Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 ID=Chr07-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 60982465
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 868082 characters in sequence are not A, C, G, or T
File 122 of 204
Found at i:37269154 original size:83 final size:81
Alignment explanation
Indices: 37269008--37269249 Score: 297
Period size: 83 Copynumber: 2.9 Consensus size: 81
37268998 CTTTATTTAG
* * * *
37269008 TCAATGAAACAGCGCCGTTTTGTTAAATTTTTAATTTATTTTTTGTGGCGTTTTTATAGAAAACG
1 TCAATGAAACGGCGCCGTTTTGTTAAA-TTTTAATATATTTTTTGCGGCG-TTTTATACAAAACG
37269073 CCACTAATATTTAATTCA
64 CCACTAATATTTAATTCA
* * *
37269091 TCAATGAAATGGCGCCGTTTTATTAAATTCTTAATATATTTTTTACGGCGTTTGTATACAAAACG
1 TCAATGAAACGGCGCCGTTTTGTTAAATT-TTAATATATTTTTTGCGGCGTTT-TATACAAAACG
*
37269156 CCACTAATATTTAATTCG
64 CCACTAATATTTAATTCA
* * * * *
37269174 TCAATGAAACGGTGCCGTTTGGTTAAATTTTAAATGTATTTTTTGCGGCATTTT-TACCAAACGC
1 TCAATGAAACGGCGCCGTTTTGTTAAATTTT-AATATATTTTTTGCGGCGTTTTATACAAAACGC
*
37269238 CGCTAATGATTT
65 CACTAAT-ATTT
37269250 CACTTTTAAA
Statistics
Matches: 138, Mismatches: 17, Indels: 9
0.84 0.10 0.05
Matches are distributed among these distances:
81 15 0.11
82 12 0.09
83 111 0.80
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.41
Consensus pattern (81 bp):
TCAATGAAACGGCGCCGTTTTGTTAAATTTTAATATATTTTTTGCGGCGTTTTATACAAAACGCC
ACTAATATTTAATTCA
Found at i:37270197 original size:14 final size:14
Alignment explanation
Indices: 37270178--37270317 Score: 86
Period size: 14 Copynumber: 9.9 Consensus size: 14
37270168 CTAGTTAATC
37270178 TAAACCCTAAACCA
1 TAAACCCTAAACCA
*
37270192 TAAACCCTTAACACA
1 TAAACCCTAAAC-CA
*
37270207 T-AACCTCTAAACCT
1 TAAACC-CTAAACCA
* * *
37270221 TAAACCC-CAGCCTT
1 TAAACCCTAAACC-A
* * *
37270235 TTAACCATAAATCA
1 TAAACCCTAAACCA
*
37270249 TAACCCCTAAACCCA
1 TAAACCCTAAA-CCA
* * *
37270264 TAATCCATAAACCT
1 TAAACCCTAAACCA
*
37270278 TAAACTCTAAACCA
1 TAAACCCTAAACCA
*
37270292 TAGACCCTAAACCA
1 TAAACCCTAAACCA
* *
37270306 AAAAACCTAAAC
1 TAAACCCTAAAC
37270318 TATAGTGATA
Statistics
Matches: 93, Mismatches: 27, Indels: 12
0.70 0.20 0.09
Matches are distributed among these distances:
13 3 0.03
14 65 0.70
15 25 0.27
ACGTcount: A:0.45, C:0.34, G:0.01, T:0.20
Consensus pattern (14 bp):
TAAACCCTAAACCA
Found at i:37270261 original size:21 final size:20
Alignment explanation
Indices: 37270237--37270305 Score: 52
Period size: 21 Copynumber: 3.2 Consensus size: 20
37270227 CCAGCCTTTT
37270237 AACCATAAATCATAACCCCTA
1 AACCATAAATCATAA-CCCTA
*
37270258 AACCCAT-AATCCATAAACCTTA
1 AA-CCATAAAT-CAT-AACCCTA
*
37270280 AACTC-TAAACCATAGACCCTA
1 AAC-CATAAATCATA-ACCCTA
37270301 AACCA
1 AACCA
37270306 AAAAACCTAA
Statistics
Matches: 38, Mismatches: 3, Indels: 14
0.69 0.05 0.25
Matches are distributed among these distances:
20 2 0.05
21 18 0.47
22 16 0.42
23 2 0.05
ACGTcount: A:0.46, C:0.33, G:0.01, T:0.19
Consensus pattern (20 bp):
AACCATAAATCATAACCCTA
Found at i:37270618 original size:41 final size:41
Alignment explanation
Indices: 37270498--37270822 Score: 447
Period size: 41 Copynumber: 8.0 Consensus size: 41
37270488 TTTTAAATCT
*
37270498 CTGAGCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGC
1 CTGAGCATTAGCGGCGCTTCATCAAAAACGCCGCTAAAGGC
37270539 CTGAGCATTAGCGGC-CTTCCA-CAAAAACGCCGCTAAAGGC
1 CTGAGCATTAGCGGCGCTT-CATCAAAAACGCCGCTAAAGGC
* * * * *
37270579 CTGAACATTCGCGGCGCTTTATAAAAAATGCCGCTAAAGGC
1 CTGAGCATTAGCGGCGCTTCATCAAAAACGCCGCTAAAGGC
* * * * *
37270620 CTGAGCATTAGCGACGCTTCCTCACAAACACTGCTAAAGGC
1 CTGAGCATTAGCGGCGCTTCATCAAAAACGCCGCTAAAGGC
**
37270661 CTGAGCATTAGCGGCGCTTTGTCAAAAACGCCGCTAAAGGC
1 CTGAGCATTAGCGGCGCTTCATCAAAAACGCCGCTAAAGGC
* * * *
37270702 ATGAGCATTAGTGACGCTTCCTCAAAAACGCCGCTAAAGGC
1 CTGAGCATTAGCGGCGCTTCATCAAAAACGCCGCTAAAGGC
*
37270743 CTGAGCATTAGCGGCGCTTTATCAAAAACGCCGCTAAAGGC
1 CTGAGCATTAGCGGCGCTTCATCAAAAACGCCGCTAAAGGC
* *
37270784 CTAAGCATTAGCGGCGCTTCCTCAAAAACGCCGCTAAAG
1 CTGAGCATTAGCGGCGCTTCATCAAAAACGCCGCTAAAG
37270823 CCCCGAAAAC
Statistics
Matches: 246, Mismatches: 35, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
40 36 0.15
41 210 0.85
ACGTcount: A:0.30, C:0.29, G:0.23, T:0.19
Consensus pattern (41 bp):
CTGAGCATTAGCGGCGCTTCATCAAAAACGCCGCTAAAGGC
Found at i:37270688 original size:82 final size:82
Alignment explanation
Indices: 37270498--37270822 Score: 501
Period size: 82 Copynumber: 4.0 Consensus size: 82
37270488 TTTTAAATCT
* *
37270498 CTGAGCATTAGCGGCGCTTCT-TCAAAAACGCCGCTAAAGGCCTGAGCATTAGCGGC-CTTCCAC
1 CTGAGCATTAGCGGCGCTT-TATCAAAAACGCCGCTAAAGGCCTGAGCATTAGCGACGCTTCCTC
37270561 AAAAACGCCGCTAAAGGC
65 AAAAACGCCGCTAAAGGC
* * * *
37270579 CTGAACATTCGCGGCGCTTTATAAAAAATGCCGCTAAAGGCCTGAGCATTAGCGACGCTTCCTCA
1 CTGAGCATTAGCGGCGCTTTATCAAAAACGCCGCTAAAGGCCTGAGCATTAGCGACGCTTCCTCA
* * *
37270644 CAAACACTGCTAAAGGC
66 AAAACGCCGCTAAAGGC
* * *
37270661 CTGAGCATTAGCGGCGCTTTGTCAAAAACGCCGCTAAAGGCATGAGCATTAGTGACGCTTCCTCA
1 CTGAGCATTAGCGGCGCTTTATCAAAAACGCCGCTAAAGGCCTGAGCATTAGCGACGCTTCCTCA
37270726 AAAACGCCGCTAAAGGC
66 AAAACGCCGCTAAAGGC
* *
37270743 CTGAGCATTAGCGGCGCTTTATCAAAAACGCCGCTAAAGGCCTAAGCATTAGCGGCGCTTCCTCA
1 CTGAGCATTAGCGGCGCTTTATCAAAAACGCCGCTAAAGGCCTGAGCATTAGCGACGCTTCCTCA
37270808 AAAACGCCGCTAAAG
66 AAAACGCCGCTAAAG
37270823 CCCCGAAAAC
Statistics
Matches: 218, Mismatches: 24, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
80 1 0.00
81 49 0.22
82 168 0.77
ACGTcount: A:0.30, C:0.29, G:0.23, T:0.19
Consensus pattern (82 bp):
CTGAGCATTAGCGGCGCTTTATCAAAAACGCCGCTAAAGGCCTGAGCATTAGCGACGCTTCCTCA
AAAACGCCGCTAAAGGC
Found at i:37270932 original size:39 final size:40
Alignment explanation
Indices: 37270879--37270972 Score: 113
Period size: 40 Copynumber: 2.4 Consensus size: 40
37270869 GCGCTTCGTG
* *
37270879 GAAAACGCCGCTAATGCTT-A-TTTATAGTGGCGTTTT-TAA
1 GAAAGCGCCGCTAATGCTTGACCTT-TAGTGGCGTTTTAT-A
* *
37270918 TAAAGCGCCACTAATGCTTGACCTTTAGTGGCGTTTTATA
1 GAAAGCGCCGCTAATGCTTGACCTTTAGTGGCGTTTTATA
37270958 GAAAGCGCCGCTAAT
1 GAAAGCGCCGCTAAT
37270973 TCTCCATCTT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
39 16 0.35
40 27 0.59
41 3 0.07
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.32
Consensus pattern (40 bp):
GAAAGCGCCGCTAATGCTTGACCTTTAGTGGCGTTTTATA
Found at i:37270951 original size:40 final size:41
Alignment explanation
Indices: 37270903--37270995 Score: 109
Period size: 40 Copynumber: 2.3 Consensus size: 41
37270893 TGCTTATTTA
* **
37270903 TAGTGGCGTTTTTA-ATAAAGCGCCACTAATGCTTGACCTT
1 TAGTGGCGTTTTTATAGAAAGCGCCACTAATGCTCCACCTT
* * *
37270943 TAGTGGCG-TTTTATAGAAAGCGCCGCTAATTCTCCATCTT
1 TAGTGGCGTTTTTATAGAAAGCGCCACTAATGCTCCACCTT
*
37270983 TAGCGGCGTTTTT
1 TAGTGGCGTTTTT
37270996 TATTCAAACG
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
39 5 0.11
40 35 0.80
41 4 0.09
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.37
Consensus pattern (41 bp):
TAGTGGCGTTTTTATAGAAAGCGCCACTAATGCTCCACCTT
Found at i:37271018 original size:12 final size:12
Alignment explanation
Indices: 37271001--37271026 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
37270991 TTTTTTATTC
37271001 AAACGCCGCTAA
1 AAACGCCGCTAA
37271013 AAACGCCGCTAA
1 AAACGCCGCTAA
37271025 AA
1 AA
37271027 GCCTATTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.31, G:0.15, T:0.08
Consensus pattern (12 bp):
AAACGCCGCTAA
Found at i:37275414 original size:15 final size:16
Alignment explanation
Indices: 37275383--37275415 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
37275373 AGGTAAAACT
37275383 AAAATCTTTATGTAAA
1 AAAATCTTTATGTAAA
37275399 AAAATCTTTATG-AAA
1 AAAATCTTTATGTAAA
37275414 AA
1 AA
37275416 GATATTCATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.55, C:0.06, G:0.06, T:0.33
Consensus pattern (16 bp):
AAAATCTTTATGTAAA
Found at i:37282225 original size:19 final size:19
Alignment explanation
Indices: 37282201--37282242 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
37282191 ATAGGTTAGA
* *
37282201 TAATTAAATAATTTAGAAT
1 TAATTAAAAAAATTAGAAT
37282220 TAATTAAAAAAATTAGAAT
1 TAATTAAAAAAATTAGAAT
37282239 TAAT
1 TAAT
37282243 AATTTTAGGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (19 bp):
TAATTAAAAAAATTAGAAT
Found at i:37286624 original size:27 final size:27
Alignment explanation
Indices: 37286586--37286781 Score: 161
Period size: 27 Copynumber: 7.3 Consensus size: 27
37286576 GATTTGTGGG
37286586 AAAATGACTGAAATACCCCCGATA-GGT
1 AAAATGACTGAAATACCCCC-ATAGGGT
* *
37286613 AAAATGACTGAAATACCCCTACAGGGT
1 AAAATGACTGAAATACCCCCATAGGGT
* * *
37286640 AAATTGACCGAAATACCCCCAAAGGGT
1 AAAATGACTGAAATACCCCCATAGGGT
* * * *
37286667 GAAATAACAGAAATACCCTCGAT-GGG-
1 AAAATGACTGAAATACCC-CCATAGGGT
* *
37286693 AGAAATGAC-CAAATTA-CTCCATAGGGT
1 A-AAATGACTGAAA-TACCCCCATAGGGT
* * *
37286720 AAAATGACTAAAATACCTCGA-AGGGT
1 AAAATGACTGAAATACCCCCATAGGGT
* * *
37286746 GAAATGACCGAAATACCCCCATAAGGT
1 AAAATGACTGAAATACCCCCATAGGGT
37286773 AAAATGACT
1 AAAATGACT
37286782 ATTATACCCC
Statistics
Matches: 133, Mismatches: 27, Indels: 18
0.75 0.15 0.10
Matches are distributed among these distances:
25 3 0.02
26 39 0.29
27 89 0.67
28 2 0.02
ACGTcount: A:0.42, C:0.21, G:0.19, T:0.18
Consensus pattern (27 bp):
AAAATGACTGAAATACCCCCATAGGGT
Found at i:37286768 original size:53 final size:53
Alignment explanation
Indices: 37286587--37286782 Score: 204
Period size: 53 Copynumber: 3.7 Consensus size: 53
37286577 ATTTGTGGGA
* * * *
37286587 AAATGACTGAAATACCCCCGATA-GGTAAAATGACTGAAATACCCCTACAGGGT-
1 AAATGACCGAAATACCCCC-ATAGGGTAAAATGACTAAAATACCTCGA-AGGGTG
* * * * *
37286640 AAATTGACCGAAATACCCCCAAAGGGTGAAATAAC-AGAAATACCCTCGATGGGAG
1 AAA-TGACCGAAATACCCCCATAGGGTAAAATGACTA-AAATA-CCTCGAAGGGTG
*
37286695 AAATGACC-AAATTA-CTCCATAGGGTAAAATGACTAAAATACCTCGAAGGGTG
1 AAATGACCGAAA-TACCCCCATAGGGTAAAATGACTAAAATACCTCGAAGGGTG
*
37286747 AAATGACCGAAATACCCCCATAAGGTAAAATGACTA
1 AAATGACCGAAATACCCCCATAGGGTAAAATGACTA
37286783 TTATACCCCT
Statistics
Matches: 117, Mismatches: 17, Indels: 18
0.77 0.11 0.12
Matches are distributed among these distances:
52 20 0.17
53 50 0.43
54 40 0.34
55 7 0.06
ACGTcount: A:0.42, C:0.21, G:0.19, T:0.18
Consensus pattern (53 bp):
AAATGACCGAAATACCCCCATAGGGTAAAATGACTAAAATACCTCGAAGGGTG
Found at i:37286956 original size:26 final size:26
Alignment explanation
Indices: 37286926--37287026 Score: 103
Period size: 26 Copynumber: 3.9 Consensus size: 26
37286916 TGGAGGAAGT
*
37286926 ATACTGTTACTGGCAACTTTGCTGCG
1 ATACTGTTACTGGCAGCTTTGCTGCG
* * * *
37286952 ATACTGTTGCTAGTAGCTTTGTTGCG
1 ATACTGTTACTGGCAGCTTTGCTGCG
* * * *
37286978 ATACTGTTACTGGTAGCTTTACTACA
1 ATACTGTTACTGGCAGCTTTGCTGCG
* *
37287004 ATTCTATTACTGGCAGCTTTGCT
1 ATACTGTTACTGGCAGCTTTGCT
37287027 AAGATATTGG
Statistics
Matches: 60, Mismatches: 15, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
26 60 1.00
ACGTcount: A:0.20, C:0.20, G:0.21, T:0.40
Consensus pattern (26 bp):
ATACTGTTACTGGCAGCTTTGCTGCG
Found at i:37287181 original size:28 final size:28
Alignment explanation
Indices: 37287149--37287228 Score: 108
Period size: 28 Copynumber: 2.9 Consensus size: 28
37287139 ATACTATTTA
* *
37287149 GGGCTAAGGGCTACATTGTTACTGTATT
1 GGGCTAAGGCCCACATTGTTACTGTATT
*
37287177 GGGCTAAGGCCCACATTGTTGCTGTATT
1 GGGCTAAGGCCCACATTGTTACTGTATT
* *
37287205 GAGCTAAGGCCCACACTG-TACTGT
1 GGGCTAAGGCCCACATTGTTACTGT
37287229 TACTGAATAG
Statistics
Matches: 46, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
27 5 0.11
28 41 0.89
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.30
Consensus pattern (28 bp):
GGGCTAAGGCCCACATTGTTACTGTATT
Found at i:37299990 original size:13 final size:13
Alignment explanation
