541 original size:97 final size:97
Alignment explanation
Indices: 33933374--33933554 Score: 247
Period size: 97 Copynumber: 1.9 Consensus size: 97
33933364 GGATTATGGT
* * *
33933374 TTCAATCTGCTCCACTACAACTTCAGGGAGATAAGATCTGCTATCTTCAGTCTATTCTACTACAA
1 TTCAATCTGCTCCACTACAACTTCAGGGAAATAAGATCTGCTATCTTCAGTCTACTCCACTACAA
33933439 ATTTAGGGAGATAAGACTTGCTTATTTATAGC
66 ATTTAGGGAGATAAGACTTGCTTATTTATAGC
* * * * * * *
33933471 TTCAATCTGTTTCACTGCAATTTCAGGGAAATGAGATTCT-CTATCTTTAGTCTGCTCCACTACA
1 TTCAATCTGCTCCACTACAACTTCAGGGAAATAAGA-TCTGCTATCTTCAGTCTACTCCACTACA
*
33933535 ACTTTAGGGAGATAAGACTT
65 AATTTAGGGAGATAAGACTT
33933555 TAACTTCAAC
Statistics
Matches: 72, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
97 69 0.96
98 3 0.04
ACGTcount: A:0.29, C:0.20, G:0.16, T:0.35
Consensus pattern (97 bp):
TTCAATCTGCTCCACTACAACTTCAGGGAAATAAGATCTGCTATCTTCAGTCTACTCCACTACAA
ATTTAGGGAGATAAGACTTGCTTATTTATAGC
Found at i:33934100 original size:46 final size:46
Alignment explanation
Indices: 33934044--33934170 Score: 209
Period size: 46 Copynumber: 2.8 Consensus size: 46
33934034 TGTGGTTTCT
*
33934044 TCCATCCCACTGCAACTCAAGGGTATAAGATTTGTACCATCTTCAA
1 TCCATCCCACTGCAACTCAAGGGTATAGGATTTGTACCATCTTCAA
* * * *
33934090 TCCATCCCACTGCAGCTCAGGGGTATAGGATTTGTATCTTCTTCAA
1 TCCATCCCACTGCAACTCAAGGGTATAGGATTTGTACCATCTTCAA
33934136 TCCATCCCACTGCAACTCAAGGGTATAGGATTTGT
1 TCCATCCCACTGCAACTCAAGGGTATAGGATTTGT
33934171 GTCTTATTCA
Statistics
Matches: 74, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 74 1.00
ACGTcount: A:0.26, C:0.27, G:0.17, T:0.30
Consensus pattern (46 bp):
TCCATCCCACTGCAACTCAAGGGTATAGGATTTGTACCATCTTCAA
Found at i:33936364 original size:94 final size:94
Alignment explanation
Indices: 33936203--33936392 Score: 380
Period size: 94 Copynumber: 2.0 Consensus size: 94
33936193 TATCACAATA
33936203 TATCGTGGTACCAGGGGTGATCATCTTTTTCTTCATCTTCTTCGGTATTGTAACAGTGAGCCAAA
1 TATCGTGGTACCAGGGGTGATCATCTTTTTCTTCATCTTCTTCGGTATTGTAACAGTGAGCCAAA
33936268 ATTTCTTAAATGCTCACCTGGATGGGTTT
66 ATTTCTTAAATGCTCACCTGGATGGGTTT
33936297 TATCGTGGTACCAGGGGTGATCATCTTTTTCTTCATCTTCTTCGGTATTGTAACAGTGAGCCAAA
1 TATCGTGGTACCAGGGGTGATCATCTTTTTCTTCATCTTCTTCGGTATTGTAACAGTGAGCCAAA
33936362 ATTTCTTAAATGCTCACCTGGATGGGTTT
66 ATTTCTTAAATGCTCACCTGGATGGGTTT
33936391 TA
1 TA
33936393 CATCTTCTTG
Statistics
Matches: 96, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
94 96 1.00
ACGTcount: A:0.22, C:0.19, G:0.21, T:0.38
Consensus pattern (94 bp):
TATCGTGGTACCAGGGGTGATCATCTTTTTCTTCATCTTCTTCGGTATTGTAACAGTGAGCCAAA
ATTTCTTAAATGCTCACCTGGATGGGTTT
Found at i:33946612 original size:18 final size:20
Alignment explanation
Indices: 33946575--33946614 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
33946565 AATTCTAGAA
33946575 AATGAATAATGAATAAATTAC
1 AATGAATAA-GAATAAATTAC
33946596 AATGAATAA-AA-AAATTAC
1 AATGAATAAGAATAAATTAC
33946614 A
1 A
33946615 TAAACTTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 8 0.42
19 2 0.11
21 9 0.47
ACGTcount: A:0.62, C:0.05, G:0.07, T:0.25
Consensus pattern (20 bp):
AATGAATAAGAATAAATTAC
Found at i:33949558 original size:112 final size:114
Alignment explanation
Indices: 33949432--33949658 Score: 377
Period size: 112 Copynumber: 2.0 Consensus size: 114
33949422 TTTATGTTGG
**
33949432 TATCAATTTCACATTTTATCTTTAAGATAACTTTTCATTAAAAAAT-AATTTTTTTTATATTTAA
1 TATCAATTTCACATTTTATCTTTAAGATAACTTTTCATTAAAAAATCAAAATTTTTTATATTTAA
* *
33949496 TATA-TTTTTTAATTTTAAAATACATAGTGACAAAAACCAGAAGATATT
66 TATATTTTTTTAATTTCAAAATACATAGTAACAAAAACCAGAAGATATT
* *
33949544 TATCAATTTCACATTTTATCTTTAAGATAACTTTTTATTAAGAAATCAAAATTTTTTATATTTAA
1 TATCAATTTCACATTTTATCTTTAAGATAACTTTTCATTAAAAAATCAAAATTTTTTATATTTAA
*
33949609 TATATTTTTTTAATTTCAAAATACATAGTAACAAAAATCAGAAGATATT
66 TATATTTTTTTAATTTCAAAATACATAGTAACAAAAACCAGAAGATATT
33949658 T
1 T
33949659 GAAGCAACTA
Statistics
Matches: 106, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
112 44 0.42
113 20 0.19
114 42 0.40
ACGTcount: A:0.41, C:0.09, G:0.04, T:0.45
Consensus pattern (114 bp):
TATCAATTTCACATTTTATCTTTAAGATAACTTTTCATTAAAAAATCAAAATTTTTTATATTTAA
TATATTTTTTTAATTTCAAAATACATAGTAACAAAAACCAGAAGATATT
Found at i:33953363 original size:13 final size:13
Alignment explanation
Indices: 33953345--33953370 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
33953335 AGAATTTTGT
33953345 ATATCTGAATCTG
1 ATATCTGAATCTG
33953358 ATATCTGAATCTG
1 ATATCTGAATCTG
33953371 GATCTGTATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
ATATCTGAATCTG
Found at i:33959255 original size:55 final size:56
Alignment explanation
Indices: 33959195--33959314 Score: 163
Period size: 56 Copynumber: 2.2 Consensus size: 56
33959185 CGTGTCCAAC
* * *
33959195 ACTGACTT-TAGGACACGGCCATGACACACG-CCTGTGTGGCCTACCCGTGGACAAT
1 ACTGACTTATA-GACACGGCCATGACACACGCCCCGTATAGCCTACCCGTGGACAAT
* *
33959250 ACTGACTTATAGACACGGCTATGGCACACGCCCCGTATAGCCTACCCGTGGACAAT
1 ACTGACTTATAGACACGGCCATGACACACGCCCCGTATAGCCTACCCGTGGACAAT
*
33959306 ACTAACTTA
1 ACTGACTTA
33959315 AAAGTTTAAG
Statistics
Matches: 57, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
55 25 0.44
56 32 0.56
ACGTcount: A:0.27, C:0.31, G:0.22, T:0.21
Consensus pattern (56 bp):
ACTGACTTATAGACACGGCCATGACACACGCCCCGTATAGCCTACCCGTGGACAAT
Found at i:33961667 original size:16 final size:16
Alignment explanation
Indices: 33961646--33961688 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
33961636 GTAGATCAAC
33961646 AAAAGCCGAAATGCCG
1 AAAAGCCGAAATGCCG
* *
33961662 AAAAGCCAAAATGCTG
1 AAAAGCCGAAATGCCG
*
33961678 AAAAGCTGAAA
1 AAAAGCCGAAA
33961689 GTTTGACTAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.51, C:0.19, G:0.21, T:0.09
Consensus pattern (16 bp):
AAAAGCCGAAATGCCG
Found at i:33961982 original size:28 final size:28
Alignment explanation
Indices: 33961900--33961989 Score: 144
Period size: 29 Copynumber: 3.1 Consensus size: 28
33961890 TGAGCAAGAC
33961900 TATAAATGTGAATTGGGCCTAATGGGCCA
1 TATAAATGTG-ATTGGGCCTAATGGGCCA
*
33961929 TATAAATATGATTTGGGCCTAATGGGCCA
1 TATAAATGTGA-TTGGGCCTAATGGGCCA
*
33961958 TATAAATGTGATTGGGCCTAGTGGGCCA
1 TATAAATGTGATTGGGCCTAATGGGCCA
33961986 TATA
1 TATA
33961990 CAGGTATGTG
Statistics
Matches: 57, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
28 21 0.37
29 36 0.63
ACGTcount: A:0.30, C:0.13, G:0.27, T:0.30
Consensus pattern (28 bp):
TATAAATGTGATTGGGCCTAATGGGCCA
Found at i:33965100 original size:29 final size:29
Alignment explanation
Indices: 33965061--33965139 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
33965051 CTTAATAATC
*
33965061 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
33965091 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
33965120 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
33965140 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:33967151 original size:25 final size:25
Alignment explanation
Indices: 33967119--33967166 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
33967109 TTATAATATG
* * *
33967119 AAAATGACCGTTTTGCCCTTAGGTA
1 AAAATGACCATTATACCCTTAGGTA
33967144 AAAATGACCATTATACCCTTAGG
1 AAAATGACCATTATACCCTTAGG
33967167 GTTTATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (25 bp):
