Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 109 of 333
Found at i:35060185 original size:54 final size:54
Alignment explanation
Indices: 35060123--35060237 Score: 160
Period size: 54 Copynumber: 2.1 Consensus size: 54
35060113 CAAAATGGTA
35060123 ATTT-TACCCCACAAGGGTATCTCGATAATTCTACCCTACAGGGGTATTTCGGT
1 ATTTCTACCCCACAAGGGTATCTCGATAATTCTACCCTACAGGGGTATTTCGGT
* * * * * *
35060176 ATTTCTACCCTACAATGGTCTTTTGATAATTCTACCTTACAGGGGTATTTCGGT
1 ATTTCTACCCCACAAGGGTATCTCGATAATTCTACCCTACAGGGGTATTTCGGT
*
35060230 AATTCTAC
1 ATTTCTAC
35060238 AACTTATCCA
Statistics
Matches: 54, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
53 4 0.07
54 50 0.93
ACGTcount: A:0.24, C:0.23, G:0.17, T:0.37
Consensus pattern (54 bp):
ATTTCTACCCCACAAGGGTATCTCGATAATTCTACCCTACAGGGGTATTTCGGT
Found at i:35067004 original size:27 final size:26
Alignment explanation
Indices: 35066956--35067007 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
35066946 GCGAGGCTGC
*
35066956 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
35066982 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
35067008 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:35067634 original size:26 final size:27
Alignment explanation
Indices: 35067605--35067658 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
35067595 TCACACAAGT
*
35067605 TAGTCATTT-ACGCACAAGGGGCAAAA
1 TAGTCATTTAACACACAAGGGGCAAAA
* *
35067631 TAGTCATTTAACACCCTAGGGGCAAAA
1 TAGTCATTTAACACACAAGGGGCAAAA
35067658 T
1 T
35067659 GGTAATTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 9 0.38
27 15 0.62
ACGTcount: A:0.37, C:0.20, G:0.20, T:0.22
Consensus pattern (27 bp):
TAGTCATTTAACACACAAGGGGCAAAA
Found at i:35067733 original size:54 final size:54
Alignment explanation
Indices: 35067675--35067777 Score: 161
Period size: 54 Copynumber: 1.9 Consensus size: 54
35067665 TTTATCCCAC
* * *
35067675 AAGGGTATCTCGGTAATTCTCCCCTACAGGGGTATTTCGGTATTTCTACCCTAT
1 AAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCGGGAATTCTACCCTAT
* *
35067729 AAGGGTATTTCGGTAATTCTACCTTACAGGGGTATTTCGGGAATTCTAC
1 AAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCGGGAATTCTAC
35067778 AACTTATCCA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 44 1.00
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.35
Consensus pattern (54 bp):
AAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCGGGAATTCTACCCTAT
Found at i:35067774 original size:27 final size:27
Alignment explanation
Indices: 35067659--35067777 Score: 141
Period size: 27 Copynumber: 4.4 Consensus size: 27
35067649 GGGGCAAAAT
* * *
35067659 GGTAATTTTATCCC-ACAAGGGTATCTC
1 GGTAATTCTA-CCCTACAGGGGTATTTC
*
35067686 GGTAATTCTCCCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
35067713 GGTATTTCTACCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
35067740 GGTAATTCTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
35067767 GGGAATTCTAC
1 GGTAATTCTAC
35067778 AACTTATCCA
Statistics
Matches: 78, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
26 3 0.04
27 75 0.96
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:35088456 original size:15 final size:15
Alignment explanation
Indices: 35088412--35088490 Score: 70
Period size: 15 Copynumber: 5.3 Consensus size: 15
35088402 AACCACAAAA
*
35088412 CCAAGATAGAGAAA-
1 CCAAGATAAAGAAAT
* *
35088426 CCCAGAATAAAAAAAT
1 CCAAG-ATAAAGAAAT
*
35088442 CCAACATAAAGAAAT
1 CCAAGATAAAGAAAT
* * *
35088457 CCCAGATAGAGAAGT
1 CCAAGATAAAGAAAT
*
35088472 CCAAGATAAGGAAAT
1 CCAAGATAAAGAAAT
35088487 CCAA
1 CCAA
35088491 ATTACAATAC
Statistics
Matches: 49, Mismatches: 14, Indels: 3
0.74 0.21 0.05
Matches are distributed among these distances:
14 4 0.08
15 42 0.86
16 3 0.06
ACGTcount: A:0.54, C:0.19, G:0.15, T:0.11
Consensus pattern (15 bp):
CCAAGATAAAGAAAT
Found at i:35094595 original size:24 final size:24
Alignment explanation
Indices: 35094567--35094618 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
35094557 CCTTCATACC
* *
35094567 CATATAAACATGAA-CACATCCATA
1 CATATAAACA-AAAGCACATACATA
*
35094591 CATATACACAAAAGCACATACATA
1 CATATAAACAAAAGCACATACATA
35094615 CATA
1 CATA
35094619 CCTTCTACAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 2 0.08
24 22 0.92
ACGTcount: A:0.52, C:0.25, G:0.04, T:0.19
Consensus pattern (24 bp):
CATATAAACAAAAGCACATACATA
Found at i:35100108 original size:53 final size:54
Alignment explanation
Indices: 35099979--35100233 Score: 231
Period size: 55 Copynumber: 4.8 Consensus size: 54
35099969 ACACGGGTAC
* ** * *
35099979 CTTACCATTGCCATGAATTGTCATGGTCTTACGTGGTATCC-T---TT-TGAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
* *
35100028 CATACCATTGCCATGTCC-TGACATGGTCTTACATGGTATCCTTGCCTTATG-AA
1 CTTACCAATGCCATG-CCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
* * * *
35100081 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCCTTAT-GAAA
* * * * *
35100136 CTTATCAATGCCATGTCTTCACATGGTCTTACATGATTTCCTTGCCTTA-GAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
** *
35100189 CCTTACCAATTTTCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 -CTTACCAA-TGCCATGCCTTGACATGGTCTTACATGGTATCCTT
35100234 AAACCCTAAT
Statistics
Matches: 166, Mismatches: 27, Indels: 20
0.78 0.13 0.09
Matches are distributed among these distances:
49 35 0.21
50 1 0.01
52 4 0.02
53 46 0.28
54 10 0.06
55 68 0.41
56 2 0.01
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (54 bp):
CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
Found at i:35104375 original size:93 final size:93
Alignment explanation
Indices: 35104211--35104498 Score: 454
Period size: 93 Copynumber: 3.1 Consensus size: 93
35104201 AACATTATAT
* * * *
35104211 AATTGTTAAACTAAGTTTTATTTGATAATATGTTTAGATATAACAAATTAAAGTATTTTTGAATA
1 AATTGTTAAACTAAGATTTATTTGATAATATGTTTTGATATAACAAATTAAAATGTTTTTGAATA
35104276 AAAGTTAAAGTTGAACAAAATTGGGCAA
66 AAAGTTAAAGTTGAACAAAATTGGGCAA
* *
35104304 AATTATTAAACTAAGCTTTATTTGATAATATGTTTTGATATAACAAATTAAAATGTTTTTGAATA
1 AATTGTTAAACTAAGATTTATTTGATAATATGTTTTGATATAACAAATTAAAATGTTTTTGAATA
* *
35104369 AAAGTTAATGTTGAAAAAAATTGGGCAA
66 AAAGTTAAAGTTGAACAAAATTGGGCAA
*
35104397 AATTGTTAAACTAAGATTTATTTGATAATATGTTTTGATATAACAAATAAAAATGTTTTTGAGA-
1 AATTGTTAAACTAAGATTTATTTGATAATATGTTTTGATATAACAAATTAAAATGTTTTTGA-AT
*
35104461 AAAA-TTAAAGTTGAACAAAATTAGGCAA
65 AAAAGTTAAAGTTGAACAAAATTGGGCAA
*
35104489 AATTGATAAA
1 AATTGTTAAA
35104499 ATCAAGTTAA
Statistics
Matches: 180, Mismatches: 14, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
92 30 0.17
93 149 0.83
94 1 0.01
ACGTcount: A:0.45, C:0.04, G:0.13, T:0.37
Consensus pattern (93 bp):
AATTGTTAAACTAAGATTTATTTGATAATATGTTTTGATATAACAAATTAAAATGTTTTTGAATA
AAAGTTAAAGTTGAACAAAATTGGGCAA
Found at i:35104700 original size:21 final size:21
Alignment explanation
Indices: 35104674--35104718 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
35104664 TTTTCAATGA
35104674 TTTCCAAAATGTGTCGATACC
1 TTTCCAAAATGTGTCGATACC
35104695 TTTCCAAAATGTGTCGATACC
1 TTTCCAAAATGTGTCGATACC
35104716 TTT
1 TTT
35104719 TACCAGGCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.27, C:0.22, G:0.13, T:0.38
Consensus pattern (21 bp):
TTTCCAAAATGTGTCGATACC
Found at i:35109005 original size:28 final size:27
Alignment explanation
Indices: 35108955--35109036 Score: 110
Period size: 28 Copynumber: 3.0 Consensus size: 27
35108945 AATCTCATAT
* *
35108955 CTGTAGGCTAGTATTACTGAAATACCC
1 CTGTAGGGTAGAATTACTGAAATACCC
* * *
35108982 CTGTAGGGTAGAATTTGCTGAAATGCCA
1 CTGTAGGGTAGAA-TTACTGAAATACCC
35109010 CTGTAGGGTAGAATTACTGAAATACCC
1 CTGTAGGGTAGAATTACTGAAATACCC
35109037 TTGGTTTCCA
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
27 22 0.48
28 24 0.52
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.28
Consensus pattern (27 bp):
CTGTAGGGTAGAATTACTGAAATACCC
Found at i:35109216 original size:107 final size:108
Alignment explanation
Indices: 35109046--35109332 Score: 314
Period size: 107 Copynumber: 2.7 Consensus size: 108
35109036 CTTGGTTTCC
*
35109046 AAAATTACCAAAATACCCTTGATTAGCAAAATTACCAAAATACCCCTAATTTGTGAAATTATCGA
1 AAAATTACCAAAATACCCTTAATTAGCAAAATTACCAAAATACCCCTAATTTGTGAAATTATCGA
* * *
35109111 AATACCCTTGACCTGTAAAATTATTAAAATACCCTCGACTTGT
66 AATACCATTGACCTGGAAAATTATAAAAATACCCTCGACTTGT
* * *
35109154 AAAATTACCTAAATA-CCTTAATTTGTAAAATTACCAAAATACCCCTAATTTG-GAAAATTATCG
1 AAAATTACCAAAATACCCTTAATTAGCAAAATTACCAAAATACCCCTAATTTGTG-AAATTATCG
** * **
35109217 AAATACCATTGATTTGGAAAATTATAAAAATACCC-CTGATTTAC
65 AAATACCATTGACCTGGAAAATTATAAAAATACCCTC-GACTTGT
* * * ** ** *
35109261 AAAATTACAAAAATACCCTTGACTT-TCAGAAATTA-CAGAAATACCATTGGTTTGTAAAATTAT
1 AAAATTACCAAAATACCCTT-AATTAGCA-AAATTACCA-AAATACCCCTAATTTGTGAAATTAT
35109324 CGAAATACC
63 CGAAATACC
35109333 CTTGGTTTGT
Statistics
Matches: 150, Mismatches: 22, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
106 2 0.01
107 90 0.60
108 21 0.14
109 37 0.25
ACGTcount: A:0.43, C:0.18, G:0.08, T:0.30
Consensus pattern (108 bp):
AAAATTACCAAAATACCCTTAATTAGCAAAATTACCAAAATACCCCTAATTTGTGAAATTATCGA
AATACCATTGACCTGGAAAATTATAAAAATACCCTCGACTTGT
Found at i:35109328 original size:27 final size:27
Alignment explanation
Indices: 35109029--35109363 Score: 255
Period size: 27 Copynumber: 12.4 Consensus size: 27
35109019 AGAATTACTG
* ** *
35109029 AAATACCCTTGGTTTCCAAAATTACCA
1 AAATACCCTTGATTTGTAAAATTATCA
* * *
35109056 AAATACCCTTGATTAGCAAAATTACCA
1 AAATACCCTTGATTTGTAAAATTATCA
* * * *
35109083 AAATACCCCTAATTTGTGAAATTATCG
1 AAATACCCTTGATTTGTAAAATTATCA
** *
35109110 AAATACCCTTGACCTGTAAAATTATTA
1 AAATACCCTTGATTTGTAAAATTATCA
* * * *
35109137 AAATACCCTCGACTTGTAAAATTACCT
1 AAATACCCTTGATTTGTAAAATTATCA
* *
35109164 AAATA-CCTTAATTTGTAAAATTACCA
1 AAATACCCTTGATTTGTAAAATTATCA
* * * *
35109190 AAATACCCCTAATTTGGAAAATTATCG
1 AAATACCCTTGATTTGTAAAATTATCA
* * *
35109217 AAATACCATTGATTTGGAAAATTATAA
1 AAATACCCTTGATTTGTAAAATTATCA
* **
35109244 AAATACCCCTGATTTACAAAATTA-CAA
1 AAATACCCTTGATTTGTAAAATTATC-A
*
35109271 AAATACCCTTGACTTT-CAGAAATTA-CA
1 AAATACCCTTGA-TTTGTA-AAATTATCA
* * *
35109298 GAAATACCATTGGTTTGTAAAATTATCG
1 -AAATACCCTTGATTTGTAAAATTATCA
* * * *
35109326 AAATACCCTTGGTTTGTAGATTTACCA
1 AAATACCCTTGATTTGTAAAATTATCA
*
35109353 AAACACCCTTG
1 AAATACCCTTG
35109364 TAACGTGAAA
Statistics
Matches: 250, Mismatches: 51, Indels: 14
0.79 0.16 0.04
Matches are distributed among these distances:
26 22 0.09
27 206 0.82
28 22 0.09
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.31
Consensus pattern (27 bp):
AAATACCCTTGATTTGTAAAATTATCA
Found at i:35109663 original size:41 final size:41
Alignment explanation
Indices: 35109600--35109710 Score: 168
Period size: 41 Copynumber: 2.7 Consensus size: 41
35109590 CAGAGGAAGA
* *
35109600 AATTGAGGATCGTATGGTTGCTTGACGACCGTGGATCCACT
1 AATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACC
* *
35109641 AATTGAGGATCGCATGGGTGCTTGATGACCGTGGATCCACC
1 AATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACC
* *
35109682 GATTAAGGATCGCATGGTTGCTTGACGAC
1 AATTGAGGATCGCATGGTTGCTTGACGAC
35109711 TATGGATCTA
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 62 1.00
ACGTcount: A:0.23, C:0.20, G:0.31, T:0.27
Consensus pattern (41 bp):
AATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACC
Found at i:35109717 original size:41 final size:41
Alignment explanation
Indices: 35109605--35109725 Score: 161
Period size: 41 Copynumber: 3.0 Consensus size: 41
35109595 GAAGAAATTG
* ** *