Indices: 37299972--37299997 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
37299962 ATAGATCATT
37299972 ATACAATCACACA
1 ATACAATCACACA
37299985 ATACAATCACACA
1 ATACAATCACACA
37299998 CAAGGTTTAG
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:0.54, C:0.31, G:0.00, T:0.15
Consensus pattern (13 bp):
ATACAATCACACA
Found at i:37300687 original size:21 final size:22
Alignment explanation
Indices: 37300662--37300705 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
37300652 TGGAGAGATT
*
37300662 ATGG-TGCTAAAAATTGGCAGC
1 ATGGTTGCTAAAAATTGGAAGC
*
37300683 ATGGTTGCTGAAAATTGGAAGC
1 ATGGTTGCTAAAAATTGGAAGC
37300705 A
1 A
37300706 AAAAGGAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.34, C:0.11, G:0.30, T:0.25
Consensus pattern (22 bp):
ATGGTTGCTAAAAATTGGAAGC
Found at i:37300794 original size:27 final size:28
Alignment explanation
Indices: 37300746--37300803 Score: 66
Period size: 27 Copynumber: 2.1 Consensus size: 28
37300736 GAAGAAAGGA
*
37300746 AAAAAATGAAAGAAAAGCAAAAGA-AGAG
1 AAAAAATGAAAGAAAAG-AAAAAATAGAG
* *
37300774 AAAAAA-GAAAGACAATAAAAAATAGAG
1 AAAAAATGAAAGAAAAGAAAAAATAGAG
37300801 AAA
1 AAA
37300804 GAAAAGGGGA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
26 5 0.19
27 15 0.58
28 6 0.23
ACGTcount: A:0.74, C:0.03, G:0.17, T:0.05
Consensus pattern (28 bp):
AAAAAATGAAAGAAAAGAAAAAATAGAG
Found at i:37301354 original size:14 final size:14
Alignment explanation
Indices: 37301335--37301414 Score: 97
Period size: 14 Copynumber: 5.6 Consensus size: 14
37301325 TACATTATTG
* *
37301335 GAGCTACTTTGTGT
1 GAGCTACCTTGTGC
37301349 GAGCTACCTTGTGC
1 GAGCTACCTTGTGC
*
37301363 GAACTACCTTGTGC
1 GAGCTACCTTGTGC
*
37301377 GAGCTTCCTTGTGC
1 GAGCTACCTTGTGC
* *
37301391 GAGTTACTCTTGTAC
1 GAGCTAC-CTTGTGC
37301406 GAGCTACCT
1 GAGCTACCT
37301415 AATGTGTGAG
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
14 44 0.79
15 12 0.21
ACGTcount: A:0.16, C:0.25, G:0.25, T:0.34
Consensus pattern (14 bp):
GAGCTACCTTGTGC
Found at i:37301977 original size:76 final size:76
Alignment explanation
Indices: 37301841--37302008 Score: 221
Period size: 76 Copynumber: 2.2 Consensus size: 76
37301831 TTTTGTGAAC
* * * * * *
37301841 CATCATTGTCGGGTAACCCGGGATGATAGATTTGATTCGATAAACCATCATTGTTGGGCAATCCT
1 CATCATTGTCGGGCAACCCAGGATGACAAATTTGATTCGATAAACCATCATTGCTAGGCAAT-CT
*
37301906 TA-GTGGTAGGT
65 AAGGTGGTAGGT
* * *
37301917 CATCATTTTCGGGCAACTCAGGATGACAAATTTGATTCGATAAACCATCTTTGCTAGGCAATCTA
1 CATCATTGTCGGGCAACCCAGGATGACAAATTTGATTCGATAAACCATCATTGCTAGGCAATCTA
37301982 AGGTGGTAGGT
66 AGGTGGTAGGT
*
37301993 CATCGTTGTCGGGCAA
1 CATCATTGTCGGGCAA
37302009 TCTAAGTTGA
Statistics
Matches: 79, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
75 3 0.04
76 76 0.96
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.30
Consensus pattern (76 bp):
CATCATTGTCGGGCAACCCAGGATGACAAATTTGATTCGATAAACCATCATTGCTAGGCAATCTA
AGGTGGTAGGT
Found at i:37307182 original size:14 final size:13
Alignment explanation
Indices: 37307163--37307219 Score: 57
Period size: 14 Copynumber: 4.5 Consensus size: 13
37307153 CAAACAAAAG
37307163 AAAAATTAAAATGT
1 AAAAATTAAAAT-T
37307177 AAAAATT-AAATT
1 AAAAATTAAAATT
*
37307189 AAAAACATAAAATT
1 AAAAA-TTAAAATT
*
37307203 -AAAA-TAAAAAT
1 AAAAATTAAAATT
37307214 AAAAAT
1 AAAAAT
37307220 GCTAAACTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
11 6 0.16
12 10 0.27
13 9 0.24
14 12 0.32
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.25
Consensus pattern (13 bp):
AAAAATTAAAATT
Found at i:37315400 original size:85 final size:84
Alignment explanation
Indices: 37315257--37315604 Score: 412
Period size: 85 Copynumber: 4.1 Consensus size: 84
37315247 AAAAATAAAT
* **
37315257 GCCGCTATAGACTATTACCTTTAGCGGCGCTTTTCCACAAACGCCACTATAGATCAAGACCTATA
1 GCCGCTATAGACCAAGACCTTTAGCGGCGCTTTT-CACAAACGCCACTATAGATCAAGACCTATA
* *
37315322 GTGGCGCTTTTCCTACAAAC
65 GCGACGCTTTTCCTACAAAC
*
37315342 GCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTACACAAACGCCACTATAGATCAAGACCTATA
1 GCCGCTATAGACCAAGACCTTTAGCGGCGCTTTT-CACAAACGCCACTATAGATCAAGACCTATA
* * *
37315407 GCGGCGCTTTTCCAAAAAAC
65 GCGACGCTTTTCCTACAAAC
* * * * * *
37315427 GCCGCTAAAAACCATGATCTTTAGCGGCGCTTTTCTAACAAACGCCGCTATAGATCAAGACCTTT
1 GCCGCTATAGACCAAGACCTTTAGCGGCGCTTTTC--ACAAACGCCACTATAGATCAAGACCTAT
*
37315492 AGCGACGCTTTT-TTCACAAAC
64 AGCGACGCTTTTCCT-ACAAAC
* * * *
37315513 GCAGCTATAGACCAAGACCTTTAGCGGCGCTTTTCTCACAAATGCCGCTATAGAT-AAGACCTTT
1 GCCGCTATAGACCAAGACCTTTAGCGGCGC-TTT-TCACAAACGCCACTATAGATCAAGACCTAT
***
37315577 AGCGACGCTTTAATTACAAAC
64 AGCGACGCTTTTCCTACAAAC
37315598 GCCGCTA
1 GCCGCTA
37315605 AAAATACCAT
Statistics
Matches: 230, Mismatches: 27, Indels: 12
0.86 0.10 0.04
Matches are distributed among these distances:
84 1 0.00
85 138 0.60
86 86 0.37
87 3 0.01
88 2 0.01
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.25
Consensus pattern (84 bp):
GCCGCTATAGACCAAGACCTTTAGCGGCGCTTTTCACAAACGCCACTATAGATCAAGACCTATAG
CGACGCTTTTCCTACAAAC
Found at i:37315522 original size:171 final size:170
Alignment explanation
Indices: 37315275--37315587 Score: 468
Period size: 171 Copynumber: 1.8 Consensus size: 170
37315265 AGACTATTAC
* * *
37315275 CTTTAGCGGCGCTTTTCCACAAACGCCACTATAGATCAAGACCTATAGTGGCGCTTTTCCTACAA
1 CTTTAGCGGCGCTTTTCAACAAACGCCACTATAGATCAAGACCTATAGCGACGCTTTTCCTACAA
* *
37315340 ACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTT-ACACAAACGCCACTATAGATCAAGACCT
66 ACGCAGCTATAGACCAAGACCTTTAGCGGCGCTTTTCACACAAACGCCACTATAGAT-AAGACCT
*
37315404 ATAGCGGCGCTTTTCCAAAAAACGCCGCTAAAAACCATGAT
130 ATAGCGACGCTTTTCCAAAAAACGCCGCTAAAAACCATGAT
* * *
37315445 CTTTAGCGGCGCTTTTCTAACAAACGCCGCTATAGATCAAGACCTTTAGCGACGCTTTT-TTCAC
1 CTTTAGCGGCGCTTTTC-AACAAACGCCACTATAGATCAAGACCTATAGCGACGCTTTTCCT-AC
* * *
37315509 AAACGCAGCTATAGACCAAGACCTTTAGCGGCGCTTTTCTCACAAATGCCGCTATAGATAAGACC
64 AAACGCAGCTATAGACCAAGACCTTTAGCGGCGCTTTTCACACAAACGCCACTATAGATAAGACC
*
37315574 TTTAGCGACGCTTT
129 TATAGCGACGCTTT
37315588 AATTACAAAC
Statistics
Matches: 127, Mismatches: 13, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
170 18 0.14
171 92 0.72
172 17 0.13
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.26
Consensus pattern (170 bp):
CTTTAGCGGCGCTTTTCAACAAACGCCACTATAGATCAAGACCTATAGCGACGCTTTTCCTACAA
ACGCAGCTATAGACCAAGACCTTTAGCGGCGCTTTTCACACAAACGCCACTATAGATAAGACCTA
TAGCGACGCTTTTCCAAAAAACGCCGCTAAAAACCATGAT
Found at i:37315586 original size:42 final size:42
Alignment explanation
Indices: 37315273--37315604 Score: 407
Period size: 43 Copynumber: 7.8 Consensus size: 42
37315263 ATAGACTATT
*
37315273 ACCTTTAGCGGCGCTTTTCCACAAACGCCACTATAGATCAAG
1 ACCTTTAGCGGCGCTTTTCCACAAACGCCGCTATAGATCAAG
* *
37315315 ACCTATAGTGGCGCTTTTCCTACAAACGCCGCTATAGATCAAG
1 ACCTTTAGCGGCGCTTTTCC-ACAAACGCCGCTATAGATCAAG
* *
37315358 ACCTTTAGCGGCGCTTTTACACAAACGCCACTATAGATCAAG
1 ACCTTTAGCGGCGCTTTTCCACAAACGCCGCTATAGATCAAG
* * * * * *
37315400 ACCTATAGCGGCGCTTTTCCAAAAAACGCCGCTAAAAACCATG
1 ACCTTTAGCGGCGCTTTTCC-ACAAACGCCGCTATAGATCAAG
* *
37315443 ATCTTTAGCGGCGCTTTTCTAACAAACGCCGCTATAGATCAAG
1 ACCTTTAGCGGCGCTTTTC-CACAAACGCCGCTATAGATCAAG
* * * *
37315486 ACCTTTAGCGACGCTTTTTTCACAAACGCAGCTATAGACCAAG
1 ACCTTTAGCGGCGC-TTTTCCACAAACGCCGCTATAGATCAAG
*
37315529 ACCTTTAGCGGCGCTTTTCTCACAAATGCCGCTATAGAT-AAG
1 ACCTTTAGCGGCGCTTTTC-CACAAACGCCGCTATAGATCAAG
* *
37315571 ACCTTTAGCGACGCTTTAAT-TACAAACGCCGCTA
1 ACCTTTAGCGGCGCTTT--TCCACAAACGCCGCTA
37315605 AAAATACCAT
Statistics
Matches: 246, Mismatches: 37, Indels: 14
0.83 0.12 0.05
Matches are distributed among these distances:
42 92 0.37
43 149 0.61
44 5 0.02
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (42 bp):
ACCTTTAGCGGCGCTTTTCCACAAACGCCGCTATAGATCAAG
Found at i:37320883 original size:22 final size:21
Alignment explanation
Indices: 37320858--37320913 Score: 67
Period size: 22 Copynumber: 2.6 Consensus size: 21
37320848 TCCTTATCCT
*
37320858 TTAAACCCTAAATCACAACCCC
1 TTAAACCCTAAACCACAA-CCC
* *
37320880 TTAAACCTTAAACCCCAACCC
1 TTAAACCCTAAACCACAACCC
37320901 TTAAACCCCTAAA
1 TTAAA-CCCTAAA
37320914 ACCTAAATCT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
21 8 0.28
22 21 0.72
ACGTcount: A:0.41, C:0.39, G:0.00, T:0.20
Consensus pattern (21 bp):
TTAAACCCTAAACCACAACCC
Found at i:37321462 original size:41 final size:40
Alignment explanation
Indices: 37321387--37321668 Score: 377
Period size: 41 Copynumber: 6.9 Consensus size: 40
37321377 GCGCTTTTCG
* *
37321387 AAAAACGCCGC-AAAGATCAGACCATTAGCGGCGCTTCATC
1 AAAAACGCCGCTAAAGACCAGAGCATTAGCGGCGCTTCA-C
*
37321427 AAAAACGCCGCTATAGACCAGAGCATTAGCGGCGCTTCAC
1 AAAAACGCCGCTAAAGACCAGAGCATTAGCGGCGCTTCAC
* *
37321467 AAAAAACGCCGCTATAGACCAGAGCATTAGCGGCGCTTTACC
1 -AAAAACGCCGCTAAAGACCAGAGCATTAGCGGCGCTTCA-C
* * *
37321509 AAAAACGCCGCTATAGACCAAAGCATTAGCGGTGCTTCCAC
1 AAAAACGCCGCTAAAGACCAGAGCATTAGCGGCGCTT-CAC
*
37321550 AAAAACGCCGCTAAAGGCCAGAGCATTAGCGGCGCTTCCAC
1 AAAAACGCCGCTAAAGACCAGAGCATTAGCGGCGCTT-CAC
* *
37321591 AAAAACGCCGCTAAAGGCCAGAGCATTAGCGGCGCTTTCCC
1 AAAAACGCCGCTAAAGACCAGAGCATTAGCGGCGC-TTCAC
* * *
37321632 AAAAACGCCGCTAAAGGCCCGAGCACTAGCGGCGCTT
1 AAAAACGCCGCTAAAGACCAGAGCATTAGCGGCGCTT
37321669 TTTGAGAAAC
Statistics
Matches: 223, Mismatches: 14, Indels: 10
0.90 0.06 0.04
Matches are distributed among these distances:
40 14 0.06
41 205 0.92
42 4 0.02
ACGTcount: A:0.32, C:0.30, G:0.23, T:0.15
Consensus pattern (40 bp):
AAAAACGCCGCTAAAGACCAGAGCATTAGCGGCGCTTCAC
Found at i:37321688 original size:123 final size:123
Alignment explanation
Indices: 37321374--37321668 Score: 416
Period size: 123 Copynumber: 2.4 Consensus size: 123
37321364 AATACATTTT
* * * *
37321374 GCGGCGCTTTTCGAAAAACGCCGC-AAAGATCAGACCATTAGCGGCGCTTCATCAAAAACGCCGC
1 GCGGCGCTTTACCAAAAACGCCGCTAAAGACCAGAGCATTAGCGGCGCTTCATCAAAAACGCCGC
* *
37321438 TATAGACCAGAGCATTAGCGGCGCTTCACAAAAAACGCCGCTATAGACCAGAGCATTA
66 TAAAGACCAGAGCATTAGCGGCGCTTCACAAAAAACGCCGCTAAAGACCAGAGCATTA
* * *
37321496 GCGGCGCTTTACCAAAAACGCCGCTATAGACCAAAGCATTAGCGGTGCTTCCA-CAAAAACGCCG
1 GCGGCGCTTTACCAAAAACGCCGCTAAAGACCAGAGCATTAGCGGCGCTT-CATCAAAAACGCCG
* *
37321560 CTAAAGGCCAGAGCATTAGCGGCGCTTC-CACAAAAACGCCGCTAAAGGCCAGAGCATTA
65 CTAAAGACCAGAGCATTAGCGGCGCTTCACA-AAAAACGCCGCTAAAGACCAGAGCATTA
* * * *
37321619 GCGGCGCTTTCCCAAAAACGCCGCTAAAGGCCCGAGCACTAGCGGCGCTT
1 GCGGCGCTTTACCAAAAACGCCGCTAAAGACCAGAGCATTAGCGGCGCTT
37321669 TTTGAGAAAC
Statistics
Matches: 152, Mismatches: 18, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
122 24 0.16
123 126 0.83
124 2 0.01
ACGTcount: A:0.31, C:0.31, G:0.23, T:0.15
Consensus pattern (123 bp):
GCGGCGCTTTACCAAAAACGCCGCTAAAGACCAGAGCATTAGCGGCGCTTCATCAAAAACGCCGC
TAAAGACCAGAGCATTAGCGGCGCTTCACAAAAAACGCCGCTAAAGACCAGAGCATTA
Found at i:37322958 original size:10 final size:10
Alignment explanation
Indices: 37322945--37322969 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
37322935 GAATTTGTCG
37322945 AAAATAAATC
1 AAAATAAATC
37322955 AAAATAAATC
1 AAAATAAATC
37322965 AAAAT
1 AAAAT
37322970 TTATTATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.72, C:0.08, G:0.00, T:0.20
Consensus pattern (10 bp):
AAAATAAATC
Found at i:37324375 original size:28 final size:28
Alignment explanation
Indices: 37324344--37324404 Score: 86
Period size: 28 Copynumber: 2.2 Consensus size: 28
37324334 AGAAAAAGGA
*
37324344 AAGAAATTGAAACGACAGCATAAGGAAC
1 AAGAAATTGAAACGACAACATAAGGAAC
* * *
37324372 AAGAAATTGAAATGGCAACCTAAGGAAC
1 AAGAAATTGAAACGACAACATAAGGAAC
37324400 AAGAA
1 AAGAA
37324405 GCCAAAAAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.54, C:0.13, G:0.21, T:0.11
Consensus pattern (28 bp):
AAGAAATTGAAACGACAACATAAGGAAC
Found at i:37327504 original size:26 final size:28
Alignment explanation
