Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A01
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: 104050246
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4660000 characters in sequence are not A, C, G, or T
File 108 of 316
Found at i:33909051 original size:20 final size:20
Alignment explanation
Indices: 33909026--33909070 Score: 74
Period size: 20 Copynumber: 2.2 Consensus size: 20
33909016 CAAATCATTT
33909026 TCTTTTCTTCTTTCT-TTTCC
1 TCTTTTCTT-TTTCTATTTCC
33909046 TCTTTTCTTTTTCTATTTCC
1 TCTTTTCTTTTTCTATTTCC
33909066 TCTTT
1 TCTTT
33909071 CAATTGAGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 5 0.21
20 19 0.79
ACGTcount: A:0.02, C:0.27, G:0.00, T:0.71
Consensus pattern (20 bp):
TCTTTTCTTTTTCTATTTCC
Found at i:33909054 original size:13 final size:13
Alignment explanation
Indices: 33909023--33909056 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
33909013 AGTCAAATCA
*
33909023 TTTTCTTTTCTTC
1 TTTTCTTTTCCTC
33909036 -TTTCTTTTCCTC
1 TTTTCTTTTCCTC
33909048 TTTTCTTTT
1 TTTTCTTTT
33909057 TCTATTTCCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTTCTTTTCCTC
Found at i:33912258 original size:31 final size:31
Alignment explanation
Indices: 33912223--33912298 Score: 125
Period size: 31 Copynumber: 2.5 Consensus size: 31
33912213 TGCCCCAAGA
* *
33912223 TACACGGGCGTGTGAGTCCACATGGGCCCCC
1 TACACGGGCGTGTGAGTCCACACGAGCCCCC
*
33912254 TACACGGGTGTGTGAGTCCACACGAGCCCCC
1 TACACGGGCGTGTGAGTCCACACGAGCCCCC
33912285 TACACGGGCGTGTG
1 TACACGGGCGTGTG
33912299 TCCCTTTATG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.17, C:0.33, G:0.33, T:0.17
Consensus pattern (31 bp):
TACACGGGCGTGTGAGTCCACACGAGCCCCC
Found at i:33929754 original size:79 final size:81
Alignment explanation
Indices: 33929622--33929802 Score: 210
Period size: 79 Copynumber: 2.3 Consensus size: 81
33929612 ATGATGTCCA
* *
33929622 AGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTTGTG
1 AGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAATTGTG
*
33929686 CGAGATACTA-ATTCCG
66 CGAGATACTATA-ACCG
* * * **
33929702 AGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAATTGT
1 AGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAATTGT
*
33929764 GCGAGTTACTATAACCG
65 GCGAGATACTATAACCG
* *
33929781 GGCTATGTCCCGAAGGCATTTG
1 AGCTAAGTCCCGAAGGCATTTG
33929803 AACGAGTAGC
Statistics
Matches: 86, Mismatches: 11, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
78 1 0.01
79 56 0.65
80 29 0.34
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.25
Consensus pattern (81 bp):
AGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAATTGTG
CGAGATACTATAACCG
Found at i:33929809 original size:40 final size:40
Alignment explanation
Indices: 33929623--33929802 Score: 206
Period size: 40 Copynumber: 4.5 Consensus size: 40
33929613 TGATGTCCAA
* * * *
33929623 GCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGG
1 GCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGG
* * * *
33929663 ACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAATTCCGA
1 GCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAATCCGG
33929703 GCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAATCCGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGG
* *
33929742 GTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA-CCGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCCGG
*
33929782 GCTATGTCCCGAAGGCATTTG
1 GCTAAGTCCCGAAGGCATTTG
33929803 AACGAGTAGC
Statistics
Matches: 118, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
39 34 0.29
40 74 0.63
41 10 0.08
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGG
Found at i:33929824 original size:79 final size:79
Alignment explanation
Indices: 33929671--33929835 Score: 192
Period size: 79 Copynumber: 2.1 Consensus size: 79
33929661 GGACTAAGAT
* * **
33929671 CCGAAGGCATTTGTGCGAGATACTAATTCCGAGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGAGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
33929736 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
33929750 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGAGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
33929813 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
33929829 CCGAAGG
1 CCGAAGG
33929836 TACGTGATTT
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
78 2 0.03
79 46 0.63
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGAGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:33937656 original size:40 final size:39
Alignment explanation
Indices: 33937572--33937755 Score: 192
Period size: 39 Copynumber: 4.6 Consensus size: 39
33937562 TTGAATGATG
* * * * *
33937572 TCCGGGCGAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
33937612 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
* *
33937652 TCCGGGCTAAGCCCGAAGGCATTTGTACGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
* *
33937691 TCCGGGTTAAGTCCGAAGGCAATTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTA-AA
*
33937731 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGT-CCGAAGGCATTTG
33937756 AATGAGTAGC
Statistics
Matches: 120, Mismatches: 20, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
39 66 0.55
40 46 0.38
41 8 0.07
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:33940966 original size:27 final size:27
Alignment explanation
Indices: 33940936--33941112 Score: 169
Period size: 27 Copynumber: 6.6 Consensus size: 27
33940926 ATATTGAGTC
* *
33940936 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
33940963 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
33940990 CGCACACTTAGTG-TACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
33941017 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* ***
33941044 CGCACACTTAGTGC-ATCATATTCGTTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
33941071 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
33941098 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
33941113 GTACAATTTA
Statistics
Matches: 125, Mismatches: 21, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
26 7 0.06
27 111 0.89
28 7 0.06
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:33941020 original size:54 final size:53
Alignment explanation
Indices: 33940936--33941110 Score: 188
Period size: 54 Copynumber: 3.2 Consensus size: 53
33940926 ATATTGAGTC
* * * * *
33940936 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTG-TACATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
* ** * *
33940990 CGCACACTTAGTGTACATAGTCAAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGTACATAATC-AACTCGCACACTTAGTGCAACATAGTCAAAT
* * ***
33941044 CGCACACTTAGTGCATCATATTCGTTTCGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGTA-CATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
33941098 CGCACACTTAGTG
1 CGCACACTTAGTG
33941111 CTGTACAATT
Statistics
Matches: 101, Mismatches: 18, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
53 7 0.07
54 88 0.87
55 6 0.06
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (53 bp):
CGCACACTTAGTGTACATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
Found at i:33949081 original size:27 final size:27
Alignment explanation
Indices: 33949051--33949228 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
33949041 ATATTGAGTC
* *
33949051 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
33949078 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
33949105 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
33949133 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* ***
33949160 CGCACACTTAGTGC-ATCATATTCGTTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
33949187 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
33949214 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
33949229 GTACAATTTA
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 103 0.81
28 24 0.19
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:33952714 original size:72 final size:72
Alignment explanation
Indices: 33952585--33952727 Score: 216
Period size: 72 Copynumber: 2.0 Consensus size: 72
33952575 CAGGGGCGAT
* * * *
33952585 GGCTTGCTGTTTTGAACGGTTGAGGAGAGCGAGGAAGCAGCGGCTGAATCTAATCGGGAGGAGAC
1 GGCTGGCTGTTTTGAACGGTTGAGGAGAGCAAAGAAGCAGCAGCTGAATCTAATCGGGAGGAGAC
33952650 AGCTTCG
66 AGCTTCG
* *
33952657 GGCTGGCTGTTTTGAATGGTTGAGGAGAGCAAAGAAGCAGCAGCTGAAT-TGATTCGGGAGGAGA
1 GGCTGGCTGTTTTGAACGGTTGAGGAGAGCAAAGAAGCAGCAGCTGAATCT-AATCGGGAGGAGA
33952721 CAGCTTC
65 CAGCTTC
33952728 AGACAGTACT
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
71 1 0.02
72 63 0.98
ACGTcount: A:0.25, C:0.15, G:0.38, T:0.22
Consensus pattern (72 bp):
GGCTGGCTGTTTTGAACGGTTGAGGAGAGCAAAGAAGCAGCAGCTGAATCTAATCGGGAGGAGAC
AGCTTCG
Found at i:33955064 original size:98 final size:98
Alignment explanation
Indices: 33954952--33955147 Score: 383
Period size: 98 Copynumber: 2.0 Consensus size: 98
33954942 AGTTGATATA
33954952 TCTGTCATGAGATACTAAAATCATTAAAATAATTTATAATTCATTATTTGAAAAAAACTTAATTT
1 TCTGTCATGAGATACTAAAATCATTAAAATAATTTATAATTCATTATTTGAAAAAAACTTAATTT
*
33955017 ATTATTTGGCCCCTGAATTATACTAGTTTTCTC
66 ATTATTTGGCCCCTGAATTATACTAATTTTCTC
33955050 TCTGTCATGAGATACTAAAATCATTAAAATAATTTATAATTCATTATTTGAAAAAAACTTAATTT
1 TCTGTCATGAGATACTAAAATCATTAAAATAATTTATAATTCATTATTTGAAAAAAACTTAATTT
33955115 ATTATTTGGCCCCTGAATTATACTAATTTTCTC
66 ATTATTTGGCCCCTGAATTATACTAATTTTCTC
33955148 ACTTTGACAC
Statistics
Matches: 97, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
98 97 1.00
ACGTcount: A:0.37, C:0.13, G:0.08, T:0.42
Consensus pattern (98 bp):
TCTGTCATGAGATACTAAAATCATTAAAATAATTTATAATTCATTATTTGAAAAAAACTTAATTT
ATTATTTGGCCCCTGAATTATACTAATTTTCTC
Found at i:33957183 original size:27 final size:28
Alignment explanation
Indices: 33957153--33957233 Score: 87
Period size: 27 Copynumber: 3.0 Consensus size: 28
33957143 ATAAAATTTT
* ** *
33957153 GGGAAAGA-TGTAAAATTTGTAAAGTAG
1 GGGAAAGATTGTAAAATCTAAAAAATAG
*
33957180 GGGACAGATTGTAAAATCTAAAAAATAG
1 GGGAAAGATTGTAAAATCTAAAAAATAG
33957208 GGGAAA-ATTGTAAAATC-AAAGAAATA
1 GGGAAAGATTGTAAAATCTAAA-AAATA
33957234 AGGACAAATG
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
26 3 0.07
27 23 0.50
28 20 0.43
ACGTcount: A:0.51, C:0.04, G:0.23, T:0.22
Consensus pattern (28 bp):
GGGAAAGATTGTAAAATCTAAAAAATAG
Found at i:33957242 original size:27 final size:28
Alignment explanation
Indices: 33957181--33957242 Score: 76
Period size: 27 Copynumber: 2.3 Consensus size: 28