35109605 AGGATCGTATGGTTGCTTGACGACCGTGGATCCACTAATTG
1 AGGATCGCATGGTTGCTTGACGACCGTGGATCCACCGATTA
* *
35109646 AGGATCGCATGGGTGCTTGATGACCGTGGATCCACCGATTA
1 AGGATCGCATGGTTGCTTGACGACCGTGGATCCACCGATTA
** *
35109687 AGGATCGCATGGTTGCTTGACGACTATGGATCTACCGAT
1 AGGATCGCATGGTTGCTTGACGACCGTGGATCCACCGAT
35109726 GGCTTTTAAG
Statistics
Matches: 69, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 69 1.00
ACGTcount: A:0.22, C:0.21, G:0.30, T:0.27
Consensus pattern (41 bp):
AGGATCGCATGGTTGCTTGACGACCGTGGATCCACCGATTA
Found at i:35111790 original size:48 final size:49
Alignment explanation
Indices: 35111673--35111805 Score: 196
Period size: 48 Copynumber: 2.7 Consensus size: 49
35111663 GTACGAGTTA
* *** *
35111673 TACCTTGATTTGGCTTTGGGCCATGGTATAGGTATTTTTAGAGATGAGT
1 TACCTTGATTTGGCTTTGGGCCATGGTATAGGTACTCCGAGAGATAAGT
*
35111722 TACCTTAATTTGGCTTTGGGCCATGGTATAGGTACTCCGAG-GATAAGT
1 TACCTTGATTTGGCTTTGGGCCATGGTATAGGTACTCCGAGAGATAAGT
*
35111770 TACCTTGATTTGGCTTTGGGCCATGGTATAAGTACT
1 TACCTTGATTTGGCTTTGGGCCATGGTATAGGTACT
35111806 TATCGTGTGA
Statistics
Matches: 76, Mismatches: 8, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
48 40 0.53
49 36 0.47
ACGTcount: A:0.21, C:0.14, G:0.27, T:0.38
Consensus pattern (49 bp):
TACCTTGATTTGGCTTTGGGCCATGGTATAGGTACTCCGAGAGATAAGT
Found at i:35119055 original size:48 final size:48
Alignment explanation
Indices: 35118986--35119111 Score: 171
Period size: 48 Copynumber: 2.6 Consensus size: 48
35118976 GTGCGAGTTA
* * * *
35118986 TACCTTGATTTGGCTTTGGGCCATGGTATAGATATTTCAGAGTTGAGT
1 TACCTTGATTTGGCTTTGGGCCATGGTATAGATACTCCAGAGATAAGT
* * * *
35119034 TACCTTAATTTGGCTTCGGGCCATGGTATAGATACTCCGGGGATAAGT
1 TACCTTGATTTGGCTTTGGGCCATGGTATAGATACTCCAGAGATAAGT
*
35119082 TACCTTGATTTGGCTTTAGGCCATGGTATA
1 TACCTTGATTTGGCTTTGGGCCATGGTATA
35119112 AGTACCTATC
Statistics
Matches: 67, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
48 67 1.00
ACGTcount: A:0.21, C:0.16, G:0.26, T:0.37
Consensus pattern (48 bp):
TACCTTGATTTGGCTTTGGGCCATGGTATAGATACTCCAGAGATAAGT
Found at i:35124403 original size:29 final size:30
Alignment explanation
Indices: 35124350--35124406 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
35124340 TCCGAGCCTT
*
35124350 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
35124380 GGGGC-AAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
35124407 AGAGTCGAGG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 19 0.79
30 5 0.21
ACGTcount: A:0.40, C:0.04, G:0.25, T:0.32
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:35124637 original size:13 final size:13
Alignment explanation
Indices: 35124619--35124649 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
35124609 TTCCAGCAAC
35124619 TATGAATTTATTT
1 TATGAATTTATTT
35124632 TATGAATTTATTT
1 TATGAATTTATTT
*
35124645 GATGA
1 TATGA
35124650 TGATCTAAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.13, T:0.55
Consensus pattern (13 bp):
TATGAATTTATTT
Found at i:35124819 original size:50 final size:50
Alignment explanation
Indices: 35124744--35124936 Score: 278
Period size: 50 Copynumber: 3.8 Consensus size: 50
35124734 ATTTGGGTAA
*
35124744 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
*
35124794 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * * * *
35124844 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACCAACATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * *
35124894 AGAACATCCCATGTAAGAACATGTCTGGGACATGGCTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
35124937 TGTTATTATC
Statistics
Matches: 127, Mismatches: 15, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
50 94 0.74
51 33 0.26
ACGTcount: A:0.27, C:0.22, G:0.30, T:0.21
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:35127931 original size:7 final size:7
Alignment explanation
Indices: 35127919--35127945 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
35127909 GCCAGGTAAA
35127919 ATTTTAC
1 ATTTTAC
35127926 ATTTTAC
1 ATTTTAC
35127933 ATTTTAC
1 ATTTTAC
35127940 ATTTTA
1 ATTTTA
35127946 ACTAATAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.30, C:0.11, G:0.00, T:0.59
Consensus pattern (7 bp):
ATTTTAC
Found at i:35132962 original size:22 final size:22
Alignment explanation
Indices: 35132928--35132984 Score: 96
Period size: 22 Copynumber: 2.6 Consensus size: 22
35132918 ATGTTGAAGA
* *
35132928 CACATGGGTGTGTCCTTATGTC
1 CACACGGGCGTGTCCTTATGTC
35132950 CACACGGGCGTGTCCTTATGTC
1 CACACGGGCGTGTCCTTATGTC
35132972 CACACGGGCGTGT
1 CACACGGGCGTGT
35132985 GGCTCCGCTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.14, C:0.28, G:0.30, T:0.28
Consensus pattern (22 bp):
CACACGGGCGTGTCCTTATGTC
Found at i:35138230 original size:24 final size:23
Alignment explanation
Indices: 35138162--35138261 Score: 76
Period size: 23 Copynumber: 4.2 Consensus size: 23
35138152 GCTCTATTGT
* *
35138162 GCTGAAA-AGGTAAGCTCTGACAA
1 GCTGAAACA-GTAAGCTCTTACGA
**
35138185 GCTGAAACAGTAAGCTGATACGA
1 GCTGAAACAGTAAGCTCTTACGA
*
35138208 GCTGAGAACAGTGAGCTCTTACGA
1 GCTGA-AACAGTAAGCTCTTACGA
* **
35138232 ACTGATATATTGGTAAGCTCTTACGA
1 GCTGA-A-A-CAGTAAGCTCTTACGA
35138258 GCTG
1 GCTG
35138262 TGGTGAGTCT
Statistics
Matches: 60, Mismatches: 13, Indels: 5
0.77 0.17 0.06
Matches are distributed among these distances:
23 22 0.37
24 21 0.35
25 1 0.02
26 16 0.27
ACGTcount: A:0.33, C:0.18, G:0.26, T:0.23
Consensus pattern (23 bp):
GCTGAAACAGTAAGCTCTTACGA
Found at i:35143249 original size:38 final size:38
Alignment explanation
Indices: 35143205--35143359 Score: 193
Period size: 38 Copynumber: 4.0 Consensus size: 38
35143195 ATATGCTAGA
*
35143205 ATTATATCCGGGTTAAATCCCGCAAGCTTCGTGCTGGT
1 ATTATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGT
* *
35143243 AATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTAGT
1 ATTATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGT
* *
35143281 ATTATATCCGGGTTAAAGTCCCGCAGGCCTAGTGCTGGT
1 ATTATATCCGGGTTAAA-TCCCGCAGGCTTCGTGCTGGT
* ** * *
35143320 ATTATATCTGAACTTAAAGTCCCGCAGGTTTTGTGCTGGT
1 ATTATATCCG-GGTTAAA-TCCCGCAGGCTTCGTGCTGGT
35143360 GACTAGATTC
Statistics
Matches: 102, Mismatches: 13, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
38 51 0.50
39 27 0.26
40 24 0.24
ACGTcount: A:0.22, C:0.22, G:0.25, T:0.32
Consensus pattern (38 bp):
ATTATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGT
Found at i:35143278 original size:76 final size:77
Alignment explanation
Indices: 35143185--35143327 Score: 209
Period size: 76 Copynumber: 1.9 Consensus size: 77
35143175 GGCTTGAAGA
* *
35143185 CCCGCAGGCTATATGCTAGAATTATATCCGGGTTAAA-TCCCGCAAGCTTCGTGCTGGTAATATA
1 CCCGCAGGCTATATGCTAGAATTATATCCGGGTTAAAGTCCCGCAAGCCTAGTGCTGGTAATATA
35143249 TCCGGGTTAAAT
66 TCCGGGTTAAAT
* * * *
35143261 CCCGCAGGCT-TCGTGCTAGTATTATATCCGGGTTAAAGTCCCGCAGGCCTAGTGCTGGTATTAT
1 CCCGCAGGCTAT-ATGCTAGAATTATATCCGGGTTAAAGTCCCGCAAGCCTAGTGCTGGTAATAT
35143325 ATC
65 ATC
35143328 TGAACTTAAA
Statistics
Matches: 59, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
75 1 0.02
76 33 0.56
77 25 0.42
ACGTcount: A:0.23, C:0.24, G:0.24, T:0.29
Consensus pattern (77 bp):
CCCGCAGGCTATATGCTAGAATTATATCCGGGTTAAAGTCCCGCAAGCCTAGTGCTGGTAATATA
TCCGGGTTAAAT
Found at i:35143316 original size:39 final size:39
Alignment explanation
Indices: 35143169--35143347 Score: 175
Period size: 38 Copynumber: 4.6 Consensus size: 39
35143159 ATTTGATGTG
* * * *
35143169 TATCCGGGCTTGAAGACCCGCAGG-CTATATGCTAGAATTA
1 TATCCGGG-TTAAAGTCCCGCAGGCCTA-GTGCTAGTATTA
* * * * *
35143209 TATCCGGGTTAAA-TCCCGCAAGCTTCGTGCTGGTAATA
1 TATCCGGGTTAAAGTCCCGCAGGCCTAGTGCTAGTATTA
* *
35143247 TATCCGGGTTAAA-TCCCGCAGGCTTCGTGCTAGTATTA
1 TATCCGGGTTAAAGTCCCGCAGGCCTAGTGCTAGTATTA
*
35143285 TATCCGGGTTAAAGTCCCGCAGGCCTAGTGCTGGTATTA
1 TATCCGGGTTAAAGTCCCGCAGGCCTAGTGCTAGTATTA
* **
35143324 TATCTGAACTTAAAGTCCCGCAGG
1 TATCCG-GGTTAAAGTCCCGCAGG
35143348 TTTTGTGCTG
Statistics
Matches: 118, Mismatches: 18, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
38 63 0.53
39 32 0.27
40 23 0.19
ACGTcount: A:0.24, C:0.23, G:0.25, T:0.28
Consensus pattern (39 bp):
TATCCGGGTTAAAGTCCCGCAGGCCTAGTGCTAGTATTA
Found at i:35154918 original size:38 final size:39
Alignment explanation
Indices: 35154857--35155035 Score: 188
Period size: 38 Copynumber: 4.6 Consensus size: 39
35154847 ATTTGATGTG
*
35154857 TATCCGGGCTTAAAGACCCGCAGGCTAT-ATGCTGGAATTA
1 TATCCGGG-TTAAAGTCCCGCAGGCT-TCATGCTGGAATTA
*
35154897 TATCTGGGTTAAA-TCCCGCAGGCTTCATGCTGGTAA-TA
1 TATCCGGGTTAAAGTCCCGCAGGCTTCATGCTGG-AATTA
* * *
35154935 TATCCAGGTTAAA-TCCCGCAGGCTTCGTGCTGGTATTA
1 TATCCGGGTTAAAGTCCCGCAGGCTTCATGCTGGAATTA
* *
35154973 TATCCGGGTTAAAGTCCCGCAGGCCT-AGTGCTGGTATTA
1 TATCCGGGTTAAAGTCCCGCAGGCTTCA-TGCTGGAATTA
* **
35155012 TATCTGAACTTAAAGTCCCGCAGG
1 TATCCG-GGTTAAAGTCCCGCAGG
35155036 TTTTGTGCTG
Statistics
Matches: 121, Mismatches: 12, Indels: 12
0.83 0.08 0.08
Matches are distributed among these distances:
37 2 0.02
38 63 0.52
39 34 0.28
40 22 0.18
ACGTcount: A:0.24, C:0.23, G:0.25, T:0.28
Consensus pattern (39 bp):
TATCCGGGTTAAAGTCCCGCAGGCTTCATGCTGGAATTA
Found at i:35156236 original size:29 final size:29
Alignment explanation
Indices: 35156138--35156237 Score: 98
Period size: 29 Copynumber: 3.5 Consensus size: 29
35156128 TTGAGCATGA
* *
35156138 ATATGAATGTGA-CTAGGCCTAATGGGCC
1 ATATGAATATGATTTAGGCCTAATGGGCC
* * * *
35156166 ATATAAATGTGATTTGGGCCTAATGGACC
1 ATATGAATATGATTTAGGCCTAATGGGCC
*
35156195 AAAT--ATAGGTGATTTAGGCCTAATGGGCC
1 ATATGAATA--TGATTTAGGCCTAATGGGCC
35156224 ATATGAATATGATT
1 ATATGAATATGATT
35156238 GGGCTTAATG
Statistics
Matches: 58, Mismatches: 9, Indels: 9
0.76 0.12 0.12
Matches are distributed among these distances:
27 2 0.03
28 11 0.19
29 42 0.72
31 3 0.05
ACGTcount: A:0.32, C:0.13, G:0.25, T:0.30
Consensus pattern (29 bp):
ATATGAATATGATTTAGGCCTAATGGGCC
Found at i:35156674 original size:8 final size:8
Alignment explanation
Indices: 35156661--35156687 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
35156651 TATGGGGTGC
35156661 GAACGGAG
1 GAACGGAG
35156669 GAACGGAG
1 GAACGGAG
35156677 GAACGGAG
1 GAACGGAG
35156685 GAA
1 GAA
35156688 GTATATGAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.41, C:0.11, G:0.48, T:0.00
Consensus pattern (8 bp):
GAACGGAG
Found at i:35160068 original size:29 final size:28
Alignment explanation
Indices: 35160016--35160088 Score: 92
Period size: 29 Copynumber: 2.6 Consensus size: 28
35160006 CGAATGTGAC
* * *
35160016 TGGGCCTAACGGGTCATATAAATATGATT
1 TGGGCCTAATGGGCCAGATAAATATGA-T
*
35160045 TGGGCCTAATGGGCCAGATGAATATGAT
1 TGGGCCTAATGGGCCAGATAAATATGAT
*
35160073 TGGGCTTAATGGGCCA
1 TGGGCCTAATGGGCCA
35160089 AATACAGGTA
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
28 16 0.41
29 23 0.59
ACGTcount: A:0.27, C:0.15, G:0.30, T:0.27
Consensus pattern (28 bp):
TGGGCCTAATGGGCCAGATAAATATGAT
Found at i:35171142 original size:50 final size:48
Alignment explanation
Indices: 35171021--35171153 Score: 139
Period size: 50 Copynumber: 2.8 Consensus size: 48
35171011 GGTGGAAGTA
*
35171021 AGTGGCAGTTTATCTACAAATCAGTGGT---TGTT-CACAAAGTGTTTC
1 AGTGGCAGTTTATCTAC-AATCAGTGGTGGCTTTTCCACAAAGTGTTTC
* * * * *
35171066 AGTGGTAGTATATTTGCATATTAGTGGTGGCTTTTCCACAAAGTGTTATC
1 AGTGGCAGTTTATCTACA-ATCAGTGGTGGCTTTTCCACAAAGTGTT-TC
*
35171116 AGTGGCAGTTTATCTACAACTCAGTGGTGGCTTGTCCA
1 AGTGGCAGTTTATCTACAA-TCAGTGGTGGCTTTTCCA
35171154 TAAATAGTGA
Statistics
Matches: 69, Mismatches: 12, Indels: 9
0.77 0.13 0.10