Indices: 37327452--37327504 Score: 65
Period size: 29 Copynumber: 1.9 Consensus size: 28
37327442 CTTAGGGTCG
* *
37327452 AAATTAGAATTTTTTTTAGGATCGAAATT
1 AAATTAGAATTTTTTGTA-GATAGAAATT
37327481 AAATTAGAA-TTTTTGT-GATAGAAA
1 AAATTAGAATTTTTTGTAGATAGAAA
37327505 AAAATGTAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
26 7 0.32
28 6 0.27
29 9 0.41
ACGTcount: A:0.42, C:0.02, G:0.15, T:0.42
Consensus pattern (28 bp):
AAATTAGAATTTTTTGTAGATAGAAATT
Found at i:37334422 original size:20 final size:20
Alignment explanation
Indices: 37334397--37334439 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
37334387 TTTTTCTTCC
37334397 CATTGAAAGGACAACAGCAG
1 CATTGAAAGGACAACAGCAG
* *
37334417 CATTGAAGGGACAACAGTAG
1 CATTGAAAGGACAACAGCAG
37334437 CAT
1 CAT
37334440 GGTGGTGAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.42, C:0.19, G:0.26, T:0.14
Consensus pattern (20 bp):
CATTGAAAGGACAACAGCAG
Found at i:37335723 original size:17 final size:17
Alignment explanation
Indices: 37335701--37335737 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
37335691 TTGTCTTCAA
37335701 ATCCCTTTCCATGTGAT
1 ATCCCTTTCCATGTGAT
37335718 ATCCCTTTCCATGTGAT
1 ATCCCTTTCCATGTGAT
37335735 ATC
1 ATC
37335738 TCCAAATTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.19, C:0.30, G:0.11, T:0.41
Consensus pattern (17 bp):
ATCCCTTTCCATGTGAT
Found at i:37340171 original size:23 final size:23
Alignment explanation
Indices: 37340140--37340183 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
37340130 TCAACAACTT
37340140 AGGTCCGAGTGTTAAATAACCAA
1 AGGTCCGAGTGTTAAATAACCAA
*
37340163 AGGTTCGAGTGTTAAATAACC
1 AGGTCCGAGTGTTAAATAACC
37340184 TAAGCTCTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (23 bp):
AGGTCCGAGTGTTAAATAACCAA
Found at i:37341189 original size:20 final size:20
Alignment explanation
Indices: 37341164--37341207 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
37341154 TGCAACCATT
*
37341164 AATGCTGTTGTTGTCCCTTC
1 AATGCTGCTGTTGTCCCTTC
37341184 AATGCTGCTGTTGTCCCTTC
1 AATGCTGCTGTTGTCCCTTC
37341204 AATG
1 AATG
37341208 GGAAGAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.14, C:0.25, G:0.20, T:0.41
Consensus pattern (20 bp):
AATGCTGCTGTTGTCCCTTC
Found at i:37341262 original size:9 final size:10
Alignment explanation
Indices: 37341243--37341299 Score: 55
Period size: 11 Copynumber: 5.6 Consensus size: 10
37341233 GGAAGACAGA
37341243 AAGAAAAGAG
1 AAGAAAAGAG
*
37341253 -AGAAAGGAG
1 AAGAAAAGAG
*
37341262 AAGAAAAAAAG
1 AAG-AAAAGAG
37341273 AAGAAGAAGAG
1 AAGAA-AAGAG
37341284 AAGAAGAAGA-
1 AAGAA-AAGAG
37341294 AAGAAA
1 AAGAAA
37341300 GAAAAAGAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
9 9 0.22
10 9 0.22
11 22 0.55
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (10 bp):
AAGAAAAGAG
Found at i:37341272 original size:14 final size:14
Alignment explanation
Indices: 37341242--37341310 Score: 68
Period size: 14 Copynumber: 5.0 Consensus size: 14
37341232 CGGAAGACAG
* *
37341242 AAAGAA-AAGAGAG
1 AAAGAAGAAGAAAA
*
37341255 AAAGGAGAAGAAAA
1 AAAGAAGAAGAAAA
*
37341269 AAAGAAGAAGAAGA
1 AAAGAAGAAGAAAA
* *
37341283 GAAGAAGAAGAAAG
1 AAAGAAGAAGAAAA
*
37341297 AAAGAAAAAGAAAA
1 AAAGAAGAAGAAAA
37341311 GGTAATGTAT
Statistics
Matches: 44, Mismatches: 11, Indels: 1
0.79 0.20 0.02
Matches are distributed among these distances:
13 5 0.11
14 39 0.89
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (14 bp):
AAAGAAGAAGAAAA
Found at i:37341292 original size:28 final size:28
Alignment explanation
Indices: 37341242--37341304 Score: 85
Period size: 28 Copynumber: 2.3 Consensus size: 28
37341232 CGGAAGACAG
*
37341242 AAAGAAAAG-AGAGAAAGGAGAAGAAAA
1 AAAGAAAAGAAGAGAAAGAAGAAGAAAA
*
37341269 AAAGAAGAAGAAGAG-AAGAAGAAGAAAG
1 AAAGAA-AAGAAGAGAAAGAAGAAGAAAA
37341297 AAAGAAAA
1 AAAGAAAA
37341305 AGAAAAGGTA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
27 8 0.25
28 20 0.62
29 4 0.12
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (28 bp):
AAAGAAAAGAAGAGAAAGAAGAAGAAAA
Found at i:37341311 original size:11 final size:12
Alignment explanation
Indices: 37341235--37341311 Score: 63
Period size: 14 Copynumber: 6.2 Consensus size: 12
37341225 TCACCACCGG
37341235 AAGACAGAAAGAA
1 AAGA-AGAAAGAA
*
37341248 AAGAGAGAAAGGAG
1 AAGA-AGAAA-GAA
37341262 AAGAA-AAA-AA
1 AAGAAGAAAGAA
37341272 GAAGAAGAAGAGAA
1 -AAGAAGAA-AGAA
37341286 GAAGAAGAAAG-A
1 -AAGAAGAAAGAA
37341298 AAGAA-AAAGAA
1 AAGAAGAAAGAA
37341309 AAG
1 AAG
37341312 GTAATGTATT
Statistics
Matches: 55, Mismatches: 3, Indels: 14
0.76 0.04 0.19
Matches are distributed among these distances:
10 5 0.09
11 14 0.25
12 6 0.11
13 13 0.24
14 17 0.31
ACGTcount: A:0.70, C:0.01, G:0.29, T:0.00
Consensus pattern (12 bp):
AAGAAGAAAGAA
Found at i:37341538 original size:60 final size:60
Alignment explanation
Indices: 37341473--37341591 Score: 202
Period size: 60 Copynumber: 2.0 Consensus size: 60
37341463 TTGCTTTTTA
* * *
37341473 TAATTATTTTAAAATTAATTTGTTAGTAATTTAGGATTATGTTATAAATTTTTGTGTTTG
1 TAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTAAGTTATAAATTGTTGTGTTTG
*
37341533 TAATTATTTTAAAATTAATTTATTAGTAATTTATGATTAAGTTATAAATTGTTGTGTTT
1 TAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTAAGTTATAAATTGTTGTGTTT
37341592 AGTTTAGTTT
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
60 55 1.00
ACGTcount: A:0.34, C:0.00, G:0.12, T:0.55
Consensus pattern (60 bp):
TAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTAAGTTATAAATTGTTGTGTTTG
Found at i:37341747 original size:17 final size:17
Alignment explanation
Indices: 37341725--37341766 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
37341715 ATAATGTAAT
* *
37341725 TTTATTTTATTTTTTTA
1 TTTATTTAAATTTTTTA
37341742 TTTATTTAAATTTTTTA
1 TTTATTTAAATTTTTTA
*
37341759 TTGATTTA
1 TTTATTTA
37341767 TTAAAATGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (17 bp):
TTTATTTAAATTTTTTA
Found at i:37341765 original size:21 final size:19
Alignment explanation
Indices: 37341734--37341773 Score: 53
Period size: 21 Copynumber: 2.0 Consensus size: 19
37341724 TTTTATTTTA
*
37341734 TTTTTTTATTTATTTAAAT
1 TTTTTTTATTTATTAAAAT
37341753 TTTTTATTGATTTATTAAAAT
1 TTTTT-TT-ATTTATTAAAAT
37341774 GTTGATTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 5 0.28
20 2 0.11
21 11 0.61
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (19 bp):
TTTTTTTATTTATTAAAAT
Found at i:37345854 original size:33 final size:33
Alignment explanation
Indices: 37345796--37345867 Score: 83
Period size: 33 Copynumber: 2.2 Consensus size: 33
37345786 TCTTAGCTTA
*
37345796 TATCCACCTCAATACTCCACTCCTTCCGG-CTCG
1 TATCCACCTCAATACTCCACCCCTTCCGGCCT-G
* * * *
37345829 TATCCACCTTAGTACTCCGCCCCTTCTGGCCTG
1 TATCCACCTCAATACTCCACCCCTTCCGGCCTG
37345862 TATCCA
1 TATCCA
37345868 TCGCCGCACT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
33 31 0.94
34 2 0.06
ACGTcount: A:0.17, C:0.43, G:0.11, T:0.29
Consensus pattern (33 bp):
TATCCACCTCAATACTCCACCCCTTCCGGCCTG
Found at i:37349476 original size:27 final size:27
Alignment explanation
Indices: 37349363--37349486 Score: 151
Period size: 27 Copynumber: 4.6 Consensus size: 27
37349353 GCCCCACCAT
* * *
37349363 TCGCGCCTCTGAGTTAGGCACAACTAC
1 TCGCGCCTCTGAGATAGGCTCAACTAG
* * * *
37349390 TCACGCCTGTCAGATAGGCTGAACTAG
1 TCGCGCCTCTGAGATAGGCTCAACTAG
* *
37349417 CCGCGCCTGTGAGATAGGCTCAACTAGG
1 TCGCGCCTCTGAGATAGGCTCAACTA-G
37349445 T-GCGCCTCTGAGATAGGCTCAACTAG
1 TCGCGCCTCTGAGATAGGCTCAACTAG
37349471 TCGCGCCTCTGAGATA
1 TCGCGCCTCTGAGATA
37349487 TGTTTCATAT
Statistics
Matches: 82, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
26 2 0.02
27 79 0.96
28 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.27, T:0.22
Consensus pattern (27 bp):
TCGCGCCTCTGAGATAGGCTCAACTAG
Found at i:37350592 original size:27 final size:27
Alignment explanation
Indices: 37350558--37350612 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
37350548 CCCAGAGAAA
37350558 AAACATTACTACTTCAACCGCTAAGAG
1 AAACATTACTACTTCAACCGCTAAGAG
37350585 AAACATTACTACTTCAACCGCTAAGAG
1 AAACATTACTACTTCAACCGCTAAGAG
37350612 A
1 A
37350613 TTCATGACAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.42, C:0.25, G:0.11, T:0.22
Consensus pattern (27 bp):
AAACATTACTACTTCAACCGCTAAGAG
Found at i:37354962 original size:18 final size:18
Alignment explanation
Indices: 37354935--37354971 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
37354925 GTTAATTGGT
37354935 ATTTTGTCTTTTTATGCA
1 ATTTTGTCTTTTTATGCA
*
37354953 ATTTTTTCTTTTTATGCA
1 ATTTTGTCTTTTTATGCA
37354971 A
1 A
37354972 AGTCTTCATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.19, C:0.11, G:0.08, T:0.62
Consensus pattern (18 bp):
ATTTTGTCTTTTTATGCA
Found at i:37354983 original size:19 final size:18
Alignment explanation
Indices: 37354941--37354984 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
37354931 TGGTATTTTG
** *
37354941 TCTTTTTATGCAATTTTT
1 TCTTTTTATGCAAAGTCT
37354959 TCTTTTTATGCAAAGTCT
1 TCTTTTTATGCAAAGTCT
*
37354977 TCATTTTA
1 TCTTTTTA
37354985 GTGTTAGTCA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.20, C:0.14, G:0.07, T:0.59
Consensus pattern (18 bp):
TCTTTTTATGCAAAGTCT
Found at i:37356520 original size:60 final size:60
Alignment explanation
Indices: 37356441--37356554 Score: 138
Period size: 60 Copynumber: 1.9 Consensus size: 60
37356431 CTTTTTTTTC
* * *
37356441 CTAATTTGCTACCTAAACTTGACACTTTTTCTTAAGTTGGTACTTAAACTTTTTGGGGGT
1 CTAATTTGATACCTAAACTTGACACTTTTTCCTAAGTTGGTACCTAAACTTTTTGGGGGT
* * ** * * *
37356501 CTAATTTGATATCTGAACTTGATTCTTTTTCCTAATTTGTTACCTAATCTTTTT
1 CTAATTTGATACCTAAACTTGACACTTTTTCCTAAGTTGGTACCTAAACTTTTT
37356555 TTTTTGTTCA
Statistics
Matches: 44, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
60 44 1.00
ACGTcount: A:0.23, C:0.17, G:0.12, T:0.48
Consensus pattern (60 bp):
CTAATTTGATACCTAAACTTGACACTTTTTCCTAAGTTGGTACCTAAACTTTTTGGGGGT
Found at i:37357075 original size:59 final size:59
Alignment explanation
Indices: 37356932--37357095 Score: 213
Period size: 59 Copynumber: 2.7 Consensus size: 59
37356922 ATTTAATAAA
* * *
37356932 TTTAGGTACCAAATTAATAAAAAATGTCTAGTTCAGTTACCAAATTGGGCTAAAAAAAAG
1 TTTAGGTACCAAATTAAGAAAAAGTGTCAAGTTCAG-TACCAAATTGGGCTAAAAAAAAG
* * * *
37356992 TTTAGGTACCAAATTAGGATAAAGTGTCAAGTTCATGTACCAAATTGGGC-CAAAAAGAG
1 TTTAGGTACCAAATTAAGAAAAAGTGTCAAGTTCA-GTACCAAATTGGGCTAAAAAAAAG
* *
37357051 TTTAGGTACCAAATTAAGAAAAAGTGTAAAGTTTAGGTACCAAAT
1 TTTAGGTACCAAATTAAGAAAAAGTGTCAAGTTCA-GTACCAAAT
37357096 GTTATATTAA
Statistics
Matches: 91, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
59 47 0.52
60 43 0.47
61 1 0.01
ACGTcount: A:0.43, C:0.12, G:0.18, T:0.27
Consensus pattern (59 bp):
TTTAGGTACCAAATTAAGAAAAAGTGTCAAGTTCAGTACCAAATTGGGCTAAAAAAAAG
Found at i:37357087 original size:31 final size:31
Alignment explanation
Indices: 37356988--37357095 Score: 109
Period size: 31 Copynumber: 3.6 Consensus size: 31
37356978 GGGCTAAAAA
*
37356988 AAAGTTTAGGTACCAAATTAGGATAAAGTGT
1 AAAGTTTAGGTACCAAATTAGGAAAAAGTGT
* * * *
37357019 CAAGTTCATGTACCAAATTGGGCCAAAAA--G-
1 AAAGTTTAGGTACCAAATTAGG--AAAAAGTGT
*
37357049 --AGTTTAGGTACCAAATTAAGAAAAAGTGT
1 AAAGTTTAGGTACCAAATTAGGAAAAAGTGT
37357078 AAAGTTTAGGTACCAAAT
1 AAAGTTTAGGTACCAAAT
37357096 GTTATATTAA
Statistics
Matches: 61, Mismatches: 9, Indels: 14
0.73 0.11 0.17
Matches are distributed among these distances:
26 5 0.08
28 17 0.28
31 35 0.57
33 4 0.07
ACGTcount: A:0.43, C:0.11, G:0.20, T:0.26
Consensus pattern (31 bp):
AAAGTTTAGGTACCAAATTAGGAAAAAGTGT
Found at i:37364946 original size:22 final size:22
Alignment explanation
Indices: 37364921--37364963 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