AAAATGACCATTATACCCTTAGGTA
Found at i:33967228 original size:20 final size:20
Alignment explanation
Indices: 33967203--33967245 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
33967193 ATTTTGATAA
*
33967203 ACATGATATGTATGATATGC
1 ACATGACATGTATGATATGC
33967223 ACATGACATGTATGATATGC
1 ACATGACATGTATGATATGC
33967243 ACA
1 ACA
33967246 CGAGATGTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.37, C:0.14, G:0.19, T:0.30
Consensus pattern (20 bp):
ACATGACATGTATGATATGC
Found at i:33967253 original size:20 final size:20
Alignment explanation
Indices: 33967210--33967253 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
33967200 TAAACATGAT
*
33967210 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACACGAC
*
33967230 ATGTATGATATGCACACGAG
1 ATGTATGATATGCACACGAC
33967250 ATGT
1 ATGT
33967254 TCATAAATGC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.30
Consensus pattern (20 bp):
ATGTATGATATGCACACGAC
Found at i:33967354 original size:23 final size:24
Alignment explanation
Indices: 33967299--33967418 Score: 165
Period size: 24 Copynumber: 5.0 Consensus size: 24
33967289 GAGGAAGTGC
33967299 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
33967323 AAAAGGGCTTATGCCCTAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
33967347 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
33967370 AAAGAAGGGCTT-TGCCCCAGTTATT
1 -AA-AAGGGCTTATGCCCCAGTTATT
*
33967395 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
33967419 ATGATAAAGC
Statistics
Matches: 87, Mismatches: 3, Indels: 11
0.86 0.03 0.11
Matches are distributed among these distances:
23 26 0.30
24 31 0.36
25 22 0.25
26 8 0.09
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:33967369 original size:47 final size:48
Alignment explanation
Indices: 33967300--33967397 Score: 164
Period size: 47 Copynumber: 2.1 Consensus size: 48
33967290 AGGAAGTGCA
*
33967300 AAAGGGCTTATGCCCCAGTTATT-AA-AAGGGCTTATGCCCTAGTTATT
1 AAAGGGCTTATGCCCCAGTTATTAAAGAAGGGCTT-TGCCCCAGTTATT
33967347 AAAGGGCTTATGCCCCAGTTATTAAAGAAGGGCTTTGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATTAAAGAAGGGCTTTGCCCCAGTTATT
33967395 AAA
1 AAA
33967398 AGAGGCTAGG
Statistics
Matches: 48, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
47 23 0.48
48 17 0.35
49 8 0.17
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (48 bp):
AAAGGGCTTATGCCCCAGTTATTAAAGAAGGGCTTTGCCCCAGTTATT
Found at i:33967418 original size:25 final size:23
Alignment explanation
Indices: 33967300--33967397 Score: 144
Period size: 23 Copynumber: 4.1 Consensus size: 23
33967290 AGGAAGTGCA
33967300 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
33967323 AAAAGGGCTTATGCCCTAGTTATT
1 -AAAGGGCTTATGCCCCAGTTATT
33967347 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
33967370 AAAGAAGGGCTT-TGCCCCAGTTATT
1 --A-AAGGGCTTATGCCCCAGTTATT
33967395 AAA
1 AAA
33967398 AGAGGCTAGG
Statistics
Matches: 69, Mismatches: 2, Indels: 8
0.87 0.03 0.10
Matches are distributed among these distances:
22 2 0.03
23 23 0.33
24 22 0.32
25 14 0.20
26 8 0.12
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:33967646 original size:31 final size:31
Alignment explanation
Indices: 33967611--33967674 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
33967601 CGTTTACAGT
33967611 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
** *
33967642 AAAGGCTTCGGCCCAGTGTTATGAATTATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
33967673 AA
1 AA
33967675 TATGAAATGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:33975243 original size:25 final size:25
Alignment explanation
Indices: 33975196--33975243 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
33975186 TTATAATATG
* *
33975196 AAAATGACCATTTTTCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
*
33975221 AAAATGACCATTATACCCTTAGG
1 AAAATGACCATTATACCCCTAGG
33975244 GTTTATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.35, C:0.23, G:0.12, T:0.29
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:33975305 original size:20 final size:20
Alignment explanation
Indices: 33975280--33975342 Score: 108
Period size: 20 Copynumber: 3.1 Consensus size: 20
33975270 ATTTTGATAA
33975280 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
33975300 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
*
33975320 ACATGATATGTATTATATGC
1 ACATGATATGTATGATATGC
33975340 ACA
1 ACA
33975343 CGAGATGTTC
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.37, C:0.13, G:0.17, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:33975451 original size:23 final size:24
Alignment explanation
Indices: 33975396--33975501 Score: 171
Period size: 24 Copynumber: 4.4 Consensus size: 24
33975386 GAGGAAGTGC
33975396 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
33975420 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
33975444 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
33975467 AAAGAAGGGCTT-TGCCCCAGTTATT
1 -AA-AAGGGCTTATGCCCCAGTTATT
33975492 AAAAGAGGCT
1 AAAAG-GGCT
33975502 AGCCCTCCAG
Statistics
Matches: 78, Mismatches: 0, Indels: 8
0.91 0.00 0.09
Matches are distributed among these distances:
23 26 0.33
24 30 0.38
25 14 0.18
26 8 0.10
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:33975466 original size:47 final size:48
Alignment explanation
Indices: 33975397--33975494 Score: 173
Period size: 47 Copynumber: 2.1 Consensus size: 48
33975387 AGGAAGTGCA
33975397 AAAGGGCTTATGCCCCAGTTATT-AA-AAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATTAAAGAAGGGCTT-TGCCCCAGTTATT
33975444 AAAGGGCTTATGCCCCAGTTATTAAAGAAGGGCTTTGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATTAAAGAAGGGCTTTGCCCCAGTTATT
33975492 AAA
1 AAA
33975495 AGAGGCTAGC
Statistics
Matches: 49, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
47 23 0.47
48 18 0.37
49 8 0.16
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.29
Consensus pattern (48 bp):
AAAGGGCTTATGCCCCAGTTATTAAAGAAGGGCTTTGCCCCAGTTATT
Found at i:33975515 original size:25 final size:23
Alignment explanation
Indices: 33975397--33975494 Score: 153
Period size: 23 Copynumber: 4.1 Consensus size: 23
33975387 AGGAAGTGCA
33975397 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
33975420 AAAAGGGCTTATGCCCCAGTTATT
1 -AAAGGGCTTATGCCCCAGTTATT
33975444 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
33975467 AAAGAAGGGCTT-TGCCCCAGTTATT
1 --A-AAGGGCTTATGCCCCAGTTATT
33975492 AAA
1 AAA
33975495 AGAGGCTAGC
Statistics
Matches: 71, Mismatches: 0, Indels: 8
0.90 0.00 0.10
Matches are distributed among these distances:
22 2 0.03
23 24 0.34
24 23 0.32
25 14 0.20
26 8 0.11
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.29
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:33975743 original size:31 final size:31
Alignment explanation
Indices: 33975708--33975771 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
33975698 CGTTTACAGT
33975708 AAAGGATTCGGCCCAGTAATATGAAATATGA
1 AAAGGATTCGGCCCAGTAATATGAAATATGA
* ** *
33975739 AAAGGCTTCGGCCCAGTGTTATGAATTATGA
1 AAAGGATTCGGCCCAGTAATATGAAATATGA
33975770 AA
1 AA