Matches are distributed among these distances:
44 1 0.01
45 21 0.30
48 3 0.04
49 12 0.17
50 32 0.46
ACGTcount: A:0.24, C:0.16, G:0.24, T:0.36
Consensus pattern (48 bp):
AGTGGCAGTTTATCTACAATCAGTGGTGGCTTTTCCACAAAGTGTTTC
Found at i:35181561 original size:40 final size:40
Alignment explanation
Indices: 35181487--35181711 Score: 321
Period size: 40 Copynumber: 5.6 Consensus size: 40
35181477 AACCCAAGTA
* * *
35181487 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACACATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
*
35181526 CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
35181566 CCTTCGGGACTTAGCCCGGGTATAG-CAACTACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTA---GCACAAATG
*
35181609 CCTTCGGGACTTCGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
35181649 CCTTCGGGACTTAGCCCGGATATGGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
35181689 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
35181712 CATCCGAATA
Statistics
Matches: 169, Mismatches: 10, Indels: 13
0.88 0.05 0.07
Matches are distributed among these distances:
39 13 0.08
40 118 0.70
41 1 0.01
43 36 0.21
44 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.24, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:35181610 original size:83 final size:82
Alignment explanation
Indices: 35181487--35181711 Score: 336
Period size: 83 Copynumber: 2.8 Consensus size: 82
35181477 AACCCAAGTA
* * *
35181487 CCTTCGGGATTTAG-CCGGATATAGCA--ACTCGCACACATGCCTTCGGGTCTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATATAGCACTACTCGCACAAATGCCTTCGGGACTTAGCCCGGATAT
35181549 AGTCACTAGCACAAATG
66 AGTCACTAGCACAAATG
* *
35181566 CCTTCGGGACTTAGCCCGGGTATAGCAACTACTCGCACAAATGCCTTCGGGACTTCGCCCGGATA
1 CCTTCGGGACTTAGCCCGGATATAGC-ACTACTCGCACAAATGCCTTCGGGACTTAGCCCGGATA
35181631 TAGTCACTAGCACAAATG
65 TAGTCACTAGCACAAATG
*
35181649 CCTTCGGGACTTAGCCCGGATATGGTCACTA---GCACAAATGCCTTCGGGACTTAGCCCGGATA
1 CCTTCGGGACTTAGCCCGGATATAG-CACTACTCGCACAAATGCCTTCGGGACTTAGCCCGGATA
35181711 T
65 T
35181712 CATCCGAATA
Statistics
Matches: 133, Mismatches: 8, Indels: 9
0.89 0.05 0.06
Matches are distributed among these distances:
79 13 0.10
80 41 0.31
81 1 0.01
83 77 0.58
84 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.24, T:0.23
Consensus pattern (82 bp):
CCTTCGGGACTTAGCCCGGATATAGCACTACTCGCACAAATGCCTTCGGGACTTAGCCCGGATAT
AGTCACTAGCACAAATG
Found at i:35189569 original size:21 final size:23
Alignment explanation
Indices: 35189543--35189591 Score: 66
Period size: 21 Copynumber: 2.2 Consensus size: 23
35189533 TTACAAGCAT
*
35189543 CAAATTCACAA-CATTTTA-TAC
1 CAAATTCACAACCATTTTACAAC
*
35189564 CAAATTCTCAACCATTTTACAAC
1 CAAATTCACAACCATTTTACAAC
35189587 CAAAT
1 CAAAT
35189592 CATACATCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 10 0.42
22 7 0.29
23 7 0.29
ACGTcount: A:0.43, C:0.27, G:0.00, T:0.31
Consensus pattern (23 bp):
CAAATTCACAACCATTTTACAAC
Found at i:35190187 original size:24 final size:24
Alignment explanation
Indices: 35190160--35190241 Score: 60
Period size: 24 Copynumber: 3.2 Consensus size: 24
35190150 AAATACTATC
35190160 ATCAACCATATGATTAATATATAT
1 ATCAACCATATGATTAATATATAT
* *
35190184 ATC-A-CATATTTCCAATTCATAAATACTAT
1 ATCAACCATA--T--GATT-A-ATATA-TAT
35190213 CATCAACCATATGATTAATATATAT
1 -ATCAACCATATGATTAATATATAT
35190238 ATCA
1 ATCA
35190242 CATATTTCCA
Statistics
Matches: 44, Mismatches: 4, Indels: 20
0.65 0.06 0.29
Matches are distributed among these distances:
22 4 0.09
23 1 0.02
24 8 0.18
25 3 0.07
26 7 0.16
27 2 0.05
28 7 0.16
29 3 0.07
30 4 0.09
31 1 0.02
32 4 0.09
ACGTcount: A:0.44, C:0.17, G:0.02, T:0.37
Consensus pattern (24 bp):
ATCAACCATATGATTAATATATAT
Found at i:35190211 original size:54 final size:54
Alignment explanation
Indices: 35190149--35190257 Score: 218
Period size: 54 Copynumber: 2.0 Consensus size: 54
35190139 AATTCATAAC
35190149 TAAATACTATCATCAACCATATGATTAATATATATATCACATATTTCCAATTCA
1 TAAATACTATCATCAACCATATGATTAATATATATATCACATATTTCCAATTCA
35190203 TAAATACTATCATCAACCATATGATTAATATATATATCACATATTTCCAATTCA
1 TAAATACTATCATCAACCATATGATTAATATATATATCACATATTTCCAATTCA
35190257 T
1 T
35190258 TTGCACATAT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.42, C:0.18, G:0.02, T:0.38
Consensus pattern (54 bp):
TAAATACTATCATCAACCATATGATTAATATATATATCACATATTTCCAATTCA
Found at i:35194919 original size:13 final size:13
Alignment explanation
Indices: 35194901--35194925 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
35194891 AAAGAGCTCA
35194901 GATCTGAATTACG
1 GATCTGAATTACG
35194914 GATCTGAATTAC
1 GATCTGAATTAC
35194926 CAGTCCAGGC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
GATCTGAATTACG
Found at i:35201366 original size:55 final size:55
Alignment explanation
Indices: 35201295--35201402 Score: 155
Period size: 55 Copynumber: 2.0 Consensus size: 55
35201285 AAGCCCATAG
* *
35201295 CTCGTGTGCAACACTGACT-TCAACACACGGCCATGGCACACGCCCGTGTGGCCTA
1 CTCGTGTACAACACTGACTCT-AACACACGGACATGGCACACGCCCGTGTGGCCTA
* **
35201350 CTCGTGTACAATACTGACTCTAAGGCACGGACATGGCACACGCCCGTGTGGCC
1 CTCGTGTACAACACTGACTCTAACACACGGACATGGCACACGCCCGTGTGGCC
35201403 AAAAGGAGGT
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
55 46 0.98
56 1 0.02
ACGTcount: A:0.22, C:0.34, G:0.25, T:0.19
Consensus pattern (55 bp):
CTCGTGTACAACACTGACTCTAACACACGGACATGGCACACGCCCGTGTGGCCTA
Found at i:35204538 original size:50 final size:50
Alignment explanation
Indices: 35204446--35204614 Score: 261
Period size: 50 Copynumber: 3.4 Consensus size: 50
35204436 TATCCTAGAT
* *
35204446 ATGGTCTTACATGGGA--TCATATACCGATGCCAATGCCATGTCCCAAAC
1 ATGGTCTTACATGGGATCTCACATATCGATGCCAATGCCATGTCCCAAAC
* * * *
35204494 ATGGTCCTACATGGGATCTCACATATCAATGCCAATGCCATGTCCTAGAC
1 ATGGTCTTACATGGGATCTCACATATCGATGCCAATGCCATGTCCCAAAC
35204544 ATGGTCTTACATGGGATCTCACATATCGATGCCAATGCCATGTCCCAAAC
1 ATGGTCTTACATGGGATCTCACATATCGATGCCAATGCCATGTCCCAAAC
*
35204594 ATGGTTTTACATGGGATCTCA
1 ATGGTCTTACATGGGATCTCA
35204615 TTACTCACGG
Statistics
Matches: 108, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
48 15 0.14
50 93 0.86
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27
Consensus pattern (50 bp):
ATGGTCTTACATGGGATCTCACATATCGATGCCAATGCCATGTCCCAAAC
Found at i:35204605 original size:100 final size:98
Alignment explanation
Indices: 35204424--35204614 Score: 292
Period size: 100 Copynumber: 1.9 Consensus size: 98
35204414 ACACAATAAG
* * *
35204424 ATGCCAAGGTCATATCCTAGATATGGTCTTACATGGGATCATATACCGATGCCAATGCCATGTCC
1 ATGCCAAGGCCATATCCTAGACATGGTCTTACATGGGATCACATACCGATGCCAATGCCATGTCC
35204489 CAAACATGGTCCTACATGGGATCTCACATATCA
66 CAAACATGGTCCTACATGGGATCTCACATATCA
* * *
35204522 ATGCCAATGCCATGTCCTAGACATGGTCTTACATGGGATCTCACATATCGATGCCAATGCCATGT
1 ATGCCAAGGCCATATCCTAGACATGGTCTTACATGGGA--TCACATACCGATGCCAATGCCATGT
**
35204587 CCCAAACATGGTTTTACATGGGATCTCA
64 CCCAAACATGGTCCTACATGGGATCTCA
35204615 TTACTCACGG
Statistics
Matches: 83, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
98 34 0.41
100 49 0.59
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27
Consensus pattern (98 bp):
ATGCCAAGGCCATATCCTAGACATGGTCTTACATGGGATCACATACCGATGCCAATGCCATGTCC
CAAACATGGTCCTACATGGGATCTCACATATCA
Found at i:35206718 original size:21 final size:20
Alignment explanation
Indices: 35206694--35206739 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
35206684 ATAAATTTAG
* *
35206694 AAAATAAGAAAGGAAATAACA
1 AAAATAAGAAA-AAAATAAAA
*
35206715 AAAAGAAGAAAAAAATAAAA
1 AAAATAAGAAAAAAATAAAA
35206735 AAAAT
1 AAAAT
35206740 TAAAGGATAA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.78, C:0.02, G:0.11, T:0.09
Consensus pattern (20 bp):
AAAATAAGAAAAAAATAAAA
Found at i:35209009 original size:46 final size:47
Alignment explanation
Indices: 35208830--35209127 Score: 182
Period size: 46 Copynumber: 6.5 Consensus size: 47
35208820 TCTGTGCGCT
* * *
35208830 AGTGTAAGA-CATGTCTGGGACATGCATCAGCCACATTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGCATCGGCTACATGATGAGAGCC
* * * *
35208876 AATGTAAGACCATGTCTGGGACATTGCATCGG-TA-TTGAGACGAGAGCT
1 AGTGTAAGACCATGTCTGGGACA-TGCATCGGCTACAT--GATGAGAGCC
* * *
35208924 AGTGTAA-ACCATGTTTGGGACATGCATCGGCTTCTTGATGTA-AGCC
1 AGTGTAAGACCATGTCTGGGACATGCATCGGCTACATGATG-AGAGCC
***
35208970 AGTGTAAGA-CATGAT-TGGGACATGCATCGGCTACATGAT--GCTTC
1 AGTGTAAGACCATG-TCTGGGACATGCATCGGCTACATGATGAGAGCC
* ** * *
35209014 AGTATAAGACCATGT-T-GG-CATCGGCA-CGGAGACGT-A-G-GAGTC
1 AGTGTAAGACCATGTCTGGGACAT--GCATCGGCTACATGATGAGAGCC
** * * *
35209056 AGTGTAAGACCATGTCTAAGACATAGAATCGACTTA-A-CATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACAT-GCATCGGC-TACATGATGAGAGCC
35209103 AGTGTAAGACCATGTCTGGGACATG
1 AGTGTAAGACCATGTCTGGGACATG
35209128 GTATCGACAT
Statistics
Matches: 196, Mismatches: 34, Indels: 44
0.72 0.12 0.16
Matches are distributed among these distances:
42 21 0.11
43 9 0.05
44 17 0.09
45 10 0.05
46 59 0.30
47 58 0.30
48 22 0.11
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.24
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATGCATCGGCTACATGATGAGAGCC
Found at i:35209668 original size:14 final size:15
Alignment explanation
Indices: 35209638--35209672 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
35209628 CATAAAAGAC
35209638 AAAATAAAACCCAAA
1 AAAATAAAACCCAAA
35209653 AAAATAAAACCCAAA
1 AAAATAAAACCCAAA
35209668 AAAAT
1 AAAAT
35209673 CTGCTCATCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.74, C:0.17, G:0.00, T:0.09
Consensus pattern (15 bp):
AAAATAAAACCCAAA
Found at i:35220541 original size:50 final size:50
Alignment explanation
Indices: 35220402--35220543 Score: 185
Period size: 50 Copynumber: 2.8 Consensus size: 50
35220392 TGATATGTGT
* * * * * *
35220402 CAGTGTAAGATCATGTTTGGGACATGGCATCGGCACCGAGAGATGAGAGC
1 CAGTGTAAGACCATATCTGGGACATGGCATCGGCATCGATATATGAGAGC
* ** *
35220452 TAGTGTAAGACCATATCTGGGACATGGCATCAACCTCGATATATGAGAGC
1 CAGTGTAAGACCATATCTGGGACATGGCATCGGCATCGATATATGAGAGC
*
35220502 CAGTGTAAGACCATATCTGGGATATGGCATCGGCATCGATAT
1 CAGTGTAAGACCATATCTGGGACATGGCATCGGCATCGATAT
35220544 GTGTAAGATT
Statistics
Matches: 77, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
50 77 1.00
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.23
Consensus pattern (50 bp):
CAGTGTAAGACCATATCTGGGACATGGCATCGGCATCGATATATGAGAGC
Found at i:35222854 original size:164 final size:164
Alignment explanation
Indices: 35222583--35222916 Score: 650
Period size: 164 Copynumber: 2.0 Consensus size: 164
35222573 CCTTGTTTTT
35222583 GCATGAATGTGTATGTTTAAGTCATGTAATGGCTCATACCCTGTTTCGACGTCGGACATGGGTAA
1 GCATGAATGTGTATGTTTAAGTCATGTAATGGCTCATACCCTGTTTCGACGTCGGACATGGGTAA
35222648 GGGGTGTTACATGCATGAGATGTGAGCTTAGTATATGCTATGTAAATTGTGTTGGATAGTGACGA
66 GGGGTGTTACATGCATGAGATGTGAGCTTAGTATATGCTATGTAAATTGTGTTGGATAGTGACGA
35222713 GTAAGTTGCACTTATGCCTATTTTAGTGTTATGA
131 GTAAGTTGCACTTATGCCTATTTTAGTGTTATGA
*
35222747 GCATGAATGTGTATGTTTAAGTCATGTAATGGCTCATACCCTGTTTCGGCGTCGGACATGGGTAA
1 GCATGAATGTGTATGTTTAAGTCATGTAATGGCTCATACCCTGTTTCGACGTCGGACATGGGTAA
35222812 GGGGTGTTACATGCATGAGATGTGAGCTTAGTATATGCTATGTAAATTGTGTTGGATAGTGACGA
66 GGGGTGTTACATGCATGAGATGTGAGCTTAGTATATGCTATGTAAATTGTGTTGGATAGTGACGA
*
35222877 GTAAGTTGCGCTTATGCCTATTTTAGTGTTATGA
131 GTAAGTTGCACTTATGCCTATTTTAGTGTTATGA
35222911 GCATGA
1 GCATGA
35222917 TGATGAATGG
Statistics
Matches: 168, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
164 168 1.00
ACGTcount: A:0.25, C:0.12, G:0.28, T:0.35
Consensus pattern (164 bp):