33957171 GTAAAGTAGG
* *
33957181 GGACAGATTGTAAAATCTAAAAAATAGG
1 GGACAAATTGTAAAATCTAAAAAATAGA
33957209 GGA-AAATTGTAAAATC-AAAGAAATA-A
1 GGACAAATTGTAAAATCTAAA-AAATAGA
33957235 GGACAAAT
1 GGACAAAT
33957243 GGCCATGTGA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
26 6 0.20
27 21 0.70
28 3 0.10
ACGTcount: A:0.55, C:0.06, G:0.19, T:0.19
Consensus pattern (28 bp):
GGACAAATTGTAAAATCTAAAAAATAGA
Found at i:33958408 original size:18 final size:19
Alignment explanation
Indices: 33958371--33958411 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
33958361 ATTTAGAATC
33958371 AAAACTAAAATAAATAATA
1 AAAACTAAAATAAATAATA
* *
33958390 AAAACTAGATTAAAT-ATA
1 AAAACTAAAATAAATAATA
33958408 AAAA
1 AAAA
33958412 TATCAATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.71, C:0.05, G:0.02, T:0.22
Consensus pattern (19 bp):
AAAACTAAAATAAATAATA
Found at i:33958413 original size:31 final size:31
Alignment explanation
Indices: 33958337--33958410 Score: 82
Period size: 31 Copynumber: 2.4 Consensus size: 31
33958327 TCAAGTTATC
*
33958337 TTAAATATTAAAATAAAAATAAAAATTTAGAA
1 TTAAATA-TAAAATAAAAATAAAAATCTAGAA
*
33958369 TCAAA-ACTAAAATAAATAATAAAAA-CTAG-A
1 TTAAATA-TAAAATAAA-AATAAAAATCTAGAA
33958399 TTAAATATAAAA
1 TTAAATATAAAA
33958411 ATATCAATAA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
30 10 0.28
31 14 0.39
32 12 0.33
ACGTcount: A:0.66, C:0.04, G:0.03, T:0.27
Consensus pattern (31 bp):
TTAAATATAAAATAAAAATAAAAATCTAGAA
Found at i:33961693 original size:37 final size:37
Alignment explanation
Indices: 33961643--33961749 Score: 162
Period size: 37 Copynumber: 2.9 Consensus size: 37
33961633 CTATGCAGCA
33961643 GATGCACGGGGCGAAGGCGATGGAGGAGATGGGTTGC
1 GATGCACGGGGCGAAGGCGATGGAGGAGATGGGTTGC
* *
33961680 GATGCACGGGGCGAAGACGATGGAGG-GAATGAGTTGC
1 GATGCACGGGGCGAAGGCGATGGAGGAG-ATGGGTTGC
* *
33961717 GATGCACGGGGAGAAGGCGACGGAGGAGATGGG
1 GATGCACGGGGCGAAGGCGATGGAGGAGATGGG
33961750 ATTTTTTGAT
Statistics
Matches: 62, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
36 1 0.02
37 60 0.97
38 1 0.02
ACGTcount: A:0.25, C:0.13, G:0.50, T:0.11
Consensus pattern (37 bp):
GATGCACGGGGCGAAGGCGATGGAGGAGATGGGTTGC
Found at i:33962805 original size:7 final size:7
Alignment explanation
Indices: 33962793--33962839 Score: 58
Period size: 7 Copynumber: 6.7 Consensus size: 7
33962783 AGTTAACTCC
33962793 TAAACCT
1 TAAACCT
33962800 TAAACCT
1 TAAACCT
*
33962807 TAAACCA
1 TAAACCT
* *
33962814 TATATCT
1 TAAACCT
*
33962821 TAAACCA
1 TAAACCT
33962828 TAAACCT
1 TAAACCT
33962835 TAAAC
1 TAAAC
33962840 TATAATGATA
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.47, C:0.26, G:0.00, T:0.28
Consensus pattern (7 bp):
TAAACCT
Found at i:33962810 original size:14 final size:14
Alignment explanation
Indices: 33962725--33962844 Score: 73
Period size: 14 Copynumber: 8.4 Consensus size: 14
33962715 AACCCCTATC
33962725 CCATAAACAC-TAAA
1 CCATAAAC-CTTAAA
*
33962739 CCCTAAACCTT-AA
1 CCATAAACCTTAAA
* **
33962752 CCATTAACCCCAAA
1 CCATAAACCTTAAA
* *
33962766 CCCTTACACCTTAAA
1 -CCATAAACCTTAAA
* * *
33962781 CTAGTTAACTCCTAAA
1 CCA-TAAAC-CTTAAA
*
33962797 CCTTAAACCTTAAA
1 CCATAAACCTTAAA
* *
33962811 CCATATATCTTAAA
1 CCATAAACCTTAAA
33962825 CCATAAACCTTAAA
1 CCATAAACCTTAAA
*
33962839 CTATAA
1 CCATAA
33962845 TGATAATTAA
Statistics
Matches: 76, Mismatches: 25, Indels: 10
0.68 0.23 0.09
Matches are distributed among these distances:
13 10 0.13
14 44 0.58
15 16 0.21
16 6 0.08
ACGTcount: A:0.43, C:0.31, G:0.01, T:0.25
Consensus pattern (14 bp):
CCATAAACCTTAAA
Found at i:33969305 original size:24 final size:24
Alignment explanation
Indices: 33969250--33969321 Score: 99
Period size: 24 Copynumber: 2.9 Consensus size: 24
33969240 GAGTCATGGT
*
33969250 CGGTAAGCTCTTACTGAGCTGATAAA
1 CGGTAAGCTC-TATTGAGCTGA-AAA
*
33969276 CAGTAAGCTCTATTGAGCTGAAAA
1 CGGTAAGCTCTATTGAGCTGAAAA
*
33969300 CGGTAAGCTTTATTGAGCTGAA
1 CGGTAAGCTCTATTGAGCTGAA
33969322 CAGTAAGCTC
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
24 23 0.55
25 10 0.24
26 9 0.21
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.28
Consensus pattern (24 bp):
CGGTAAGCTCTATTGAGCTGAAAA
Found at i:33969334 original size:24 final size:24
Alignment explanation
Indices: 33969252--33969380 Score: 99
Period size: 23 Copynumber: 5.5 Consensus size: 24
33969242 GTCATGGTCG
*
33969252 GTAAGCTCTTACTGAGCTGATAAACA
1 GTAAGCTCTTATTGAGCTG--AAACA
*
33969278 GTAAGCTC-TATTGAGCTGAAAACG
1 GTAAGCTCTTATTGAGCTG-AAACA
33969302 GTAAGCT-TTATTGAGCTG-AACA
1 GTAAGCTCTTATTGAGCTGAAACA
** ***
33969324 GTAAGCTCTT-TCAAGCTGAATTG
1 GTAAGCTCTTATTGAGCTGAAACA
* *
33969347 GTAAGCTAC--AATGAGCTGAAATA
1 GTAAGCT-CTTATTGAGCTGAAACA
33969370 GTAAGCTCTTA
1 GTAAGCTCTTA
33969381 CGAGATATGG
Statistics
Matches: 82, Mismatches: 14, Indels: 16
0.73 0.12 0.14
Matches are distributed among these distances:
22 17 0.21
23 25 0.30
24 23 0.28
25 9 0.11
26 8 0.10
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.29
Consensus pattern (24 bp):
GTAAGCTCTTATTGAGCTGAAACA
Found at i:33969341 original size:46 final size:45
Alignment explanation
Indices: 33969250--33969379 Score: 127
Period size: 46 Copynumber: 2.8 Consensus size: 45
33969240 GAGTCATGGT
* *
33969250 CGGTAAGCTCTTACTGAGCTGATAAACAGTAAGCTCTATTGAGCTGAAAA
1 CGGTAAGCT-TTAATGAGCTG--AAACAGTAAGCTCT-TTAAGCTG-AAA
* *
33969300 CGGTAAGCTTTATTGAGCTG-AACAGTAAGCTCTTTCAAGCTGAAT
1 CGGTAAGCTTTAATGAGCTGAAACAGTAAGCTCTTT-AAGCTGAAA
* ** *
33969345 TGGTAAGCTACAATGAGCTGAAATAGTAAGCTCTT
1 CGGTAAGCTTTAATGAGCTGAAACAGTAAGCTCTT
33969380 ACGAGATATG
Statistics
Matches: 70, Mismatches: 8, Indels: 8
0.81 0.09 0.09
Matches are distributed among these distances:
45 20 0.29
46 31 0.44
49 10 0.14
50 9 0.13
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.28
Consensus pattern (45 bp):
CGGTAAGCTTTAATGAGCTGAAACAGTAAGCTCTTTAAGCTGAAA
Found at i:33972164 original size:47 final size:47
Alignment explanation
Indices: 33972097--33972201 Score: 174
Period size: 47 Copynumber: 2.2 Consensus size: 47
33972087 CCCTTCGGGA
* * *
33972097 CTTATCACATTTATACACTTTCAAATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATAAACTTTCAAATCCATCACATTGGCCATTCGGC
*
33972144 CTTATCACATATATAAACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATAAACTTTCAAATCCATCACATTGGCCATTCGGC
33972191 CTTATCACATA
1 CTTATCACATA
33972202 ATTAATACTA
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 54 1.00
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATAAACTTTCAAATCCATCACATTGGCCATTCGGC
Found at i:33980339 original size:16 final size:17
Alignment explanation
Indices: 33980298--33980339 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
33980288 AAGTAAATAA
* *
33980298 AAGAAAGAAAGAAACAG
1 AAGAAGGAACGAAACAG
*
33980315 AATAAGGAACGAAACAG
1 AAGAAGGAACGAAACAG
33980332 -AGAAGGAA
1 AAGAAGGAA
33980340 GGAAGGAAAG
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 7 0.33
17 14 0.67
ACGTcount: A:0.64, C:0.07, G:0.26, T:0.02
Consensus pattern (17 bp):
AAGAAGGAACGAAACAG
Found at i:33984516 original size:23 final size:22
Alignment explanation
Indices: 33984440--33984551 Score: 100
Period size: 23 Copynumber: 4.8 Consensus size: 22
33984430 GTCATGGTCG
33984440 GTAAGCTCTTACTGAGCTGACAAACA
1 GTAAGCTCTT--TGAGCT-A-AAACA
* *
33984466 GTTAGCTCTATTGAGCT-GAACA
1 GTAAGCTCT-TTGAGCTAAAACA
*
33984488 GTAAGCTCTTTCGAGCTAAATCA
1 GTAAGCTCTTT-GAGCTAAAACA
**
33984511 GTAAGCTACAATGAGCTAAAACA
1 GTAAGCT-CTTTGAGCTAAAACA
33984534 GTAAGCTCTTATGAGCTA
1 GTAAGCTCTT-TGAGCTA
33984552 TGGTGAGTCC
Statistics
Matches: 71, Mismatches: 10, Indels: 13
0.76 0.11 0.14
Matches are distributed among these distances:
21 2 0.03
22 18 0.25
23 34 0.48
24 2 0.03
25 6 0.08
26 8 0.11
27 1 0.01
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.27
Consensus pattern (22 bp):
GTAAGCTCTTTGAGCTAAAACA
Found at i:33987514 original size:29 final size:30
Alignment explanation
Indices: 33987485--33987707 Score: 165
Period size: 30 Copynumber: 7.5 Consensus size: 30
33987475 TTCAGCTATC
33987485 AATTATGAAAAGGGATGATGACGACCATCA
1 AATTATGAAAAGGGATGATGACGACCATCA
* *
33987515 ACA--ATGAAAATGGATGGTGACGACCATC-
1 A-ATTATGAAAAGGGATGATGACGACCATCA
* * * * *
33987543 AACTATGAAAAGGGATAGCT-TCGGCTATCA
1 AATTATGAAAAGGGAT-GATGACGACCATCA
* *
33987573 AATTTTGAAAAGGGATGGTGACGA-CATCGA
1 AATTATGAAAAGGGATGATGACGACCATC-A
* * * * *
33987603 AA-TATGAAAAAGGATAACT-TCGGCTATCA
1 AATTATGAAAAGGGATGA-TGACGACCATCA
*
33987632 AATTATGAAAAGGGAT-AGTGACGACCATCG
1 AATTATGAAAAGGGATGA-TGACGACCATCA
** * * *
33987662 AACAATGGAAAGAGATGGTGACGACCATCA
1 AATTATGAAAAGGGATGATGACGACCATCA
33987692 AATTATGAAAAGGGAT
1 AATTATGAAAAGGGAT
33987708 AGCTTCAGCT
Statistics
Matches: 145, Mismatches: 36, Indels: 24
0.71 0.18 0.12
Matches are distributed among these distances:
27 1 0.01
28 1 0.01
29 63 0.43
30 79 0.54
31 1 0.01
ACGTcount: A:0.41, C:0.13, G:0.25, T:0.21
Consensus pattern (30 bp):
AATTATGAAAAGGGATGATGACGACCATCA
Found at i:33987584 original size:30 final size:30
Alignment explanation
Indices: 33987431--33987649 Score: 143
Period size: 29 Copynumber: 7.5 Consensus size: 30
33987421 TCATCGACAA
* *
33987431 ATGAAAAGGGATAGTTTTGGCTATCAAA-T
1 ATGAAAAGGGATAGCTTCGGCTATCAAATT
* *
33987460 ACGAAAAGGGATAGCTTCAGCTATC-AATT
1 ATGAAAAGGGATAGCTTCGGCTATCAAATT
* * * *
33987489 ATGAAAAGGGAT-GATGACGACCATCAACA--
1 ATGAAAAGGGATAGCT-TCGGCTATCAA-ATT
* * * * * *
33987518 ATGAAAATGGAT-GGTGACGACCATC-AACT
1 ATGAAAAGGGATAGCT-TCGGCTATCAAATT
33987547 ATGAAAAGGGATAGCTTCGGCTATCAAATT
1 ATGAAAAGGGATAGCTTCGGCTATCAAATT
* * * *
33987577 TTGAAAAGGGAT-GGTGACGAC-ATCGAAA-T
1 ATGAAAAGGGATAGCT-TCGGCTATC-AAATT
* *
33987606 ATGAAAAAGGATAACTTCGGCTATCAAATT
1 ATGAAAAGGGATAGCTTCGGCTATCAAATT
33987636 ATGAAAAGGGATAG
1 ATGAAAAGGGATAG
33987650 TGACGACCAT
Statistics
Matches: 147, Mismatches: 30, Indels: 25
0.73 0.15 0.12
Matches are distributed among these distances:
27 1 0.01
28 5 0.03
29 100 0.68
30 40 0.27
31 1 0.01
ACGTcount: A:0.40, C:0.13, G:0.24, T:0.23
Consensus pattern (30 bp):
ATGAAAAGGGATAGCTTCGGCTATCAAATT
Found at i:33987609 original size:59 final size:60
Alignment explanation
Indices: 33987518--33987663 Score: 224
Period size: 59 Copynumber: 2.5 Consensus size: 60
33987508 ACCATCAACA
* * * *
33987518 ATGAAAATGGATGGTGACGACCATC-AACTATGAAAAGGGATAGCTTCGGCTATCAAATT
1 ATGAAAAGGGATGGTGACGACCATCGAAATATGAAAAAGGATAACTTCGGCTATCAAATT
*
33987577 TTGAAAAGGGATGGTGACGA-CATCGAAATATGAAAAAGGATAACTTCGGCTATCAAATT