33975772 TATGAAAAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.38, C:0.14, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGATTCGGCCCAGTAATATGAAATATGA
Found at i:33977976 original size:49 final size:50
Alignment explanation
Indices: 33977919--33978049 Score: 146
Period size: 49 Copynumber: 2.7 Consensus size: 50
33977909 GTTAAGTTGT
* *
33977919 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTATC-T-TCATCGAG-GC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTATCGTGT-AT-AAGTGC
* * * *
33977968 CGATGCCATTTCCTAGACATGGTATTACACTAGCTTTCGTGTATAAGTGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTATCGTGTATAAGTGC
*
33978018 TGATG-CATGTCCCAGACAT-GTCTTACACTAGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGC
33978050 ATGAAGCTTA
Statistics
Matches: 69, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
48 12 0.17
49 47 0.68
50 9 0.13
51 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.30
Consensus pattern (50 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAGCTATCGTGTATAAGTGC
Found at i:33986578 original size:43 final size:43
Alignment explanation
Indices: 33986522--33986608 Score: 156
Period size: 43 Copynumber: 2.0 Consensus size: 43
33986512 TTCTTCTTTG
* *
33986522 TGCCAATTTCCATTCTTCTTCTACTTCATTGCTGACTTTTCTT
1 TGCCAATTTCCATTCTTCCTCTACTTCATTGCCGACTTTTCTT
33986565 TGCCAATTTCCATTCTTCCTCTACTTCATTGCCGACTTTTCTT
1 TGCCAATTTCCATTCTTCCTCTACTTCATTGCCGACTTTTCTT
33986608 T
1 T
33986609 CTTTTTCCTT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.14, C:0.30, G:0.07, T:0.49
Consensus pattern (43 bp):
TGCCAATTTCCATTCTTCCTCTACTTCATTGCCGACTTTTCTT
Found at i:33988248 original size:21 final size:18
Alignment explanation
Indices: 33988222--33988274 Score: 61
Period size: 21 Copynumber: 2.7 Consensus size: 18
33988212 CACATGTATA
33988222 AATAATAAATAAGTATTATTT
1 AATAATAAATAA-TATTA--T
33988243 AATAATAATATAATATTAT
1 AATAATAA-ATAATATTAT
33988262 AATAGATAAATAA
1 AATA-ATAAATAA
33988275 AGAAACAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
19 9 0.30
20 4 0.13
21 13 0.43
22 4 0.13
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (18 bp):
AATAATAAATAATATTAT
Found at i:33988297 original size:15 final size:15
Alignment explanation
Indices: 33988277--33988306 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
33988267 ATAAATAAAG
33988277 AAACAAAAGAAAGAA
1 AAACAAAAGAAAGAA
*
33988292 AAACAATAGAAAGAA
1 AAACAAAAGAAAGAA
33988307 CAGAACATGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.77, C:0.07, G:0.13, T:0.03
Consensus pattern (15 bp):
AAACAAAAGAAAGAA
Found at i:33988346 original size:11 final size:11
Alignment explanation
Indices: 33988332--33988357 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
33988322 AAATGGGGAG
33988332 AAAGAAAAGAA
1 AAAGAAAAGAA
33988343 AAAGAAAAGAA
1 AAAGAAAAGAA
33988354 AAAG
1 AAAG
33988358 GGAAAACTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (11 bp):
AAAGAAAAGAA
Found at i:33988981 original size:3 final size:3
Alignment explanation
Indices: 33988973--33989021 Score: 71
Period size: 3 Copynumber: 16.3 Consensus size: 3
33988963 ATGGTAAGTT
* * *
33988973 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA GTA GTA GTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
33989021 T
1 T
33989022 GGTATTGAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:33993680 original size:45 final size:44
Alignment explanation
Indices: 33993514--33993686 Score: 188
Period size: 45 Copynumber: 3.8 Consensus size: 44
33993504 ATGGTTGAGC
33993514 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
* * * * *
33993558 ATGTCCGAACTCATTGAGTTGAGTCCGAGTTC-GTGAAATGTAACTAG-GC
1 A--TCCGAACTCGTTGAGTTGAGTCCGAGTTCACT--TATG-GA-T-GCGA
*
33993607 ATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGA
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
* *
33993651 ACCCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 A-TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
33993687 GGGGTGGGTT
Statistics
Matches: 105, Mismatches: 14, Indels: 19
0.76 0.10 0.14
Matches are distributed among these distances:
43 1 0.01
44 4 0.04
45 33 0.31
46 31 0.30
47 30 0.29
48 2 0.02
49 3 0.03
50 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (44 bp):
ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
Found at i:34000695 original size:21 final size:21
Alignment explanation
Indices: 34000669--34000708 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
34000659 CACATGTATA
34000669 AATAATAA-ATAAGTATTATTT
1 AATAATAATATAA-TATTATTT
34000690 AATAATAATATAATATTAT
1 AATAATAATATAATATTAT
34000709 AATAGTTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (21 bp):
AATAATAATATAATATTATTT
Found at i:34000734 original size:9 final size:9
Alignment explanation
Indices: 34000720--34000749 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
34000710 ATAGTTAAAT
*
34000720 AAAGAAACA
1 AAAGAAAGA
34000729 AAAGAAAGA
1 AAAGAAAGA
34000738 AAAGAAAGA
1 AAAGAAAGA
34000747 AAA
1 AAA
34000750 AGAATGGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.80, C:0.03, G:0.17, T:0.00
Consensus pattern (9 bp):
AAAGAAAGA
Found at i:34000752 original size:19 final size:20
Alignment explanation
Indices: 34000728--34000767 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
34000718 ATAAAGAAAC
34000728 AAAAGAAAGAAAAGAA-AGA
1 AAAAGAAAGAAAAGAACAGA
* *
34000747 AAAAGAATGGAAAGAACAGA
1 AAAAGAAAGAAAAGAACAGA
34000767 A
1 A
34000768 CATGAAACGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.72, C:0.03, G:0.23, T:0.03
Consensus pattern (20 bp):
AAAAGAAAGAAAAGAACAGA
Found at i:34000799 original size:11 final size:11
Alignment explanation
Indices: 34000785--34000818 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
34000775 CGAAAATGGG
34000785 GAGAAAGAAAA
1 GAGAAAGAAAA
34000796 GAGAAAGAAAA
1 GAGAAAGAAAA
*
34000807 GAAAAAGGAAAA
1 GAGAAA-GAAAA
34000819 ACTAGGGATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 16 0.76
12 5 0.24
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (11 bp):
GAGAAAGAAAA
Found at i:34001858 original size:18 final size:18
Alignment explanation
Indices: 34001831--34001875 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
34001821 GCACTTTGTG
* *
34001831 TACCGCTACTATTACTGT
1 TACCGTTACTATTACTGC
*
34001849 TACCGTTACTGTTACTGC
1 TACCGTTACTATTACTGC
*
34001867 TACCCTTAC
1 TACCGTTAC
34001876 GATGTATTCC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.20, C:0.31, G:0.11, T:0.38
Consensus pattern (18 bp):
TACCGTTACTATTACTGC
Found at i:34002365 original size:24 final size:24
Alignment explanation
Indices: 34002338--34002389 Score: 95
Period size: 24 Copynumber: 2.2 Consensus size: 24
34002328 TAATGAAGAG
*
34002338 TAAATGGTTGAAGTATTAAGACTC
1 TAAATGGTTGAAGTATGAAGACTC
34002362 TAAATGGTTGAAGTATGAAGACTC
1 TAAATGGTTGAAGTATGAAGACTC
34002386 TAAA
1 TAAA
34002390 GTAATGCTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.40, C:0.08, G:0.21, T:0.31
Consensus pattern (24 bp):
TAAATGGTTGAAGTATGAAGACTC
Found at i:34003552 original size:26 final size:27
Alignment explanation
Indices: 34003523--34003574 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