37364911 ATTTCGTATC
*
37364921 ATATTACATATC-AGAGCATATT
1 ATATAACATATCGA-AGCATATT
*
37364943 ATATAATATATCGAAGCATAT
1 ATATAACATATCGAAGCATAT
37364964 CATGTAACGT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 17 0.94
23 1 0.06
ACGTcount: A:0.44, C:0.12, G:0.09, T:0.35
Consensus pattern (22 bp):
ATATAACATATCGAAGCATATT
Found at i:37367412 original size:76 final size:76
Alignment explanation
Indices: 37367272--37367412 Score: 183
Period size: 76 Copynumber: 1.9 Consensus size: 76
37367262 GTGGCCGCCA
* * * *** * *
37367272 AATTTAATGATGTCTTAAATGGTGTCCAGCTGAATTTCATTGTCATTACTTCATTTAATTTGTCT
1 AATTTAATGATGTCTTAAATGGTGTCCAGCTGAAGTTAATTGTCACTACCGAATTAAATATGTCT
37367337 TGCTACTACCG
66 TGCTACTACCG
** *
37367348 AATTTAATGATGTCTTAAATGGTGTCCAGCTGAAGTTAATTGTGGCTGCCGAATTAAATATGTCT
1 AATTTAATGATGTCTTAAATGGTGTCCAGCTGAAGTTAATTGTCACTACCGAATTAAATATGTCT
37367413 AGTTGACCCA
Statistics
Matches: 54, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
76 54 1.00
ACGTcount: A:0.27, C:0.15, G:0.18, T:0.40
Consensus pattern (76 bp):
AATTTAATGATGTCTTAAATGGTGTCCAGCTGAAGTTAATTGTCACTACCGAATTAAATATGTCT
TGCTACTACCG
Found at i:37367501 original size:25 final size:25
Alignment explanation
Indices: 37367473--37367528 Score: 85
Period size: 25 Copynumber: 2.2 Consensus size: 25
37367463 TGTGTGCAGG
37367473 TGCATGAACAGCATTAAAAGAAGCA
1 TGCATGAACAGCATTAAAAGAAGCA
* * *
37367498 TGCATGAACGGCATTCAAGGAAGCA
1 TGCATGAACAGCATTAAAAGAAGCA
37367523 TGCATG
1 TGCATG
37367529 CTGATTTATT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.39, C:0.18, G:0.25, T:0.18
Consensus pattern (25 bp):
TGCATGAACAGCATTAAAAGAAGCA
Found at i:37369948 original size:26 final size:26
Alignment explanation
Indices: 37369906--37370226 Score: 74
Period size: 27 Copynumber: 12.5 Consensus size: 26
37369896 TAAAAAAAAA
*
37369906 TTTAAAGTAAAT-A-ATATAAAAATG
1 TTTAAAATAAATAATATATAAAAATG
*** *
37369930 TTTAAAATAAATAATATATGAATTTTT
1 TTTAAAATAAATAATATAT-AAAAATG
*
37369957 TTTAAAATAAATAATATA-CAAAATGG
1 TTTAAAATAAATAATATATAAAAAT-G
* ** *
37369983 TTCAAAATAAACCATACGA-AAAAA--
1 TTTAAAATAAATAATA-TATAAAAATG
* ** * *
37370007 CTTATCATACATAAAATAT-AAAATAG
1 TTTAAAATAAATAATATATAAAAAT-G
* *
37370033 TTCGAAAAT--AT-ATATA-AAGCAAT-
1 TT-TAAAATAAATAATATATAA-AAATG
*
37370056 -TTAAAATAAATAATATAT-ATAATAG
1 TTTAAAATAAATAATATATAAAAAT-G
*
37370081 TTTAAAATAATATACA-ATA-AAACA-G
1 TTTAAAATAA-ATA-ATATATAAAAATG
* * ** *
37370106 TTTGAAATGAATACCATATAAAACA-A
1 TTTAAAATAAATAATATATAAAA-ATG
*
37370132 TTTAAAATTAATAA-AGTAT-AAAATAG
1 TTTAAAATAAATAATA-TATAAAAAT-G
**
37370158 TTTAAAAT-AATAATATATGAAAAAAAAA
1 TTTAAAATAAATAATATAT---AAAAATG
* *
37370186 CTTAAAATAAGTAATATATGAAAAGAT-
1 TTTAAAATAAATAATATAT-AAAA-ATG
37370213 TTTAAAATAAATAA
1 TTTAAAATAAATAA
37370227 ATAAACAACA
Statistics
Matches: 211, Mismatches: 51, Indels: 67
0.64 0.16 0.20
Matches are distributed among these distances:
21 5 0.02
22 1 0.00
23 10 0.05
24 37 0.18
25 32 0.15
26 51 0.24
27 53 0.25
28 9 0.04
29 13 0.06
ACGTcount: A:0.58, C:0.05, G:0.06, T:0.31
Consensus pattern (26 bp):
TTTAAAATAAATAATATATAAAAATG
Found at i:37370984 original size:15 final size:15
Alignment explanation
Indices: 37370949--37370998 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
37370939 TATTTTTTTT
*
37370949 AAAAAA-ATAAAAGG
1 AAAAAACATAAAAAG
* *
37370963 AATAAACATAAAACG
1 AAAAAACATAAAAAG
37370978 AAAAAACCA-AAAAAG
1 AAAAAA-CATAAAAAG
37370993 AAAAAA
1 AAAAAA
37370999 GAGCAAACAC
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
14 5 0.17
15 23 0.77
16 2 0.07
ACGTcount: A:0.78, C:0.08, G:0.08, T:0.06
Consensus pattern (15 bp):
AAAAAACATAAAAAG
Found at i:37371602 original size:24 final size:24
Alignment explanation
Indices: 37371574--37371936 Score: 93
Period size: 26 Copynumber: 14.3 Consensus size: 24
37371564 ATAATATGTA
*
37371574 AAAAATAATTTAAAGTAAATAATAT
1 AAAAAT-ATTTAAAATAAATAATAT
*
37371599 AAAAATGTTTAAAATAAATAATAT
1 AAAAATATTTAAAATAAATAATAT
** *
37371623 ATGAATTTTTTTTAAAATAAATAATAT
1 A--AA-AATATTTAAAATAAATAATAT
** * **
37371650 ACAAAATGGCTCAAAATAAACCATAT
1 A-AAAAT-ATTTAAAATAAATAATAT
* ** *
37371676 GAAAAA-ACTTATCATAAATAAAAT
1 -AAAAATATTTAAAATAAATAATAT
*
37371700 ATAAAATAGTTCGAAAAT--AT-ATAT
1 A-AAAATA-TT-TAAAATAAATAATAT
* * *
37371724 AAAGCA-ATTTAAAGTAAATAATAC
1 AAA-AATATTTAAAATAAATAATAT
*
37371748 ATATAATAGTTTAAAATAATATACA-AT
1 A-AAAATA-TTTAAAATAA-ATA-ATAT
* * *
37371775 AAAACA-GTTTGAAATGAATACCATAT
1 AAAA-ATATTTAAAATAAATA--ATAT
*
37371801 AAAACA-ATTTAAAATTAATAA-AGT
1 AAAA-ATATTTAAAATAAATAATA-T
37371825 ATAAAATAGTTTAAAAT-AATAATATAT
1 A-AAAATA-TTTAAAATAAAT-A-ATAT
* * *
37371852 GAAAAAAAACTTAAAATAAGTAATA-
1 --AAAAATATTTAAAATAAATAATAT
* *
37371877 ATAAAATAGTTAAAAATAAGTAATAT
1 A-AAAATA-TTTAAAATAAATAATAT
*
37371903 ATGAAAAGATTTTAAAATAAATAA-AT
1 A--AAAATA-TTTAAAATAAATAATAT
37371929 AAACAATA
1 AAA-AATA
37371937 AATTTGCAAA
Statistics
Matches: 250, Mismatches: 52, Indels: 72
0.67 0.14 0.19
Matches are distributed among these distances:
21 4 0.02
22 2 0.01
23 8 0.03
24 56 0.22
25 46 0.18
26 68 0.27
27 56 0.22
28 9 0.04
29 1 0.00
ACGTcount: A:0.59, C:0.05, G:0.06, T:0.30
Consensus pattern (24 bp):
AAAAATATTTAAAATAAATAATAT
Found at i:37371624 original size:26 final size:26
Alignment explanation
Indices: 37371562--37371926 Score: 85
Period size: 27 Copynumber: 14.2 Consensus size: 26
37371552 AAACGAAACA
* * *
37371562 AAATAATATGTAAAAAATAATTTAAAGT
1 AAATAATATAT-AAAAAT-GTTTAAAAT
37371590 AAAT-A-ATATAAAAATGTTTAAAAT
1 AAATAATATATAAAAATGTTTAAAAT
*** *
37371614 AAATAATATATGAATTTTTTTTAAAAT
1 AAATAATATAT-AAAAATGTTTAAAAT
* * *
37371641 AAATAATATA-CAAAATGGCTCAAAAT
1 AAATAATATATAAAAAT-GTTTAAAAT
** * **
37371667 AAACCATATGA-AAAAA--CTTATCAT
1 AAATAATAT-ATAAAAATGTTTAAAAT
* *
37371691 AAATAAAATAT-AAAATAGTTCGAAAAT
1 AAATAATATATAAAAAT-GTT-TAAAAT
* *
37371718 --AT-ATATA-AAGCAA--TTTAAAGT
1 AAATAATATATAA-AAATGTTTAAAAT
* *
37371739 AAATAATACAT-ATAATAGTTTAAAAT
1 AAATAATATATAAAAAT-GTTTAAAAT
* *
37371765 AATATACA-ATA-AAACA-GTTTGAAAT
1 AA-ATA-ATATATAAAAATGTTTAAAAT
* ** *
37371790 GAATACCATATAAAACA-ATTTAAAAT
1 AAATAATATATAAAA-ATGTTTAAAAT
*
37371816 TAATAA-AGTAT-AAAATAGTTTAAAAT
1 AAATAATA-TATAAAAAT-GTTTAAAAT
***
37371842 -AATAATATATGAAAAAAAACTTAAAAT
1 AAATAATATAT--AAAAATGTTTAAAAT
* *
37371869 AAGTAATA-AT-AAAATAGTTAAAAAT
1 AAATAATATATAAAAAT-GTTTAAAAT
*
37371894 AAGTAATATATGAAAAGAT-TTTAAAAT
1 AAATAATATAT-AAAA-ATGTTTAAAAT
37371921 AAATAA
1 AAATAA
37371927 ATAAACAATA
Statistics
Matches: 243, Mismatches: 56, Indels: 77
0.65 0.15 0.20
Matches are distributed among these distances:
21 4 0.02
22 2 0.01
23 9 0.04
24 43 0.18
25 51 0.21
26 56 0.23
27 58 0.24
28 18 0.07
29 2 0.01
ACGTcount: A:0.59, C:0.04, G:0.06, T:0.31
Consensus pattern (26 bp):
AAATAATATATAAAAATGTTTAAAAT
Found at i:37371892 original size:25 final size:25
Alignment explanation
Indices: 37371824--37371909 Score: 86
Period size: 25 Copynumber: 3.3 Consensus size: 25
37371814 ATTAATAAAG
37371824 TATAAAATAGTTTAAAATAA-TAATA
1 TATAAAATAG-TTAAAATAAGTAATA
* *
37371849 TATGAAAAAAAACTTAAAATAAGTAATA
1 TAT---AAAATAGTTAAAATAAGTAATA
37371877 -ATAAAATAGTTAAAAATAAGTAATA
1 TATAAAATAGTT-AAAATAAGTAATA
37371902 TATGAAAA
1 TAT-AAAA
37371910 GATTTTAAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
24 7 0.14
25 16 0.32
26 2 0.04
27 15 0.30
28 10 0.20
ACGTcount: A:0.63, C:0.01, G:0.07, T:0.29
Consensus pattern (25 bp):
TATAAAATAGTTAAAATAAGTAATA
Found at i:37371919 original size:27 final size:27
Alignment explanation
Indices: 37371797--37371922 Score: 95
Period size: 27 Copynumber: 4.8 Consensus size: 27
37371787 AATGAATACC
*
37371797 ATAT-AAAACAATTTAAAATTAA-TAA-
1 ATATGAAAAAAATTTAAAA-TAAGTAAT
* *
37371822 AGTAT-AAAATAGTTTAAAATAA-TAAT
1 A-TATGAAAAAAATTTAAAATAAGTAAT
*
37371848 ATATGAAAAAAAACTTAAAATAAGTAAT
1 ATATG-AAAAAAATTTAAAATAAGTAAT
* * *
37371876 A-AT-AAAATAGTTAAAAATAAGTAAT
1 ATATGAAAAAAATTTAAAATAAGTAAT
* *
37371901 ATATGAAAAGATTTTAAAATAA
1 ATATGAAAAAAATTTAAAATAA
37371923 ATAAATAAAC
Statistics
Matches: 82, Mismatches: 12, Indels: 12
0.77 0.11 0.11
Matches are distributed among these distances:
25 29 0.35
26 18 0.22
27 30 0.37
28 5 0.06
ACGTcount: A:0.62, C:0.02, G:0.06, T:0.30
Consensus pattern (27 bp):
ATATGAAAAAAATTTAAAATAAGTAAT
Found at i:37371930 original size:53 final size:53
Alignment explanation
Indices: 37371801--37371930 Score: 158
Period size: 52 Copynumber: 2.5 Consensus size: 53
37371791 AATACCATAT
* * *
37371801 AAAACAATTTAAAATTAATAAAGT-ATAAAATAGTTTAAAATAATAATATATGA
1 AAAAAAATTTAAAATAAATAAA-TAATAAAATAGTTAAAAATAATAATATATGA
* *
37371854 AAAAAAACTTAAAATAAGT-AATAATAAAATAGTTAAAAATAAGTAATATATG-
1 AAAAAAATTTAAAATAAATAAATAATAAAATAGTTAAAAATAA-TAATATATGA
* *
37371906 AAAAGATTTTAAAATAAATAAATAA
1 AAAAAAATTTAAAATAAATAAATAA
37371931 ACAATAAATT
Statistics
Matches: 65, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
51 1 0.02
52 35 0.54
53 29 0.45
ACGTcount: A:0.63, C:0.02, G:0.06, T:0.29
Consensus pattern (53 bp):
AAAAAAATTTAAAATAAATAAATAATAAAATAGTTAAAAATAATAATATATGA
Found at i:37373921 original size:18 final size:19
Alignment explanation
Indices: 37373882--37373918 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
37373872 TAGATATATG
*
37373882 TTATTTTTAAAATTAAAAA
1 TTATTTTCAAAATTAAAAA
37373901 TTATTTTCAAAATTAAAA
1 TTATTTTCAAAATTAAAA
37373919 TTAAAAATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (19 bp):
TTATTTTCAAAATTAAAAA
Found at i:37374626 original size:13 final size:13
Alignment explanation
Indices: 37374607--37374642 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
37374597 CAAATAAATT
37374607 GAAGAAAAA-AAA
1 GAAGAAAAAGAAA
37374619 GAAAGAAAAAGAAA
1 G-AAGAAAAAGAAA
37374633 GAAGAAAAAG
1 GAAGAAAAAG
37374643 GCGAGAAGCG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 1 0.05
13 17 0.77
14 4 0.18
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (13 bp):
GAAGAAAAAGAAA
Found at i:37391646 original size:15 final size:16
Alignment explanation
Indices: 37391626--37391655 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
37391616 AAATAACAAC
37391626 ATTATA-TCATAAATA
1 ATTATACTCATAAATA
37391641 ATTATACTCATAAAT
1 ATTATACTCATAAAT
37391656 TATCATCAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (16 bp):
ATTATACTCATAAATA
Found at i:37392338 original size:49 final size:49
Alignment explanation
Indices: 37392275--37392381 Score: 124
Period size: 49 Copynumber: 2.2 Consensus size: 49
37392265 TTAAGTGGCA
* * *
37392275 GCCCGTGTGGCCCACACGGCCCACCTAACCTACCTATGTGATCACACAT
1 GCCCGTGTGGCCCACAAGGCCCACCAAACCTACCTATGTAATCACACAT
* * ** * * *
37392324 GCCCGTGTGTCCCACAAGGCCTACCAAATTTTCTTGTGTAATCACACAT
1 GCCCGTGTGGCCCACAAGGCCCACCAAACCTACCTATGTAATCACACAT
37392373 GCCCGTGTG
1 GCCCGTGTG
37392382 CTCTGCATAA
Statistics
Matches: 48, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.21, C:0.36, G:0.20, T:0.23
Consensus pattern (49 bp):
GCCCGTGTGGCCCACAAGGCCCACCAAACCTACCTATGTAATCACACAT
Found at i:37394109 original size:25 final size:25
Alignment explanation
Indices: 37394081--37394134 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
37394071 TGTTCAGGTA
37394081 CATGAACAACAGTT-AAAGAAGCATG
1 CATGAACAACA-TTCAAAGAAGCATG
** *
37394106 CATGAATGACATTCAAGGAAGCATG
1 CATGAACAACATTCAAAGAAGCATG
37394131 CATG
1 CATG
37394135 CTGGTTTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 2 0.08
25 23 0.92
ACGTcount: A:0.43, C:0.17, G:0.22, T:0.19
Consensus pattern (25 bp):
CATGAACAACATTCAAAGAAGCATG
Found at i:37395383 original size:11 final size:11
Alignment explanation
Indices: 37395361--37395396 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