1 ATGAAAAGGGATGGTGACGACCATCGAAATATGAAAAAGGATAACTTCGGCTATCAAATT
*
33987636 ATGAAAAGGGATAGTGACGACCATCGAA
1 ATGAAAAGGGATGGTGACGACCATCGAA
33987664 CAATGGAAAG
Statistics
Matches: 78, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
58 4 0.05
59 67 0.86
60 7 0.09
ACGTcount: A:0.40, C:0.14, G:0.25, T:0.22
Consensus pattern (60 bp):
ATGAAAAGGGATGGTGACGACCATCGAAATATGAAAAAGGATAACTTCGGCTATCAAATT
Found at i:34005370 original size:49 final size:48
Alignment explanation
Indices: 34005298--34005473 Score: 208
Period size: 51 Copynumber: 3.5 Consensus size: 48
34005288 CTGATACGCA
* * *
34005298 TAGTAGCCTGCACTTAGTACTACACATGCGACCAACAATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACAAACAAT-TGGTACACG
* * * *
34005347 TAGTAGCCTGCACTTAGTACTACACACGTGATCAAAGCCATTGAGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGTGA-CAAA-CAATTG-GTACACG
* * *
34005398 TAGTAGGCTGCACTTAGTACTACACATGTGACTTAACAGTATGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGAC-AAACAAT-TGGTACACG
34005448 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
34005474 CGTGTACTCA
Statistics
Matches: 107, Mismatches: 15, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
49 29 0.27
50 37 0.35
51 41 0.38
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (48 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGACAAACAATTGGTACACG
Found at i:34005472 original size:101 final size:100
Alignment explanation
Indices: 34005292--34005477 Score: 309
Period size: 101 Copynumber: 1.9 Consensus size: 100
34005282 AGCTATCTGA
*
34005292 TACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAATCCGGTACACGTAGTAGCCTG
1 TACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAATACGGTACACGTAGTAGCCTG
34005357 CACTTAGTACTACACACGTGATCAAAGCCATTGAG
66 CACTTAGTACTACACACGTGATCAAAGCCATTGAG
* * * * *
34005392 TACGCATAGTAGGCTGCACTTAGTACTACACATGTGACTTAACAGTATGGTACACGTAGTAGCCT
1 TACGCATAGTAGCCTGCACTTAGTACTACACATGCGAC-CAACAATACGGTACACGTAGTAGCCT
34005457 GCACTTAGTACTACACACGTG
65 GCACTTAGTACTACACACGTG
34005478 TACTCACAAT
Statistics
Matches: 79, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
100 36 0.46
101 43 0.54
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (100 bp):
TACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAATACGGTACACGTAGTAGCCTG
CACTTAGTACTACACACGTGATCAAAGCCATTGAG
Found at i:34007621 original size:29 final size:29
Alignment explanation
Indices: 34007579--34007648 Score: 95
Period size: 29 Copynumber: 2.4 Consensus size: 29
34007569 TCATCGAAAA
* * *
34007579 ATGAAAAGGTATAGTTTCGGTTATCGAAT
1 ATGAAAAGGGATAGCTTCGGCTATCGAAT
* *
34007608 ATGAAATGGGATAGCTTCGGCTATCGATT
1 ATGAAAAGGGATAGCTTCGGCTATCGAAT
34007637 ATGAAAAGGGAT
1 ATGAAAAGGGAT
34007649 GGTGACGACC
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.34, C:0.09, G:0.27, T:0.30
Consensus pattern (29 bp):
ATGAAAAGGGATAGCTTCGGCTATCGAAT
Found at i:34007701 original size:30 final size:30
Alignment explanation
Indices: 34007637--34007797 Score: 141
Period size: 30 Copynumber: 5.4 Consensus size: 30
34007627 GCTATCGATT
* *
34007637 ATGAAAAGGGATGGTGACGACCAT-TAACA
1 ATGAAAAGGGATGGTGACGACCATCGAATA
* *
34007666 ATGAAAAGGGATGGCGACGACCATCGGATA
1 ATGAAAAGGGATGGTGACGACCATCGAATA
*
34007696 ATGAAAAGGAATGGTGACGACCATCGAACT-
1 ATGAAAAGGGATGGTGACGACCATCGAA-TA
* * * * * *
34007726 ATGAAAAGGGATAAGT-TCGGCTATCAAATT
1 ATGAAAAGGGAT-GGTGACGACCATCGAATA
* * *
34007756 AT-AGAAAGGGATGGTGACAACCATCAAATT
1 ATGA-AAAGGGATGGTGACGACCATCGAATA
34007786 ATGAAAAGGGAT
1 ATGAAAAGGGAT
34007798 AGCTCCGGCT
Statistics
Matches: 107, Mismatches: 18, Indels: 13
0.78 0.13 0.09
Matches are distributed among these distances:
29 27 0.25
30 76 0.71
31 4 0.04
ACGTcount: A:0.41, C:0.13, G:0.27, T:0.19
Consensus pattern (30 bp):
ATGAAAAGGGATGGTGACGACCATCGAATA
Found at i:34007807 original size:60 final size:59
Alignment explanation
Indices: 34007605--34007822 Score: 201
Period size: 60 Copynumber: 3.7 Consensus size: 59
34007595 TCGGTTATCG
* * *
34007605 AATATGAAATGGGATAGCTTCGGCTATC-GATTATGAAAAGGGATGGTGACGACCATTA
1 AATATGAAAAGGGATAGCTTCGGCTATCAAATTATGAAAAGGGATGGTGACGACCATCA
* ** * * ** * *
34007663 ACA-ATGAAAAGGGATGGCGACGACCATCGGATAATGAAAAGGAATGGTGACGACCATCGA
1 A-ATATGAAAAGGGATAGCTTCGGCTATCAAATTATGAAAAGGGATGGTGACGACCATC-A
* *
34007723 ACTATGAAAAGGGATAAG-TTCGGCTATCAAATTAT-AGAAAGGGATGGTGACAACCATCA
1 AATATGAAAAGGGAT-AGCTTCGGCTATCAAATTATGA-AAAGGGATGGTGACGACCATCA
* * * *
34007782 AATTATGAAAAGGGATAGCTCCGGCTGTCAAACTATAAAAA
1 AA-TATGAAAAGGGATAGCTTCGGCTATCAAATTATGAAAA
34007823 AAGATAACTT
Statistics
Matches: 127, Mismatches: 24, Indels: 16
0.76 0.14 0.10
Matches are distributed among these distances:
58 20 0.16
59 32 0.25
60 73 0.57
61 2 0.02
ACGTcount: A:0.39, C:0.14, G:0.26, T:0.21
Consensus pattern (59 bp):
AATATGAAAAGGGATAGCTTCGGCTATCAAATTATGAAAAGGGATGGTGACGACCATCA
Found at i:34009113 original size:20 final size:20
Alignment explanation
Indices: 34009073--34009113 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
34009063 CCCTATAGTG
* *
34009073 TTGAAAAGTTCTATGATTTT
1 TTGAAAAATTCTATGAGTTT
*
34009093 TTGAAAAATTCTTTGAGTTT
1 TTGAAAAATTCTATGAGTTT
34009113 T
1 T
34009114 CGATTTAGTC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.29, C:0.05, G:0.15, T:0.51
Consensus pattern (20 bp):
TTGAAAAATTCTATGAGTTT
Found at i:34009979 original size:29 final size:28
Alignment explanation
Indices: 34009938--34010004 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 28
34009928 TCGATTATGT
* * *
34009938 AAAAGGATGGTGATGAGCATCAACAATG
1 AAAAGGATAGTGACGACCATCAACAATG
* *
34009966 AAAAGGGATAGTGACGACCATCGACTATG
1 AAAA-GGATAGTGACGACCATCAACAATG
34009995 AAAAAGGATA
1 -AAAAGGATA
34010005 ACTTCGACTA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
28 4 0.12
29 24 0.75
30 4 0.12
ACGTcount: A:0.45, C:0.12, G:0.27, T:0.16
Consensus pattern (28 bp):
AAAAGGATAGTGACGACCATCAACAATG
Found at i:34010058 original size:60 final size:61
Alignment explanation
Indices: 34009966--34010124 Score: 205
Period size: 61 Copynumber: 2.6 Consensus size: 61
34009956 ATCAACAATG
* * *
34009966 AAAAGGGATAGTGACGACCATCG-ACTATGAAAAAGGATAACTTCGACTATAAAATTAT-A
1 AAAAAGGATAGTGATGACCATCGAACTATGAAAAGGGATAACTTCGACTATAAAATTATGA
* * ** *
34010025 AAAAAGGATAGTGATGTCCATCGAACTATGAAAAGGGATAGCTTCGGTTATTAAATTATGA
1 AAAAAGGATAGTGATGACCATCGAACTATGAAAAGGGATAACTTCGACTATAAAATTATGA
* * *
34010086 AAAAAGGATAGTGATGGCCATTGAACAATGAAAAGGGAT
1 AAAAAGGATAGTGATGACCATCGAACTATGAAAAGGGAT
34010125 GGTGATGACC
Statistics
Matches: 87, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
59 20 0.23
60 30 0.34
61 37 0.43
ACGTcount: A:0.43, C:0.11, G:0.23, T:0.23
Consensus pattern (61 bp):
AAAAAGGATAGTGATGACCATCGAACTATGAAAAGGGATAACTTCGACTATAAAATTATGA
Found at i:34010065 original size:30 final size:31
Alignment explanation
Indices: 34010024--34010156 Score: 92
Period size: 30 Copynumber: 4.4 Consensus size: 31
34010014 ATAAAATTAT
* *
34010024 AAAAAAGGATAGTGATGTCCATCGAACTATG
1 AAAAAGGGATAGTGATGTCCATCAAACTATG
*** * * *
34010055 -AAAAGGGATAGCTTCGGT-TATTAAATTATG
1 AAAAAGGGATAG-TGATGTCCATCAAACTATG
* * ** *
34010085 AAAAAAGGATAGTGATGGCCATTGAACAATG
1 AAAAAGGGATAGTGATGTCCATCAAACTATG
* * *
34010116 -AAAAGGGATGGTGATGACCATCAAAATATG
1 AAAAAGGGATAGTGATGTCCATCAAACTATG
34010146 AAAAAGGGATA
1 AAAAAGGGATA
34010157 ATTTCAGCTA
Statistics
Matches: 73, Mismatches: 25, Indels: 8
0.69 0.24 0.08
Matches are distributed among these distances:
30 43 0.59
31 30 0.41
ACGTcount: A:0.44, C:0.09, G:0.25, T:0.23
Consensus pattern (31 bp):
AAAAAGGGATAGTGATGTCCATCAAACTATG
Found at i:34010146 original size:61 final size:61
Alignment explanation
Indices: 34009966--34010156 Score: 167
Period size: 61 Copynumber: 3.2 Consensus size: 61
34009956 ATCAACAATG
* * * * * * *
34009966 AAAAGGGATAGTGACGACCATCG-ACTATGAAAAAGGATAACTTCGACTAT-AAAATTAT-A
1 AAAAAGGATAGTGATGGCCATCGAACAATGAAAAGGGATAGCTTCGACCATCAAAA-TATGA
* * *** * *
34010025 AAAAAGGATAGTGATGTCCATCGAACTATGAAAAGGGATAGCTTCGGTTATTAAATTATGA
1 AAAAAGGATAGTGATGGCCATCGAACAATGAAAAGGGATAGCTTCGACCATCAAAATATGA
* *
34010086 AAAAAGGATAGTGATGGCCATTGAACAATGAAAAGGGAT-GGTGAT-GACCATCAAAATATGA
1 AAAAAGGATAGTGATGGCCATCGAACAATGAAAAGGGATAGCT--TCGACCATCAAAATATGA
*
34010147 AAAAGGGATA
1 AAAAAGGATA
34010157 ATTTCAGCTA
Statistics
Matches: 109, Mismatches: 18, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
59 20 0.18
60 28 0.26
61 60 0.55
62 1 0.01
ACGTcount: A:0.44, C:0.10, G:0.23, T:0.23
Consensus pattern (61 bp):
AAAAAGGATAGTGATGGCCATCGAACAATGAAAAGGGATAGCTTCGACCATCAAAATATGA
Found at i:34018203 original size:28 final size:28
Alignment explanation
Indices: 34018148--34018276 Score: 120
Period size: 28 Copynumber: 4.7 Consensus size: 28
34018138 GGGGACAAAG
* *
34018148 CTGTAAAATCTAAAAAAATAAGGTTAAAT
1 CTGTAAAATCT-AAAAAATAAGGGTAAAA
* *
34018177 TTGTAAAATCTAAAAAATAGGGGTAAAA
1 CTGTAAAATCTAAAAAATAAGGGTAAAA
* *
34018205 CTATAAAATCT-AAAAA-AAGGCT-AAA
1 CTGTAAAATCTAAAAAATAAGGGTAAAA
* * * *
34018230 CTATCAAATATGAAAAATAAGGGTAAAA
1 CTGTAAAATCTAAAAAATAAGGGTAAAA
* *
34018258 CTATAAAATCTGAAAAATA
1 CTGTAAAATCTAAAAAATA
34018277 GGGAACACAT
Statistics
Matches: 84, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
25 12 0.14
26 9 0.11
27 10 0.12
28 43 0.51
29 10 0.12
ACGTcount: A:0.57, C:0.08, G:0.12, T:0.24
Consensus pattern (28 bp):
CTGTAAAATCTAAAAAATAAGGGTAAAA
Found at i:34018279 original size:27 final size:27
Alignment explanation
Indices: 34018180--34018279 Score: 123
Period size: 28 Copynumber: 3.7 Consensus size: 27
34018170 GTTAAATTTG
*
34018180 TAAAATCTAAAAAATAGGGGTAAAACTA
1 TAAAATCTGAAAAATA-GGGTAAAACTA
* *
34018208 TAAAATCT-AAAAAAAGGCT-AAACTA
1 TAAAATCTGAAAAATAGGGTAAAACTA
* *
34018233 TCAAATATGAAAAATAAGGGTAAAACTA
1 TAAAATCTGAAAAAT-AGGGTAAAACTA
34018261 TAAAATCTGAAAAATAGGG
1 TAAAATCTGAAAAATAGGG
34018280 AACACATGGC
Statistics
Matches: 61, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
25 12 0.20
26 8 0.13
27 14 0.23
28 27 0.44
ACGTcount: A:0.57, C:0.08, G:0.14, T:0.21
Consensus pattern (27 bp):
TAAAATCTGAAAAATAGGGTAAAACTA
Found at i:34021654 original size:56 final size:56
Alignment explanation
Indices: 34021568--34021826 Score: 374
Period size: 56 Copynumber: 4.6 Consensus size: 56
34021558 ACCTGGAAGT
* * * *
34021568 ATATGTGACTTCGATACATGTGTGCGAGTAAGTCCACGTTTCATACGTTGGCATCG
1 ATATGTGACTCCGATATATGTGTGCGAGTAAGACCACATTTCATACGTTGGCATCG
* * * *
34021624 ATATGTGACTCCGATATATGTGTGTGAGTAAGTCCACGTTTCATATGTTGGCATCG
1 ATATGTGACTCCGATATATGTGTGCGAGTAAGACCACATTTCATACGTTGGCATCG