34003513 AAAACCGTAA
* * *
34003523 TAAGGG-AAAATTTACCGAAATACCCC
1 TAAGGGCAAAAATGACCAAAATACCCC
34003549 TAAGGGCAAAAATGACCAAAATACCC
1 TAAGGGCAAAAATGACCAAAATACCC
34003575 TTATGTGTTG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 6 0.27
27 16 0.73
ACGTcount: A:0.46, C:0.23, G:0.15, T:0.15
Consensus pattern (27 bp):
TAAGGGCAAAAATGACCAAAATACCCC
Found at i:34007515 original size:27 final size:26
Alignment explanation
Indices: 34007484--34007572 Score: 79
Period size: 27 Copynumber: 3.3 Consensus size: 26
34007474 CCATGTTTAG
* *
34007484 AATACTTTAGTTTACTAAAATTACCGA
1 AATACCTTAGTTT-CTAAAAATACCGA
*
34007511 AATACCCTTAGTTTGTAAAAATACCGA
1 AATA-CCTTAGTTTCTAAAAATACCGA
* * * * *
34007538 AATACCATCGATTTGTAAAATTACTGA
1 AATACCTTAG-TTTCTAAAAATACCGA
34007565 AATACCTT
1 AATACCTT
34007573 CGACTTGTAA
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
26 4 0.08
27 40 0.77
28 8 0.15
ACGTcount: A:0.40, C:0.17, G:0.09, T:0.34
Consensus pattern (26 bp):
AATACCTTAGTTTCTAAAAATACCGA
Found at i:34007522 original size:28 final size:27
Alignment explanation
Indices: 34007490--34007543 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
34007480 TTAGAATACT
*
34007490 TTAGTTTACTAAAATTACCGAAATACCC
1 TTAGTTT-CTAAAAATACCGAAATACCC
*
34007518 TTAGTTTGTAAAAATACCGAAATACC
1 TTAGTTTCTAAAAATACCGAAATACC
34007544 ATCGATTTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 17 0.71
28 7 0.29
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.31
Consensus pattern (27 bp):
TTAGTTTCTAAAAATACCGAAATACCC
Found at i:34007575 original size:27 final size:27
Alignment explanation
Indices: 34007499--34007597 Score: 112
Period size: 27 Copynumber: 3.7 Consensus size: 27
34007489 TTTAGTTTAC
*
34007499 TAAAATTACCGAAATACCCTTAG-TTTG
1 TAAAATTACCGAAATA-CCTTCGATTTG
* *
34007526 TAAAAATACCGAAATACCATCGATTTG
1 TAAAATTACCGAAATACCTTCGATTTG
* *
34007553 TAAAATTACTGAAATACCTTCGACTTG
1 TAAAATTACCGAAATACCTTCGATTTG
*
34007580 TAAATTTACC-AAAGTACC
1 TAAAATTACCGAAA-TACC
34007598 CCTGATTTAC
Statistics
Matches: 61, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
26 7 0.11
27 54 0.89
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.30
Consensus pattern (27 bp):
TAAAATTACCGAAATACCTTCGATTTG
Found at i:34007652 original size:54 final size:54
Alignment explanation
Indices: 34007594--34007806 Score: 275
Period size: 54 Copynumber: 3.9 Consensus size: 54
34007584 TTTACCAAAG
* * * *
34007594 TACCCCTGATTTACAGAATTACCGTTTTACCCCCGATTTACATAATTACTGTTT
1 TACCCCTGATTTACAGAATTACCATTTTACCCTCGATTTACAGAATTACTATTT
* * *
34007648 TACCCCTGATTTACATAATTATCATTTTACCCTCGATTTACAGAATTACCATTT
1 TACCCCTGATTTACAGAATTACCATTTTACCCTCGATTTACAGAATTACTATTT
* * * *
34007702 TA-CCCTCGATTTATAAAATTACCGTTTTACCCTCGATTTATAGAATTACTATTT
1 TACCCCT-GATTTACAGAATTACCATTTTACCCTCGATTTACAGAATTACTATTT
* * * *
34007756 TACCCTTGATTTACAGAATTACTATTTTACCATCGATTTACAAAATTACTA
1 TACCCCTGATTTACAGAATTACCATTTTACCCTCGATTTACAGAATTACTA
34007807 AAATACCCTT
Statistics
Matches: 136, Mismatches: 21, Indels: 4
0.84 0.13 0.02
Matches are distributed among these distances:
53 4 0.03
54 129 0.95
55 3 0.02
ACGTcount: A:0.30, C:0.23, G:0.07, T:0.40
Consensus pattern (54 bp):
TACCCCTGATTTACAGAATTACCATTTTACCCTCGATTTACAGAATTACTATTT
Found at i:34007686 original size:81 final size:80
Alignment explanation
Indices: 34007597--34007805 Score: 287
Period size: 81 Copynumber: 2.6 Consensus size: 80
34007587 ACCAAAGTAC
* * *
34007597 CCCTGATTTACAGAATTACCGTTTTACCCCCGATTTACATAATTACTGTTTTACCC-CTGATTTA
1 CCCTGATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACTGTTTTACCCTC-GATTTA
*
34007661 CATAATTA-TCATTTTA
65 CAGAATTACT-ATTTTA
* *
34007677 CCCTCGATTTACAGAATTACCATTTTACCCTCGATTTATAAAATTACCGTTTTACCCTCGATTTA
1 CCCT-GATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACTGTTTTACCCTCGATTTA
*
34007742 TAGAATTACTATTTTA
65 CAGAATTACTATTTTA
* *
34007758 CCCTTGATTTACAGAATTACTATTTTACCATCGATTTACAAAATTACT
1 CCC-TGATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACT
34007806 AAAATACCCT
Statistics
Matches: 114, Mismatches: 11, Indels: 7
0.86 0.08 0.05
Matches are distributed among these distances:
80 4 0.04
81 107 0.94
82 3 0.03
ACGTcount: A:0.30, C:0.22, G:0.07, T:0.41
Consensus pattern (80 bp):
CCCTGATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACTGTTTTACCCTCGATTTAC
AGAATTACTATTTTA
Found at i:34007805 original size:27 final size:27
Alignment explanation
Indices: 34007597--34007806 Score: 246
Period size: 27 Copynumber: 7.8 Consensus size: 27
34007587 ACCAAAGTAC
**
34007597 CCCT-GATTTACAGAATTACCGTTTTA
1 CCCTCGATTTACAGAATTACTATTTTA
* * *
34007623 CCCCCGATTTACATAATTACTGTTTTA
1 CCCTCGATTTACAGAATTACTATTTTA
*
34007650 CCC-CTGATTTACATAATTA-TCATTTTA
1 CCCTC-GATTTACAGAATTACT-ATTTTA
*
34007677 CCCTCGATTTACAGAATTACCATTTTA
1 CCCTCGATTTACAGAATTACTATTTTA
* * **
34007704 CCCTCGATTTATAAAATTACCGTTTTA
1 CCCTCGATTTACAGAATTACTATTTTA
*
34007731 CCCTCGATTTATAGAATTACTATTTTA
1 CCCTCGATTTACAGAATTACTATTTTA
*
34007758 CCCTTGATTTACAGAATTACTATTTTA
1 CCCTCGATTTACAGAATTACTATTTTA
* *
34007785 CCATCGATTTACAAAATTACTA
1 CCCTCGATTTACAGAATTACTA
34007807 AAATACCCTT
Statistics
Matches: 162, Mismatches: 17, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
26 5 0.03
27 156 0.96
28 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.07, T:0.40
Consensus pattern (27 bp):
CCCTCGATTTACAGAATTACTATTTTA
Found at i:34007827 original size:27 final size:27
Alignment explanation
Indices: 34007797--34008034 Score: 205
Period size: 27 Copynumber: 8.7 Consensus size: 27
34007787 ATCGATTTAC
*
34007797 AAAATTACTAAAATACCCTTAGTTTGT
1 AAAATTACCAAAATACCCTTAGTTTGT
*
34007824 AAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCTTAGTTTGT
* *
34007851 AAAATTACCAAAATATCCTTGGTTTGT
1 AAAATTACCAAAATACCCTTAGTTTGT
* * * *
34007878 GAAATTACCGAAATACCCTCAATTTGT
1 AAAATTACCAAAATACCCTTAGTTTGT
*
34007905 AAAATTACCAAAATACCCTT-GATT-T
1 AAAATTACCAAAATACCCTTAGTTTGT
* *
34007930 ACAAAGTTA-CATAAATACCCTTGACTTTCT
1 A-AAA-TTACCA-AAATACCCTT-AGTTTGT
* * * **
34007960 AAAAATTA-TAGAAATACCATTGGTTTAC
1 -AAAATTACCA-AAATACCCTTAGTTTGT
**
34007988 AAAATTACTGAAATACCCTTAGTTTGT
1 AAAATTACCAAAATACCCTTAGTTTGT
* * *
34008015 AGATTTACCAAAACACCCTT
1 AAAATTACCAAAATACCCTT
34008035 GTAGGATGAA
Statistics
Matches: 168, Mismatches: 35, Indels: 16
0.77 0.16 0.07
Matches are distributed among these distances:
25 2 0.01
26 7 0.04
27 135 0.80
28 4 0.02
29 15 0.09
30 4 0.02
31 1 0.01
ACGTcount: A:0.40, C:0.19, G:0.08, T:0.33
Consensus pattern (27 bp):
AAAATTACCAAAATACCCTTAGTTTGT
Found at i:34007830 original size:54 final size:52
Alignment explanation
Indices: 34007610--34007833 Score: 214
Period size: 54 Copynumber: 4.2 Consensus size: 52
34007600 TGATTTACAG
* * * * * *
34007610 AATTACCGTTTTACCCCCGATTTACATAATTACTGTTTTACCCCTGATTTACA
1 AATTACCATTTTACCCTCGATTTACAGAATTACTATTTTACCCTTGTTTTA-A
* * *
34007663 TAATTATCATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTATAA
1 -AATTACCATTTTACCCTCGATTTACAGAATTACTATTTTACCCTTG-TTT-TAA
* * *
34007718 AATTACCGTTTTACCCTCGATTTATAGAATTACTATTTTACCCTTGATTTACA
1 AATTACCATTTTACCCTCGATTTACAGAATTACTATTTTACCCTTGTTTTA-A