37395351 GTAAGTTTTG
37395361 AAAAAAAT--A
1 AAAAAAATCAA
37395370 AAAAAAATCAA
1 AAAAAAATCAA
37395381 AAAAAAATCAA
1 AAAAAAATCAA
37395392 AAAAA
1 AAAAA
37395397 TTTCGTGATT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
9 8 0.32
11 17 0.68
ACGTcount: A:0.86, C:0.06, G:0.00, T:0.08
Consensus pattern (11 bp):
AAAAAAATCAA
Found at i:37396091 original size:43 final size:42
Alignment explanation
Indices: 37396034--37396118 Score: 152
Period size: 43 Copynumber: 2.0 Consensus size: 42
37396024 CATCGTGGAG
37396034 AAAAAATCCAATGATTTGGTGAAAAGAGATTCATTTCATGAT
1 AAAAAATCCAATGATTTGGTGAAAAGAGATTCATTTCATGAT
*
37396076 AAAAACATCCAATGATTTGGTGAGAAGAGATTCATTTCATGAT
1 AAAAA-ATCCAATGATTTGGTGAAAAGAGATTCATTTCATGAT
37396119 TCCTATTCAA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
42 5 0.12
43 36 0.88
ACGTcount: A:0.41, C:0.11, G:0.18, T:0.31
Consensus pattern (42 bp):
AAAAAATCCAATGATTTGGTGAAAAGAGATTCATTTCATGAT
Found at i:37403150 original size:14 final size:15
Alignment explanation
Indices: 37403133--37403161 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
37403123 ATACATTTTC
37403133 ATACATAC-ATCACA
1 ATACATACAATCACA
37403147 ATACATACAATCACA
1 ATACATACAATCACA
37403162 TTTAAAGATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.52, C:0.28, G:0.00, T:0.21
Consensus pattern (15 bp):
ATACATACAATCACA
Found at i:37411259 original size:39 final size:39
Alignment explanation
Indices: 37411215--37411293 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
37411205 TTTGGGGATT
37411215 ACCTGTATAGATTAAACAGAGAAAATGTGAGTTTTTACA
1 ACCTGTATAGATTAAACAGAGAAAATGTGAGTTTTTACA
37411254 ACCTGTATAGATTAAACAGAGAAAATGTGAGTTTTTACA
1 ACCTGTATAGATTAAACAGAGAAAATGTGAGTTTTTACA
37411293 A
1 A
37411294 ACTCATTGTG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.42, C:0.10, G:0.18, T:0.30
Consensus pattern (39 bp):
ACCTGTATAGATTAAACAGAGAAAATGTGAGTTTTTACA
Found at i:37418136 original size:84 final size:85
Alignment explanation
Indices: 37418007--37418162 Score: 194
Period size: 84 Copynumber: 1.8 Consensus size: 85
37417997 CCGATAATCC
* * * * *
37418007 TATCTCCCTAAAGTTGTAGTGGAGCAGATTAAAATCTTGGATCTTAT-CTATCTGAAGTTACAGA
1 TATCTCCCTAAAGTTGCAGTGGAGCAGACTAAAAGCTAGGATCTTATCCT-CCTGAAGTTACAGA
37418071 GA-GCAGATCGCATCTAGTCT
65 GAGGCAGATCGCATCTAGTCT
*
37418091 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGC-AGG-TCTTATCCTCCTGAAGTTACAG
1 TATCTCCCTAAAGTTGCAGTGGAGCAGACTAA--AAGCTAGGATCTTATCCTCCTGAAGTTACAG
*
37418154 TGAGGCAGA
64 AGAGGCAGA
37418163 CTGAAGATGA
Statistics
Matches: 61, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
84 49 0.80
85 9 0.15
86 3 0.05
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (85 bp):
TATCTCCCTAAAGTTGCAGTGGAGCAGACTAAAAGCTAGGATCTTATCCTCCTGAAGTTACAGAG
AGGCAGATCGCATCTAGTCT
Found at i:37418138 original size:44 final size:43
Alignment explanation
Indices: 37417870--37418713 Score: 320
Period size: 44 Copynumber: 19.5 Consensus size: 43
37417860 ATCGCATCTA
*
37417870 GTCTTATCTCCCTGAAGTTGCAGTGGAGCAAACTAAGTAAGCAG
1 GTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAG-AAGCAG
* * *
37417914 GTCTTATC-CTCCTGAAGTTGCAGTGGGGCAGACTGAAGATGACAA
1 GTCTTATCTC-CCTGAAGTTGCAGTGGAGCAGACT-AAGAAG-CAG
** * * ** ** *
37417959 ACCTTATCTCCTTGAAGTTGCAGTGGAGCGGGTTAA-ACCCGATA
1 GTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGC-A-G
* * * * * * *
37418003 ATCCTATCTCCCTAAAGTTGTAGTGGAGCAGATTAA-AATCTTG
1 GTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGC-AG
** * * * * *
37418046 GATCTTATCTATCTGAAGTTACAG-AGAGCAGA-T-CGCATCTA-
1 G-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGC-AG
37418087 GTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAG
1 GTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAG-AAGCAG
* * *
37418131 GTCTTATC-CTCCTGAAGTTACAGT-GAGGCAGACTGAAGATGACAA
1 GTCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACT-AAGAAG-CAG
** * * * *
37418176 ACCTTATCTCCCTGAAGTTGCAGTAGAGCAG-GTTA-AAGCCAATA
1 GTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAG-C-A-G
* * * * ** *
37418220 ATCCTATCTCCCTAAAGTTGTAGTGGAGTGGA-TTAG--G-A-
1 GTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGCAG
* * * * * *
37418258 -TCTTATCTCTCTGAAGTTGCAG-AGAGTAGA-T-CGCATCTA-
1 GTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGC-AG
37418297 GTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAG
1 GTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAG-AAGCAG
* * *
37418341 GTCTTATC-CTCCTGAAGTTACAGT-GAGGCAGACTGAAGATGGCAA
1 GTCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACT-AAGA-AGCAG
** * * *
37418386 ACCTTATCTCCCTGAAGTTGCAGTGGAGCAG-GTTA-AAGCCGATA
1 GTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAG-C-A-G
* * * * * * * *
37418430 ATCCTATCTCCTTGAAGTTGCAGTAGAGCGGATTAA-AATCTTG
1 GTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGC-AG
* ** * * *
37418473 GATCTTATCTCTCTGAAGTTGCAG-AAAGCAGA-T-CGCATCTA-
1 G-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGC-AG
37418514 GTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAG
1 GTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAG-AAGCAG
* *
37418558 GTCTTATC-CTCCTGAAGTTGCAGT-GAGGCAAACTGAAGATGGC-G
1 GTCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACT-AAGA-AGCAG
* * *
37418602 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGA-TTA-AAGCTGATG
1 -GTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGC--A-G
* * * * * *
37418647 ATCCTATCTCTCTGAAGTTGCAGTGGAGCTGATTAA-AACCACAG
1 GTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAA--GCAG
* *
37418691 ATCTTATCTCTCTGAAGTTGCAG
1 GTCTTATCTCCCTGAAGTTGCAG
37418714 AGAGCAAATT
Statistics
Matches: 613, Mismatches: 123, Indels: 128
0.71 0.14 0.15
Matches are distributed among these distances:
35 1 0.00
36 7 0.01
37 18 0.03
39 1 0.00
40 62 0.10
41 24 0.04
42 20 0.03
43 37 0.06
44 306 0.50
45 126 0.21
46 10 0.02
47 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (43 bp):
GTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGCAG
Found at i:37418163 original size:217 final size:217
Alignment explanation
Indices: 37417779--37418757 Score: 1504
Period size: 217 Copynumber: 4.5 Consensus size: 217
37417769 TGGATCGGTG
* * * *
37417779 GCCGATAATCCTACCTCCTTAAAGTTGTAGTAGAGCTGATTAAAATCTTGGATCTTATCTCTCTG
1 GCCGATAATCCTATCTCCCTAAAGTTGTAGTGGAGCGGATTAAAATCTTGGATCTTATCTCTCTG
* *
37417844 AAGTTGCAGAGTGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAAACTAAGTA
66 AAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTA
* * *
37417909 AGCAGGTCTTATCCTCCTGAAGTTGCAGTGGGGCAGACTGAAGATGACAAACCTTATCTCCTTGA
131 AGCAGGTCTTATCCTCCTGAAGTTACAGTGAGGCAGACTGAAGATGACAAACCTTATCTCCCTGA
*
37417974 AGTTGCAGTGGAGCGGGTTAAA
196 AGTTGCAGTGGAGCAGGTTAAA
* * *
37417996 CCCGATAATCCTATCTCCCTAAAGTTGTAGTGGAGCAGATTAAAATCTTGGATCTTATCTATCTG
1 GCCGATAATCCTATCTCCCTAAAGTTGTAGTGGAGCGGATTAAAATCTTGGATCTTATCTCTCTG
*
37418061 AAGTTACAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTA
66 AAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTA
37418126 AGCAGGTCTTATCCTCCTGAAGTTACAGTGAGGCAGACTGAAGATGACAAACCTTATCTCCCTGA
131 AGCAGGTCTTATCCTCCTGAAGTTACAGTGAGGCAGACTGAAGATGACAAACCTTATCTCCCTGA
*
37418191 AGTTGCAGTAGAGCAGGTTAAA
196 AGTTGCAGTGGAGCAGGTTAAA
* *
37418213 GCCAATAATCCTATCTCCCTAAAGTTGTAGTGGAGTGGATT---A----GGATCTTATCTCTCTG
1 GCCGATAATCCTATCTCCCTAAAGTTGTAGTGGAGCGGATTAAAATCTTGGATCTTATCTCTCTG
*
37418271 AAGTTGCAGAGAGTAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTA
66 AAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTA
*
37418336 AGCAGGTCTTATCCTCCTGAAGTTACAGTGAGGCAGACTGAAGATGGCAAACCTTATCTCCCTGA
131 AGCAGGTCTTATCCTCCTGAAGTTACAGTGAGGCAGACTGAAGATGACAAACCTTATCTCCCTGA
37418401 AGTTGCAGTGGAGCAGGTTAAA
196 AGTTGCAGTGGAGCAGGTTAAA
* * * *
37418423 GCCGATAATCCTATCTCCTTGAAGTTGCAGTAGAGCGGATTAAAATCTTGGATCTTATCTCTCTG
1 GCCGATAATCCTATCTCCCTAAAGTTGTAGTGGAGCGGATTAAAATCTTGGATCTTATCTCTCTG
*
37418488 AAGTTGCAGAAAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTA
66 AAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTA
* * * * * *
37418553 AGCAGGTCTTATCCTCCTGAAGTTGCAGTGAGGCAAACTGAAGATGGCGAATCTTATCTCCCTAA
131 AGCAGGTCTTATCCTCCTGAAGTTACAGTGAGGCAGACTGAAGATGACAAACCTTATCTCCCTGA
*
37418618 AGTTGCAGTGGAGCAGATTAAA
196 AGTTGCAGTGGAGCAGGTTAAA
* * * * * * * ***
37418640 GCTGATGATCCTATCTCTCTGAAGTTGCAGTGGAGCTGATTAAAACCACAGATCTTATCTCTCTG
1 GCCGATAATCCTATCTCCCTAAAGTTGTAGTGGAGCGGATTAAAATCTTGGATCTTATCTCTCTG
* * * *
37418705 AAGTTGCAGAGAGCAAATTGCATCTAGTCTTATCTCCCTGATGTTGTAGTGGA
66 AAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGA
37418758 ATGGATCGAA
Statistics
Matches: 703, Mismatches: 52, Indels: 14
0.91 0.07 0.02
Matches are distributed among these distances:
210 198 0.28
213 1 0.00
214 1 0.00
217 503 0.72
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.28
Consensus pattern (217 bp):
GCCGATAATCCTATCTCCCTAAAGTTGTAGTGGAGCGGATTAAAATCTTGGATCTTATCTCTCTG
AAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTA
AGCAGGTCTTATCCTCCTGAAGTTACAGTGAGGCAGACTGAAGATGACAAACCTTATCTCCCTGA
AGTTGCAGTGGAGCAGGTTAAA
Found at i:37418623 original size:427 final size:429
Alignment explanation
Indices: 37417783--37418757 Score: 1470
Period size: 427 Copynumber: 2.3 Consensus size: 429
37417773 TCGGTGGCCG
* * * *
37417783 ATAATCCTACCTCCTTAAAGTTGTAGTAGAGCTGATTAAAATCTTGGATCTTATCTCTCTGAAGT
1 ATAATCCTATCTCCCTAAAGTTGCAGTGGAGCTGATT--AA-C--GGATCTTATCTCTCTGAAGT
*
37417848 TGCAGAGTGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAAACTAAGTAAGCA
61 TGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAAACTAAGTAAGCA
* * *
37417913 GGTCTTATCCTCCTGAAGTTGCAGTGGGGCAGACTGAAGATGACAAACCTTATCTCCTTGAAGTT
126 GGTCTTATCCTCCTGAAGTTACAGTGAGGCAGACTGAAGATGACAAACCTTATCTCCCTGAAGTT
* * *
37417978 GCAGTGGAGCGGGTTAAACCCGATAATCCTATCTCCCTAAAGTTGTAGTGGAGCAGATTAAAATC
191 GCAGTGGAGCAGGTTAAACCCGATAATCCTATCTCCCTAAAGTTGCAGTAGAGCAGATTAAAATC
*
37418043 TTGGATCTTATCTATCTGAAGTTACAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGC
256 TTGGATCTTATCTATCTGAAGTTACAGAAAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGC
*
37418108 AGTGGAGCAGACTAAGTAAGCAGGTCTTATCCTCCTGAAGTTACAGTGAGGCAGACTGAAGATGA
321 AGTGGAGCAGACTAAGTAAGCAGGTCTTATCCTCCTGAAGTTACAGTGAGGCAAACTGAAGATGA
* *
37418173 CAAACCTTATCTCCCTGAAGTTGCAGTAGAGCAGGTTAAAGCCA
386 CAAACCTTATCTCCCTAAAGTTGCAGTAGAGCAGATTAAAGCCA
*
37418217 ATAATCCTATCTCCCTAAAGTTGTAGTGGAG-TGGATT-A-GGATCTTATCTCTCTGAAGTTGCA
1 ATAATCCTATCTCCCTAAAGTTGCAGTGGAGCT-GATTAACGGATCTTATCTCTCTGAAGTTGCA
* *
37418279 GAGAGTAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAGGTC
65 GAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAAACTAAGTAAGCAGGTC
*
37418344 TTATCCTCCTGAAGTTACAGTGAGGCAGACTGAAGATGGCAAACCTTATCTCCCTGAAGTTGCAG
130 TTATCCTCCTGAAGTTACAGTGAGGCAGACTGAAGATGACAAACCTTATCTCCCTGAAGTTGCAG
* * * *
37418409 TGGAGCAGGTTAAAGCCGATAATCCTATCTCCTTGAAGTTGCAGTAGAGCGGATTAAAATCTTGG
195 TGGAGCAGGTTAAACCCGATAATCCTATCTCCCTAAAGTTGCAGTAGAGCAGATTAAAATCTTGG
* *
37418474 ATCTTATCTCTCTGAAGTTGCAGAAAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTG
260 ATCTTATCTATCTGAAGTTACAGAAAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTG
* * *
37418539 GAGCAGACTAAGTAAGCAGGTCTTATCCTCCTGAAGTTGCAGTGAGGCAAACTGAAGATGGCGAA
325 GAGCAGACTAAGTAAGCAGGTCTTATCCTCCTGAAGTTACAGTGAGGCAAACTGAAGATGACAAA
* * **
37418604 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCTG
390 CCTTATCTCCCTAAAGTTGCAGTAGAGCAGATTAAAGCCA
* * * *
37418644 ATGATCCTATCTCTCTGAAGTTGCAGTGGAGCTGATTAAAACCACAGATCTTATCTCTCTGAAGT
1 ATAATCCTATCTCCCTAAAGTTGCAGTGGAGCTGATT---A--ACGGATCTTATCTCTCTGAAGT
* * * *