*
34021680 ATATGTGACTCTGATATATGTGTGCGAGTAAGACCACATTTCATACGTTGGCATCG
1 ATATGTGACTCCGATATATGTGTGCGAGTAAGACCACATTTCATACGTTGGCATCG
* *
34021736 ATATGTGACTCTGATATATGTGTGCGAGTAAGACCACATTTTATACGTTGGCATCG
1 ATATGTGACTCCGATATATGTGTGCGAGTAAGACCACATTTCATACGTTGGCATCG
* * * * *
34021792 ATATGTGATTTCGATATGTGTTTACGAGTAAGACC
1 ATATGTGACTCCGATATATGTGTGCGAGTAAGACC
34021827 CTGTTTGGGA
Statistics
Matches: 187, Mismatches: 16, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
56 187 1.00
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (56 bp):
ATATGTGACTCCGATATATGTGTGCGAGTAAGACCACATTTCATACGTTGGCATCG
Found at i:34031183 original size:29 final size:29
Alignment explanation
Indices: 34031150--34031209 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
34031140 CACATATGTA
*
34031150 ATAAGAGTAATTAGAAGTTATTATTTACT
1 ATAAGAGTAATTACAAGTTATTATTTACT
34031179 ATAAGAGTAATTACAAGTTATTATTTACT
1 ATAAGAGTAATTACAAGTTATTATTTACT
34031208 AT
1 AT
34031210 CATAAAAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.42, C:0.05, G:0.12, T:0.42
Consensus pattern (29 bp):
ATAAGAGTAATTACAAGTTATTATTTACT
Found at i:34031223 original size:32 final size:29
Alignment explanation
Indices: 34031158--34031219 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
34031148 TAATAAGAGT
* * **
34031158 AATTAGAAGTTATTATTTACTATAAGAGT
1 AATTACAAGTTATTATTTACTATAAAAAA
34031187 AATTACAAGTTATTATTTACTATCATAAAAA
1 AATTACAAGTTATTATTTACTAT-A-AAAAA
34031218 AA
1 AA
34031220 ATTAGCCCAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 22 0.81
30 1 0.04
31 4 0.15
ACGTcount: A:0.47, C:0.06, G:0.08, T:0.39
Consensus pattern (29 bp):
AATTACAAGTTATTATTTACTATAAAAAA
Found at i:34034188 original size:30 final size:30
Alignment explanation
Indices: 34034112--34034190 Score: 83
Period size: 30 Copynumber: 2.7 Consensus size: 30
34034102 AAGTTGTAAA
*
34034112 TTTAGTCCTTATACTTT--ATTTGATCAAT
1 TTTAGTCCTTATACTTTCAAATTGATCAAT
* * * *
34034140 TTTAGTCC-TGTGCTTTTCAAATTGGTCACT
1 TTTAGTCCTTATAC-TTTCAAATTGATCAAT
34034170 TTTAGTCCTTATACTTTCAAA
1 TTTAGTCCTTATACTTTCAAA
34034191 AATTAAATTT
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
27 3 0.08
28 11 0.28
30 23 0.57
31 3 0.08
ACGTcount: A:0.23, C:0.18, G:0.10, T:0.49
Consensus pattern (30 bp):
TTTAGTCCTTATACTTTCAAATTGATCAAT
Found at i:34035145 original size:29 final size:29
Alignment explanation
Indices: 34035099--34035157 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
34035089 GCCATTTGAA
*
34035099 CATATTTGCTAAGTATTTATATCAAAATT
1 CATATTTGCTAAGCATTTATATCAAAATT
*
34035128 CATATTTGCTAAGCATTTATATCAACATT
1 CATATTTGCTAAGCATTTATATCAAAATT
34035157 C
1 C
34035158 TTTTGACAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.36, C:0.15, G:0.07, T:0.42
Consensus pattern (29 bp):
CATATTTGCTAAGCATTTATATCAAAATT
Found at i:34050120 original size:10 final size:9
Alignment explanation
Indices: 34050089--34050122 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
34050079 TTTCATTTCA
34050089 TTTTTTTAGT
1 TTTTTTTA-T
*
34050099 TTCTTTTAT
1 TTTTTTTAT
34050108 TTTTTTTAT
1 TTTTTTTAT
34050117 TTTTTT
1 TTTTTT
34050123 ACTACAAACC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 15 0.68
10 7 0.32
ACGTcount: A:0.09, C:0.03, G:0.03, T:0.85
Consensus pattern (9 bp):
TTTTTTTAT
Found at i:34051628 original size:20 final size:20
Alignment explanation
Indices: 34051603--34051646 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
34051593 TTCATTGCTC
34051603 TTTAATTATTAGTGTTAATA
1 TTTAATTATTAGTGTTAATA
*
34051623 TTTAATTATTAGTGTTAGTA
1 TTTAATTATTAGTGTTAATA
34051643 TTTA
1 TTTA
34051647 TATGTTGCGT
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:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (20 bp):
TTTAATTATTAGTGTTAATA
Found at i:34052521 original size:16 final size:16
Alignment explanation
Indices: 34052497--34052528 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
34052487 TAATTAAAAA
*
34052497 TTTATAAAATATATAT
1 TTTAAAAAATATATAT
34052513 TTTAAAAAATATATAT
1 TTTAAAAAATATATAT
34052529 ATACATATCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
TTTAAAAAATATATAT
Found at i:34053235 original size:13 final size:13
Alignment explanation
Indices: 34053219--34053279 Score: 95
Period size: 13 Copynumber: 4.7 Consensus size: 13
34053209 ACCAAATTTT
34053219 TCAAAAGCACTTC
1 TCAAAAGCACTTC
34053232 TCAAAAGCACTTC
1 TCAAAAGCACTTC
*
34053245 TCAAAAGCACTTT
1 TCAAAAGCACTTC
* *
34053258 TCCACAGCACTTC
1 TCAAAAGCACTTC
34053271 TCAAAAGCA
1 TCAAAAGCA
34053280 TTTTTTAAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 42 1.00
ACGTcount: A:0.38, C:0.31, G:0.08, T:0.23
Consensus pattern (13 bp):
TCAAAAGCACTTC
Found at i:34053284 original size:26 final size:26
Alignment explanation
Indices: 34053219--34053292 Score: 103
Period size: 26 Copynumber: 2.8 Consensus size: 26
34053209 ACCAAATTTT
*
34053219 TCAAAAGCACTTCTCAAAAGCACTTC
1 TCAAAAGCACTTTTCAAAAGCACTTC
* *
34053245 TCAAAAGCACTTTTCCACAGCACTTC
1 TCAAAAGCACTTTTCAAAAGCACTTC
* *
34053271 TCAAAAGCATTTTTTAAAAGCA
1 TCAAAAGCACTTTTCAAAAGCA
34053293 TTGCCAAACT
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 41 1.00
ACGTcount: A:0.38, C:0.27, G:0.08, T:0.27
Consensus pattern (26 bp):
TCAAAAGCACTTTTCAAAAGCACTTC
Found at i:34054269 original size:14 final size:14
Alignment explanation
Indices: 34054239--34054278 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
34054229 TAATGAGCTA
*
34054239 AATAGAATAATTAAT
1 AATAAAATAA-TAAT
34054254 AATAAAATAATAAT
1 AATAAAATAATAAT
*
34054268 AATAATATAAT
1 AATAAAATAAT
34054279 GGCATGGAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 14 0.61
15 9 0.39
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.33
Consensus pattern (14 bp):
AATAAAATAATAAT
Found at i:34055784 original size:20 final size:20
Alignment explanation
Indices: 34055746--34055784 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
34055736 GCCGACGGCT
* *
34055746 GGTGGCCGGAGTGGACGGAC
1 GGTGGCCCGACTGGACGGAC
*
34055766 GGTGGCCCGACTGGCCGGA
1 GGTGGCCCGACTGGACGGA
34055785 GAAAAGGAGA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.13, C:0.26, G:0.51, T:0.10
Consensus pattern (20 bp):
GGTGGCCCGACTGGACGGAC
Found at i:34056405 original size:51 final size:50
Alignment explanation
Indices: 34056286--34056674 Score: 257
Period size: 51 Copynumber: 7.6 Consensus size: 50
34056276 TTTTAATATC
* *
34056286 AAACTGTTTCATATA-T-TTTACTTATTATAATTTTTTTATATTA-TTTATTT
1 AAACTGTTTTATATATTATTTA-TT-TTA-AATTTTTATATATTAGTTTATTT
* * * *
34056336 GAAA-TAGTGTTATATATTATTTATTTTAGACTTTTTACATATTAGTTCATTT
1 -AAACT-GTTTTATATATTATTTATTTTA-AATTTTTATATATTAGTTTATTT
* * * *
34056388 AAACTGTTTTATGTATTATATATTTAAAATTACTTTATAAATTA-TTTATTT
1 AAACTGTTTTATATATTATTTATTTTAAATT--TTTATATATTAGTTTATTT
* * *
34056439 CAAATTGTTTTATGCT-TTATTTATTTTAATTTTTTTATATATT-GTTTATTTT
1 -AAACTGTTTTAT-ATATTATTTATTTTAA-ATTTTTATATATTAGTTTA-TTT
*
34056491 AAACT-TTTTCATAAATTATTTATTTTAAATTGTTT-TATTATTA-TTTA-TT
1 AAACTGTTTT-ATATATTATTTATTTTAAATT-TTTATA-TATTAGTTTATTT
** * * **
34056540 -ATGTATTTTAAACTATTATCCATTTTAAATTTTTTATATATTA-TTTATTTT
1 AAACTGTTTTATA-TATTATTTATTTTAAA-TTTTTATATATTAGTTTA-TTT
* * * *
34056591 AAACTGTTATATATATTGTTTATTTTGAATTATATATATATATTA-TTTTTTT
1 AAACTGTTTTATATATTATTTATTTTAAATT-T-T-TATATATTAGTTTATTT
* *
34056643 AAACCGTTTTGTATATTATTTATTTTAAATTT
1 AAACTGTTTTATATATTATTTATTTTAAATTT
34056675 CTTTTTACAT
Statistics
Matches: 265, Mismatches: 46, Indels: 54
0.73 0.13 0.15
Matches are distributed among these distances:
48 4 0.02
49 31 0.12
50 18 0.07
51 112 0.42
52 81 0.31
53 19 0.07
ACGTcount: A:0.31, C:0.05, G:0.05, T:0.60
Consensus pattern (50 bp):
AAACTGTTTTATATATTATTTATTTTAAATTTTTATATATTAGTTTATTT
Found at i:34056435 original size:103 final size:102
Alignment explanation
Indices: 34056320--34056539 Score: 234
Period size: 103 Copynumber: 2.2 Consensus size: 102
34056310 TTATAATTTT
*
34056320 TTTAT-ATTATTTATTTGAAATAGTGTTAT-ATATTATTTATTTTAGA-CTTTTTACATATTAGT
1 TTTATAATTATTTATTTCAAATAGTGTTATGAT-TTATTTATTTTA-ATCTTTTTACATATT-GT
**
34056382 TCA-TTTAAACTGTTTT-ATGTATTATATATTTAAAATTAC
63 TCATTTTAAACT-TTTTCATAAATTATATATTTAAAATTAC
* * * * * *
34056421 TTTATAAATTATTTATTTCAAATTGTTTTATGCTTTATTTATTTTAATTTTTTTATATATTGTTT
1 TTTAT-AATTATTTATTTCAAATAGTGTTATGATTTATTTATTTTAATCTTTTTACATATTGTTC
* * **
34056486 ATTTTAAACTTTTTCATAAATTATTTATTTTAAATTGT
65 ATTTTAAACTTTTTCATAAATTATATATTTAAAATTAC
*
34056524 TTTATTATTATTTATT
1 TTTATAATTATTTATT
34056540 ATGTATTTTA
Statistics
Matches: 99, Mismatches: 14, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
101 5 0.05
102 19 0.19
103 74 0.75
104 1 0.01
ACGTcount: A:0.30, C:0.04, G:0.05, T:0.60
Consensus pattern (102 bp):
TTTATAATTATTTATTTCAAATAGTGTTATGATTTATTTATTTTAATCTTTTTACATATTGTTCA
TTTTAAACTTTTTCATAAATTATATATTTAAAATTAC
Found at i:34056450 original size:26 final size:26
Alignment explanation
Indices: 34056297--34056842 Score: 337
Period size: 26 Copynumber: 21.5 Consensus size: 26
34056287 AACTGTTTCA
* * *
34056297 TATATTTTACTTATTAT-AATT-TTT
1 TATATATTATTTATTTTAAATTGTTT
* * *
34056321 T-TATATTATTTATTTGAAATAGTGT
1 TATATATTATTTATTTTAAATTGTTT
* *
34056346 TATATATTATTTATTTTAGACT-TTT
1 TATATATTATTTATTTTAAATTGTTT
* * *
34056371 TACATATTAGTTCA-TTTAAACTGTTT
1 TATATATTA-TTTATTTTAAATTGTTT
* * * **
34056397 TATGTATTATATATTTAAAATTACTT
1 TATATATTATTTATTTTAAATTGTTT
* *
34056423 TATAAATTATTTATTTCAAATTGTTT
1 TATATATTATTTATTTTAAATTGTTT
* *
34056449 TATGCT-TTATTTATTTT-AATTTTTT
1 TAT-ATATTATTTATTTTAAATTGTTT
*
34056474 TATATATTGTTTATTTTAAACTT-TTT
1 TATATATTATTTATTTTAAA-TTGTTT
* *
34056500 CATAAATTATTTATTTTAAATTGTTT
1 TATATATTATTTATTTTAAATTGTTT
*
34056526 TAT-TATTATTTA--TT--ATGTATTT
1 TATATATTATTTATTTTAAAT-TGTTT
* **
34056548 TAAACTATTATCCATTTTAAATT-TTT
1 TATA-TATTATTTATTTTAAATTGTTT
* *
34056574 TATATATTATTTATTTTAAACTGTTA
1 TATATATTATTTATTTTAAATTGTTT
* * * *
34056600 TATATATTGTTTATTTTGAATTATATA
1 TATATATTATTTATTTTAAATTGT-TT
**
34056627 TATATATTATTT-TTTTAAACCGTTT
1 TATATATTATTTATTTTAAATTGTTT
* *
34056652 TGTATATTATTTATTTTAAATTTCTTTT
1 TATATATTATTTATTTTAAA-TT-GTTT
* * * * *
34056680 TACATGTTATTTATCTTAAAACTCTTT
1 TATATATTATTTAT-TTTAAATTGTTT
* * *
34056707 T-T-T-TTATGTATTTTAAAGTG-TC
1 TATATATTATTTATTTTAAATTGTTT
*
34056729 TATTATATTATTTATGTTAAATT-TCTT
1 TA-TATATTATTTATTTTAAATTGT-TT
* * * * *
34056756 TGTATGTTATTTATTTTCATTTCTTT
1 TATATATTATTTATTTTAAATTGTTT
*
34056782 TACATATTATTTATTTTAAATTG-TT
1 TATATATTATTTATTTTAAATTGTTT