GCATGAATGTGTATGTTTAAGTCATGTAATGGCTCATACCCTGTTTCGACGTCGGACATGGGTAA
GGGGTGTTACATGCATGAGATGTGAGCTTAGTATATGCTATGTAAATTGTGTTGGATAGTGACGA
GTAAGTTGCACTTATGCCTATTTTAGTGTTATGA
Found at i:35224621 original size:30 final size:30
Alignment explanation
Indices: 35224552--35224623 Score: 81
Period size: 30 Copynumber: 2.4 Consensus size: 30
35224542 ATGAAGTTTA
* *
35224552 ATTCCCAAGTCTAGGGGCAAAAGTGTAAAT
1 ATTCCAAAGTTTAGGGGCAAAAGTGTAAAT
* * * *
35224582 ATGCAAAAGTTTAGGGGCAAAATTGTAATT
1 ATTCCAAAGTTTAGGGGCAAAAGTGTAAAT
*
35224612 TTTCCAAAGTTT
1 ATTCCAAAGTTT
35224624 GAGTTAAGGA
Statistics
Matches: 33, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.36, C:0.12, G:0.21, T:0.31
Consensus pattern (30 bp):
ATTCCAAAGTTTAGGGGCAAAAGTGTAAAT
Found at i:35227068 original size:40 final size:40
Alignment explanation
Indices: 35226975--35227177 Score: 302
Period size: 40 Copynumber: 5.1 Consensus size: 40
35226965 CGGATGATAA
** * *
35226975 CCGGGCTAAGTCCCGAAGGCATTTGCACTAGTGACTAT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
35227014 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
35227054 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
35227094 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
35227134 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
35227174 CCGG
1 CCGG
35227178 TTAAATCCGA
Statistics
Matches: 151, Mismatches: 11, Indels: 3
0.92 0.07 0.02
Matches are distributed among these distances:
39 36 0.24
40 115 0.76
ACGTcount: A:0.22, C:0.24, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:35234022 original size:13 final size:13
Alignment explanation
Indices: 35234004--35234038 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
35233994 GACTTTGACA
35234004 ATTTAAATGATGT
1 ATTTAAATGATGT
35234017 ATTTAAACT-ATGT
1 ATTTAAA-TGATGT
35234030 ATTTAAATG
1 ATTTAAATG
35234039 GAATATAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
12 1 0.05
13 18 0.90
14 1 0.05
ACGTcount: A:0.40, C:0.03, G:0.11, T:0.46
Consensus pattern (13 bp):
ATTTAAATGATGT
Found at i:35234147 original size:40 final size:40
Alignment explanation
Indices: 35234092--35234254 Score: 231
Period size: 40 Copynumber: 4.1 Consensus size: 40
35234082 TGGATGATAA
* * * * *
35234092 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-C
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTA-TAT
35234132 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
35234172 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
* *
35234212 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTA-CTATAT
35234252 CCG
1 CCG
35234255 TTTAAATCCC
Statistics
Matches: 114, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
39 3 0.03
40 111 0.97
ACGTcount: A:0.21, C:0.26, G:0.29, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
Found at i:35237750 original size:40 final size:40
Alignment explanation
Indices: 35237550--35237736 Score: 342
Period size: 40 Copynumber: 4.7 Consensus size: 40
35237540 ATTCGGATTG
35237550 ATAACCGGGCTAAGTCCCGAAGGCA-TTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
35237589 ATATCCGGGCTAAGTCCCGAA-GCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
35237628 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
35237668 ATAACCGGCCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
35237708 ATAACCGGGCTAAGTCCCGAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
35237737 AGCTAGTAGC
Statistics
Matches: 142, Mismatches: 4, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
38 3 0.02
39 54 0.38
40 85 0.60
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.25
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:35237769 original size:39 final size:39
Alignment explanation
Indices: 35237550--35237759 Score: 309
Period size: 40 Copynumber: 5.3 Consensus size: 39
35237540 ATTCGGATTG
35237550 ATAACCGGGCTAAGTCCCGAAGGCA-TTGTGCGAGTTACT
1 ATAACC-GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
35237589 ATATCCGGGCTAAGTCCCGAA-GCATTTGTGCGAGTTACT
1 ATAACC-GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
35237628 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACC-GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
35237668 ATAACCGGCCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGG-CTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
35237708 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCTAG-TAGCT
1 ATAACC-GGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
*
35237748 ATATCCGGCTAA
1 ATAACCGGCTAA
35237760 ACTCCGAAGG
Statistics
Matches: 161, Mismatches: 5, Indels: 10
0.91 0.03 0.06
Matches are distributed among these distances:
38 3 0.02
39 64 0.40
40 92 0.57
41 2 0.01
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (39 bp):
ATAACCGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:35238314 original size:23 final size:24
Alignment explanation
Indices: 35238288--35238338 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 24
35238278 GCCAAATGGC
35238288 TTATAAAT-ATTTTG-A-GTATAATG
1 TTAT-AATCATTTTGTATGTAT-ATG
35238311 TTATAATCATTTTGTATGTATATG
1 TTATAATCATTTTGTATGTATATG
35238335 TTAT
1 TTAT
35238339 TGAGAGTGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
22 3 0.12
23 10 0.40
24 8 0.32
25 4 0.16
ACGTcount: A:0.33, C:0.02, G:0.12, T:0.53
Consensus pattern (24 bp):
TTATAATCATTTTGTATGTATATG
Found at i:35253338 original size:40 final size:40
Alignment explanation
Indices: 35253283--35253500 Score: 298
Period size: 40 Copynumber: 5.5 Consensus size: 40
35253273 CGGATGATAA
** * *
35253283 CCGGGCTAAGTCCCGAAGGCATTTGCACTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
35253323 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
35253363 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
35253403 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
35253443 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
35253483 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
35253501 TACCTGGCTT
Statistics
Matches: 162, Mismatches: 14, Indels: 5
0.90 0.08 0.03
Matches are distributed among these distances:
39 16 0.10
40 146 0.90
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:35261388 original size:40 final size:40
Alignment explanation
Indices: 35261333--35261550 Score: 280
Period size: 40 Copynumber: 5.5 Consensus size: 40
35261323 CGGATGATAA
** * *
35261333 CCGGGCTAAGTCCCGAAGGCATTTGCACTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
35261373 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
35261413 CCGGGTTAAGTCCCAAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
35261453 ACGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
35261493 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
35261533 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
35261551 TACCTGGCTT
Statistics
Matches: 158, Mismatches: 18, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
39 16 0.10
40 142 0.90
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:35268723 original size:16 final size:16
Alignment explanation
Indices: 35268699--35268730 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
35268689 TATAATGTTC
35268699 AAAGATAGAGTTTGTG
1 AAAGATAGAGTTTGTG
*
35268715 AAAGGTAGAGTTTGTG
1 AAAGATAGAGTTTGTG
35268731 TATGCAAGGA
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:0.34, C:0.00, G:0.34, T:0.31
Consensus pattern (16 bp):
AAAGATAGAGTTTGTG
Found at i:35272964 original size:48 final size:48
Alignment explanation
Indices: 35272889--35273053 Score: 181
Period size: 48 Copynumber: 3.5 Consensus size: 48
35272879 ATGCCGACAC
* *
35272889 CATGTCCCGGACATGGTCTTACACTAGCTTGTATATCTCGAGGCCGATG
1 CATGTCCCAGACAT-GTCTTACACTAGCTTATATATCTCGAGGCCGATG
* * * * * **
35272938 AATGTCCCAGACATGTCTTACACTAGC-TCT-TGTCTCAATGTTGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTATATATCTCGAGGCCGATG
* * * * *
35272984 CATGTCTCATACATGTCTTACATTGGCTTAAATATCTCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTATATATCTCGAGGCCGATG
35273032 CATGTCCCAGACATGTCTTACA
1 CATGTCCCAGACATGTCTTACA
35273054 TTGGCACACA
Statistics
Matches: 92, Mismatches: 22, Indels: 5
0.77 0.18 0.04
Matches are distributed among these distances:
46 33 0.36
47 3 0.03
48 44 0.48
49 12 0.13
ACGTcount: A:0.24, C:0.25, G:0.19, T:0.32
Consensus pattern (48 bp):
CATGTCCCAGACATGTCTTACACTAGCTTATATATCTCGAGGCCGATG
Found at i:35280714 original size:5 final size:5
Alignment explanation
Indices: 35280706--35280751 Score: 55
Period size: 5 Copynumber: 10.0 Consensus size: 5
35280696 TCTCTTTTAT
*
35280706 TATAA TATAA TAT-A -ATAA TGTAA TATAA TAT-A -ATAA TATAA TATAA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
35280752 CATTTACTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
3 4 0.11
4 4 0.11
5 27 0.77
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (5 bp):
TATAA
Found at i:35280731 original size:18 final size:18
Alignment explanation
Indices: 35280706--35280751 Score: 83
Period size: 18 Copynumber: 2.6 Consensus size: 18
35280696 TCTCTTTTAT
35280706 TATAATATAATATAATAA
1 TATAATATAATATAATAA
*
35280724 TGTAATATAATATAATAA
1 TATAATATAATATAATAA
35280742 TATAATATAA
1 TATAATATAA
35280752 CATTTACTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (18 bp):
TATAATATAATATAATAA
Found at i:35280751 original size:13 final size:13
Alignment explanation
Indices: 35280707--35280748 Score: 59
Period size: 13 Copynumber: 3.2 Consensus size: 13
35280697 CTCTTTTATT
35280707 ATAATATAATATA
1 ATAATATAATATA
*
35280720 ATAATGTAATATA
1 ATAATATAATATA
35280733 AT-ATAATAATATA
1 ATAAT-ATAATATA
35280746 ATA
1 ATA
35280749 TAACATTTAC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 2 0.08
13 23 0.92
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (13 bp):
ATAATATAATATA
Found at i:35292152 original size:27 final size:26
Alignment explanation
Indices: 35292115--35292176 Score: 65
Period size: 26 Copynumber: 2.3 Consensus size: 26
35292105 TTTATTTTCA
*
35292115 AAAATTAAATAACATAT-TTAAT-ATG
1 AAAATAAAAT-ACATATATTAATAATG
*
35292140 TAAAACTAAAATATATATATTAATAATG
1 -AAAA-TAAAATACATATATTAATAATG
35292168 AAAATAAAA
1 AAAATAAAA
35292177 AATATGTGGT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
26 14 0.45
27 14 0.45
28 3 0.10
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.32
Consensus pattern (26 bp):
AAAATAAAATACATATATTAATAATG
Found at i:35295115 original size:11 final size:10
Alignment explanation
Indices: 35295094--35295119 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
35295084 GCTCTCTCTC
35295094 TTTTCTTTTT
1 TTTTCTTTTT
35295104 TTTTCTTTTT
1 TTTTCTTTTT
35295114 TTTTCT
1 TTTTCT
35295120 GAAATGGTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (10 bp):
TTTTCTTTTT
Found at i:35295607 original size:28 final size:29
Alignment explanation
Indices: 35295553--35295622 Score: 74
Period size: 29 Copynumber: 2.5 Consensus size: 29
35295543 ATTTTAATCC
* *
35295553 CTTTTTTATTTTTTAATTTATTTTAAATA
1 CTTTTTTATTATTTAATTTATTATAAATA
35295582 CTTTTTATATTATTT-ATTT-TTATAAATA
1 CTTTTT-TATTATTTAATTTATTATAAATA
**
35295610 -TTAGTTATTATTT
1 CTTTTTTATTATTT
35295623 TTATTTATAT
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
26 8 0.22
27 3 0.08
28 8 0.22
29 10 0.28
30 7 0.19
ACGTcount: A:0.29, C:0.03, G:0.01, T:0.67
Consensus pattern (29 bp):
CTTTTTTATTATTTAATTTATTATAAATA
Found at i:35295647 original size:28 final size:29