37418709 TGCAGAGAGCAAATTGCATCTAGTCTTATCTCCCTGATGTTGTAGTGGA
61 TGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGA
37418758 ATGGATCGAA
Statistics
Matches: 492, Mismatches: 40, Indels: 18
0.89 0.07 0.03
Matches are distributed among these distances:
427 393 0.80
428 1 0.00
431 1 0.00
433 2 0.00
434 95 0.19
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.28
Consensus pattern (429 bp):
ATAATCCTATCTCCCTAAAGTTGCAGTGGAGCTGATTAACGGATCTTATCTCTCTGAAGTTGCAG
AGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAAACTAAGTAAGCAGGTCT
TATCCTCCTGAAGTTACAGTGAGGCAGACTGAAGATGACAAACCTTATCTCCCTGAAGTTGCAGT
GGAGCAGGTTAAACCCGATAATCCTATCTCCCTAAAGTTGCAGTAGAGCAGATTAAAATCTTGGA
TCTTATCTATCTGAAGTTACAGAAAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGG
AGCAGACTAAGTAAGCAGGTCTTATCCTCCTGAAGTTACAGTGAGGCAAACTGAAGATGACAAAC
CTTATCTCCCTAAAGTTGCAGTAGAGCAGATTAAAGCCA
Found at i:37419158 original size:26 final size:26
Alignment explanation
Indices: 37419111--37419160 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
37419101 AGGGGGAGCC
* *
37419111 TCGCGCCGCAACCAGGATCTTCACGT
1 TCGCGCCGCAACCACGACCTTCACGT
* *
37419137 TCGCGCCGCATCCCCGACCTTCAC
1 TCGCGCCGCAACCACGACCTTCAC
37419161 CTGTAGCAAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.16, C:0.46, G:0.20, T:0.18
Consensus pattern (26 bp):
TCGCGCCGCAACCACGACCTTCACGT
Found at i:37420283 original size:23 final size:24
Alignment explanation
Indices: 37420243--37420308 Score: 80
Period size: 23 Copynumber: 2.7 Consensus size: 24
37420233 TTAATTGATA
37420243 ATGTAAATATTTTTTTATATATAT
1 ATGTAAATATTTTTTTATATATAT
* *
37420267 ATGTAATTA-TTTTTTATCTATAT
1 ATGTAAATATTTTTTTATATATAT
37420290 ATGTATATATATATTTTTT
1 ATGTA-A-ATAT-TTTTTT
37420309 GTTTTTTTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
23 18 0.51
24 9 0.26
25 2 0.06
27 6 0.17
ACGTcount: A:0.33, C:0.02, G:0.05, T:0.61
Consensus pattern (24 bp):
ATGTAAATATTTTTTTATATATAT
Found at i:37420388 original size:3 final size:3
Alignment explanation
Indices: 37420380--37420420 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
37420370 TATTTACTTT
37420380 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
37420421 TTATTATTAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:37420425 original size:3 final size:3
Alignment explanation
Indices: 37420419--37420445 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
37420409 ATAATAATAA
37420419 TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT
37420446 ATAAGTATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:37420757 original size:19 final size:20
Alignment explanation
Indices: 37420716--37420757 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
37420706 ATTTCTATGC
* *
37420716 CATTGTAATATTTATTATTG
1 CATTGTAATATTTAATATAG
*
37420736 CATTGT-ATATTTAATGTAG
1 CATTGTAATATTTAATATAG
37420755 CAT
1 CAT
37420758 CACATCATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.31, C:0.07, G:0.12, T:0.50
Consensus pattern (20 bp):
CATTGTAATATTTAATATAG
Found at i:37422884 original size:28 final size:28
Alignment explanation
Indices: 37422852--37422906 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
37422842 CTTTTATTGT
37422852 CCAACCCAACTGGGATTTTAAATTAGGC
1 CCAACCCAACTGGGATTTTAAATTAGGC
37422880 CCAACCCAACTGGGATTTTAAATTAGG
1 CCAACCCAACTGGGATTTTAAATTAGG
37422907 GCCGTTTACA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.25
Consensus pattern (28 bp):
CCAACCCAACTGGGATTTTAAATTAGGC
Found at i:37424248 original size:6 final size:6
Alignment explanation
Indices: 37424240--37424297 Score: 89
Period size: 6 Copynumber: 9.7 Consensus size: 6
37424230 TATAGACATG
* * *
37424240 CATATG CATATG CATATA CATATA CATATA CATATA CATATA CATACA
1 CATATA CATATA CATATA CATATA CATATA CATATA CATATA CATATA
37424288 CATATA CATA
1 CATATA CATA
37424298 AATATTTTAA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 49 1.00
ACGTcount: A:0.47, C:0.19, G:0.03, T:0.31
Consensus pattern (6 bp):
CATATA
Found at i:37429647 original size:40 final size:40
Alignment explanation
Indices: 37429567--37429773 Score: 209
Period size: 40 Copynumber: 5.2 Consensus size: 40
37429557 TTATAATGTT
* * *
37429567 TTCAGAGGTACCAAAGTACAAACAAGGGCACATATGTGCA
1 TTCAGGGGTATCAAAGTACAAACAGGGGCACATATGTGCA
* * * *
37429607 TTTAGGGGTATCAAAGTACAAACAGGGGTACGTATTTGCA
1 TTCAGGGGTATCAAAGTACAAACAGGGGCACATATGTGCA
* *
37429647 TTCAGGGGTA-CTAAAGTACAAATAGTGGCACATATGTGCA
1 TTCAGGGGTATC-AAAGTACAAACAGGGGCACATATGTGCA
* * ***
37429687 TTCAGGGGTATCGAAGTACAAACAGAGGCATGCATGTGCA
1 TTCAGGGGTATCAAAGTACAAACAGGGGCACATATGTGCA
* * * * ** *
37429727 TTAAAGGGTACCGAAGTACAAGTAGGGGCACGTATGTGCA
1 TTCAGGGGTATCAAAGTACAAACAGGGGCACATATGTGCA
37429767 TTCAGGG
1 TTCAGGG
37429774 TACTGAAGTA
Statistics
Matches: 136, Mismatches: 29, Indels: 4
0.80 0.17 0.02
Matches are distributed among these distances:
39 1 0.01
40 134 0.99
41 1 0.01
ACGTcount: A:0.34, C:0.16, G:0.28, T:0.22
Consensus pattern (40 bp):
TTCAGGGGTATCAAAGTACAAACAGGGGCACATATGTGCA
Found at i:37429704 original size:80 final size:79
Alignment explanation
Indices: 37429567--37429773 Score: 252
Period size: 80 Copynumber: 2.6 Consensus size: 79
37429557 TTATAATGTT
* * *
37429567 TTCAGAGGTACCAAAGTACAAACAAGGGCACATATGTGCATTTAGGGGTATCAAAGTACAAACAG
1 TTCAGGGGTACCAAAGTACAAA-TAGGGCACATATGTGCATTCAGGGGTATCAAAGTACAAACAG
* * * *
37429632 GGGTACGTATTTGCA
65 AGGCACGCATGTGCA
* *
37429647 TTCAGGGGTACTAAAGTACAAATAGTGGCACATATGTGCATTCAGGGGTATCGAAGTACAAACAG
1 TTCAGGGGTACCAAAGTACAAATAG-GGCACATATGTGCATTCAGGGGTATCAAAGTACAAACAG
*
37429712 AGGCATGCATGTGCA
65 AGGCACGCATGTGCA
* * * * *
37429727 TTAAAGGGTACCGAAGTACAAGTAGGGGCACGTATGTGCATTCAGGG
1 TTCAGGGGTACCAAAGTACAAATA-GGGCACATATGTGCATTCAGGG
37429774 TACTGAAGTA
Statistics
Matches: 109, Mismatches: 16, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
79 2 0.02
80 106 0.97
81 1 0.01
ACGTcount: A:0.34, C:0.16, G:0.28, T:0.22
Consensus pattern (79 bp):
TTCAGGGGTACCAAAGTACAAATAGGGCACATATGTGCATTCAGGGGTATCAAAGTACAAACAGA
GGCACGCATGTGCA
Found at i:37430561 original size:14 final size:15
Alignment explanation
Indices: 37430542--37430572 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
37430532 GTTTTTATTA
37430542 TTCATTATTT-TAAT
1 TTCATTATTTATAAT
37430556 TTCATTATTTATAAT
1 TTCATTATTTATAAT
37430571 TT
1 TT
37430573 TATCCTTCCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.62
15 6 0.38
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (15 bp):
TTCATTATTTATAAT
Found at i:37437130 original size:45 final size:44
Alignment explanation
Indices: 37437041--37437169 Score: 145
Period size: 45 Copynumber: 2.9 Consensus size: 44
37437031 ACGGTGGATT
* * *
37437041 AGCACATAGC-ACCACCCTTATAGTCAATGATACTCGGTGGAATC
1 AGCACATAGCAACCA-CCTTATAATCAATGATACCCGGTAGAATC
*
37437085 AGCACATAGCAATCACCTTCATAATCAATAGA-ACCCGGTAGAATC
1 AGCACATAGCAACCACCTT-ATAATCAAT-GATACCCGGTAGAATC
* * *
37437130 AGCACACAACAACCACCTTTATAATCAATGATACCTGGTA
1 AGCACATAGCAACCACC-TTATAATCAATGATACCCGGTA
37437170 CACATAGTAG
Statistics
Matches: 72, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
44 16 0.22
45 52 0.72
46 4 0.06
ACGTcount: A:0.37, C:0.27, G:0.14, T:0.22
Consensus pattern (44 bp):
AGCACATAGCAACCACCTTATAATCAATGATACCCGGTAGAATC
Found at i:37446104 original size:25 final size:24
Alignment explanation
Indices: 37446058--37446104 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
37446048 AAGTCATCCC
* *
37446058 TAAATATCTCAACATACACAAACT
1 TAAATATCCCAACAAACACAAACT
*
37446082 TAAATATCCCAAACAAACTCAAA
1 TAAATATCCC-AACAAACACAAA
37446105 TTCAACCATT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 9 0.47
25 10 0.53
ACGTcount: A:0.53, C:0.26, G:0.00, T:0.21
Consensus pattern (24 bp):
TAAATATCCCAACAAACACAAACT
Found at i:37453549 original size:34 final size:34
Alignment explanation
Indices: 37453501--37453569 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
37453491 CTAAACTAAA
*
37453501 TTTACAAGAGAGAATCTAGGCAAAAGGATTGATG
1 TTTACAAGAAAGAATCTAGGCAAAAGGATTGATG
*
37453535 TTTACAAGAAAGAATCTAGGCTAAAGGATTGATG
1 TTTACAAGAAAGAATCTAGGCAAAAGGATTGATG
37453569 T
1 T
37453570 CATAACATGT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.41, C:0.09, G:0.25, T:0.26
Consensus pattern (34 bp):
TTTACAAGAAAGAATCTAGGCAAAAGGATTGATG
Found at i:37458437 original size:19 final size:19
Alignment explanation
Indices: 37458392--37458437 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
37458382 GGATTATGTG
37458392 CTTATGTGCCAGGATGCAC
1 CTTATGTGCCAGGATGCAC
** *
37458411 CTCGTGTGCTAGGATGCAC
1 CTTATGTGCCAGGATGCAC
*
37458430 TTTATGTG
1 CTTATGTG
37458438 TCGGTATGCG
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.17, C:0.22, G:0.28, T:0.33
Consensus pattern (19 bp):
CTTATGTGCCAGGATGCAC
Found at i:37464297 original size:20 final size:20
Alignment explanation
Indices: 37464269--37464307 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
37464259 CACTCTCGTT
37464269 AATGATAAATGGAAATCTAA
1 AATGATAAATGGAAATCTAA
*
37464289 AATGGTAAATGGAAATCTA
1 AATGATAAATGGAAATCTA
37464308 TAACCCACCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.51, C:0.05, G:0.18, T:0.26
Consensus pattern (20 bp):
AATGATAAATGGAAATCTAA
Found at i:37464959 original size:24 final size:25
Alignment explanation
Indices: 37464902--37464962 Score: 74
Period size: 24 Copynumber: 2.5 Consensus size: 25
37464892 CGGATAATTT
37464902 TCAATA-AAAAAAATGCAGTCCAAAA
1 TCAATAGAAAAAAAT-CAGTCCAAAA
*
37464927 TCAACAGAAAAAAAT-AGTCCAAAA
1 TCAATAGAAAAAAATCAGTCCAAAA
37464951 GT-AATAGAAAAA
1 -TCAATAGAAAAA
37464963 TATGAATCAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
24 18 0.56
25 6 0.19
26 8 0.25
ACGTcount: A:0.62, C:0.13, G:0.10, T:0.15
Consensus pattern (25 bp):
TCAATAGAAAAAAATCAGTCCAAAA
Found at i:37471484 original size:29 final size:27
Alignment explanation
Indices: 37471439--37471496 Score: 64
Period size: 29 Copynumber: 2.1 Consensus size: 27
37471429 CTCCATGTTA
*
37471439 ATTTTAGTAGTTACCTAGAATGTTTTCAT
1 ATTTTAGTAATTACCTA-AATGTTTT-AT
*
37471468 ATTTTATGTAATT-CCTAAGTGTTTTAT
1 ATTTTA-GTAATTACCTAAATGTTTTAT
37471495 AT
1 AT
37471497 ACTACGAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
27 4 0.15
28 7 0.27
29 10 0.38
30 5 0.19
ACGTcount: A:0.28, C:0.09, G:0.12, T:0.52
Consensus pattern (27 bp):
ATTTTAGTAATTACCTAAATGTTTTAT
Found at i:37471915 original size:29 final size:29
Alignment explanation
Indices: 37471880--37471939 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
37471870 TTTCCTAAGA
37471880 TTCTTTAATGTTTTAAAGTACTCTTCAAT
1 TTCTTTAATGTTTTAAAGTACTCTTCAAT
* *
37471909 TTCTTTAATGTTTTCAAGTATTCTTCAAT
1 TTCTTTAATGTTTTAAAGTACTCTTCAAT
37471938 TT
1 TT
37471940 GTAAGTGACT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.25, C:0.13, G:0.07, T:0.55
Consensus pattern (29 bp):
TTCTTTAATGTTTTAAAGTACTCTTCAAT
Found at i:37479663 original size:21 final size:21
Alignment explanation
Indices: 37479639--37479707 Score: 120
Period size: 21 Copynumber: 3.3 Consensus size: 21
37479629 GGAATATGGT
*
37479639 CGTGTGGCTACTTCACACGCC
1 CGTGTAGCTACTTCACACGCC
37479660 CGTGTAGCTACTTCACACGCC
1 CGTGTAGCTACTTCACACGCC
*
37479681 CGTGTAGCTACTTCACATGCC
1 CGTGTAGCTACTTCACACGCC
37479702 CGTGTA
1 CGTGTA
37479708 CACTGACTGG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 46 1.00
ACGTcount: A:0.17, C:0.35, G:0.22, T:0.26
Consensus pattern (21 bp):
CGTGTAGCTACTTCACACGCC
Found at i:37490399 original size:33 final size:33
Alignment explanation
Indices: 37490357--37490445 Score: 178
Period size: 33 Copynumber: 2.7 Consensus size: 33
37490347 CATAGAAAGG
37490357 TACATATGAAAGGTACCCCAATCCAATCCAATA
1 TACATATGAAAGGTACCCCAATCCAATCCAATA