* * * ***
34007771 GAATTACTATTTTACCATCGATTTACAAAATTACTAAAATACCCTTAGTTTGTAA
1 -AATTACCATTTTACCCTCGATTTACAGAATTACTATTTTACCCTT-GTTT-TAA
34007826 AATTACCA
1 AATTACCA
34007834 AAATACCCCT
Statistics
Matches: 139, Mismatches: 25, Indels: 12
0.79 0.14 0.07
Matches are distributed among these distances:
52 2 0.01
53 3 0.02
54 123 0.88
55 7 0.05
56 4 0.03
ACGTcount: A:0.32, C:0.21, G:0.07, T:0.40
Consensus pattern (52 bp):
AATTACCATTTTACCCTCGATTTACAGAATTACTATTTTACCCTTGTTTTAA
Found at i:34007841 original size:81 final size:82
Alignment explanation
Indices: 34007540--34007932 Score: 262
Period size: 81 Copynumber: 4.9 Consensus size: 82
34007530 AATACCGAAA
** * * * *
34007540 TACCATCGATTTGTAAAATTACTGAAATA-CCTTCGACTTGTAAATTTACCAAAGTACCCCTGAT
1 TACCATCGATTTACAAAATTACTGAAATACCCTTCGATTTGTAAAATTACCAAATTACCCTTGAT
*
34007604 TTACAGAATTACCGTTT
66 TTACAGAATTACCATTT
** * *** * ** * * ** *
34007621 TACCCCCGATTTACATAATTACTGTTTTACCCCT-GATTTACATAATTATCATTTTACCCTCGAT
1 TACCATCGATTTACAAAATTACTGAAATACCCTTCGATTTGTAAAATTACCAAATTACCCTTGAT
34007685 TTACAGAATTACCATTT
66 TTACAGAATTACCATTT
* * * *** * * * **
34007702 TACCCTCGATTTATAAAATTACCGTTTTACCC-TCGATTTATAGAATTACTATTTTACCCTTGAT
1 TACCATCGATTTACAAAATTACTGAAATACCCTTCGATTTGTAAAATTACCAAATTACCCTTGAT
*
34007766 TTACAGAATTACTATTT
66 TTACAGAATTACCATTT
* * * * *
34007783 TACCATCGATTTACAAAATTACTAAAATACCCTTAG-TTTGTAAAATTACCAAAATACCCCTAGT
1 TACCATCGATTTACAAAATTACTGAAATACCCTTCGATTTGTAAAATTACCAAATTA-CCCTTGA
***
34007847 TTGTA-A-AATTACCAAAA
65 TT-TACAGAATTACCATTT
* * *** * * *
34007864 TATCC-TTGGTTTGTGAAATTACCGAAATACCC-TCAATTTGTAAAATTACCAAAATACCCTTGA
1 TA-CCATCGATTTACAAAATTACTGAAATACCCTTCGATTTGTAAAATTACCAAATTACCCTTGA
34007927 TTTACA
65 TTTACA
34007933 AAGTTACATA
Statistics
Matches: 242, Mismatches: 62, Indels: 17
0.75 0.19 0.05
Matches are distributed among these distances:
79 2 0.01
80 10 0.04
81 213 0.88
82 15 0.06
83 2 0.01
ACGTcount: A:0.34, C:0.21, G:0.08, T:0.37
Consensus pattern (82 bp):
TACCATCGATTTACAAAATTACTGAAATACCCTTCGATTTGTAAAATTACCAAATTACCCTTGAT
TTACAGAATTACCATTT
Found at i:34008130 original size:27 final size:27
Alignment explanation
Indices: 34008053--34008130 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 27
34008043 AAATGACTAA
* *
34008053 AATACCCCTAT-TAGGTAAAAAGACCGT
1 AATACCCCTGTAT-GGTAAAATGACCGT
* *
34008080 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTATGGTAAAATGACCGT
34008107 AATACCCCTGTATGGTAAAATGAC
1 AATACCCCTGTATGGTAAAATGAC
34008131 GAATATGCCC
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
26 1 0.02
27 40 0.95
28 1 0.02
ACGTcount: A:0.36, C:0.22, G:0.21, T:0.22
Consensus pattern (27 bp):
AATACCCCTGTATGGTAAAATGACCGT
Found at i:34009305 original size:25 final size:25
Alignment explanation
Indices: 34009276--34009323 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
34009266 TTATAATATG
* * *
34009276 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
34009301 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
34009324 GTTTATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:34009390 original size:20 final size:20
Alignment explanation
Indices: 34009367--34009430 Score: 110
Period size: 20 Copynumber: 3.2 Consensus size: 20
34009357 TAAACATAAT
34009367 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
*
34009387 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAC
*
34009407 ATGTATGATATGCACATGAG
1 ATGTATGATATGCACATGAC
34009427 ATGT
1 ATGT
34009431 TCATAAATGC
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.34, C:0.11, G:0.22, T:0.33
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:34009407 original size:11 final size:11
Alignment explanation
Indices: 34009371--34009425 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
34009361 CATAATATGT
34009371 ATGATATGCAC
1 ATGATATGCAC
* *
34009382 ATGACATG--T
1 ATGATATGCAC
34009391 ATGATATGCAC
1 ATGATATGCAC
*
34009402 ATGATATG--T
1 ATGATATGCAC
34009411 ATGATATGCAC
1 ATGATATGCAC
34009422 ATGA
1 ATGA
34009426 GATGTTCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:34009605 original size:24 final size:24
Alignment explanation
Indices: 34009477--34009645 Score: 238
Period size: 25 Copynumber: 7.0 Consensus size: 24
34009467 AGGAAGTGCA
34009477 AAAGGGCTTATGCCCCAGTTAT-T
1 AAAGGGCTTATGCCCCAGTTATAT
34009500 AAAGGGCTTATGCCCCAGTTAT-T
1 AAAGGGCTTATGCCCCAGTTATAT
34009523 AAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTAT-AT
34009548 AAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTAT-AT
*
34009573 AAAGGGCTTATGCCCCAGTTATAA
1 AAAGGGCTTATGCCCCAGTTATAT
*
34009597 AAAGGGCTTTTGCCCCAGTTACTA-
1 AAAGGGCTTATGCCCCAGTTA-TAT
*
34009621 AAAGTGGC-TAGGCCTCCAGTTATAT
1 AAAG-GGCTTATGCC-CCAGTTATAT
34009646 GATAAACCAG
Statistics
Matches: 136, Mismatches: 4, Indels: 10
0.91 0.03 0.07
Matches are distributed among these distances:
23 45 0.33
24 31 0.23
25 60 0.44
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.28
Consensus pattern (24 bp):
AAAGGGCTTATGCCCCAGTTATAT
Found at i:34009640 original size:49 final size:47
Alignment explanation
Indices: 34009476--34009645 Score: 236
Period size: 49 Copynumber: 3.5 Consensus size: 47
34009466 GAGGAAGTGC
34009476 AAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTATATAAAGGGCTTATGCCCCAGTTAT
*
34009522 TAAAGGGCTTATGCCCCAGTTATGATAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT-ATAAAGGGCTTATGCCCCAGTTAT
* *
34009570 GATAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTTTGCCCCAGTTACT
1 -A-AAAGGGCTTATGCCCCAGTTATATAAAGGGCTTATGCCCCAGTTA-T
*
34009620 AAAAGTGGC-TAGGCCTCCAGTTATAT
1 AAAAG-GGCTTATGCC-CCAGTTATAT
34009646 GATAAACCAG
Statistics
Matches: 111, Mismatches: 6, Indels: 11
0.87 0.05 0.09
Matches are distributed among these distances:
46 22 0.20
48 32 0.29
49 34 0.31
50 23 0.21
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.28
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATATAAAGGGCTTATGCCCCAGTTAT
Found at i:34009872 original size:31 final size:31
Alignment explanation
Indices: 34009837--34009900 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
34009827 CGTTTACAGT
*
34009837 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
* **
34009868 AAAGGCTTTGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
34009899 AA
1 AA
34009901 TATGAAAAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:34013968 original size:26 final size:26
Alignment explanation
Indices: 34013931--34013988 Score: 98
Period size: 26 Copynumber: 2.2 Consensus size: 26
34013921 TGATACAAAT
34013931 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
34013957 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
34013983 TGATAA
1 TGATAA
34013989 GAATTTCATG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:34015504 original size:26 final size:26
Alignment explanation
Indices: 34015475--34015527 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
34015465 TTTACAGTTT
*
34015475 TACCCTTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
34015501 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
34015527 T
1 T