Alignment explanation
Indices: 35295589--35295656 Score: 70
Period size: 28 Copynumber: 2.4 Consensus size: 29
35295579 ATACTTTTTA
* *
35295589 TATTATTTATTTTTATAAATATTAGTTAT
1 TATTATTTATTTATATAAATATTAGTCAT
*
35295618 TATT-TTTATTTATATATATATTA-TCCAT
1 TATTATTTATTTATATAAATATTAGT-CAT
35295646 TA-TATTATATT
1 TATTATT-TATT
35295657 ATTGTATATT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
27 2 0.06
28 23 0.70
29 8 0.24
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.62
Consensus pattern (29 bp):
TATTATTTATTTATATAAATATTAGTCAT
Found at i:35295665 original size:33 final size:32
Alignment explanation
Indices: 35295623--35295719 Score: 78
Period size: 33 Copynumber: 3.1 Consensus size: 32
35295613 GTTATTATTT
**
35295623 TTATTTATATATATAT-TATCCATTATATTATA
1 TTATTTATAT-TATATCTATAAATTATATTATA
* *
35295655 TTATTGTATATTTTATCTATAAATTATATTTTA
1 TTATT-TATATTATATCTATAAATTATATTATA
*
35295688 TTA--TATATT-TCAT-TATATATTATATATATA
1 TTATTTATATTAT-ATCTATAAATTATAT-TATA
35295718 TT
1 TT
35295720 TTGTGCATAT
Statistics
Matches: 55, Mismatches: 6, Indels: 10
0.77 0.08 0.14
Matches are distributed among these distances:
29 12 0.22
30 13 0.24
32 9 0.16
33 21 0.38
ACGTcount: A:0.36, C:0.04, G:0.01, T:0.59
Consensus pattern (32 bp):
TTATTTATATTATATCTATAAATTATATTATA
Found at i:35295670 original size:40 final size:39
Alignment explanation
Indices: 35295624--35295719 Score: 99
Period size: 40 Copynumber: 2.4 Consensus size: 39
35295614 TTATTATTTT
35295624 TATTTATATATATATTATCCATTATATTATATTATTGT-A-TA
1 TATTTATATATATATTAT--ATTATATTATA-TATT-TCATTA
* * *
35295665 T-TTTATCTATAAATTATATTTTATTATATATTTCATTA
1 TATTTATATATATATTATATTATATTATATATTTCATTA
35295703 TATATTATATATATATT
1 TAT-TTATATATATATT
35295720 TTGTGCATAT
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
36 1 0.02
37 5 0.11
38 13 0.28
39 1 0.02
40 25 0.54
41 1 0.02
ACGTcount: A:0.36, C:0.04, G:0.01, T:0.58
Consensus pattern (39 bp):
TATTTATATATATATTATATTATATTATATATTTCATTA
Found at i:35295696 original size:12 final size:12
Alignment explanation
Indices: 35295679--35295721 Score: 61
Period size: 12 Copynumber: 3.7 Consensus size: 12
35295669 ATCTATAAAT
35295679 TATATTTTATTA
1 TATATTTTATTA
*
35295691 TATATTTCATTA
1 TATATTTTATTA
*
35295703 TATATTATA-TA
1 TATATTTTATTA
35295714 TATATTTT
1 TATATTTT
35295722 GTGCATATAG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
11 9 0.33
12 18 0.67
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (12 bp):
TATATTTTATTA
Found at i:35300093 original size:93 final size:93
Alignment explanation
Indices: 35299980--35300151 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
35299970 GCCCATAAGT
* * *
35299980 GAACTCGGACTCAACTCAACGAGCTCGGGCTTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACACAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
35300045 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
35300073 GAACTCGGACTCAACACAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACACAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
35300138 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
35300152 CAAATATCCT
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACACAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:35300147 original size:46 final size:46
Alignment explanation
Indices: 35299972--35300147 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
35299962 TGTAACCCGC
* *
35299972 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCTTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
35300018 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** * *
35300064 ACATCTCTCGAACTCGGACTCAACACAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
35300111 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
35300148 TGCCCAAATA
Statistics
Matches: 109, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 69 0.63
47 31 0.28
49 4 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:35303676 original size:46 final size:46
Alignment explanation
Indices: 35303623--35303713 Score: 137
Period size: 46 Copynumber: 2.0 Consensus size: 46
35303613 TATATATACA
* *
35303623 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACATCTCACATTAGCCATTCGGCTTTACCACATATC
* * *
35303669 CATCTCATACACGTTTCGCATTAGCCATTCGGCTTTACCACATAT
1 CATCTCATACACATCTCACATTAGCCATTCGGCTTTACCACATAT
35303714 ATACACTTCC
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 40 1.00
ACGTcount: A:0.26, C:0.31, G:0.09, T:0.34
Consensus pattern (46 bp):
CATCTCATACACATCTCACATTAGCCATTCGGCTTTACCACATATC
Found at i:35303759 original size:47 final size:47
Alignment explanation
Indices: 35303687--35304065 Score: 571
Period size: 47 Copynumber: 8.1 Consensus size: 47
35303677 ACACGTTTCG
* * * * * *
35303687 CATTAGCCATTCGGCTTTACCACATATATACACT-TCCACGTTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCA-TGTTCACATTCATCA
*
35303734 CATTGGCCATTCTGCCTTATCACATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
*
35303781 CATTGGCCATTCGACCTTATCACATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* * *
35303828 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCAGATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* *
35303875 CATTGGCCATTCCGCCTTATCACACATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
35303922 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
*
35303969 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* * * **
35304016 CATTTGCCATTCGGCCTTATCTCATATATACACATTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
35304063 CAT
1 CAT
35304066 AAAATCCTAA
Statistics
Matches: 308, Mismatches: 23, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
46 1 0.00
47 307 1.00
ACGTcount: A:0.26, C:0.29, G:0.11, T:0.34
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
Found at i:35303805 original size:22 final size:22
Alignment explanation
Indices: 35303730--35303851 Score: 65
Period size: 22 Copynumber: 5.3 Consensus size: 22
35303720 TTCCACGTTC
35303730 ATCACATTGGCCATTCTG-CCTT
1 ATCACATTGGCCATTC-GACCTT
* *
35303752 ATCACATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGACCTT
35303776 CATCACATTGGCCATTCGACCTT
1 -ATCACATTGGCCATTCGACCTT
* *
35303799 ATCACATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGACCTT
*
35303823 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGACCTT
35303846 ATCACA
1 ATCACA
35303852 CATACGCATG
Statistics
Matches: 76, Mismatches: 9, Indels: 30
0.66 0.08 0.26
Matches are distributed among these distances:
22 26 0.34
23 15 0.20
24 15 0.20
25 20 0.26
ACGTcount: A:0.26, C:0.29, G:0.11, T:0.34
Consensus pattern (22 bp):
ATCACATTGGCCATTCGACCTT
Found at i:35303898 original size:22 final size:22
Alignment explanation
Indices: 35303871--35303946 Score: 57
Period size: 24 Copynumber: 3.3 Consensus size: 22
35303861 GTTCAGATTC
35303871 ATCACATTGGCCATTCCGCCTT
1 ATCACATTGGCCATTCCGCCTT
* * *
35303893 ATCACACATAT-G-CATGTTCACATT
1 AT--CACAT-TGGCCAT-TCCGCCTT
*
35303917 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCCGCCTT
35303940 ATCACAT
1 ATCACAT
35303947 ATATGCATGT
Statistics
Matches: 40, Mismatches: 7, Indels: 14
0.66 0.11 0.23
Matches are distributed among these distances:
22 10 0.25
23 13 0.32
24 14 0.35
25 3 0.08
ACGTcount: A:0.25, C:0.32, G:0.12, T:0.32
Consensus pattern (22 bp):
ATCACATTGGCCATTCCGCCTT
Found at i:35325754 original size:24 final size:25
Alignment explanation
Indices: 35325727--35325810 Score: 91
Period size: 26 Copynumber: 3.4 Consensus size: 25
35325717 CTGGAGACCT
*
35325727 AGCCTCTTTTAAT-AATTGGGGC-AA
1 AGCC-CTTTTAATAAACTGGGGCAAA
* *
35325751 AGCCCTGTTGATAAACTGGGGCAAA
1 AGCCCTTTTAATAAACTGGGGCAAA
**
35325776 AGCCCTTTTCGGTAAACTGGGGCAAA
1 AGCCCTTTT-AATAAACTGGGGCAAA
35325802 AGCCCTTTT
1 AGCCCTTTT
35325811 TGCACTTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
23 6 0.12
24 12 0.23
25 10 0.19
26 24 0.46
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.27
Consensus pattern (25 bp):
AGCCCTTTTAATAAACTGGGGCAAA
Found at i:35325796 original size:26 final size:25
Alignment explanation
Indices: 35325743--35325810 Score: 102
Period size: 26 Copynumber: 2.7 Consensus size: 25
35325733 TTTTAATAAT
*
35325743 TGGGGC-AAAGCCCTGTTGATAAAC
1 TGGGGCAAAAGCCCTTTTGATAAAC
*
35325767 TGGGGCAAAAGCCCTTTTCGGTAAAC
1 TGGGGCAAAAGCCCTTTT-GATAAAC
35325793 TGGGGCAAAAGCCCTTTT
1 TGGGGCAAAAGCCCTTTT
35325811 TGCACTTCCT
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
24 6 0.15
25 10 0.25
26 24 0.60
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (25 bp):
TGGGGCAAAAGCCCTTTTGATAAAC
Found at i:35325881 original size:20 final size:20
Alignment explanation
Indices: 35325858--35325905 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
35325848 TTATGAGTAC
*
35325858 ATCATGTGCATATTATACAT
1 ATCATGTGCATATCATACAT
35325878 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
35325898 ATCATGTG
1 ATCATGTG
35325906 TATCAGAATC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.33, C:0.17, G:0.12, T:0.38
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:35332506 original size:48 final size:47
Alignment explanation
Indices: 35332430--35332655 Score: 208
Period size: 48 Copynumber: 4.7 Consensus size: 47
35332420 GGTAAATTGT
*
35332430 CGATTCCATGTCCTAGACATGGTCTTACACTAGTTCTTGTC-TCAA-T-AC
1 CGATGCCATGTCCTAGACATGGTCTTACACTAG--CTT-TCAT-AAGTGAC
*
35332478 CGATGCCATGTCCTAGACATGGTCTTACACTAGCTTTCATAATGTGGC
1 CGATGCCATGTCCTAGACATGGTCTTACACTAGCTTTCATAA-GTGAC
* * *** *
35332526 CGACGCCATGTCCCAGACATGGTCTTACACTAGCACACAT-ATTGAC
1 CGATGCCATGTCCTAGACATGGTCTTACACTAGCTTTCATAAGTGAC
* * * * **
35332572 GCTGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCGTGGT
1 -C-GATGCCATGTCCTAGACATGGTCTTACACTAGCTTTCATA-AGTGAC
* *
35332622 CGATGCCATGTCCCAGACATGGTCTTACATTAGC
1 CGATGCCATGTCCTAGACATGGTCTTACACTAGC
35332656 ACACATATCA
Statistics
Matches: 151, Mismatches: 19, Indels: 16
0.81 0.10 0.09
Matches are distributed among these distances:
45 4 0.03
46 7 0.05
47 3 0.02
48 134 0.89
49 1 0.01
50 2 0.01
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (47 bp):
CGATGCCATGTCCTAGACATGGTCTTACACTAGCTTTCATAAGTGAC
Found at i:35332599 original size:96 final size:96
Alignment explanation
Indices: 35332479--35332663 Score: 300
Period size: 96 Copynumber: 1.9 Consensus size: 96
35332469 TCTCAATACC
* * *
35332479 GATGCCATGTCCTAGACATGGTCTTACACTAGCTTTCATAAT-GTGGCCGACGCCATGTCCCAGA
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCAT-ATCGTGGCCGACGCCATGTCCCAGA
35332543 CATGGTCTTACACTAGCACACATATTGACGCT
65 CATGGTCTTACACTAGCACACATATTGACGCT
* *
35332575 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCGTGGTCGATGCCATGTCCCAGAC
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCGTGGCCGACGCCATGTCCCAGAC
*
35332640 ATGGTCTTACATTAGCACACATAT
66 ATGGTCTTACACTAGCACACATAT
35332664 CACCCAATGT
Statistics
Matches: 82, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
95 2 0.02
96 80 0.98
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (96 bp):
GATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCGTGGCCGACGCCATGTCCCAGAC
ATGGTCTTACACTAGCACACATATTGACGCT
Found at i:35332663 original size:48 final size:47
Alignment explanation
Indices: 35332478--35332664 Score: 223
Period size: 48 Copynumber: 3.9 Consensus size: 47
35332468 GTCTCAATAC
* ***
35332478 CGATGCCATGTCCTAGACATGGTCTTACACTAGCTTTCATAAT-GTGG
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCACACAT-ATCGTGG