* * *
34056807 T-TATACTATTT-CTTCAAATTGTTT
1 TATATATTATTTATTTTAAATTGTTT
34056831 TATATATTATTT
1 TATATATTATTT
34056843 TGCTTCGTTT
Statistics
Matches: 395, Mismatches: 94, Indels: 65
0.71 0.17 0.12
Matches are distributed among these distances:
21 2 0.01
22 8 0.02
23 27 0.07
24 31 0.08
25 93 0.24
26 189 0.48
27 23 0.06
28 17 0.04
29 5 0.01
ACGTcount: A:0.29, C:0.05, G:0.05, T:0.61
Consensus pattern (26 bp):
TATATATTATTTATTTTAAATTGTTT
Found at i:34057874 original size:41 final size:41
Alignment explanation
Indices: 34057811--34057895 Score: 120
Period size: 41 Copynumber: 2.1 Consensus size: 41
34057801 GAAATACAAA
*
34057811 ATAAACTAGTTTATTTTAAAAAAAAACCTTAATTATCTAAG
1 ATAAACTAGTTTATTTTAAAAAAAAAACTTAATTATCTAAG
*
34057852 ATAAA-TAGTTTAAATTTT-AAAAAAAAACTTATTTATCTAAG
1 ATAAACTAGTTT--ATTTTAAAAAAAAAACTTAATTATCTAAG
34057893 ATA
1 ATA
34057896 CAACCTAAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
40 6 0.15
41 29 0.73
42 5 0.12
ACGTcount: A:0.51, C:0.07, G:0.05, T:0.38
Consensus pattern (41 bp):
ATAAACTAGTTTATTTTAAAAAAAAAACTTAATTATCTAAG
Found at i:34058082 original size:18 final size:18
Alignment explanation
Indices: 34058059--34058095 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
34058049 ATGTCGTTCC
34058059 TATCCATACTTGTATCGT
1 TATCCATACTTGTATCGT
34058077 TATCCATACTTGTATCGT
1 TATCCATACTTGTATCGT
34058095 T
1 T
34058096 CTCCCCTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.22, C:0.22, G:0.11, T:0.46
Consensus pattern (18 bp):
TATCCATACTTGTATCGT
Found at i:34062914 original size:7 final size:7
Alignment explanation
Indices: 34062902--34062942 Score: 82
Period size: 7 Copynumber: 5.9 Consensus size: 7
34062892 AATCCGAGTA
34062902 TAACATT
1 TAACATT
34062909 TAACATT
1 TAACATT
34062916 TAACATT
1 TAACATT
34062923 TAACATT
1 TAACATT
34062930 TAACATT
1 TAACATT
34062937 TAACAT
1 TAACAT
34062943 GTTTTGTAGG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 34 1.00
ACGTcount: A:0.44, C:0.15, G:0.00, T:0.41
Consensus pattern (7 bp):
TAACATT
Found at i:34063704 original size:32 final size:32
Alignment explanation
Indices: 34063663--34063790 Score: 229
Period size: 32 Copynumber: 4.0 Consensus size: 32
34063653 TATAACTATA
34063663 CTACTTTTTTATATGTAAAACTAATGTATGAT
1 CTACTTTTTTATATGTAAAACTAATGTATGAT
*
34063695 CTACTTTTTTATATGCAAAACTAATGTATGAT
1 CTACTTTTTTATATGTAAAACTAATGTATGAT
* *
34063727 CAACTTTTTTATATGTAAACCTAATGTATGAT
1 CTACTTTTTTATATGTAAAACTAATGTATGAT
34063759 CTACTTTTTTATATGTAAAACTAATGTATGAT
1 CTACTTTTTTATATGTAAAACTAATGTATGAT
34063791 ATTTTTTATG
Statistics
Matches: 90, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 90 1.00
ACGTcount: A:0.34, C:0.11, G:0.09, T:0.45
Consensus pattern (32 bp):
CTACTTTTTTATATGTAAAACTAATGTATGAT
Found at i:34075284 original size:39 final size:39
Alignment explanation
Indices: 34075240--34075367 Score: 202
Period size: 39 Copynumber: 3.3 Consensus size: 39
34075230 TATGAGATTG
34075240 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTAGA
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTAGA
*
34075279 AAAATATCCGGACATGAGATCCGCAGGCTATATGCTAGA
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTAGA
* * ** *
34075318 AATATATCCGGACTTGAGGTCCGCAGGCTACGTGCTGGA
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTAGA
34075357 AAAATATCCGG
1 AAAATATCCGG
34075368 GTTAAAGACC
Statistics
Matches: 81, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 81 1.00
ACGTcount: A:0.32, C:0.21, G:0.26, T:0.21
Consensus pattern (39 bp):
AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTAGA
Found at i:34075381 original size:39 final size:39
Alignment explanation
Indices: 34075338--34075424 Score: 174
Period size: 39 Copynumber: 2.2 Consensus size: 39
34075328 GACTTGAGGT
34075338 CCGCAGGCTACGTGCTGGAAAAATATCCGGGTTAAAGAC
1 CCGCAGGCTACGTGCTGGAAAAATATCCGGGTTAAAGAC
34075377 CCGCAGGCTACGTGCTGGAAAAATATCCGGGTTAAAGAC
1 CCGCAGGCTACGTGCTGGAAAAATATCCGGGTTAAAGAC
34075416 CCGCAGGCT
1 CCGCAGGCT
34075425 TATGCTAGTA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 48 1.00
ACGTcount: A:0.29, C:0.25, G:0.29, T:0.17
Consensus pattern (39 bp):
CCGCAGGCTACGTGCTGGAAAAATATCCGGGTTAAAGAC
Found at i:34075381 original size:78 final size:77
Alignment explanation
Indices: 34075239--34075406 Score: 203
Period size: 78 Copynumber: 2.2 Consensus size: 77
34075229 GTATGAGATT
* * *
34075239 GAAAATATCCGGACATGAGGTCCGCAGGCTATATGCTAGAAAAATATCCGGACATGAGATCCGCA
1 GAAAATATCCGGACATGAGGTCCGCAGGCTACATGCTAGAAAAATATCCGGACATAAGACCCGCA
*
34075304 GGCTATATGCTA
66 GGCTACATGCTA
* * * **
34075316 GAAATATATCCGGACTTGAGGTCCGCAGGCTACGTGCTGGAAAAATATCCGG-GTTAAAGACCCG
1 GAAA-ATATCCGGACATGAGGTCCGCAGGCTACATGCTAGAAAAATATCCGGACAT-AAGACCCG
* *
34075380 CAGGCTACGTGCTG
64 CAGGCTACATGCTA
34075394 GAAAAATATCCGG
1 G-AAAATATCCGG
34075407 GTTAAAGACC
Statistics
Matches: 77, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
77 5 0.06
78 69 0.90
79 3 0.04
ACGTcount: A:0.32, C:0.21, G:0.27, T:0.20
Consensus pattern (77 bp):
GAAAATATCCGGACATGAGGTCCGCAGGCTACATGCTAGAAAAATATCCGGACATAAGACCCGCA
GGCTACATGCTA
Found at i:34083331 original size:39 final size:39
Alignment explanation
Indices: 34083287--34083414 Score: 202
Period size: 39 Copynumber: 3.3 Consensus size: 39
34083277 TATGAGATTG
34083287 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
* *
34083326 AAAATATCCGGACATGAGATCCGCAGGCTATATGCTAGA
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
* * **
34083365 AATATATCCGGACTTGAGGTCCGCAGGCTACGTGCTGGA
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
34083404 AAAATATCCGG
1 AAAATATCCGG
34083415 GTTAAAGACC
Statistics
Matches: 80, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 80 1.00
ACGTcount: A:0.31, C:0.21, G:0.27, T:0.21
Consensus pattern (39 bp):
AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
Found at i:34083428 original size:78 final size:76
Alignment explanation
Indices: 34083286--34083440 Score: 204
Period size: 78 Copynumber: 2.0 Consensus size: 76
34083276 GTATGAGATT
* * *
34083286 GAAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGAAAAATATCCGGACATGAGATCCGCA
1 GAAAATATCCGGACATGAGGTCCGCAGGCTACATGCTGGAAAAATATCCGGACATAAGACCCGCA
*
34083351 GGCTATATGCTA
66 GGCT-TACGCTA
* * **
34083363 GAAATATATCCGGACTTGAGGTCCGCAGGCTACGTGCTGGAAAAATATCCGG-GTTAAAGACCCG
1 GAAA-ATATCCGGACATGAGGTCCGCAGGCTACATGCTGGAAAAATATCCGGACAT-AAGACCCG
34083427 CAGGCTTACGCTA
64 CAGGCTTACGCTA
34083440 G
1 G
34083441 TAATGTATTC
Statistics
Matches: 68, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
77 12 0.18
78 56 0.82
ACGTcount: A:0.30, C:0.22, G:0.27, T:0.21
Consensus pattern (76 bp):
GAAAATATCCGGACATGAGGTCCGCAGGCTACATGCTGGAAAAATATCCGGACATAAGACCCGCA
GGCTTACGCTA
Found at i:34091343 original size:39 final size:39
Alignment explanation
Indices: 34091299--34091426 Score: 202
Period size: 39 Copynumber: 3.3 Consensus size: 39
34091289 TATGAGATTG
34091299 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTAGA
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTAGA
*
34091338 AAAATATCCGGACATGAGATCCGCAGGCTATATGCTAGA
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTAGA
* * ** *
34091377 AATATATCCGGACTTGAGGTCCGCAGGCTACGTGCTGGA
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTAGA
34091416 AAAATATCCGG
1 AAAATATCCGG
34091427 GTTAAAGACC
Statistics
Matches: 81, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 81 1.00
ACGTcount: A:0.32, C:0.21, G:0.26, T:0.21
Consensus pattern (39 bp):
AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTAGA
Found at i:34091440 original size:78 final size:76
Alignment explanation
Indices: 34091298--34091452 Score: 195
Period size: 78 Copynumber: 2.0 Consensus size: 76
34091288 GTATGAGATT
* * *
34091298 GAAAATATCCGGACATGAGGTCCGCAGGCTATATGCTAGAAAAATATCCGGACATGAGATCCGCA
1 GAAAATATCCGGACATGAGGTCCGCAGGCTACATGCTAGAAAAATATCCGGACATAAGACCCGCA
*
34091363 GGCTATATGCTA
66 GGCT-TACGCTA
* * * **
34091375 GAAATATATCCGGACTTGAGGTCCGCAGGCTACGTGCTGGAAAAATATCCGG-GTTAAAGACCCG
1 GAAA-ATATCCGGACATGAGGTCCGCAGGCTACATGCTAGAAAAATATCCGGACAT-AAGACCCG
34091439 CAGGCTTACGCTA
64 CAGGCTTACGCTA
34091452 G
1 G
34091453 TAATGTATTC
Statistics
Matches: 67, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
77 12 0.18
78 55 0.82
ACGTcount: A:0.31, C:0.22, G:0.26, T:0.21
Consensus pattern (76 bp):
GAAAATATCCGGACATGAGGTCCGCAGGCTACATGCTAGAAAAATATCCGGACATAAGACCCGCA
GGCTTACGCTA
Found at i:34115496 original size:21 final size:21
Alignment explanation
Indices: 34115470--34115509 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
34115460 CAAAACAATG
*
34115470 TAGTTTTGCCTTTTAACTTAA
1 TAGTTTTGACTTTTAACTTAA
34115491 TAGTTTTGACTTTTAACTT
1 TAGTTTTGACTTTTAACTT
34115510 TAGAAAAGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.23, C:0.12, G:0.10, T:0.55
Consensus pattern (21 bp):
TAGTTTTGACTTTTAACTTAA
Found at i:34119511 original size:16 final size:15
Alignment explanation
Indices: 34119492--34119521 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
34119482 TAATATTTCG
34119492 TTTAATATTTTATTTA
1 TTTAATA-TTTATTTA
34119508 TTTAATATTTATTT
1 TTTAATATTTATTT
34119522 CTTCAACTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (15 bp):
TTTAATATTTATTTA
Found at i:34119609 original size:18 final size:19
Alignment explanation
Indices: 34119586--34119630 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 19
34119576 ATATATTGTC
34119586 TATTATTACTATC-ATTAT
1 TATTATTACTATCTATTAT
*
34119604 TATTATT-TTATCTATTAT
1 TATTATTACTATCTATTAT
34119622 TATTTATTA
1 TA-TTATTA
34119631 TATATGTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
17 4 0.17
18 14 0.61
19 5 0.22
ACGTcount: A:0.31, C:0.07, G:0.00, T:0.62
Consensus pattern (19 bp):
TATTATTACTATCTATTAT
Found at i:34123577 original size:20 final size:19
Alignment explanation
Indices: 34123540--34123580 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
34123530 CGCCTTCTTT
*
34123540 TTTGCATTCATCCCATGCA
1 TTTGCATTCATCACATGCA
*
34123559 TTTGCATTACATCATATGCA
1 TTTGCATT-CATCACATGCA
34123579 TT
1 TT
34123581 AAATTTCACA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.24, C:0.24, G:0.10, T:0.41
Consensus pattern (19 bp):
TTTGCATTCATCACATGCA
Found at i:34131352 original size:44 final size:44
Alignment explanation
Indices: 34131289--34131624 Score: 214
Period size: 44 Copynumber: 7.6 Consensus size: 44
34131279 CATCATGGCG
* * * * *
34131289 AATCTTATCTCCTTAAAGTTATAGCGGAGCAGATTAAAGTCACG