34015528 GCATATTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:34016021 original size:137 final size:136
Alignment explanation
Indices: 34015776--34016060 Score: 534
Period size: 137 Copynumber: 2.1 Consensus size: 136
34015766 AGTAGTCTTT
*
34015776 CCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACTG
1 CCAAATGGGCTTGCATATGTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACTG
34015841 TTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCAC
66 TTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCAC
34015906 TGTTAC
131 TGTTAC
34015912 CCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
1 CCAAATGGGCTTGCATATG-TTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
34015977 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
65 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
34016042 CTGTTAC
130 CTGTTAC
**
34016049 CTGAATGGGCTT
1 CCAAATGGGCTT
34016061 AGGCGTAATA
Statistics
Matches: 145, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
136 19 0.13
137 126 0.87
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.32
Consensus pattern (136 bp):
CCAAATGGGCTTGCATATGTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACTG
TTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCAC
TGTTAC
Found at i:34019877 original size:26 final size:26
Alignment explanation
Indices: 34019840--34019923 Score: 159
Period size: 26 Copynumber: 3.2 Consensus size: 26
34019830 TGATACAAAT
*
34019840 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
34019866 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
34019892 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
34019918 TGATAA
1 TGATAA
34019924 GAATTTCATG
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 57 1.00
ACGTcount: A:0.33, C:0.04, G:0.25, T:0.38
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:34021439 original size:26 final size:26
Alignment explanation
Indices: 34021410--34021462 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
34021400 TTTACAGTTT
*
34021410 TACCCTTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
34021436 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
34021462 T
1 T
34021463 GCATGTTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:34021955 original size:137 final size:136
Alignment explanation
Indices: 34021710--34021995 Score: 509
Period size: 137 Copynumber: 2.1 Consensus size: 136
34021700 GAGTAGTCTC
* *
34021710 CCCAAATGGGCTTGCGTATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
1 CCCAAATGGGCTTGCATATGTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
34021775 GTTATCTGAATAAGAGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGAGCTCTGGCCCAGTACCA
66 GTTATCTGAATAAGAGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGAGCTCTGGCCCAGTACCA
34021840 CTGTTA
131 CTGTTA
34021846 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATG-TTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
* *
34021911 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
65 TGTTATCTGAATAAGAGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGAGCTCTGGCCCAGTACC
34021976 ACTGTTA
130 ACTGTTA
**
34021983 CCTGAATGGGCTT
1 CCCAAATGGGCTT
34021996 AGGCCCAAGA
Statistics
Matches: 143, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
136 19 0.13
137 124 0.87
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (136 bp):
CCCAAATGGGCTTGCATATGTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
GTTATCTGAATAAGAGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGAGCTCTGGCCCAGTACCA
CTGTTA
Found at i:34023099 original size:23 final size:23
Alignment explanation
Indices: 34023055--34023113 Score: 84
Period size: 23 Copynumber: 2.6 Consensus size: 23
34023045 CCAATAGGAG
*
34023055 ACTTCTGTT-TTAGTCATACAGT
1 ACTTCTGTTATTAGTAATACAGT
* *
34023077 ACTTTTGTTATTAGTAATTCAGT
1 ACTTCTGTTATTAGTAATACAGT
34023100 ACTTCTGTTATTAG
1 ACTTCTGTTATTAG
34023114 CACTTTGGTG
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
22 8 0.25
23 24 0.75
ACGTcount: A:0.24, C:0.14, G:0.14, T:0.49
Consensus pattern (23 bp):
ACTTCTGTTATTAGTAATACAGT
Found at i:34024236 original size:17 final size:18
Alignment explanation
Indices: 34024198--34024239 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
34024188 TTGTCATATG
*
34024198 AATTAAATTAATTATTAT
1 AATTAAATTAATTATGAT
*
34024216 -ATTAATTTAATT-TGAT
1 AATTAAATTAATTATGAT
34024232 AATTAAAT
1 AATTAAAT
34024240 ATTGTGCACT
Statistics
Matches: 20, Mismatches: 3, Indels: 3
0.77 0.12 0.12
Matches are distributed among these distances:
16 3 0.15
17 17 0.85
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (18 bp):
AATTAAATTAATTATGAT
Found at i:34027838 original size:48 final size:49
Alignment explanation
Indices: 34027767--34027868 Score: 145
Period size: 48 Copynumber: 2.1 Consensus size: 49
34027757 CATTCCAGGA
* * * *
34027767 GTAAATAAGTTTTAATGAGTGAAAACACGC-AATATGTTAT-TTGAATTG
1 GTAAATAAGTTTTAATAAGTGAAAACACCCTAAAATGTTATGCT-AATTG
34027815 GTAAATAAGTTTTAATAAGTGAAAACACCCTAAAATGTTATGCTAATTG
1 GTAAATAAGTTTTAATAAGTGAAAACACCCTAAAATGTTATGCTAATTG
34027864 GTAAA
1 GTAAA
34027869 GTCGATCATG
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
48 28 0.58
49 19 0.40
50 1 0.02
ACGTcount: A:0.42, C:0.08, G:0.17, T:0.33
Consensus pattern (49 bp):
GTAAATAAGTTTTAATAAGTGAAAACACCCTAAAATGTTATGCTAATTG
Found at i:34030819 original size:28 final size:28
Alignment explanation
Indices: 34030787--34030882 Score: 93
Period size: 28 Copynumber: 3.4 Consensus size: 28
34030777 ATTTGTCACG
* * *
34030787 AAGGCTTCCATTTTCTTCGATCACCACA
1 AAGGCTTCCATTATCATAGATCACCACA
**
34030815 AAGGCTTCCATTATCATAGATTGCCACA
1 AAGGCTTCCATTATCATAGATCACCACA
* ** ** *
34030843 AAGGCTTCAATGGTCATAGATTGCTACA
1 AAGGCTTCCATTATCATAGATCACCACA
34030871 AAGGCTTCCATT
1 AAGGCTTCCATT
34030883 GCCTGTCGTT
Statistics
Matches: 57, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 57 1.00
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.30
Consensus pattern (28 bp):
AAGGCTTCCATTATCATAGATCACCACA
Found at i:34034181 original size:119 final size:120
Alignment explanation
Indices: 34033999--34034221 Score: 283
Period size: 119 Copynumber: 1.9 Consensus size: 120
34033989 TCCTCGTTCA
* *
34033999 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATACCTTCGGGACTTAACCCGGAT
* * *
34034064 TTAGTAAC-TCGCACAATTGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTTAGCACAA-AGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
* * **
34034119 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATACCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATACCTTCGGGA-CTTAACCCGG
* * *
34034181 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
34034222 CATCATTCAA
Statistics
Matches: 88, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
118 4 0.05
119 65 0.74
120 19 0.22
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATACCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:34034221 original size:40 final size:40
Alignment explanation
Indices: 34033997--34034221 Score: 269
Period size: 40 Copynumber: 5.7 Consensus size: 40
34033987 GCTCCTCGTT
* *
34033997 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