37490390 TACATATGAAAGGTACCCCAATCCAATCCAATA
1 TACATATGAAAGGTACCCCAATCCAATCCAATA
37490423 TACATATGAAAGGTACCCCAATC
1 TACATATGAAAGGTACCCCAATC
37490446 ACAACATTTC
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 56 1.00
ACGTcount: A:0.42, C:0.27, G:0.10, T:0.21
Consensus pattern (33 bp):
TACATATGAAAGGTACCCCAATCCAATCCAATA
Found at i:37491033 original size:40 final size:40
Alignment explanation
Indices: 37490977--37491064 Score: 133
Period size: 40 Copynumber: 2.2 Consensus size: 40
37490967 CCGAAGACGA
37490977 CAGACAGAAGCACATAA-AAGCTAATCCAATCGAAACACAC
1 CAGACAGAAGCACATAAGAA-CTAATCCAATCGAAACACAC
* * *
37491017 CAGACAGAAGCTCATAAGAACTAATCCAATTGAAACGCAC
1 CAGACAGAAGCACATAAGAACTAATCCAATCGAAACACAC
37491057 CAGACAGA
1 CAGACAGA
37491065 GAGTACCAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
40 42 0.95
41 2 0.05
ACGTcount: A:0.48, C:0.26, G:0.15, T:0.11
Consensus pattern (40 bp):
CAGACAGAAGCACATAAGAACTAATCCAATCGAAACACAC
Found at i:37501645 original size:50 final size:50
Alignment explanation
Indices: 37501582--37501689 Score: 162
Period size: 50 Copynumber: 2.2 Consensus size: 50
37501572 GCTGTAAACG
*
37501582 GTAAGCTCCTTCAAGTTGAATAACGCTAAGCTCCTACGAGCTAAATAACA
1 GTAAGCTCCTTCAAGTTGAATAACGCTAAGCTCATACGAGCTAAATAACA
* * * * *
37501632 GTAAGCTCTTTCAAGTTGAATAACGGTAAGCTCATACGAGCTGAGTAACG
1 GTAAGCTCCTTCAAGTTGAATAACGCTAAGCTCATACGAGCTAAATAACA
37501682 GTAAGCTC
1 GTAAGCTC
37501690 ATAAGAGCTT
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
50 52 1.00
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.25
Consensus pattern (50 bp):
GTAAGCTCCTTCAAGTTGAATAACGCTAAGCTCATACGAGCTAAATAACA
Found at i:37501690 original size:25 final size:25
Alignment explanation
Indices: 37501562--37501698 Score: 123
Period size: 25 Copynumber: 5.5 Consensus size: 25
37501552 ATACATGTAT
* *
37501562 GCTCATATGAGCTGTA-AACGGTAA
1 GCTCATACGAGCTGAATAACGGTAA
* * * * *
37501586 GCTCCTTCAAGTTGAATAACGCTAA
1 GCTCATACGAGCTGAATAACGGTAA
* * *
37501611 GCTCCTACGAGCTAAATAACAGTAA
1 GCTCATACGAGCTGAATAACGGTAA
* * * *
37501636 GCTCTTTCAAGTTGAATAACGGTAA
1 GCTCATACGAGCTGAATAACGGTAA
*
37501661 GCTCATACGAGCTGAGTAACGGTAA
1 GCTCATACGAGCTGAATAACGGTAA
*
37501686 GCTCATAAGAGCT
1 GCTCATACGAGCT
37501699 TAAATCGGTA
Statistics
Matches: 87, Mismatches: 25, Indels: 1
0.77 0.22 0.01
Matches are distributed among these distances:
24 10 0.11
25 77 0.89
ACGTcount: A:0.34, C:0.20, G:0.21, T:0.25
Consensus pattern (25 bp):
GCTCATACGAGCTGAATAACGGTAA
Found at i:37505836 original size:24 final size:24
Alignment explanation
Indices: 37505812--37505858 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
37505802 AAACTACTTC
37505812 TAAAAAAAACTCAAGAGAGAATTCT
1 TAAAAAAAACTCAA-AGAGAATTCT
** *
37505837 TGGAGAAAACTCAAAGAGAATT
1 TAAAAAAAACTCAAAGAGAATT
37505859 TTTCACTCAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 8 0.42
25 11 0.58
ACGTcount: A:0.53, C:0.11, G:0.17, T:0.19
Consensus pattern (24 bp):
TAAAAAAAACTCAAAGAGAATTCT
Found at i:37508788 original size:30 final size:29
Alignment explanation
Indices: 37508748--37508821 Score: 94
Period size: 30 Copynumber: 2.5 Consensus size: 29
37508738 TTCGGCTATT
37508748 GATTATGAAAAGGGATGGTGACAACCATG
1 GATTATGAAAAGGGATGGTGACAACCATG
** *
37508777 GATTAATGAAAAGGGATGGTTTCAACCATC
1 GATT-ATGAAAAGGGATGGTGACAACCATG
* *
37508807 GAATATGAAATGGGA
1 GATTATGAAAAGGGA
37508822 CGGTTACGAC
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
29 14 0.36
30 25 0.64
ACGTcount: A:0.39, C:0.09, G:0.28, T:0.23
Consensus pattern (29 bp):
GATTATGAAAAGGGATGGTGACAACCATG
Found at i:37514533 original size:30 final size:29
Alignment explanation
Indices: 37514491--37514560 Score: 88
Period size: 30 Copynumber: 2.4 Consensus size: 29
37514481 TTTGGCTATT
37514491 GATTATG-AAAGGGATGGTGACAACCATC
1 GATTATGAAAAGGGATGGTGACAACCATC
* **
37514519 GATTAATGAAAAGGGATTGTTTCAACCATC
1 GATT-ATGAAAAGGGATGGTGACAACCATC
*
37514549 GAATATGAAAAG
1 GATTATGAAAAG
37514561 TGACGGTTAC
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
28 4 0.11
29 11 0.31
30 21 0.58
ACGTcount: A:0.40, C:0.11, G:0.24, T:0.24
Consensus pattern (29 bp):
GATTATGAAAAGGGATGGTGACAACCATC
Found at i:37514573 original size:29 final size:30
Alignment explanation
Indices: 37514498--37514573 Score: 82
Period size: 30 Copynumber: 2.6 Consensus size: 30
37514488 ATTGATTATG
* * *
37514498 AAAGGGATGGTGACAACCATCGATTAATGA
1 AAAGGGACGGTTACAACCATCGAATAATGA
** *
37514528 AAAGGGATTGTTTCAACCATCGAAT-ATGA
1 AAAGGGACGGTTACAACCATCGAATAATGA
*
37514557 AAAGTGACGGTTACAAC
1 AAAGGGACGGTTACAAC
37514574 TGTCGTTTAG
Statistics
Matches: 38, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
29 17 0.45
30 21 0.55
ACGTcount: A:0.39, C:0.14, G:0.24, T:0.22
Consensus pattern (30 bp):
AAAGGGACGGTTACAACCATCGAATAATGA
Found at i:37516242 original size:30 final size:30
Alignment explanation
Indices: 37516208--37516287 Score: 99
Period size: 30 Copynumber: 2.7 Consensus size: 30
37516198 TCTAGGCCTG
*
37516208 AGCCCTATACAGTAGCAGTGTGTGGGCCAT
1 AGCCCTATACAGTAACAGTGTGTGGGCCAT
* * *
37516238 AGCCCAATACAGTAACAGAGTGTGGGCCTT
1 AGCCCTATACAGTAACAGTGTGTGGGCCAT
*
37516268 AG-TCTAATACAGTAACAGTG
1 AGCCCT-ATACAGTAACAGTG
37516288 CAAATGCAGT
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
29 1 0.02
30 41 0.98
ACGTcount: A:0.30, C:0.21, G:0.26, T:0.23
Consensus pattern (30 bp):
AGCCCTATACAGTAACAGTGTGTGGGCCAT
Found at i:37522934 original size:32 final size:32
Alignment explanation
Indices: 37522898--37522965 Score: 136
Period size: 32 Copynumber: 2.1 Consensus size: 32
37522888 AGAAATATAC
37522898 TTATGCGCATATGGGAACATAAGTATGTTTGG
1 TTATGCGCATATGGGAACATAAGTATGTTTGG
37522930 TTATGCGCATATGGGAACATAAGTATGTTTGG
1 TTATGCGCATATGGGAACATAAGTATGTTTGG
37522962 TTAT
1 TTAT
37522966 TTATTTGCAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.28, C:0.09, G:0.26, T:0.37
Consensus pattern (32 bp):
TTATGCGCATATGGGAACATAAGTATGTTTGG
Found at i:37524234 original size:50 final size:49
Alignment explanation
Indices: 37524119--37524361 Score: 281
Period size: 50 Copynumber: 4.8 Consensus size: 49
37524109 GATAATAACA
* ** *
37524119 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTA-ATGGGA-CCTCTCATCTCGG
* * * *
37524170 TGCCCATGCCATGTCCCAAACATGGTCTT-ATGGAGGACCTCTCATCTCAG
1 TGCCAACGCCATGTCCCAGACATGGTCTTAAT-G-GGACCTCTCATCTCGG
* *
37524220 TGCCAACGCCATGTCCCAGACATGGTCTTACATAGGACCTCTTATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTA-ATGGGACCTCTCATCTCGG
* * * *
37524270 TGCCAATGCCATGTCCCAGACATGATCTTACATGTGACCTCTCGTCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTA-ATGGGACCTCTCATCTCGG
*
37524320 TGCCAACGCCATGTCCCAGACATGGTCTTCTATGGGACCTCT
1 TGCCAACGCCATGTCCCAGACATGGTCTT-AATGGGACCTCT
37524362 TTACCCAAAT
Statistics
Matches: 164, Mismatches: 23, Indels: 11
0.83 0.12 0.06
Matches are distributed among these distances:
49 2 0.01
50 131 0.80
51 29 0.18
52 2 0.01
ACGTcount: A:0.21, C:0.31, G:0.21, T:0.27
Consensus pattern (49 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTAATGGGACCTCTCATCTCGG
Found at i:37524309 original size:100 final size:100
Alignment explanation
Indices: 37524119--37524362 Score: 323
Period size: 100 Copynumber: 2.4 Consensus size: 100
37524109 GATAATAACA
* ** * *
37524119 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATATCGGTGCCCATGCCATGT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTTATATCGGTGCCAATGCCATGT
*
37524184 CCCAAACATGGTCTTATGGAGGACCTCTCATCTCAG
65 CCCAAACATGATCTTATGGAGGACCTCTCATCTCAG
* *
37524220 TGCCAACGCCATGTCCCAGACATGGTCTTACATAGGACCTCTTATCTCGGTGCCAATGCCATGTC
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATATCGGTGCCAATGCCATGTC
* * * *
37524285 CCAGACATGATCTTACAT-G-TGACCTCTCGTCTCGG
66 CCAAACATGATCTT--ATGGAGGACCTCTCATCTCAG
37524320 TGCCAACGCCATGTCCCAGACATGGTCTT-CTATGGGACCTCTT
1 TGCCAACGCCATGTCCCAGACATGGTCTTAC-ATGGGACCTCTT
37524363 TACCCAAATG
Statistics
Matches: 127, Mismatches: 13, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
99 1 0.01
100 88 0.69
101 36 0.28
102 2 0.02
ACGTcount: A:0.21, C:0.31, G:0.21, T:0.27
Consensus pattern (100 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATATCGGTGCCAATGCCATGTC
CCAAACATGATCTTATGGAGGACCTCTCATCTCAG
Found at i:37531759 original size:50 final size:50
Alignment explanation
Indices: 37531644--37531887 Score: 308
Period size: 50 Copynumber: 4.9 Consensus size: 50
37531634 GATAATAACA
* * ** * *
37531644 TGCCAAAGCCATGTCCTAGACATGGTCTTACATGGGATGTTCTCATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTTGG
* * * *** *
37531695 TGCCCATGCCATGTCCCAAACATGGTCTTATGGGGGACCTCTCATCTTAG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTTGG
* * *
37531745 TGCCAACGCCATGTCCCAGACATGGTCTTACATAGGACCTCTTATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTTGG
* * *
37531795 TGCCAACTCCATGTCCCAGACATGGTCGTACATGAGACCTCTCATCTTGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTTGG
37531845 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC
37531888 TACCCAAATG
Statistics
Matches: 162, Mismatches: 31, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
50 132 0.81
51 30 0.19
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.27
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTTGG
Found at i:37535456 original size:32 final size:32
Alignment explanation
Indices: 37535410--37535540 Score: 133
Period size: 32 Copynumber: 4.1 Consensus size: 32
37535400 ATAAGCCAAA
* *
37535410 AGTA-CAGTAATATGATTGGCATAAAGCCATC
1 AGTAGCAGTAATATGATCGGCACAAAGCCATC
* * *
37535441 AGTAGCAGTGATATGATCGGCACACAGTCATC
1 AGTAGCAGTAATATGATCGGCACAAAGCCATC
*** *
37535473 AGTAATGGTAATATGATTGGCACAAAGCCATC
1 AGTAGCAGTAATATGATCGGCACAAAGCCATC
*
37535505 AGT-G-ACGACAATATGATCGGCACAAAGCCATC
1 AGTAGCA-G-TAATATGATCGGCACAAAGCCATC
37535537 AGTA
1 AGTA
37535541 ACATCGCAAC
Statistics
Matches: 80, Mismatches: 16, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
31 5 0.06
32 75 0.94
ACGTcount: A:0.37, C:0.19, G:0.22, T:0.22
Consensus pattern (32 bp):
AGTAGCAGTAATATGATCGGCACAAAGCCATC
Found at i:37535519 original size:64 final size:62
Alignment explanation
Indices: 37535416--37535541 Score: 173
Period size: 64 Copynumber: 2.0 Consensus size: 62
37535406 CAAAAGTACA
* * *
37535416 GTAATATGATTGGCATAAAGCCATCAGTAGCAGTGATATGATCGGCACACAGTCATCAGTAATG
1 GTAATATGATTGGCACAAAGCCATCAGTAGCA--GATATGATCGGCACAAAGCCATCAGTAATG
37535480 GTAATATGATTGGCACAAAGCCATCAGTGACGACA-ATATGATCGGCACAAAGCCATCAGTAA
1 GTAATATGATTGGCACAAAGCCATCAGT-A-G-CAGATATGATCGGCACAAAGCCATCAGTAA
37535542 CATCGCAACC
Statistics
Matches: 56, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
64 52 0.93
65 1 0.02
66 1 0.02
67 2 0.04
ACGTcount: A:0.37, C:0.19, G:0.22, T:0.22
Consensus pattern (62 bp):
GTAATATGATTGGCACAAAGCCATCAGTAGCAGATATGATCGGCACAAAGCCATCAGTAATG
Found at i:37535753 original size:24 final size:24
Alignment explanation
Indices: 37535726--37535774 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
37535716 AGTTATACAA
*
37535726 ATCACAGACAAATCAGTCATTTAC
1 ATCACAGACAAATCAATCATTTAC
*
37535750 ATCACGGACAAATCAATCATTTAC
1 ATCACAGACAAATCAATCATTTAC
37535774 A
1 A
37535775 CTCAAGGGCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.43, C:0.24, G:0.08, T:0.24
Consensus pattern (24 bp):
ATCACAGACAAATCAATCATTTAC
Found at i:37535824 original size:27 final size:27
Alignment explanation
Indices: 37535793--37536137 Score: 267
Period size: 27 Copynumber: 12.8 Consensus size: 27
37535783 CAAAATAGTC
37535793 TTTTACCCTCTAGGGGCATTACGATCA
1 TTTTACCCTCTAGGGGCATTACGATCA
* * *
37535820 TTTTACCCTAC-AAGGGCATTATGGTCA
1 TTTTACCCT-CTAGGGGCATTACGATCA
* * *
37535847 TTTTACCCTATAGGGGTATTATGATCA