1 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGTCACA
* * * *
34131333 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTATA
1 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGTCACA
* * ** *
34131377 GATCTTATCTCACTGAAGTTACAGTGGAATAGATCAAAGAT-AGCA
1 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAG-TCA-CA
* * * * *
34131422 AATCTTATCTCTCTGAAGTTGCAGTAGAGCAGACTAAAG-CTATA
1 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGTC-ACA
* * * * *
34131466 AACCTTATCTCCCTGAAGTTGCAGT-GAGCAGGTTGAAGTTACA
1 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGTCACA
* * * * * * *
34131509 AGTCTCATCTTCCTGAAGTTGCAGTGGAGCAGAGTAAAG-AAGGAA
1 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGTCA--CA
* *** * * * *
34131554 AATCTTATCTCCCTAAAGTTGTGGTAGAGTAGATTGAAGCCACA
1 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGTCACA
**
34131598 AATCCCATAC-CCCTGAAGTTACAGTGG
1 AATCTTAT-CTCCCTGAAGTTACAGTGG
34131625 GATAGATTGA
Statistics
Matches: 221, Mismatches: 61, Indels: 20
0.73 0.20 0.07
Matches are distributed among these distances:
43 34 0.15
44 121 0.55
45 65 0.29
46 1 0.00
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.28
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGTCACA
Found at i:34131582 original size:132 final size:133
Alignment explanation
Indices: 34131336--34131574 Score: 326
Period size: 132 Copynumber: 1.8 Consensus size: 133
34131326 AGTCACGAAT
* *
34131336 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTATAGATCTTATCTCACTGAAGTTACAG
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTAAAGATCTCATCTCACTGAAGTTACAG
* * * *
34131401 TGGAATAGATCAAAGATAGCAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGACTAAAGCTATA
66 TGGAACAGATCAAAGATAGAAAATCTTATCTCCCTAAAGTTGCAGTAGAGCAGACTAAAGCTATA
34131466 AAC
131 AAC
* *
34131469 CTTATCTCCCTGAAGTTGCAGT-GAGCAGGTTGAAGTTACAAG-TCTCATCTTC-CTGAAGTTGC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTA-AAGATCTCATC-TCACTGAAGTTAC
*
34131531 AGTGGAGCAGAGT-AAAGA-AGGAAAATCTTATCTCCCTAAAGTTG
64 AGTGGAACAGA-TCAAAGATA-GAAAATCTTATCTCCCTAAAGTTG
34131575 TGGTAGAGTA
Statistics
Matches: 93, Mismatches: 9, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
131 1 0.01
132 65 0.70
133 27 0.29
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (133 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTAAAGATCTCATCTCACTGAAGTTACAG
TGGAACAGATCAAAGATAGAAAATCTTATCTCCCTAAAGTTGCAGTAGAGCAGACTAAAGCTATA
AAC
Found at i:34131612 original size:132 final size:132
Alignment explanation
Indices: 34131289--34131637 Score: 314
Period size: 132 Copynumber: 2.6 Consensus size: 132
34131279 CATCATGGCG
* ** ** * * * * *
34131289 AATCTTATCTCCTTAAAGTTATAGCGGAGCAGATTAAAGTCACGAATCTTATCTCCCTGAAGTTG
1 AATCTTATCTCCCTAAAGTTGCAGTAGAGCAGACTAAAGCCACAAACCATATCTCCCTGAAGTTG
* * *
34131354 CAGTGGAGCAGATTGAAGTTATAGATCTTATCTCACTGAAGTTACAGTGGAATAGATCAAAGATA
66 CAGT-GAGCAGATTGAAGTTAAAGATCTCATCTCACTGAAGTTACAGTGGAACAGATCAAAGATA
*
34131419 GCA
130 GAA
* * * * *
34131422 AATCTTATCTCTCTGAAGTTGCAGTAGAGCAGACTAAAGCTATAAACCTTATCTCCCTGAAGTTG
1 AATCTTATCTCCCTAAAGTTGCAGTAGAGCAGACTAAAGCCACAAACCATATCTCCCTGAAGTTG
* * *
34131487 CAGTGAGCAGGTTGAAGTTACAAG-TCTCATCTTC-CTGAAGTTGCAGTGGAGCAGAGT-AAAGA
66 CAGTGAGCAGATTGAAGTTA-AAGATCTCATC-TCACTGAAGTTACAGTGGAACAGA-TCAAAGA
34131549 -AGGAA
128 TA-GAA
** * * *
34131554 AATCTTATCTCCCTAAAGTTGTGGTAGAGTAGATTGAAGCCACAAATCCCATA-C-CCCTGAAGT
1 AATCTTATCTCCCTAAAGTTGCAGTAGAGCAGACTAAAGCCACAAA--CCATATCTCCCTGAAGT
* * *
34131617 TACAGTGGGATAGATTGAAGT
64 TGCAGTGAG-CAGATTGAAGT
34131638 CATCTATTAT
Statistics
Matches: 175, Mismatches: 34, Indels: 14
0.78 0.15 0.06
Matches are distributed among these distances:
131 1 0.01
132 99 0.57
133 71 0.41
134 4 0.02
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.28
Consensus pattern (132 bp):
AATCTTATCTCCCTAAAGTTGCAGTAGAGCAGACTAAAGCCACAAACCATATCTCCCTGAAGTTG
CAGTGAGCAGATTGAAGTTAAAGATCTCATCTCACTGAAGTTACAGTGGAACAGATCAAAGATAG
AA
Found at i:34133175 original size:15 final size:16
Alignment explanation
Indices: 34133143--34133182 Score: 64
Period size: 15 Copynumber: 2.6 Consensus size: 16
34133133 AAAGCACTGT
34133143 TTTATTTAATATTTTA
1 TTTATTTAATATTTTA
34133159 TTTATTTAATA-TTTA
1 TTTATTTAATATTTTA
*
34133174 TTTCTTTAA
1 TTTATTTAA
34133183 CCATTTTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 12 0.52
16 11 0.48
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.68
Consensus pattern (16 bp):
TTTATTTAATATTTTA
Found at i:34133262 original size:18 final size:18
Alignment explanation
Indices: 34133241--34133280 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
34133231 ATATATTGTC
34133241 TATTATTACTATC-ATTAT
1 TATTATT-CTATCTATTAT
*
34133259 TATTATTTTATCTATTAT
1 TATTATTCTATCTATTAT
34133277 TATT
1 TATT
34133281 TATTTATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 4 0.20
18 16 0.80
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.62
Consensus pattern (18 bp):
TATTATTCTATCTATTAT
Found at i:34133287 original size:18 final size:17
Alignment explanation
Indices: 34133250--34133285 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 17
34133240 CTATTATTAC
34133250 TATCATTATTATTATTT
1 TATCATTATTATTATTT
34133267 TATCTATTATTATTTATTT
1 TATC-ATTATTA-TTATTT
34133286 ATATATGTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.24
18 7 0.41
19 6 0.35
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.67
Consensus pattern (17 bp):
TATCATTATTATTATTT
Found at i:34135784 original size:10 final size:10
Alignment explanation
Indices: 34135754--34135787 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
34135744 TTAGTTTAGA
34135754 TTTAGTTTTC
1 TTTAGTTTTC
*
34135764 TATAGGTTTTC
1 TTTA-GTTTTC
34135775 TTTAGTTTTC
1 TTTAGTTTTC
34135785 TTT
1 TTT
34135788 GCCCTTTTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.12, C:0.09, G:0.12, T:0.68
Consensus pattern (10 bp):
TTTAGTTTTC
Found at i:34137396 original size:15 final size:17
Alignment explanation
Indices: 34137378--34137409 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
34137368 TAGCATAATT
34137378 TACCAAA-TCA-ATTCA
1 TACCAAACTCACATTCA
34137393 TACCAAACTCACATTCA
1 TACCAAACTCACATTCA
34137410 CCAGTACCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.44, C:0.31, G:0.00, T:0.25
Consensus pattern (17 bp):
TACCAAACTCACATTCA
Found at i:34144033 original size:20 final size:20
Alignment explanation
Indices: 34143982--34144033 Score: 52
Period size: 20 Copynumber: 2.6 Consensus size: 20
34143972 GAAATGAAAA
*
34143982 GAAGGAAAGAAACAGAGTA-
1 GAAGGAAAGAAACAGAGAAG
* *
34144001 GCATGAAACGAAACAGAGAAG
1 GAAGGAAA-GAAACAGAGAAG
*
34144022 GAAGGAAGGAAA
1 GAAGGAAAGAAA
34144034 GAAAGAAAAG
Statistics
Matches: 25, Mismatches: 6, Indels: 3
0.74 0.18 0.09
Matches are distributed among these distances:
19 6 0.24
20 14 0.56
21 5 0.20
ACGTcount: A:0.56, C:0.08, G:0.33, T:0.04
Consensus pattern (20 bp):
GAAGGAAAGAAACAGAGAAG
Found at i:34144490 original size:13 final size:13
Alignment explanation
Indices: 34144472--34144498 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
34144462 AAGAAATTAG
34144472 TATTAAATGTAAA
1 TATTAAATGTAAA
34144485 TATTAAATGTAAA
1 TATTAAATGTAAA
34144498 T
1 T
34144499 TAGTATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (13 bp):
TATTAAATGTAAA
Found at i:34145442 original size:18 final size:18
Alignment explanation
Indices: 34145416--34145549 Score: 153
Period size: 18 Copynumber: 7.4 Consensus size: 18
34145406 TAAATAAAGG
* *
34145416 TACTGAATAACTGACTGC
1 TACTGAATAAATGACTGT
* * *
34145434 TATTGAATAATTAACTGT
1 TACTGAATAAATGACTGT
*
34145452 TACTGAATAAATGACTAT
1 TACTGAATAAATGACTGT
34145470 TACTGAATAAATGACTGT
1 TACTGAATAAATGACTGT
34145488 TACTGAATAAATGACTGT
1 TACTGAATAAATGACTGT
** *
34145506 TACTGAATAACCGACTAT
1 TACTGAATAAATGACTGT
* *
34145524 TACTGAACAATTGA-TCGT
1 TACTGAATAAATGACT-GT
34145542 TACTGAAT
1 TACTGAAT
34145550 GATATTGATA
Statistics
Matches: 98, Mismatches: 17, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
17 1 0.01
18 97 0.99
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.34
Consensus pattern (18 bp):
TACTGAATAAATGACTGT
Found at i:34147556 original size:52 final size:52
Alignment explanation
Indices: 34147499--34147600 Score: 161
Period size: 52 Copynumber: 2.0 Consensus size: 52
34147489 TCTCTGTCGA
* * *
34147499 AATTCTCCTAAAATTCTCCATTTTTCTTTTTGT-CATCTTCCCTTTCTTGAGT
1 AATTCTCCTAAAATTCTCCATTTTTATTTTTATCCCT-TTCCCTTTCTTGAGT
34147551 AATTCTCCTAAAATTCTCCATTTTTATTTTTATCCCTTTCCCTTTCTTGA
1 AATTCTCCTAAAATTCTCCATTTTTATTTTTATCCCTTTCCCTTTCTTGA
34147601 TTATTGATTT
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
52 44 0.96
53 2 0.04
ACGTcount: A:0.19, C:0.25, G:0.04, T:0.52
Consensus pattern (52 bp):
AATTCTCCTAAAATTCTCCATTTTTATTTTTATCCCTTTCCCTTTCTTGAGT
Found at i:34163782 original size:27 final size:27
Alignment explanation
Indices: 34163752--34163929 Score: 137
Period size: 27 Copynumber: 6.6 Consensus size: 27
34163742 ATATTGAGCC
* *
34163752 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * * *
34163779 CGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
34163806 CGCACACTTAGTGCTACATAGTCAAACC
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
34163834 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
34163861 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
34163888 CGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTACATAA-TCA-ACT
34163915 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
34163930 GTACAATTTA
Statistics
Matches: 121, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.02
27 96 0.79
28 23 0.19
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:34163864 original size:55 final size:54
Alignment explanation
Indices: 34163752--34163929 Score: 164
Period size: 54 Copynumber: 3.3 Consensus size: 54
34163742 ATATTGAGCC
* * * * *
34163752 CGCACACTCAGTGCTATATAATCAACTCGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACCCGCACACTTAGTGCCACATAATCAAAT
* * ** *
34163806 CGCACACTTAGTGCTACATAGTCAAACCCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATC-AACCCGCACACTTAGTGCCACATAATCAAAT
* *** *
34163861 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTA-CATAATCAACCCGCACACTTAGTGCCACATAA-TCA-AAT
34163915 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
34163930 GTACAATTTA
Statistics
Matches: 100, Mismatches: 19, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
53 1 0.01
54 55 0.55