34034037 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * *
34034077 CAATTGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
34034117 CCAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * * *
34034156 CAAATACCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
34034197 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
34034222 CATCATTCAA
Statistics
Matches: 160, Mismatches: 19, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
38 2 0.01
39 30 0.19
40 116 0.73
41 12 0.08
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:34042148 original size:119 final size:120
Alignment explanation
Indices: 34041966--34042188 Score: 301
Period size: 119 Copynumber: 1.9 Consensus size: 120
34041956 TCCTCGTTCA
*
34041966 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* *
34042031 TTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
* * **
34042086 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* * *
34042148 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
34042189 CATCATTCAA
Statistics
Matches: 90, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
118 4 0.04
119 66 0.73
120 20 0.22
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:34042188 original size:40 final size:40
Alignment explanation
Indices: 34041964--34042188 Score: 287
Period size: 40 Copynumber: 5.7 Consensus size: 40
34041954 GCTCCTCGTT
* *
34041964 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
34042004 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
34042044 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
34042084 CCAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
34042123 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
34042164 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
34042189 CATCATTCAA
Statistics
Matches: 164, Mismatches: 15, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
38 2 0.01
39 31 0.19
40 119 0.73
41 12 0.07
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:34047932 original size:28 final size:28
Alignment explanation
Indices: 34047896--34047974 Score: 104
Period size: 28 Copynumber: 2.8 Consensus size: 28
34047886 GAATCATTCG
34047896 ATATTTCACACACTAAGTGCCATTCTCA
1 ATATTTCACACACTAAGTGCCATTCTCA
* * **
34047924 ATATCTCACATACTAAGTTTCATTCTCA
1 ATATTTCACACACTAAGTGCCATTCTCA
**
34047952 ATATTTTGCACACTAAGTGCCAT
1 ATATTTCACACACTAAGTGCCAT
34047975 ATTTGATGTC
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.32, C:0.25, G:0.08, T:0.35
Consensus pattern (28 bp):
ATATTTCACACACTAAGTGCCATTCTCA
Found at i:34051438 original size:30 final size:29
Alignment explanation
Indices: 34051402--34051465 Score: 110
Period size: 30 Copynumber: 2.2 Consensus size: 29
34051392 ATGAATCGGA
34051402 AGCTTTGGCACTAAGTGTGCGATTTAAACT
1 AGCTTTGGCACTAAGTGTGCGATTT-AACT
*
34051432 AGCTTTGGCACTAAGTGTGCTATTTAACT
1 AGCTTTGGCACTAAGTGTGCGATTTAACT
34051461 AGCTT
1 AGCTT
34051466 CGGCTACTTG
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 9 0.27
30 24 0.73
ACGTcount: A:0.25, C:0.17, G:0.22, T:0.36
Consensus pattern (29 bp):
AGCTTTGGCACTAAGTGTGCGATTTAACT
Found at i:34058706 original size:30 final size:29
Alignment explanation
Indices: 34058672--34058739 Score: 109
Period size: 30 Copynumber: 2.3 Consensus size: 29
34058662 ATGAATCAGA
**
34058672 AGCTTTGGCACTAAGTGTGTGATTTAAACT
1 AGCTTTGGCACTAAGTGTGCAATTT-AACT
34058702 AGCTTTGGCACTAAGTGTGCAATTTAACT
1 AGCTTTGGCACTAAGTGTGCAATTTAACT
34058731 AGCTTTGGC
1 AGCTTTGGC
34058740 TACTTGAGGC
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
29 13 0.36
30 23 0.64
ACGTcount: A:0.25, C:0.16, G:0.24, T:0.35
Consensus pattern (29 bp):
AGCTTTGGCACTAAGTGTGCAATTTAACT
Found at i:34062286 original size:72 final size:72
Alignment explanation
Indices: 34062164--34062299 Score: 245
Period size: 72 Copynumber: 1.9 Consensus size: 72
34062154 AGTGCACTCG
* *
34062164 GAAGGTAAATTTATCTTTCTTACCGATTTCTTTATTTTAGAATGTGAAGCTGAACAAGATGTGCT
1 GAAGATAAATTTATCTTTCTTACCGATTTCTTTATTTTAGAATGTGAAGCTAAACAAGATGTGCT
34062229 AGTAAGA
66 AGTAAGA
*
34062236 GAAGATAAATTTATCTTTCTTACTGATTTCTTTATTTTAGAATGTGAAGCTAAACAAGATGTGC
1 GAAGATAAATTTATCTTTCTTACCGATTTCTTTATTTTAGAATGTGAAGCTAAACAAGATGTGC
34062300 CAATTATTCT
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
72 61 1.00
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.39
Consensus pattern (72 bp):
GAAGATAAATTTATCTTTCTTACCGATTTCTTTATTTTAGAATGTGAAGCTAAACAAGATGTGCT
AGTAAGA
Found at i:34088119 original size:43 final size:43
Alignment explanation
Indices: 34088070--34088164 Score: 133
Period size: 43 Copynumber: 2.2 Consensus size: 43
34088060 TACTACATAG
34088070 GGTCTTACACG-AA-ATCAATTA-ATGATGCCAATGTCCCAGACAT
1 GGTCTTACACGTAATATCAA-TACA--ATGCCAATGTCCCAGACAT
*
34088113 GGTCTTACACGTAATCTCAATACAATGCCAATGTCCCAGACAT
1 GGTCTTACACGTAATATCAATACAATGCCAATGTCCCAGACAT
34088156 GGTCTTACA
1 GGTCTTACA
34088165 TATAATCCGA
Statistics
Matches: 48, Mismatches: 1, Indels: 6
0.87 0.02 0.11
Matches are distributed among these distances:
43 39 0.81
44 4 0.08
45 5 0.10
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.26
Consensus pattern (43 bp):
GGTCTTACACGTAATATCAATACAATGCCAATGTCCCAGACAT
Found at i:34102874 original size:198 final size:197
Alignment explanation
Indices: 34102629--34103026 Score: 679
Period size: 198 Copynumber: 2.0 Consensus size: 197
34102619 TCCTTCACTT
* * * *
34102629 GGAACCACGCATGCGACCTAGCTACATATATCCTGTAGCTCTCTTGTCTACACGGTGTACATATA
1 GGAACCACACATGCGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACACGGTGTACACACA
* * *
34102694 GTATCACCCATGTGACCTAGCTACATCATAATGTCTTGTAGCTCTCTTGTACACATGATGTGCAC
66 GTATCACCCATGCGACCTAGCTACATCATAATGTCTTGTAGCTCTATTGTACACATGATGTCCAC
34102759 TCAGCACTATACATGTGACCTAGCTACATACCATCTGTATCATCCAATCTTTCCGAAGGTTCAAC
131 TCAGCACTATACATGTGACCTAGCTACATACCATCTGTATCATCCAATCTTTCCGAAGGTTCAAC
34102824 CGA
196 C-A
* * *
34102827 GGAACCACACATGCGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTGCATGGTGTACACACG
1 GGAACCACACATGCGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACACGGTGTACACACA
34102892 GTATCACCCATGCGACCTAGCTACATCATAATGTCTTGTAGCTCTATTGTACACATGATGTCCAC
66 GTATCACCCATGCGACCTAGCTACATCATAATGTCTTGTAGCTCTATTGTACACATGATGTCCAC
* *
34102957 TCAGCACTATACATGTGACCTAGCTACATCCCATCTGTATCATCCAATTTTTCCGAAGGTTCAAC
131 TCAGCACTATACATGTGACCTAGCTACATACCATCTGTATCATCCAATCTTTCCGAAGGTTCAAC
34103022 CA
196 CA
34103024 GGA
1 GGA
34103027 TTTCTCTCTC
Statistics
Matches: 188, Mismatches: 12, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
197 4 0.02
198 184 0.98
ACGTcount: A:0.27, C:0.28, G:0.16, T:0.29
Consensus pattern (197 bp):
GGAACCACACATGCGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACACGGTGTACACACA
GTATCACCCATGCGACCTAGCTACATCATAATGTCTTGTAGCTCTATTGTACACATGATGTCCAC
TCAGCACTATACATGTGACCTAGCTACATACCATCTGTATCATCCAATCTTTCCGAAGGTTCAAC
CA
Found at i:34106032 original size:67 final size:67
Alignment explanation
Indices: 34105956--34106306 Score: 210
Period size: 64 Copynumber: 5.2 Consensus size: 67
34105946 AGTTTATCTC
* * * *
34105956 GTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGTAACCACGCATGCGACCTAGCTACAT-AT-A