* * **
35332525 CCGACGCCATGTCCCAGACATGGTCTTACACTAGCACACATATTGACG
1 -CGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCGTGG
* * *
35332573 CTGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCGTGG
1 C-GATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCGTGG
*
35332621 TCGATGCCATGTCCCAGACATGGTCTTACATTAGCACACATATC
1 -CGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATC
35332665 ACCCAATGTC
Statistics
Matches: 118, Mismatches: 18, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
47 3 0.03
48 114 0.97
49 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (47 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCGTGG
Found at i:35335343 original size:40 final size:40
Alignment explanation
Indices: 35335295--35335482 Score: 286
Period size: 40 Copynumber: 4.6 Consensus size: 40
35335285 GTTACTCACT
* **
35335295 CAAATGCCTTCAGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAATAGTAACTCGCA
* *
35335335 CAATTGCCTTCGGGACTTAGCCCAGAAATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAATAGTAACTCGCA
35335375 CAAATGCCTTCGGGACTTAGCCGCCCGGAAATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTA---GCCCGGAAATAGTAACTCGCA
*
35335418 CAAATGCCTTCGGGACTTAGCCTGGAAATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAATAGTAACTCGCA
*
35335458 CAAATGCCTTTGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
35335483 TTATCATCCG
Statistics
Matches: 135, Mismatches: 10, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
40 96 0.71
43 39 0.29
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAAATAGTAACTCGCA
Found at i:35335430 original size:83 final size:83
Alignment explanation
Indices: 35335262--35335479 Score: 291
Period size: 83 Copynumber: 2.7 Consensus size: 83
35335252 CAACCAAGTA
** * * * * * **
35335262 CCTTCGGGGTTTAG-CCAGATATAGTTACTCACTCAAATGCCTTCAGGACTTA---GCCCGGTTA
1 CCTTCGGGACTTAGCCCAGAAATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCGCCCGGAAA
*
35335323 TAGTAACTCGCACAATTG
66 TAGTAACTCGCACAAATG
35335341 CCTTCGGGACTTAGCCCAGAAATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCGCCCGGAAA
1 CCTTCGGGACTTAGCCCAGAAATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCGCCCGGAAA
35335406 TAGTAACTCGCACAAATG
66 TAGTAACTCGCACAAATG
** *
35335424 CCTTCGGGACTTAGCCTGGAAATAGTAACTCGCACAAATGCCTTTGGGACTTAGCC
1 CCTTCGGGACTTAGCCCAGAAATAGTAACTCGCACAAATGCCTTCGGGACTTAGCC
35335480 CGGTTATCAT
Statistics
Matches: 122, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
79 12 0.10
80 33 0.27
83 77 0.63
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (83 bp):
CCTTCGGGACTTAGCCCAGAAATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCGCCCGGAAA
TAGTAACTCGCACAAATG
Found at i:35343033 original size:40 final size:40
Alignment explanation
Indices: 35342952--35343129 Score: 250
Period size: 40 Copynumber: 4.5 Consensus size: 40
35342942 CAACCAAGTA
** * * *
35342952 CCTTCGGGGTTTAG-CCAGATATAGTTACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
35342991 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
35343031 CCTTCGGGACTTAGCCCGGAAATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
35343071 CCTTCGGGACTTAGCCCGGAAATAGTAACTCGTACAAATT
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
35343111 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
35343130 TTATCATCCG
Statistics
Matches: 126, Mismatches: 12, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
39 12 0.10
40 114 0.90
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:35348174 original size:14 final size:14
Alignment explanation
Indices: 35348155--35348182 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
35348145 TAAAAGCATG
35348155 CAAGATCTACGTAA
1 CAAGATCTACGTAA
35348169 CAAGATCTACGTAA
1 CAAGATCTACGTAA
35348183 TGAGGCAAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.21, G:0.14, T:0.21
Consensus pattern (14 bp):
CAAGATCTACGTAA
Found at i:35351411 original size:12 final size:12
Alignment explanation
Indices: 35351394--35351424 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
35351384 AGCCGTGTGA
*
35351394 AACACACAGCCC
1 AACACACAACCC
35351406 AACACACAACCC
1 AACACACAACCC
35351418 AACACAC
1 AACACAC
35351425 GGGCATATGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.48, C:0.48, G:0.03, T:0.00
Consensus pattern (12 bp):
AACACACAACCC
Found at i:35355419 original size:46 final size:46
Alignment explanation
Indices: 35355347--35355475 Score: 213
Period size: 46 Copynumber: 2.8 Consensus size: 46
35355337 TGTAACCCGC
* * *
35355347 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
35355393 CCATGAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
35355439 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
35355476 TGCCCAAATA
Statistics
Matches: 77, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 77 1.00
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:35360978 original size:93 final size:93
Alignment explanation
Indices: 35360819--35360990 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
35360809 GCCCATAAGT
* * *
35360819 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATGAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
35360884 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
35360912 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
35360977 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
35360991 CAAATATCCC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:35360986 original size:46 final size:46
Alignment explanation
Indices: 35360811--35360986 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
35360801 TGTAACCCGC
* * * *
35360811 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
* * *
35360857 CCATGAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCAT
* *
35360907 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
35360950 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
35360987 TGCCCAAATA
Statistics
Matches: 110, Mismatches: 13, Indels: 14
0.80 0.09 0.10
Matches are distributed among these distances:
43 6 0.05
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
Found at i:35361005 original size:46 final size:46
Alignment explanation
Indices: 35360862--35361005 Score: 136
Period size: 46 Copynumber: 3.1 Consensus size: 46
35360852 CGCATCCATG
* * *
35360862 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA--TATATCCC
* * *
35360910 A-CGAACTCGGACTCAACTCAACGAGTTCGGA----CATTTGCATCCATA
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATAT--ATCC--C
*
35360955 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATATATCCC
35361001 AGTGA
1 AGTGA
35361006 CATGTCACTC
Statistics
Matches: 77, Mismatches: 10, Indels: 20
0.72 0.09 0.19
Matches are distributed among these distances:
41 1 0.01
43 4 0.05
45 1 0.01
46 34 0.44
47 29 0.38
48 5 0.06
50 3 0.04
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATATATCCC
Found at i:35363117 original size:12 final size:12
Alignment explanation
Indices: 35363098--35363129 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
35363088 AATACGTGGG
35363098 CGTGTGACTGGC
1 CGTGTGACTGGC
*
35363110 CTTGTGACTGGC
1 CGTGTGACTGGC
35363122 CGTGTGAC
1 CGTGTGAC
35363130 CCAAGTTAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.09, C:0.25, G:0.38, T:0.28
Consensus pattern (12 bp):
CGTGTGACTGGC
Found at i:35365768 original size:43 final size:43
Alignment explanation
Indices: 35365703--35365865 Score: 154
Period size: 43 Copynumber: 3.8 Consensus size: 43
35365693 AGCTCGTACA
* * * *
35365703 ATGCC-ATATCCTAGATATGGTCTTACATGTTATCTCATATCG
1 ATGCCAATGTCCTAGACATGGTCTTACACGTAATCTCATATCG
* * * *
35365745 ATGCCACTGTCCTAGACAGGGTCTTACACGAAATC-GATTAGT-G
1 ATGCCAATGTCCTAGACATGGTCTTACACGTAATCTCA-TA-TCG
* * *
35365788 ATGCCAATGTCCTAGGCATGGTCTTACACATAATCTCA-ATACA
1 ATGCCAATGTCCTAGACATGGTCTTACACGTAATCTCATAT-CG
* *
35365831 ATGCCAATGTCCCAGACATGGTCTTACATGTAATC
1 ATGCCAATGTCCTAGACATGGTCTTACACGTAATC
35365866 ACATCTTGAT
Statistics
Matches: 96, Mismatches: 19, Indels: 11
0.76 0.15 0.09
Matches are distributed among these distances:
41 1 0.01
42 7 0.07
43 86 0.90
44 2 0.02
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (43 bp):
ATGCCAATGTCCTAGACATGGTCTTACACGTAATCTCATATCG
Found at i:35369292 original size:47 final size:44
Alignment explanation
Indices: 35369223--35369394 Score: 177
Period size: 46 Copynumber: 3.7 Consensus size: 44
35369213 GGGCTATTGT
*
35369223 GAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACATTGTGA-
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATC-G--ACATTGAGAC
*
35369269 GAGCCAGTGTAAGATCATGTCTGGGACATGGCATCGACATTGAGAC
1 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGACATTGAGAC
* * * *
35369315 GAGTGCTAGTGTAAGACATGTCTGGGACATACATCGGCCTCGAGAC
1 GA--GCTAGTGTAAGACATGTCTGGGACATGCATCGACATTGAGAC
*
35369361 ATAAG-TCAGTGTAAGACATGTCTGGGACATGCAT
1 --GAGCT-AGTGTAAGACATGTCTGGGACATGCAT
35369395 AGACTACGAG
Statistics
Matches: 109, Mismatches: 9, Indels: 16
0.81 0.07 0.12
Matches are distributed among these distances:
45 9 0.08
46 54 0.50
47 29 0.27
48 17 0.16
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.23
Consensus pattern (44 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCGACATTGAGAC
Found at i:35369372 original size:46 final size:46
Alignment explanation
Indices: 35369228--35369436 Score: 157
Period size: 46 Copynumber: 4.5 Consensus size: 46
35369218 ATTGTGAGCT
* * * *
35369228 AGTGTAAGACATGTCTGGGACATG-CATCAGCCACATTGTGA-GAG-CC
1 AGTGTAAGACATGTCTGGGACATGACATC-G--ACATCGAGACAAGTGC
* * *
35369274 AGTGTAAGATCATGTCTGGGACATGGCATCGACATTGAGACGAGTGC
1 AGTGTAAGA-CATGTCTGGGACATGACATCGACATCGAGACAAGTGC
* *
35369321 TAGTGTAAGACATGTCTGGGACAT-ACATCGGCCTCGAGACATAAGT-C
1 -AGTGTAAGACATGTCTGGGACATGACATCGACATCGAGAC--AAGTGC
* *
35369368 AGTGTAAGACATGTCTGGGACATG-CATAGAC-TACGAG--ATGTGTC
1 AGTGTAAGACATGTCTGGGACATGACATCGACAT-CGAGACAAGTG-C
*
35369412 AGTGTAAGACCATGTTTGGGACATG
1 AGTGTAAGA-CATGTCTGGGACATG
35369437 GAATCGATAC
Statistics
Matches: 140, Mismatches: 11, Indels: 25
0.80 0.06 0.14
Matches are distributed among these distances:
42 3 0.02
44 10 0.07
45 23 0.16
46 56 0.40
47 32 0.23
48 16 0.11
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGACATCGACATCGAGACAAGTGC
Found at i:35372230 original size:23 final size:23
Alignment explanation
Indices: 35372200--35372354 Score: 113
Period size: 23 Copynumber: 6.8 Consensus size: 23
35372190 GCTTATCGAC
35372200 TCAGCTCATAAGAGCTTACTGTT
1 TCAGCTCATAAGAGCTTACTGTT
* * *
35372223 TCAACTCAT-TGAAGCTTACCGATT
1 TCAGCTCATAAG-AGCTTACTG-TT
* *
35372247 T-AGCTCACAAGATCTTACTGTT
1 TCAGCTCATAAGAGCTTACTGTT
** *
35372269 TCAGCTCATTGGAGCTTACTGAT
1 TCAGCTCATAAGAGCTTACTGTT
* *
35372292 TCAACTCGAT-AGAGCTTACT-AT
1 TCAGCTC-ATAAGAGCTTACTGTT
* * *
35372314 TCAGCTTA-ATAGAGTTTACCGTT
1 TCAGCTCATA-AGAGCTTACTGTT
*
35372337 TCAGCTCATTAGAGCTTA
1 TCAGCTCATAAGAGCTTA
35372355 TTGTCCATCA
Statistics
Matches: 100, Mismatches: 23, Indels: 18
0.71 0.16 0.13
Matches are distributed among these distances:
21 1 0.01
22 19 0.19
23 74 0.74
24 6 0.06
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.35
Consensus pattern (23 bp):
TCAGCTCATAAGAGCTTACTGTT
Found at i:35372264 original size:46 final size:46
Alignment explanation
Indices: 35372188--35372311 Score: 142
Period size: 46 Copynumber: 2.7 Consensus size: 46
35372178 CAGCTCGTAT
* * *