1 TTTTACCCTCTAGGGGCATTACGATCA
*
37535874 TTTTA--CTCTATGGGGTATTACGATCA
1 TTTTACCCTCTA-GGGGCATTACGATCA
* * *
37535900 TTTTACCCTATGGGGGTATTAC-AGTCA
1 TTTTACCCTCTAGGGGCATTACGA-TCA
* * *
37535927 TTTTATCCTAC-AGGGGCATTACGGTTA
1 TTTTACCCT-CTAGGGGCATTACGATCA
* *
37535954 TTTTACCCTAC-AAGGGCATTACGATCT
1 TTTTACCCT-CTAGGGGCATTACGATCA
* *
37535981 TTTTACCCTAC-AGGGGCATTATGGTC-
1 TTTTACCCT-CTAGGGGCATTACGATCA
* * *
37536007 TTTATACCCTATAGGGGCATTACGGTCT
1 TTT-TACCCTCTAGGGGCATTACGATCA
* * * * *
37536035 TTTTACCATATAGGGGTATTACAATCT
1 TTTTACCCTCTAGGGGCATTACGATCA
* *
37536062 TTTTACCCTAC-AGGGGCATTATGGTCA
1 TTTTACCCT-CTAGGGGCATTACGATCA
* * *
37536089 TTTTACGCTATAGGGGCATTACGGTCA
1 TTTTACCCTCTAGGGGCATTACGATCA
* *
37536116 TTTTACGCTATAGGGGCATTAC
1 TTTTACCCTCTAGGGGCATTAC
37536138 AGTTATTATA
Statistics
Matches: 264, Mismatches: 41, Indels: 26
0.80 0.12 0.08
Matches are distributed among these distances:
25 4 0.02
26 23 0.09
27 230 0.87
28 7 0.03
ACGTcount: A:0.23, C:0.20, G:0.20, T:0.36
Consensus pattern (27 bp):
TTTTACCCTCTAGGGGCATTACGATCA
Found at i:37535854 original size:54 final size:54
Alignment explanation
Indices: 37535793--37536137 Score: 372
Period size: 54 Copynumber: 6.4 Consensus size: 54
37535783 CAAAATAGTC
* * *
37535793 TTTTACCCTCTAGGGGCATTACGATCATTTTACCCTACAAGGGCATTATGGTCA
1 TTTTACCCTATAGGGGCATTACGATCATTTTACCCTACAGGGGCATTACGGTCA
* * * * * *
37535847 TTTTACCCTATAGGGGTATTATGATCATTTTACTCTA-TGGGGTATTACGATCA
1 TTTTACCCTATAGGGGCATTACGATCATTTTACCCTACAGGGGCATTACGGTCA
* * * *
37535900 TTTTACCCTATGGGGGTATTAC-AGTCATTTTATCCTACAGGGGCATTACGGTTA
1 TTTTACCCTATAGGGGCATTACGA-TCATTTTACCCTACAGGGGCATTACGGTCA
* * * *
37535954 TTTTACCCTACAAGGGCATTACGATCTTTTTACCCTACAGGGGCATTATGGTC-
1 TTTTACCCTATAGGGGCATTACGATCATTTTACCCTACAGGGGCATTACGGTCA
* * * * * ** *
37536007 TTTATACCCTATAGGGGCATTACGGTCTTTTTACCATATAGGGGTATTACAATCT
1 TTT-TACCCTATAGGGGCATTACGATCATTTTACCCTACAGGGGCATTACGGTCA
* * * * *
37536062 TTTTACCCTACAGGGGCATTATGGTCATTTTACGCTATAGGGGCATTACGGTCA
1 TTTTACCCTATAGGGGCATTACGATCATTTTACCCTACAGGGGCATTACGGTCA
*
37536116 TTTTACGCTATAGGGGCATTAC
1 TTTTACCCTATAGGGGCATTAC
37536138 AGTTATTATA
Statistics
Matches: 240, Mismatches: 46, Indels: 10
0.81 0.16 0.03
Matches are distributed among these distances:
52 1 0.00
53 45 0.19
54 190 0.79
55 4 0.02
ACGTcount: A:0.23, C:0.20, G:0.20, T:0.36
Consensus pattern (54 bp):
TTTTACCCTATAGGGGCATTACGATCATTTTACCCTACAGGGGCATTACGGTCA
Found at i:37536138 original size:81 final size:81
Alignment explanation
Indices: 37535793--37536137 Score: 442
Period size: 81 Copynumber: 4.3 Consensus size: 81
37535783 CAAAATAGTC
* *
37535793 TTTTACCCTCTAGGGGCATTACGATCATTTTACCCTACAAGGGCATTATGGTCATTTTACCCTAT
1 TTTTACCCTATAGGGGCATTACGATCATTTTACCCTACAGGGGCATTATGGTCATTTTACCCTAT
* * *
37535858 AGGGGTATTATGATCA
66 AGGGGCATTACGGTCA
* * ** * ** * *
37535874 TTTTACTCTAT-GGGGTATTACGATCATTTTACCCTATGGGGGTATTACAGTCATTTTATCCTAC
1 TTTTACCCTATAGGGGCATTACGATCATTTTACCCTACAGGGGCATTATGGTCATTTTACCCTAT
*
37535938 AGGGGCATTACGGTTA
66 AGGGGCATTACGGTCA
* * *
37535954 TTTTACCCTACAAGGGCATTACGATCTTTTTACCCTACAGGGGCATTATGGTC-TTTATACCCTA
1 TTTTACCCTATAGGGGCATTACGATCATTTTACCCTACAGGGGCATTATGGTCATTT-TACCCTA
*
37536018 TAGGGGCATTACGGTCT
65 TAGGGGCATTACGGTCA
* * * * *
37536035 TTTTACCATATAGGGGTATTACAATCTTTTTACCCTACAGGGGCATTATGGTCATTTTACGCTAT
1 TTTTACCCTATAGGGGCATTACGATCATTTTACCCTACAGGGGCATTATGGTCATTTTACCCTAT
37536100 AGGGGCATTACGGTCA
66 AGGGGCATTACGGTCA
*
37536116 TTTTACGCTATAGGGGCATTAC
1 TTTTACCCTATAGGGGCATTAC
37536138 AGTTATTATA
Statistics
Matches: 222, Mismatches: 39, Indels: 6
0.83 0.15 0.02
Matches are distributed among these distances:
80 68 0.31
81 151 0.68
82 3 0.01
ACGTcount: A:0.23, C:0.20, G:0.20, T:0.36
Consensus pattern (81 bp):
TTTTACCCTATAGGGGCATTACGATCATTTTACCCTACAGGGGCATTATGGTCATTTTACCCTAT
AGGGGCATTACGGTCA
Found at i:37541022 original size:20 final size:20
Alignment explanation
Indices: 37540997--37541035 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
37540987 TTGCTTCCTC
37540997 TTTACTTACTCT-CTTACTTG
1 TTTACTTACT-TGCTTACTTG
37541017 TTTACTTACTTGCTTACTT
1 TTTACTTACTTGCTTACTT
37541036 AAATAACTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.15, C:0.23, G:0.05, T:0.56
Consensus pattern (20 bp):
TTTACTTACTTGCTTACTTG
Found at i:37541646 original size:28 final size:27
Alignment explanation
Indices: 37541608--37541669 Score: 97
Period size: 28 Copynumber: 2.3 Consensus size: 27
37541598 CTGTACTGAC
*
37541608 TACTGTATTGGGCTAAGGCCCACACTG
1 TACTGTTTTGGGCTAAGGCCCACACTG
*
37541635 TTACTGTTTTGGGTTAAGGCCCACACTG
1 -TACTGTTTTGGGCTAAGGCCCACACTG
37541663 TACTGTT
1 TACTGTT
37541670 ACTGTATAGG
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
27 7 0.22
28 25 0.78
ACGTcount: A:0.19, C:0.23, G:0.24, T:0.34
Consensus pattern (27 bp):
TACTGTTTTGGGCTAAGGCCCACACTG
Found at i:37550260 original size:54 final size:54
Alignment explanation
Indices: 37550190--37550400 Score: 230
Period size: 54 Copynumber: 3.9 Consensus size: 54
37550180 TGTGATTCGT
* * ** *
37550190 GGGTAAAATAACCGAAATACCCTCAAAGGGTAGAATGACAAAAATACCCCTAAA
1 GGGTAAAATGACCGAAATACCCTCAAAGGGTAAAATGACTGAAATACCCCTAGA
* * * * * *
37550244 GGGTAAAATGATCGAAATACCCCCAAAAGGTAAAAAGACTGAATTACCCCCAGA
1 GGGTAAAATGACCGAAATACCCTCAAAGGGTAAAATGACTGAAATACCCCTAGA
* *
37550298 GGGTAAAATGACTGAAATACCCT-AAAGGGTAAAATGAGTGAAATA-CCCTCAGA
1 GGGTAAAATGACCGAAATACCCTCAAAGGGTAAAATGACTGAAATACCCCT-AGA
* * * **
37550351 GGGTAAAATGACCAAAATACCC-CATAGGGTAAAATGGCTGCTATACCCCT
1 GGGTAAAATGACCGAAATACCCTCAAAGGGTAAAATGACTGAAATACCCCT
37550401 GGGAGATTTA
Statistics
Matches: 128, Mismatches: 26, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
52 3 0.02
53 58 0.45
54 67 0.52
ACGTcount: A:0.43, C:0.20, G:0.19, T:0.17
Consensus pattern (54 bp):
GGGTAAAATGACCGAAATACCCTCAAAGGGTAAAATGACTGAAATACCCCTAGA
Found at i:37550305 original size:26 final size:27
Alignment explanation
Indices: 37550190--37550386 Score: 202
Period size: 27 Copynumber: 7.4 Consensus size: 27
37550180 TGTGATTCGT
* * *
37550190 GGGTAAAATAACCGAAATACCCTCAAA
1 GGGTAAAATGACTGAAATACCCCCAAA
* ** *
37550217 GGGTAGAATGACAAAAATACCCCTAAA
1 GGGTAAAATGACTGAAATACCCCCAAA
37550244 GGGTAAAATGA-TCGAAATACCCCCAAA
1 GGGTAAAATGACT-GAAATACCCCCAAA
* * * *
37550271 AGGTAAAAAGACTGAATTACCCCCAGA
1 GGGTAAAATGACTGAAATACCCCCAAA
*
37550298 GGGTAAAATGACTGAAATA-CCCTAAA
1 GGGTAAAATGACTGAAATACCCCCAAA
* * *
37550324 GGGTAAAATGAGTGAAATACCCTCAGA
1 GGGTAAAATGACTGAAATACCCCCAAA
** *
37550351 GGGTAAAATGACCAAAATA-CCCCATA
1 GGGTAAAATGACTGAAATACCCCCAAA
37550377 GGGTAAAATG
1 GGGTAAAATG
37550387 GCTGCTATAC
Statistics
Matches: 139, Mismatches: 28, Indels: 7
0.80 0.16 0.04
Matches are distributed among these distances:
26 38 0.27
27 100 0.72
28 1 0.01
ACGTcount: A:0.45, C:0.19, G:0.20, T:0.16
Consensus pattern (27 bp):
GGGTAAAATGACTGAAATACCCCCAAA
Found at i:37550352 original size:53 final size:52
Alignment explanation
Indices: 37550190--37550386 Score: 223
Period size: 53 Copynumber: 3.7 Consensus size: 52
37550180 TGTGATTCGT
* * ** *
37550190 GGGTAAAATAACCGAAATACCCTCAAAGGGTAGAATGACAAAAATACCCCTAAA
1 GGGTAAAATGACCGAAATACCC-CAAAGGGTAAAATGACTGAAATACCCC-AGA
* * * *
37550244 GGGTAAAATGATCGAAATACCCCCAAAAGGTAAAAAGACTGAATTACCCCCAGA
1 GGGTAAAATGACCGAAATA-CCCCAAAGGGTAAAATGACTGAAATA-CCCCAGA
* * *
37550298 GGGTAAAATGACTGAAATACCCTAAAGGGTAAAATGAGTGAAATACCCTCAGA
1 GGGTAAAATGACCGAAATACCCCAAAGGGTAAAATGACTGAAATACCC-CAGA
* *
37550351 GGGTAAAATGACCAAAATACCCCATAGGGTAAAATG
1 GGGTAAAATGACCGAAATACCCCAAAGGGTAAAATG
37550387 GCTGCTATAC
Statistics
Matches: 120, Mismatches: 20, Indels: 7
0.82 0.14 0.05
Matches are distributed among these distances:
52 3 0.03
53 57 0.47
54 53 0.44
55 7 0.06
ACGTcount: A:0.45, C:0.19, G:0.20, T:0.16
Consensus pattern (52 bp):
GGGTAAAATGACCGAAATACCCCAAAGGGTAAAATGACTGAAATACCCCAGA
Found at i:37557067 original size:56 final size:50
Alignment explanation
Indices: 37556935--37557068 Score: 151
Period size: 50 Copynumber: 2.6 Consensus size: 50
37556925 TCCTGTACTA
* * *
37556935 CCAAAGCCATGTCCCAGACATGGTCTTATGGGGGAGCTCTCATCTCAATG
1 CCAATGCCATGTCCCAGACATGGTCTTATGGGGGACCTCTCATCACAATG
* *
37556985 CCAATGCCATGTCTCAGACATGGTCTTATGTGGGACCTCTCATAACCACAATAATG
1 CCAATGCCATGTCCCAGACATGGTCTTATGGGGGACCTCTCAT---CAC---AATG
* *
37557041 CTAATGCTATGTCCCAGACATGGTCTTA
1 CCAATGCCATGTCCCAGACATGGTCTTA
37557069 CATGGGATCT
Statistics
Matches: 70, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
50 39 0.56
53 2 0.03
56 29 0.41
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.27
Consensus pattern (50 bp):
CCAATGCCATGTCCCAGACATGGTCTTATGGGGGACCTCTCATCACAATG
Found at i:37565246 original size:50 final size:50
Alignment explanation
Indices: 37565189--37565313 Score: 180
Period size: 50 Copynumber: 2.5 Consensus size: 50
37565179 GCCATATCAT
**
37565189 AGATATGGTCTTACATGGGAGTTCTCATATCGGTGCCCAA-GCCATGTCCC
1 AGATATGGTCTTACATGGGACCTCTCATATCGGTG-CCAACGCCATGTCCC
* *
37565239 AGATATGGTCTTACAGGGGACCTCTCATCTCGGTGCCAACGCCATGTCCC
1 AGATATGGTCTTACATGGGACCTCTCATATCGGTGCCAACGCCATGTCCC
* *
37565289 AGACATGGTCTTACGTGGGACCTCT
1 AGATATGGTCTTACATGGGACCTCT
37565314 TATAACCTTA
Statistics
Matches: 67, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
49 4 0.06
50 63 0.94
ACGTcount: A:0.21, C:0.28, G:0.25, T:0.26
Consensus pattern (50 bp):
AGATATGGTCTTACATGGGACCTCTCATATCGGTGCCAACGCCATGTCCC
Found at i:37576323 original size:28 final size:28
Alignment explanation
Indices: 37576292--37576362 Score: 90
Period size: 27 Copynumber: 2.6 Consensus size: 28
37576282 ATTGACTAGT
*
37576292 GAACCCCAGTTCACAAAAACCAACTGGC
1 GAACCCCAGCTCACAAAAACCAACTGGC
** * *
37576320 GAACCTTAGCTCAC-CAAACCAACTGGT
1 GAACCCCAGCTCACAAAAACCAACTGGC
37576347 GAACCCCAGCTCACAA
1 GAACCCCAGCTCACAA
37576363 TGAATTTGGC
Statistics
Matches: 34, Mismatches: 8, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
27 23 0.68
28 11 0.32
ACGTcount: A:0.37, C:0.37, G:0.14, T:0.13
Consensus pattern (28 bp):
GAACCCCAGCTCACAAAAACCAACTGGC
Found at i:37578142 original size:6 final size:7
Alignment explanation
Indices: 37578125--37578149 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
37578115 ACTTTGACAA
37578125 AAAAATT
1 AAAAATT
37578132 AAAAATT
1 AAAAATT
37578139 AAAAATT
1 AAAAATT
37578146 AAAA
1 AAAA
37578150 CATTTTAGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (7 bp):
AAAAATT
Found at i:37580814 original size:23 final size:25
Alignment explanation
Indices: 37580782--37580829 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 25
37580772 ACTATAAATA
* *
37580782 CTCATTTAAC-AATTAA-CATTTCT
1 CTCATATAACTAATCAATCATTTCT
37580805 CTCATATAACTAATCAATCATTTCT
1 CTCATATAACTAATCAATCATTTCT
37580830 TAGCAATTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 9 0.43
24 5 0.24
25 7 0.33
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (25 bp):
CTCATATAACTAATCAATCATTTCT
Found at i:37581059 original size:23 final size:23
Alignment explanation
Indices: 37581033--37581131 Score: 119
Period size: 23 Copynumber: 4.3 Consensus size: 23
37581023 ATAAGTTCCA
* *
37581033 CACTGATATGTAGCCAAATCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
37581056 CACTAATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
37581079 CACTG-TAATGTAGCCGTACCTAC
1 CACTGAT-ATGTAGCCGAAGCTAC
* *
37581102 CACTGAAACGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
37581125 CACTGAT
1 CACTGAT
37581132 CAATAACACT
Statistics
Matches: 63, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
22 1 0.02
23 62 0.98
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.22
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Done.