1 GTAGCTCTCTTGTCTACATGGTGTAC-ACA-TAGT-ACCACCCATGCGACCTAGCTACATCATAA
34106019 -TCCT
63 GTCCT
*
34106023 GTAGCTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACATCATAATGT
1 GTAGCTCTCTTGTCTACATGGTGTACACATAGTACCACCCATGCGACCTAGCTACATCATAA-GT
*
34106088 CTT
65 CCT
* * * * ** * * *
34106091 GTAGCTCTCTTGTAC-ACATGATGTGCACTCACTCAGCACTATACATGTGACCTAGCTACATTAC
1 GTAGCTCTCTTGT-CTACATG--GTGTACACA-T-AGTACCACCCATGCGACCTAGCTACATCAT
*
34106155 CA-T-CT
61 AAGTCCT
* * *** * *
34106160 GTATCATCCAATCTT-TC--CGAAGGT-T-CAACCGGGGAACCACGCATGCGACCTAGCTACAT-
1 GTAGC-T-C--TCTTGTCTAC-ATGGTGTAC-A-CATAGTACCACCCATGCGACCTAGCTACATC
34106219 AT-A-TCCCT
59 ATAAGT-CCT
*
34106227 -TAGCTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACATCATAATGT
1 GTAGCTCTCTTGTCTACATGGTGTACACATAGTACCACCCATGCGACCTAGCTACATCATAA-GT
*
34106291 CTT
65 CCT
34106294 GTAGCTCTCTTGT
1 GTAGCTCTCTTGT
34106307 ACACATGATG
Statistics
Matches: 216, Mismatches: 40, Indels: 55
0.69 0.13 0.18
Matches are distributed among these distances:
62 4 0.02
63 2 0.01
64 51 0.24
65 13 0.06
66 9 0.04
67 51 0.24
68 34 0.16
69 9 0.04
70 10 0.05
71 5 0.02
72 24 0.11
73 4 0.02
ACGTcount: A:0.24, C:0.28, G:0.16, T:0.31
Consensus pattern (67 bp):
GTAGCTCTCTTGTCTACATGGTGTACACATAGTACCACCCATGCGACCTAGCTACATCATAAGTC
CT
Found at i:34106240 original size:203 final size:197
Alignment explanation
Indices: 34105991--34106386 Score: 713
Period size: 203 Copynumber: 2.0 Consensus size: 197
34105981 CTTCACTTGT
34105991 AACCACGCATGCGACCTAGCTACATATATCCTGTAGCTCTCTTGTCTACATGGTGTACACATAGT
1 AACCACGCATGCGACCTAGCTACATATATCCTGTAGCTCTCTTGTCTACATGGTGTACACATAGT
34106056 ATCACCCATGCGACCTAGCTACATCATAATGTCTTGTAGCTCTCTTGTACACATGATGTGCACTC
66 ATCACCCATGCGACCTAGCTACATCATAATGTCTTGTAGCTCTCTTGTACACATGATGTG----C
34106121 ACTCAGCACTATACATGTGACCTAGCTACATTACCATCTGTATCATCCAATCTTTCCGAAGGTTC
127 ACTCAGCACTAT-CATGTGACCTAGCTACA-TACCATCTGTATCATCCAATCTTTCCGAAGGTTC
34106186 AACCGGGG
190 AACCGGGG
34106194 AACCACGCATGCGACCTAGCTACATATATCCCT-TAGCTCTCTTGTCTACATGGTGTACACATAG
1 AACCACGCATGCGACCTAGCTACATATAT-CCTGTAGCTCTCTTGTCTACATGGTGTACACATAG
34106258 TATCACCCATGCGACCTAGCTACATCATAATGTCTTGTAGCTCTCTTGTACACATGATGTGCACT
65 TATCACCCATGCGACCTAGCTACATCATAATGTCTTGTAGCTCTCTTGTACACATGATGTGCACT
*
34106323 CAGCACTATCATGTGACCTAGCTACATCCCATCTGTATCATCCAATCTTTCCGAAGGTTCAACC
130 CAGCACTATCATGTGACCTAGCTACATACCATCTGTATCATCCAATCTTTCCGAAGGTTCAACC
34106387 AGGATTTCTC
Statistics
Matches: 191, Mismatches: 1, Indels: 8
0.95 0.00 0.04
Matches are distributed among these distances:
197 37 0.19
198 17 0.09
199 13 0.07
203 121 0.63
204 3 0.02
ACGTcount: A:0.26, C:0.29, G:0.15, T:0.29
Consensus pattern (197 bp):
AACCACGCATGCGACCTAGCTACATATATCCTGTAGCTCTCTTGTCTACATGGTGTACACATAGT
ATCACCCATGCGACCTAGCTACATCATAATGTCTTGTAGCTCTCTTGTACACATGATGTGCACTC
AGCACTATCATGTGACCTAGCTACATACCATCTGTATCATCCAATCTTTCCGAAGGTTCAACCGG
GG
Found at i:34108743 original size:29 final size:29
Alignment explanation
Indices: 34108676--34108771 Score: 140
Period size: 29 Copynumber: 3.3 Consensus size: 29
34108666 AAGTCTACAT
* * *
34108676 ACATGCATATGACCCACTAGGCCC-AATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
34108704 TCATTCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
34108733 ACATTCGTATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
34108762 ACATTCATAT
1 ACATTCATAT
34108772 ATATGCTTTC
Statistics
Matches: 60, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
28 20 0.33
29 40 0.67
ACGTcount: A:0.30, C:0.31, G:0.14, T:0.25
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAGGCCCAAATC
Found at i:34109023 original size:16 final size:16
Alignment explanation
Indices: 34108982--34109032 Score: 68
Period size: 16 Copynumber: 3.2 Consensus size: 16
34108972 GTAGCCAAAC
34108982 TTTCGGCTTTT-GGCA
1 TTTCGGCTTTTCGGCA
** *
34108997 TTTTAGCTTTTCGGCC
1 TTTCGGCTTTTCGGCA
34109013 TTTCGGCTTTTCGGCA
1 TTTCGGCTTTTCGGCA
34109029 TTTC
1 TTTC
34109033 AGGATTTGCT
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
15 9 0.31
16 20 0.69
ACGTcount: A:0.06, C:0.24, G:0.22, T:0.49
Consensus pattern (16 bp):
TTTCGGCTTTTCGGCA
Found at i:34114951 original size:27 final size:27
Alignment explanation
Indices: 34114914--34115118 Score: 205
Period size: 27 Copynumber: 7.6 Consensus size: 27
34114904 TAAATTGTAC
*
34114914 AGCACTAAGTGTGCGATTTGGCTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
34114941 AGCACTAAGTGTGCGATTTGACCATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** **
34114968 TGCACTAAGTGTGCGAAATGAAAATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
34114994 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
* *
34115022 GGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
** *
34115049 ATTACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* * * *
34115077 GGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
34115104 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
34115119 GACTTAATAT
Statistics
Matches: 148, Mismatches: 27, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
27 126 0.85
28 22 0.15
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:34114975 original size:54 final size:54
Alignment explanation
Indices: 34114915--34115118 Score: 239
Period size: 54 Copynumber: 3.8 Consensus size: 54
34114905 AAATTGTACA
* * *
34114915 GCACTAAGTGTGCGATTTGGCTATGTAGCACTAAGTGTGCGATTTGACCATGTT
1 GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGATTTGACCATGTG
** ** * *
34114969 GCACTAAGTGTGCGAAATGAAAATG-ATGCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAGTTGACTATGTA-GCACTAAGTGTGCGATTTGACCATGTG
** **
34115023 GCACTAAGTGTGCGAGTTGACTATGTATTACTAAGTGTGCGAGTTTGATTATGTG
1 GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGA-TTTGACCATGTG
* * *
34115078 GCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCG
34115119 GACTTAATAT
Statistics
Matches: 124, Mismatches: 23, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
53 1 0.01
54 78 0.63
55 45 0.36
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (54 bp):
GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGATTTGACCATGTG
Found at i:34123076 original size:27 final size:27
Alignment explanation
Indices: 34123039--34123243 Score: 223
Period size: 27 Copynumber: 7.6 Consensus size: 27
34123029 TAAATTGTAC
*
34123039 AGCACTAAGTGTGCGATTTGGCTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
34123066 AGCACTAAGTGTGCGATTTGACCATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** **
34123093 TGCACTAAGTGTGCGAAATGAAAATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
34123119 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
* *
34123147 GGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
34123174 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* * * *
34123202 GGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
34123229 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
34123244 GACTTAATAT
Statistics
Matches: 152, Mismatches: 23, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
27 128 0.84
28 24 0.16
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Done.