35372188 AAGCTTATCGACTCAGCTCATAAGAGCTTACTGTTTCAACTCATTG
1 AAGCTTACCGATTCAGCTCACAAGAGCTTACTGTTTCAACTCATTG
* * *
35372234 AAGCTTACCGATTTAGCTCACAAGATCTTACTGTTTCAGCTCATTG
1 AAGCTTACCGATTCAGCTCACAAGAGCTTACTGTTTCAACTCATTG
* * * *
35372280 GAGCTTACTGATTCAACTCGA-TAGAGCTTACT
1 AAGCTTACCGATTCAGCTC-ACAAGAGCTTACT
35372312 ATTCAGCTTA
Statistics
Matches: 65, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
46 64 0.98
47 1 0.02
ACGTcount: A:0.27, C:0.23, G:0.16, T:0.33
Consensus pattern (46 bp):
AAGCTTACCGATTCAGCTCACAAGAGCTTACTGTTTCAACTCATTG
Found at i:35372295 original size:69 final size:68
Alignment explanation
Indices: 35372200--35372354 Score: 181
Period size: 68 Copynumber: 2.3 Consensus size: 68
35372190 GCTTATCGAC
* * * *
35372200 TCAGCTCATAAGAGCTTACTGTTTCAACTC-ATTGAAGCTTACCGATTTAGCTCACA-AGA-TCT
1 TCAGCTCATTAGAGCTTACTGATTCAACTCGATAG-AGCTTA-CGATTCAGCTCA-ATAGAGT-T
*
35372262 TACTGTT
62 TACCGTT
* * *
35372269 TCAGCTCATTGGAGCTTACTGATTCAACTCGATAGAGCTTACTATTCAGCTTAATAGAGTTTACC
1 TCAGCTCATTAGAGCTTACTGATTCAACTCGATAGAGCTTACGATTCAGCTCAATAGAGTTTACC
35372334 GTT
66 GTT
35372337 TCAGCTCATTAGAGCTTA
1 TCAGCTCATTAGAGCTTA
35372355 TTGTCCATCA
Statistics
Matches: 74, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
67 1 0.01
68 36 0.49
69 34 0.46
70 3 0.04
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.35
Consensus pattern (68 bp):
TCAGCTCATTAGAGCTTACTGATTCAACTCGATAGAGCTTACGATTCAGCTCAATAGAGTTTACC
GTT
Found at i:35376736 original size:42 final size:42
Alignment explanation
Indices: 35376690--35376783 Score: 100
Period size: 43 Copynumber: 2.2 Consensus size: 42
35376680 CGGGACATCA
* * * * **
35376690 GCATCGTATTTGATTTCGTGTCAGACCTTGTCTGGGACAG-TG
1 GCATCGTATTCGATTACATGTAAGACCACGTCTGGGAC-GTTG
35376732 GCATCGATATTCGATTACATGTAAGACCACGTCTGGGACGTTG
1 GCATCG-TATTCGATTACATGTAAGACCACGTCTGGGACGTTG
*
35376775 GCATAGTAT
1 GCATCGTAT
35376784 GAGCGTTTTG
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
42 10 0.23
43 33 0.77
ACGTcount: A:0.22, C:0.19, G:0.27, T:0.32
Consensus pattern (42 bp):
GCATCGTATTCGATTACATGTAAGACCACGTCTGGGACGTTG
Found at i:35378235 original size:31 final size:31
Alignment explanation
Indices: 35378200--35378305 Score: 185
Period size: 31 Copynumber: 3.4 Consensus size: 31
35378190 ATATACTGGT
35378200 CCGAAGCCTTTACATTATTCATATCATTGGG
1 CCGAAGCCTTTACATTATTCATATCATTGGG
* *
35378231 CCGAAGCCTTTTCATTATTCATATCACTGGG
1 CCGAAGCCTTTACATTATTCATATCATTGGG
*
35378262 CCGAAGCCTTTTCATTATTCATATCATTGGG
1 CCGAAGCCTTTACATTATTCATATCATTGGG
35378293 CCGAAGCCTTTAC
1 CCGAAGCCTTTAC
35378306 TACAACAATA
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 71 1.00
ACGTcount: A:0.24, C:0.25, G:0.16, T:0.35
Consensus pattern (31 bp):
CCGAAGCCTTTACATTATTCATATCATTGGG
Found at i:35378565 original size:26 final size:25
Alignment explanation
Indices: 35378520--35378590 Score: 115
Period size: 26 Copynumber: 2.8 Consensus size: 25
35378510 CCTTTTTAAT
*
35378520 AACTGGGGCAAAGCCCTTTTTGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
*
35378545 AACTAGGGCAAAAGCCCTTTTCGGTA
1 AACTGGGGC-AAAGCCCTTTTCGGTA
35378571 AACTGGGGCAAAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
35378591 GCACTTCCTC
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
25 19 0.45
26 23 0.55
ACGTcount: A:0.27, C:0.23, G:0.25, T:0.25
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGGTA
Found at i:35380864 original size:3 final size:3
Alignment explanation
Indices: 35380856--35380880 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
35380846 ATTTAATTAC
35380856 TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA T
35380881 TTCATAAACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:35382023 original size:42 final size:42
Alignment explanation
Indices: 35381964--35382043 Score: 133
Period size: 42 Copynumber: 1.9 Consensus size: 42
35381954 TTGGTATCAG
* *
35381964 AGCTATACATGGCATATTTATGAACTGCTATAGTGTGAGTCT
1 AGCTATACATGCCATATTTATGAACTGCGATAGTGTGAGTCT
*
35382006 AGCTATACATGCCATATTTATGAACTGGGATAGTGTGA
1 AGCTATACATGCCATATTTATGAACTGCGATAGTGTGA
35382044 TGAATCATGG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.30, C:0.14, G:0.23, T:0.34
Consensus pattern (42 bp):
AGCTATACATGCCATATTTATGAACTGCGATAGTGTGAGTCT
Found at i:35387417 original size:29 final size:30
Alignment explanation
Indices: 35387370--35387427 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 30
35387360 CAATTTTCGA
*
35387370 GCCTAGGGGCAAAATGGTCATTTTGCCAAG
1 GCCTAGGGGCAAAATGGTCATTTTACCAAG
35387400 GCCTAGGGG-AAAATGGTCATTTTACCAA
1 GCCTAGGGGCAAAATGGTCATTTTACCAA
35387428 AGATGTAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
29 18 0.67
30 9 0.33
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (30 bp):
GCCTAGGGGCAAAATGGTCATTTTACCAAG
Found at i:35387802 original size:46 final size:46
Alignment explanation
Indices: 35387752--35387971 Score: 175
Period size: 46 Copynumber: 4.7 Consensus size: 46
35387742 ACTTATGTAT
* *
35387752 GCTAGTGTAAGACATTTCTGGGACATGCATCGGCCACATTATGGAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATGGAA
* * *
35387798 GCTAGTGTAAGACCATGTCTGCGACATCACATCGG-CAC-TGA-GACGAGT
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACATGATG--GA-A
* * ** *
35387846 GCTAGTGTAAGACTTGTTTGGGACATGCATCGGCCTTGA-GATGTAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCC-ACATGATGGAA
* *
35387892 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCTACGA-GAT-GATA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATGATGGA-A
*
35387938 G-TCAGTGTAAGACCATGTCTAGGACATGGCATCG
1 GCT-AGTGTAAGA-CATGTCTGGGACAT-GCATCG
35387972 ACTTGAGATA
Statistics
Matches: 138, Mismatches: 22, Indels: 26
0.74 0.12 0.14
Matches are distributed among these distances:
45 2 0.01
46 66 0.48
47 43 0.31
48 26 0.19
49 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.25
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATGGAA
Found at i:35387977 original size:93 final size:94
Alignment explanation
Indices: 35387751--35388022 Score: 265
Period size: 94 Copynumber: 2.9 Consensus size: 94
35387741 CACTTATGTA
* * ** *
35387751 TGCTAGTGTAAGACATTTCTGGGACATGCATCGGCCACATT---ATGGAAGCTAGTGTAAGACCA
1 TGCTAGTGTAAGACATGTCTAGGACATGCATCGG--AC-TTGAGATATAAGCCAGTGTAAGACCA
* *
35387813 TGTCTGCGACATCACATCGGCACTGAGACGAG
63 TGTCTGGGACATCGCATCGGCACTGAGACGAG
* * * * *
35387845 TGCTAGTGTAAGACTTGTTTGGGACATGCATCGGCCTTGAGATGTAAGCCAGTGTAAGA-CATGT
1 TGCTAGTGTAAGACATGTCTAGGACATGCATCGGACTTGAGATATAAGCCAGTGTAAGACCATGT
*
35387909 CTGGGACAT-GCATCGGCTAC-GAGATGA-
66 CTGGGACATCGCATCGGC-ACTGAGACGAG
*
35387936 TAG-TCAGTGTAAGACCATGTCTAGGACATGGCATC-GACTTGAGATATGAGCCAGTGTAAGACC
1 T-GCT-AGTGTAAGA-CATGTCTAGGACAT-GCATCGGACTTGAGATATAAGCCAGTGTAAGACC
* *
35387999 ATGTCTAGGACATGGCATCGGCAC
62 ATGTCTGGGACATCGCATCGGCAC
35388023 CTTACCCATA
Statistics
Matches: 152, Mismatches: 16, Indels: 20
0.81 0.09 0.11
Matches are distributed among these distances:
91 4 0.03
92 24 0.16
93 49 0.32
94 67 0.44
95 8 0.05
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.24
Consensus pattern (94 bp):
TGCTAGTGTAAGACATGTCTAGGACATGCATCGGACTTGAGATATAAGCCAGTGTAAGACCATGT
CTGGGACATCGCATCGGCACTGAGACGAG
Found at i:35387980 original size:47 final size:46
Alignment explanation
Indices: 35387849--35388018 Score: 184
Period size: 47 Copynumber: 3.6 Consensus size: 46
35387839 GACGAGTGCT
* * * *
35387849 AGTGTAAGACTTGTTTGGGACATGCATCGGCCTTGAGATG-TAAGCC
1 AGTGTAAGACATGTCTAGGACATGCATC-GACTTGAGATGATAAGCC
* * * *
35387895 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGAT-AGTC
1 AGTGTAAGACATGTCTAGGACATGCATCGACT-TGAGATGATAAGCC
*
35387941 AGTGTAAGACCATGTCTAGGACATGGCATCGACTTGAGAT-ATGAGCC
1 AGTGTAAGA-CATGTCTAGGACAT-GCATCGACTTGAGATGATAAGCC
35387988 AGTGTAAGACCATGTCTAGGACATGGCATCG
1 AGTGTAAGA-CATGTCTAGGACAT-GCATCG
35388019 GCACCTTACC
Statistics
Matches: 110, Mismatches: 9, Indels: 9
0.86 0.07 0.07
Matches are distributed among these distances:
45 3 0.03
46 46 0.42
47 53 0.48
48 8 0.07
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (46 bp):
AGTGTAAGACATGTCTAGGACATGCATCGACTTGAGATGATAAGCC
Found at i:35388010 original size:140 final size:141
Alignment explanation
Indices: 35387746--35388020 Score: 314
Period size: 140 Copynumber: 2.0 Consensus size: 141
35387736 TGGGTCACTT
* * * *
35387746 ATGTATGCTAGTGTAAGACATTTCTGGGACATGCATCGGCCACATTATGGAAGCTAGTGTAAGAC
1 ATGTAAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATGGAAGCTAGTGTAAGAC
* * * * *
35387811 CATGTCTGCGACATCACATCGGCACTGAGACGAGTGCTAGTGTAAGACTTGTTTGGGACAT-GCA
66 CATGTCTGCGACATCACATCGGCACTGAGACGAGAGCCAGTGTAAGACATGTCTAGGACATGGCA
35387875 TCGGCCTTGAG
131 TCGGCCTTGAG
*
35387886 ATGTAAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCTACGA-GAT-GATAG-TCAGTGTAA
1 ATGTAAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATGATGGA-AGCT-AGTGTAA
** *
35387948 GACCATGTCTAG-GACATGGCATC-G-ACTTGAGA-TATGAGCCAGTGTAAGACCATGTCTAGGA
63 GACCATGTCT-GCGACATCACATCGGCAC-TGAGACGA-GAGCCAGTGTAAGA-CATGTCTAGGA
35388009 CATGGCATCGGC
124 CATGGCATCGGC
35388021 ACCTTACCCA
Statistics
Matches: 114, Mismatches: 13, Indels: 15
0.80 0.09 0.11
Matches are distributed among these distances:
138 3 0.03
139 21 0.18
140 80 0.70
141 10 0.09
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (141 bp):
ATGTAAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATGGAAGCTAGTGTAAGAC
CATGTCTGCGACATCACATCGGCACTGAGACGAGAGCCAGTGTAAGACATGTCTAGGACATGGCA
TCGGCCTTGAG
Found at i:35393377 original size:46 final size:46
Alignment explanation
Indices: 35393233--35393449 Score: 213
Period size: 46 Copynumber: 4.6 Consensus size: 46
35393223 TGTGTGTGCT
** * *
35393233 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGGAAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACAAGATGTAAGCC
** * ** *
35393279 AGTGTAAGACCATGTCTGGGACATGGCATCGG-CATTGAGACGTGTGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCA-CAAGATGTAAGCC
*
35393327 AGTGTAAGACATGTCTGGGACATGCATCGGCCCCAAGATGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACAAGATGTAAGCC
* * * * *
35393373 AGTGTAAGATATGTCCGGGACATGCATCGGCTACGAGATG-ATAGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACAAGATGTA-AGCC
*
35393419 AGTGTAAGACCATGTCTGAGACATGGCATCG
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCG
35393450 ACTTGAGATA
Statistics
Matches: 140, Mismatches: 24, Indels: 12
0.80 0.14 0.07
Matches are distributed among these distances:
45 1 0.01
46 70 0.50
47 42 0.30
48 27 0.19
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCACAAGATGTAAGCC
Found at i:35393448 original size:94 final size:94
Alignment explanation
Indices: 35393226--35393497 Score: 279
Period size: 94 Copynumber: 2.9 Consensus size: 94
35393216 GGTCACTTGT
** *
35393226 GTGTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGGAAGCTAGTGTAAGACCA
1 GTGTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACAAGATGGAAGCCAGTGTAAGACCA
* *
35393291 TGTCTGGGACATGGCATCGGCATTGAGAC
66 TGTCCGGGACATGGCATCGGCATCGAGAC
* * *
35393320 GTGTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCCCAAGATGTAAGCCAGTGTAAGA-TA
1 GTGTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACAAGATGGAAGCCAGTGTAAGACCA
*
35393384 TGTCCGGGACAT-GCATCGGC-TACGAGAT
66 TGTCCGGGACATGGCATCGGCAT-CGAGAC
* * *** * *
35393412 GATAGT-C-AGTGTAAGACCATGTCTGAGACATGGCATC-GACTTGAGATACG-AGCCAGTCTAA
1 G-T-GTGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACAAGAT-GGAAGCCAGTGTAA
* *
35393473 GACCATGTCTGGGATATGGCATCGG