55 44 0.44
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACCCGCACACTTAGTGCCACATAATCAAAT
Found at i:34178829 original size:27 final size:27
Alignment explanation
Indices: 34178799--34178976 Score: 137
Period size: 27 Copynumber: 6.6 Consensus size: 27
34178789 ATATTGAGCC
* *
34178799 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * * *
34178826 CGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
34178853 CGCACACTTAGTGCTACATAGTCAAACC
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
34178881 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
34178908 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
34178935 CGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTACATAA-TCA-ACT
34178962 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
34178977 GTACAATTTA
Statistics
Matches: 121, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.02
27 96 0.79
28 23 0.19
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:34178911 original size:55 final size:54
Alignment explanation
Indices: 34178799--34178976 Score: 164
Period size: 54 Copynumber: 3.3 Consensus size: 54
34178789 ATATTGAGCC
* * * * *
34178799 CGCACACTCAGTGCTATATAATCAACTCGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACCCGCACACTTAGTGCCACATAATCAAAT
* * ** *
34178853 CGCACACTTAGTGCTACATAGTCAAACCCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATC-AACCCGCACACTTAGTGCCACATAATCAAAT
* *** *
34178908 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTA-CATAATCAACCCGCACACTTAGTGCCACATAA-TCA-AAT
34178962 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
34178977 GTACAATTTA
Statistics
Matches: 100, Mismatches: 19, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
53 1 0.01
54 55 0.55
55 44 0.44
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACCCGCACACTTAGTGCCACATAATCAAAT
Found at i:34190675 original size:2 final size:2
Alignment explanation
Indices: 34190668--34190702 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
34190658 TGACCTTAAA
34190668 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
34190703 AGAATTTGGG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:34192024 original size:87 final size:88
Alignment explanation
Indices: 34191906--34192068 Score: 256
Period size: 87 Copynumber: 1.9 Consensus size: 88
34191896 GGATGTCAAC
* * *
34191906 TTAACTTAATACATTTATTAAGGTTAAGTTTATAGTAAATAGTGAAAATTGAATTATAGAGGAAC
1 TTAACTTAATACATTTATGAAGGTTAAGTTTATAATAAATAGTGAAAATTGAATTATAGAAGAAC
34191971 TCAACATCCATTTGTGTCTACTT
66 TCAACATCCATTTGTGTCTACTT
* ** *
34191994 TTAA-TTAATATATTTATGAAGGTTTTGTTTATAATATATAGTGAAAATTGAATTATAGAAGAAC
1 TTAACTTAATACATTTATGAAGGTTAAGTTTATAATAAATAGTGAAAATTGAATTATAGAAGAAC
34192058 TCAACATCCAT
66 TCAACATCCAT
34192069 CAATGTTGAG
Statistics
Matches: 68, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
87 64 0.94
88 4 0.06
ACGTcount: A:0.39, C:0.09, G:0.13, T:0.39
Consensus pattern (88 bp):
TTAACTTAATACATTTATGAAGGTTAAGTTTATAATAAATAGTGAAAATTGAATTATAGAAGAAC
TCAACATCCATTTGTGTCTACTT
Found at i:34198016 original size:28 final size:28
Alignment explanation
Indices: 34197984--34198096 Score: 165
Period size: 28 Copynumber: 4.1 Consensus size: 28
34197974 CATGCCAGAC
* * *
34197984 AAAGGAAGTCTTTATGGCCATCTATGAA
1 AAAGGAAGCCTTTGTGGCGATCTATGAA
34198012 AAAGGAAGCCTTTGTGGCGATCTATGAA
1 AAAGGAAGCCTTTGTGGCGATCTATGAA
* * *
34198040 AAAGGAAGTCTTTGTGGCAATTTATGAA
1 AAAGGAAGCCTTTGTGGCGATCTATGAA
34198068 AAAGGAAGCCTTTGTGGCGATCTAT-AA
1 AAAGGAAGCCTTTGTGGCGATCTATGAA
34198095 AA
1 AA
34198097 TAAAAAAATA
Statistics
Matches: 76, Mismatches: 9, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
27 4 0.05
28 72 0.95
ACGTcount: A:0.35, C:0.12, G:0.25, T:0.27
Consensus pattern (28 bp):
AAAGGAAGCCTTTGTGGCGATCTATGAA
Found at i:34198051 original size:56 final size:55
Alignment explanation
Indices: 34197984--34198096 Score: 190
Period size: 56 Copynumber: 2.0 Consensus size: 55
34197974 CATGCCAGAC
*
34197984 AAAGGAAGTCTTTATGGCCATCTATGAAAAAGGAAGCCTTTGTGGCGATCTATGAA
1 AAAGGAAGTCTTTATGGCAATCTATGAAAAAGGAAGCCTTTGTGGCGATCTAT-AA
* *
34198040 AAAGGAAGTCTTTGTGGCAATTTATGAAAAAGGAAGCCTTTGTGGCGATCTATAA
1 AAAGGAAGTCTTTATGGCAATCTATGAAAAAGGAAGCCTTTGTGGCGATCTATAA
34198095 AA
1 AA
34198097 TAAAAAAATA
Statistics
Matches: 54, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
55 4 0.07
56 50 0.93
ACGTcount: A:0.35, C:0.12, G:0.25, T:0.27
Consensus pattern (55 bp):
AAAGGAAGTCTTTATGGCAATCTATGAAAAAGGAAGCCTTTGTGGCGATCTATAA
Found at i:34200700 original size:18 final size:18
Alignment explanation
Indices: 34200677--34200714 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
34200667 ACTACTCATC
*
34200677 GTTGTGGACGAACCACTA
1 GTTGTGGACAAACCACTA
*
34200695 GTTGTGGATAAACCACTA
1 GTTGTGGACAAACCACTA
34200713 GT
1 GT
34200715 AATAAAATGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.26
Consensus pattern (18 bp):
GTTGTGGACAAACCACTA
Found at i:34200876 original size:21 final size:22
Alignment explanation
Indices: 34200832--34200878 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 22
34200822 ACACTGTGGT
* *
34200832 TAAACCACTCAAATGGTATGGA
1 TAAACCACTCAAATGATATAGA
*
34200854 TAAACCACTC-AATGATGTAGA
1 TAAACCACTCAAATGATATAGA
34200875 TAAA
1 TAAA
34200879 TTGCTCAACT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 12 0.55
22 10 0.45
ACGTcount: A:0.45, C:0.17, G:0.15, T:0.23
Consensus pattern (22 bp):
TAAACCACTCAAATGATATAGA
Found at i:34211806 original size:30 final size:30
Alignment explanation
Indices: 34211772--34211830 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
34211762 TCTTCCTTTA
34211772 TTAATTCCCTT-AAAATAATAAAAAAATAAT
1 TTAATT-CCTTAAAAATAATAAAAAAATAAT
* * *
34211802 TTAATTCTTTAAAAATTATAAAAATATAA
1 TTAATTCCTTAAAAATAATAAAAAAATAA
34211831 GTTATTAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 3 0.12
30 22 0.88
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (30 bp):
TTAATTCCTTAAAAATAATAAAAAAATAAT
Found at i:34218442 original size:120 final size:120
Alignment explanation
Indices: 34218299--34218538 Score: 435
Period size: 120 Copynumber: 2.0 Consensus size: 120
34218289 TACAATCATT
*
34218299 AGAATATTTAATACTAAGAATTTTATTAAATTATATATTTTTGTTAAATTATATTTAATCATAAT
1 AGAATATTTAATACTAAGAATTTTATTAAATTATATATTTTTGTTAAATTATATTTAATAATAAT
* * *
34218364 TATTTTAAATTATATTTTATAGTATAATATATTATGATTTTAGTAAATTCATATA
66 TATTTTAAATTATATTTTATAATATAATATATTATAATTTTAATAAATTCATATA
34218419 AGAATATTTAATACTAAGAATTTTATTAAATTATATATTTTTGTTAAATTATATTTAATAATAAT
1 AGAATATTTAATACTAAGAATTTTATTAAATTATATATTTTTGTTAAATTATATTTAATAATAAT
*
34218484 TATTTTAAATTATATTTTATAATATTATATATTATAATTTTAATAAATTCATATA
66 TATTTTAAATTATATTTTATAATATAATATATTATAATTTTAATAAATTCATATA
34218539 TTCTATTAAA
Statistics
Matches: 115, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
120 115 1.00
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (120 bp):
AGAATATTTAATACTAAGAATTTTATTAAATTATATATTTTTGTTAAATTATATTTAATAATAAT
TATTTTAAATTATATTTTATAATATAATATATTATAATTTTAATAAATTCATATA
Found at i:34218491 original size:26 final size:25
Alignment explanation
Indices: 34218453--34218511 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 25
34218443 ATTAAATTAT
*
34218453 ATATTTTTGTTAAATTATATTTAATA
1 ATATTATT-TTAAATTATATTTAATA
*
34218479 ATAATTATTTTAAATTATATTTTATA
1 AT-ATTATTTTAAATTATATTTAATA
34218505 ATATTAT
1 ATATTAT
34218512 ATATTATAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
25 5 0.17
26 20 0.67
27 5 0.17
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.58
Consensus pattern (25 bp):
ATATTATTTTAAATTATATTTAATA
Found at i:34218510 original size:15 final size:15
Alignment explanation
Indices: 34218466--34218521 Score: 57
Period size: 15 Copynumber: 4.0 Consensus size: 15
34218456 TTTTTGTTAA
*
34218466 ATTATATTTAATAAT
1 ATTATATTTTATAAT
*
34218481 AAT-TA-TTT-TAA-
1 ATTATATTTTATAAT
34218492 ATTATATTTTATAAT
1 ATTATATTTTATAAT
*
34218507 ATTATATATTATAAT
1 ATTATATTTTATAAT
34218522 TTTAATAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
11 2 0.06
12 5 0.15
13 5 0.15
14 5 0.15
15 16 0.48
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
ATTATATTTTATAAT
Found at i:34218537 original size:24 final size:22
Alignment explanation
Indices: 34218492--34218545 Score: 65
Period size: 24 Copynumber: 2.4 Consensus size: 22
34218482 ATTATTTTAA
34218492 ATTATATTTTATAATATTATAT
1 ATTATATTTTATAATATTATAT
34218514 ATTATAATTTTAATAA-ATTCATAT
1 ATTAT-ATTTT-ATAATATT-ATAT
*
34218538 ATTCTATT
1 ATTATATT
34218546 AAATTATATA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
22 5 0.18
23 11 0.39
24 12 0.43
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.56
Consensus pattern (22 bp):
ATTATATTTTATAATATTATAT
Found at i:34218763 original size:21 final size:21
Alignment explanation
Indices: 34218738--34218790 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
34218728 CGTTGTTTCT
*
34218738 AATCTCACCGCTACAGTATCC
1 AATCTCACCGCTACAGTAACC
* *
34218759 AATCTCACCGTTACAGTAACT
1 AATCTCACCGCTACAGTAACC
34218780 AATCTCACCGC
1 AATCTCACCGC
34218791 CACTGTTGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.30, C:0.36, G:0.09, T:0.25
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACC
Found at i:34219162 original size:15 final size:15
Alignment explanation
Indices: 34219142--34219179 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
34219132 TGCTTATCAT
34219142 TTTTATTTGGA-TTTA
1 TTTTATTT-GATTTTA
*
34219157 TTTTATTTTATTTTA
1 TTTTATTTGATTTTA
34219172 TTTTATTT
1 TTTTATTT
34219180 TTAAGGTTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 1 0.05
15 20 0.95
ACGTcount: A:0.18, C:0.00, G:0.05, T:0.76
Consensus pattern (15 bp):
TTTTATTTGATTTTA
Found at i:34219163 original size:5 final size:5
Alignment explanation
Indices: 34219153--34219180 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
34219143 TTTATTTGGA
34219153 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
34219181 TAAGGTTGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:34228238 original size:101 final size:99
Alignment explanation
Indices: 34228061--34228248 Score: 259
Period size: 101 Copynumber: 1.9 Consensus size: 99
34228051 AGACAAGGTT
* * * * * * *
34228061 ATCTGGTACGCATAGTAGCCTGCACATAGTACTATACATGCGACCAATTATCCGGTACACGTAGT
1 ATCTGATACACATAGTAGCCTGCACATAGTACCACACACGCGACAAATTATCCGGTACACATAGT
34228126 AGCCTGCACTTAGTACTACACACGTGACCTAACC
66 AGCCTGCACTTAGTACTACACACGTGACCTAACC
* * * *
34228160 ATCTGATACACATAGTAGCCTGCACTTAGTACCACACACGTGATCAAAGTTATCGGGTACGCATA
1 ATCTGATACACATAGTAGCCTGCACATAGTACCACACACGCGA-CAAA-TTATCCGGTACACATA
34228225 GTAGCCTGCACTTAGTACTACACA
64 GTAGCCTGCACTTAGTACTACACA
34228249 TGCGACCTCA
Statistics
Matches: 76, Mismatches: 11, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
99 36 0.47
100 3 0.04
101 37 0.49
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.24
Consensus pattern (99 bp):
ATCTGATACACATAGTAGCCTGCACATAGTACCACACACGCGACAAATTATCCGGTACACATAGT
AGCCTGCACTTAGTACTACACACGTGACCTAACC
Found at i:34233974 original size:46 final size:46
Alignment explanation
Indices: 34233924--34234052 Score: 215
Period size: 46 Copynumber: 2.8 Consensus size: 46
34233914 TGATTGAGCA
*
34233924 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
34233970 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* *
34234016 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
34234053 GCGGGTTACA
Statistics
Matches: 79, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
45 2 0.03
46 77 0.97
ACGTcount: A:0.19, C:0.21, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:34241494 original size:46 final size:46
Alignment explanation
Indices: 34241444--34241572 Score: 215
Period size: 46 Copynumber: 2.8 Consensus size: 46
34241434 TGATTGAGCA
*
34241444 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
34241490 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* *
34241536 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
34241573 GCGGGTTACA
Statistics
Matches: 79, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
45 2 0.03
46 77 0.97
ACGTcount: A:0.19, C:0.21, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:34259269 original size:26 final size:26
Alignment explanation
Indices: 34259233--34259285 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
34259223 TATCTCATAG
*
34259233 TACGAGACTCGGATAATGTTCCCGTC
1 TACGAGACTCGAATAATGTTCCCGTC
*
34259259 TACGAGACTCGAATAATGTTCCTGTC
1 TACGAGACTCGAATAATGTTCCCGTC
34259285 T
1 T
34259286 CTTTCTACTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.30
Consensus pattern (26 bp):
TACGAGACTCGAATAATGTTCCCGTC
Found at i:34265379 original size:44 final size:45
Alignment explanation
Indices: 34265326--34265428 Score: 118
Period size: 44 Copynumber: 2.3 Consensus size: 45
34265316 TGTCTTTGAC
* * * * *
34265326 ATGGACTTACATGAATTATTCTTGTCTCCAATGCCATA-TATAAT
1 ATGGACTTACATGAATCAATCCTATCTCCAAAGCCATATTATAAT
** *
34265370 ATGGACTTACATGGCTCAATCCTATCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGAATCAATCCTATCTCCAAAGCCATA-TTATAAT
34265416 ATGGACTTACATG
1 ATGGACTTACATG
34265429 GCTCATTTCT
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
44 31 0.63
46 18 0.37
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.35
Consensus pattern (45 bp):
ATGGACTTACATGAATCAATCCTATCTCCAAAGCCATATTATAAT
Found at i:34273851 original size:18 final size:18
Alignment explanation
Indices: 34273828--34273865 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
34273818 CCAAACAGGG
34273828 GTTTTCCAAACATTCACA
1 GTTTTCCAAACATTCACA
*
34273846 GTTTTCCAAACATTCGCA
1 GTTTTCCAAACATTCACA
34273864 GT
1 GT
34273866 CCTTGCCTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.29, C:0.26, G:0.11, T:0.34
Consensus pattern (18 bp):
GTTTTCCAAACATTCACA
Found at i:34277557 original size:25 final size:25
Alignment explanation
Indices: 34277529--34277580 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
34277519 CGGCTACATC
34277529 CTATCTGGTTAAGTATTAAATTAAT
1 CTATCTGGTTAAGTATTAAATTAAT
34277554 CTATCTGGTTAAGTATTAAATTAAT
1 CTATCTGGTTAAGTATTAAATTAAT
34277579 CT
1 CT
34277581 CCTTGTGAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.35, C:0.10, G:0.12, T:0.44
Consensus pattern (25 bp):
CTATCTGGTTAAGTATTAAATTAAT
Found at i:34278742 original size:19 final size:19
Alignment explanation
Indices: 34278696--34278743 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
34278686 GTATATATTT
*
34278696 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAGGAAGA
*
34278714 TAAATCTTATTTAGGAAGA
1 TAAATTTTATTTAGGAAGA
34278733 TAAATTTTATT
1 TAAATTTTATT
34278744 CATATTCTAG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
18 4 0.15
19 22 0.85
ACGTcount: A:0.40, C:0.02, G:0.12, T:0.46
Consensus pattern (19 bp):
TAAATTTTATTTAGGAAGA
Found at i:34282662 original size:19 final size:19
Alignment explanation
Indices: 34282616--34282663 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
34282606 GTATATATTT
*
34282616 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAGGAAGA
*
34282634 TAAATCTTATTTAGGAAGA
1 TAAATTTTATTTAGGAAGA
34282653 TAAATTTTATT
1 TAAATTTTATT
34282664 CATATTCTAG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
18 4 0.15
19 22 0.85
ACGTcount: A:0.40, C:0.02, G:0.12, T:0.46
Consensus pattern (19 bp):
TAAATTTTATTTAGGAAGA
Found at i:34299489 original size:18 final size:18
Alignment explanation
Indices: 34299466--34299508 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
34299456 CTTCAATGTG
34299466 TAATTAATTTAAAATT-TT
1 TAATTAA-TTAAAATTATT
*
34299484 TAATTAATTAAATTTATT
1 TAATTAATTAAAATTATT
34299502 TAATTAA
1 TAATTAA
34299509 AAACTTATTC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 7 0.30
18 16 0.70
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TAATTAATTAAAATTATT
Found at i:34304368 original size:22 final size:22
Alignment explanation
Indices: 34304316--34304369 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
34304306 TTTTTTATGC
* * *
34304316 ATTTAAAATTATAATTGTAATT
1 ATTTATAATTAAAATTATAATT
34304338 ATATT-TAATTAAAATTATAATT
1 AT-TTATAATTAAAATTATAATT
*
34304360 GTTTATAATT
1 ATTTATAATT
34304370 CAATACAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
21 2 0.08
22 22 0.85
23 2 0.08
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (22 bp):
ATTTATAATTAAAATTATAATT
Found at i:34304379 original size:28 final size:27
Alignment explanation
Indices: 34304320--34304379 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 27
34304310 TTATGCATTT
* *
34304320 AAAATTATAATTGTAATTATATTTAATT
1 AAAATTATAATTGT-ATTATATTCAATC
34304348 AAAATTATAATTGT-TTATAATTCAATAC
1 AAAATTATAATTGTATTAT-ATTCAAT-C
34304376 AAAA
1 AAAA
34304380 ATATGAGATA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
26 4 0.14
27 6 0.21
28 18 0.64
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.43
Consensus pattern (27 bp):
AAAATTATAATTGTATTATATTCAATC
Found at i:34308099 original size:19 final size:19
Alignment explanation
Indices: 34308077--34308139 Score: 60
Period size: 19 Copynumber: 3.2 Consensus size: 19
34308067 TTTACATCAT
34308077 TATTTTTATATTATTATTA
1 TATTTTTATATTATTATTA
34308096 TATTTTTACT-TGTATTA-TA
1 TATTTTTA-TAT-TATTATTA
34308115 TATTTATTA-ATTATTTATATA
1 TATTT-TTATATTA-TTAT-TA
34308136 TATT
1 TATT
34308140 GTTTTTACAT
Statistics
Matches: 37, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
18 2 0.05
19 20 0.54
20 9 0.24
21 6 0.16
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.65
Consensus pattern (19 bp):
TATTTTTATATTATTATTA
Found at i:34308434 original size:19 final size:19
Alignment explanation
Indices: 34308412--34308471 Score: 54
Period size: 18 Copynumber: 3.3 Consensus size: 19
34308402 TTATTATTTA
34308412 TTTATTTATTATGTATTAT
1 TTTATTTATTATGTATTAT
**
34308431 TTTACTTTAAAATG-A-TAT
1 TTTA-TTTATTATGTATTAT
* *
34308449 TTT-TATATTATGTGTTAT
1 TTTATTTATTATGTATTAT
34308467 TTTAT
1 TTTAT
34308472 AAATTCTTTT
Statistics
Matches: 31, Mismatches: 6, Indels: 8
0.69 0.13 0.18
Matches are distributed among these distances:
16 6 0.19
18 12 0.39
19 6 0.19
20 7 0.23
ACGTcount: A:0.28, C:0.02, G:0.07, T:0.63
Consensus pattern (19 bp):
TTTATTTATTATGTATTAT
Found at i:34308801 original size:33 final size:33
Alignment explanation
Indices: 34308753--34308829 Score: 136
Period size: 33 Copynumber: 2.3 Consensus size: 33
34308743 CATTGATATT
34308753 GTATTACTCTTTTTGTATATCATGCATTATTTAA
1 GTATTACT-TTTTTGTATATCATGCATTATTTAA
*
34308787 TTATTACTTTTTTGTATATCATGCATTATTTAA
1 GTATTACTTTTTTGTATATCATGCATTATTTAA
34308820 GTATTACTTT
1 GTATTACTTT
34308830 GTATGTTTGT
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
33 34 0.83
34 7 0.17
ACGTcount: A:0.26, C:0.10, G:0.08, T:0.56
Consensus pattern (33 bp):
GTATTACTTTTTTGTATATCATGCATTATTTAA
Found at i:34310325 original size:6 final size:6
Alignment explanation
Indices: 34310309--34310347 Score: 53
Period size: 6 Copynumber: 6.3 Consensus size: 6
34310299 CGAGTATTGG
34310309 TTTTA- TTTTAT TTTTAT TTTTATTT TTTTAT TTTTAT TT
1 TTTTAT TTTTAT TTTTAT TTTTA--T TTTTAT TTTTAT TT
34310348 GGTTAAGTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
5 5 0.16
6 20 0.65
8 6 0.19
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTAT
Found at i:34310326 original size:20 final size:21
Alignment explanation
Indices: 34310303--34310352 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
34310293 AATCTACGAG
34310303 TATTGGTT-TTATTTTATTTT
1 TATTGGTTATTATTTTATTTT
* *
34310323 TATT-TTTATTTTTTTATTTT
1 TATTGGTTATTATTTTATTTT
34310343 TATTTGGTTA
1 TA-TTGGTTA
34310353 AGTTTTTTGT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
19 2 0.08
20 17 0.71
21 2 0.08
22 3 0.12
ACGTcount: A:0.16, C:0.00, G:0.08, T:0.76
Consensus pattern (21 bp):
TATTGGTTATTATTTTATTTT
Found at i:34310336 original size:14 final size:14
Alignment explanation
Indices: 34310319--34310347 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
34310309 TTTTATTTTA
34310319 TTTTTATTTTTATT
1 TTTTTATTTTTATT
34310333 TTTTTATTTTTATT
1 TTTTTATTTTTATT
34310347 T
1 T
34310348 GGTTAAGTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (14 bp):
TTTTTATTTTTATT
Found at i:34316187 original size:30 final size:30
Alignment explanation
Indices: 34316153--34316212 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
34316143 ATTTAATACG
34316153 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * * *
34316183 AACTTTTGCATAATTACACTTTTTCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
34316213 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.38
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:34319399 original size:3 final size:3
Alignment explanation
Indices: 34319391--34319419 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
34319381 ACTGTCAACC
34319391 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
34319420 AACTAAATGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Done.