61 GACCATGTCCGGGACATGGCATCGG
35393498 TACCTTACCC
Statistics
Matches: 150, Mismatches: 20, Indels: 15
0.81 0.11 0.08
Matches are distributed among these distances:
91 1 0.01
92 22 0.15
93 45 0.30
94 75 0.50
95 7 0.05
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (94 bp):
GTGTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACAAGATGGAAGCCAGTGTAAGACCA
TGTCCGGGACATGGCATCGGCATCGAGAC
Found at i:35393458 original size:47 final size:46
Alignment explanation
Indices: 35393233--35393497 Score: 215
Period size: 47 Copynumber: 5.7 Consensus size: 46
35393223 TGTGTGTGCT
* * * *
35393233 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-CACATTATGGAAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCTC-GA-GAT-GTAGCC
* *
35393279 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGTGT-GCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC-TCGAGA--TGTAGCC
* *
35393327 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCCCAAGATGTAAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGG-CTCGAGATGT-AGCC
* * *
35393373 AGTGTAAGA-TATGTCCGGGACAT-GCATCGGCTACGAGATGATAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCT-CGAGATG-TAGCC
* * *
35393419 AGTGTAAGACCATGTCTGAGACATGGCATCGACTTGAGATACG-AGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCTCGAGAT--GTAGCC
* *
35393466 AGTCTAAGACCATGTCTGGGATATGGCATCGG
1 AGTGTAAGACCATGTCTGGGACATGGCATCGG
35393498 TACCTTACCC
Statistics
Matches: 181, Mismatches: 23, Indels: 29
0.78 0.10 0.12
Matches are distributed among these distances:
44 3 0.02
45 1 0.01
46 67 0.37
47 77 0.43
48 29 0.16
49 3 0.02
50 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCTCGAGATGTAGCC
Found at i:35393485 original size:140 final size:141
Alignment explanation
Indices: 35393233--35393497 Score: 342
Period size: 140 Copynumber: 1.9 Consensus size: 141
35393223 TGTGTGTGCT
* * *
35393233 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGGAAGCTAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCCGGGACATGCATCGGCCACATGATGGAAGCTAGTGTAAGACCATGTCTGA
* ** * * *
35393298 GACATGGCATCGGCATTGAGACGTGTGCTAGTGTAAGACATGTCTGGGACAT-GCATCGGCCCCA
66 GACATGGCATCGACATTGAGACACGAGCCAGTCTAAGACATGTCTGGGACATGGCATCGGCCCCA
35393362 AGATGTAAGCC
131 AGATGTAAGCC
* *
35393373 AGTGTAAGATATGTCCGGGACATGCATCGGCTACGA-GAT-GATAG-TCAGTGTAAGACCATGTC
1 AGTGTAAGACATGTCCGGGACATGCATCGGCCAC-ATGATGGA-AGCT-AGTGTAAGACCATGTC
* *
35393435 TGAGACATGGCATCGAC-TTGAGATACGAGCCAGTCTAAGACCATGTCTGGGATATGGCATCGG
63 TGAGACATGGCATCGACATTGAGACACGAGCCAGTCTAAGA-CATGTCTGGGACATGGCATCGG
35393498 TACCTTACCC
Statistics
Matches: 107, Mismatches: 13, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
139 20 0.19
140 79 0.74
141 8 0.07
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (141 bp):
AGTGTAAGACATGTCCGGGACATGCATCGGCCACATGATGGAAGCTAGTGTAAGACCATGTCTGA
GACATGGCATCGACATTGAGACACGAGCCAGTCTAAGACATGTCTGGGACATGGCATCGGCCCCA
AGATGTAAGCC
Found at i:35397871 original size:39 final size:39
Alignment explanation
Indices: 35397827--35398102 Score: 462
Period size: 39 Copynumber: 7.1 Consensus size: 39
35397817 ATGCAAGACA
35397827 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* * *
35397866 CTGGAAATATATCCGGGCCAAAGTCTCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
35397905 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* * *
35397944 CTGGAAATATATCCGGGCCAAAGTCCCACAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
35397983 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* *
35398022 CTGGAAATGTATCCGGGCCAAAGTCCCGTAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* *
35398061 CTGGAAATGTATCCGGGTTAAAGTCCCGCAGGCTTTGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
35398100 CTG
1 CTG
35398103 ATAATATAAT
Statistics
Matches: 219, Mismatches: 18, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 219 1.00
ACGTcount: A:0.21, C:0.25, G:0.30, T:0.24
Consensus pattern (39 bp):
CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
Found at i:35402520 original size:47 final size:43
Alignment explanation
Indices: 35402410--35402536 Score: 139
Period size: 47 Copynumber: 2.8 Consensus size: 43
35402400 TTATTTGTGT
*
35402410 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTGTGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGG---CATTGCGAGA
* **
35402456 GCCAGCATAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAGA
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATT--G-CGAGA
35402504 GCTAGTGTAAGACATGTCT-GGACATGCATCGGC
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGC
35402537 TACAAGATGT
Statistics
Matches: 69, Mismatches: 7, Indels: 11
0.79 0.08 0.13
Matches are distributed among these distances:
45 12 0.17
46 15 0.22
47 22 0.32
48 20 0.29
ACGTcount: A:0.27, C:0.21, G:0.31, T:0.21
Consensus pattern (43 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCATTGCGAGA
Found at i:35402575 original size:91 final size:93
Alignment explanation
Indices: 35402410--35402579 Score: 238
Period size: 91 Copynumber: 1.8 Consensus size: 93
35402400 TTATTTGTGT
*
35402410 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTGTGAGAGCCAGCATAAGACCATGTC
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATAGT-AGAGCCAGCATAAGACCATGTC
*
35402475 TGGGACATGGCATCGGCATTGAGACGAGA
65 TAGGACATGGCATCGGCATTGAGACGAGA
* * * **
35402504 GCTAGTGTAAGACATGTCT-GGACATGCATCGGCTACA-AG-ATGTGTCAGTGTAAGACCATGTC
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATAGTA-GAGCCAGCATAAGACCATGTC
35402566 TAGGACATGGCATC
65 TAGGACATGGCATC
35402580 AATTTAATAG
Statistics
Matches: 68, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
90 1 0.01
91 30 0.44
92 1 0.01
93 17 0.25
94 19 0.28
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.22
Consensus pattern (93 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATAGTAGAGCCAGCATAAGACCATGTCT
AGGACATGGCATCGGCATTGAGACGAGA
Found at i:35402766 original size:31 final size:31
Alignment explanation
Indices: 35402728--35402793 Score: 123
Period size: 31 Copynumber: 2.1 Consensus size: 31
35402718 AAGTATAACC
35402728 ATGTTGTGAGTGGTATAAGTACCTATTTGAA
1 ATGTTGTGAGTGGTATAAGTACCTATTTGAA
*
35402759 ATGTTGTGAGTGGTATAGGTACCTATTTGAA
1 ATGTTGTGAGTGGTATAAGTACCTATTTGAA
35402790 ATGT
1 ATGT
35402794 ATGAAATGAG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.27, C:0.06, G:0.27, T:0.39
Consensus pattern (31 bp):
ATGTTGTGAGTGGTATAAGTACCTATTTGAA
Found at i:35406974 original size:17 final size:17
Alignment explanation
Indices: 35406954--35406986 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
35406944 TTATGATTAC
35406954 TATTATGTTATTATTTT
1 TATTATGTTATTATTTT
35406971 TATTATGTTATTATTT
1 TATTATGTTATTATTT
35406987 GTTTACTTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.24, C:0.00, G:0.06, T:0.70
Consensus pattern (17 bp):
TATTATGTTATTATTTT
Found at i:35407077 original size:18 final size:19
Alignment explanation
Indices: 35407033--35407077 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
35407023 TAGTTTTTTT
* *
35407033 TATTTGTTGTAATTTAGATA
1 TATTT-TTGTAATATAAATA
35407053 TATTTTTGTAATATAAATA
1 TATTTTTGTAATATAAATA
35407072 -ATTTTT
1 TATTTTT
35407078 TGATAGTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 6 0.26
19 12 0.52
20 5 0.22
ACGTcount: A:0.33, C:0.00, G:0.09, T:0.58
Consensus pattern (19 bp):
TATTTTTGTAATATAAATA
Found at i:35414030 original size:47 final size:47
Alignment explanation
Indices: 35413967--35414270 Score: 416
Period size: 47 Copynumber: 6.4 Consensus size: 47
35413957 CCCTTCGGGA
* * *
35413967 CTTATCACATTTATACACTTCCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
35414014 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
35414061 CTTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTTGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
35414108 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
35414155 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
35414202 CTTATCACGCATATATATACTTTCACATTCATCACATTGGCCACTCGGC
1 CTTATCA--CATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
35414251 CCTATCACATATATATACTT
1 CTTATCACATATATACACTT
35414271 GTACATCAAT
Statistics
Matches: 237, Mismatches: 16, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
46 1 0.00
47 195 0.82
49 40 0.17
50 1 0.00
ACGTcount: A:0.27, C:0.30, G:0.10, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:35421461 original size:43 final size:44
Alignment explanation
Indices: 35421399--35421519 Score: 149
Period size: 43 Copynumber: 2.8 Consensus size: 44
35421389 CATGTATCGC
* *
35421399 ATCCATCATGAACTCGGACCACTCAACGAGCTCAGATG-CTCAT
1 ATCCATCATGAACTTGGACCACTCAACGAGCTCAGATGCCACAT
* *
35421442 ATCCATAATGAACTTGGACCTCTCAACGAGCTCAGATGCCACAT
1 ATCCATCATGAACTTGGACCACTCAACGAGCTCAGATGCCACAT
** * *
35421486 AT--ATCACAAACCTGGACCACTCAACGAGTTCAGA
1 ATCCATCATGAACTTGGACCACTCAACGAGCTCAGA
35421520 CTTCTTAATT
Statistics
Matches: 67, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
42 26 0.39
43 35 0.52
44 6 0.09
ACGTcount: A:0.33, C:0.31, G:0.16, T:0.21
Consensus pattern (44 bp):
ATCCATCATGAACTTGGACCACTCAACGAGCTCAGATGCCACAT
Found at i:35421519 original size:42 final size:42
Alignment explanation
Indices: 35421414--35421519 Score: 124
Period size: 42 Copynumber: 2.5 Consensus size: 42
35421404 TCATGAACTC
* ** *
35421414 GGACCACTCAACGAGCTCAGATGCTCATATCCATAATGAACTT
1 GGACCACTCAACGAGCTCAGATGCACATAT-CATAACAAACCT
* *
35421457 GGACCTCTCAACGAGCTCAGATGCCACATAT-ATCACAAACCT
1 GGACCACTCAACGAGCTCAGATG-CACATATCATAACAAACCT
*
35421499 GGACCACTCAACGAGTTCAGA
1 GGACCACTCAACGAGCTCAGA
35421520 CTTCTTAATT
Statistics
Matches: 54, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
42 26 0.48
43 22 0.41
44 6 0.11
ACGTcount: A:0.33, C:0.30, G:0.17, T:0.20
Consensus pattern (42 bp):
GGACCACTCAACGAGCTCAGATGCACATATCATAACAAACCT
Found at i:35428712 original size:10 final size:10
Alignment explanation
Indices: 35428697--35428722 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
35428687 AAACCCAAGT
35428697 TCTCTTTCTC
1 TCTCTTTCTC
35428707 TCTCTTTCTC
1 TCTCTTTCTC
35428717 TCTCTT
1 TCTCTT
35428723 ATTGGCTAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (10 bp):
TCTCTTTCTC
Found at i:35432325 original size:28 final size:29
Alignment explanation
Indices: 35432288--35432360 Score: 103
Period size: 28 Copynumber: 2.6 Consensus size: 29
35432278 AAGTCTACAT
*
35432288 ACATGCATATGGCCCACTAGGCCC-AATC
1 ACATTCATATGGCCCACTAGGCCCAAATC
* *
35432316 TCATTCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCACTAGGCCCAAATC
*
35432345 ACATTCATATAGCCCA
1 ACATTCATATGGCCCA
35432361 TGTGGCCCGA
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
28 21 0.54
29 18 0.46
ACGTcount: A:0.30, C:0.33, G:0.14, T:0.23
Consensus pattern (29 bp):
ACATTCATATGGCCCACTAGGCCCAAATC
Found at i:35432354 original size:29 final size:28
Alignment explanation
Indices: 35432288--35432378 Score: 105
Period size: 29 Copynumber: 3.2 Consensus size: 28
35432278 AAGTCTACAT
* *
35432288 ACATGCATATGGCCCACTAGGCCCAATC
1 ACATTCATATGGCCCATTAGGCCCAATC
*
35432316 TCATTCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCC-AATC
*
35432345 ACATTCATATAGCCCATGT-GGCCCGAATC
1 ACATTCATATGGCCCAT-TAGGCCC-AATC
35432374 A-ATTC
1 ACATTC
35432379 CAAGCCATGT
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
28 25 0.45
29 29 0.53
30 1 0.02
ACGTcount: A:0.29, C:0.32, G:0.15, T:0.24
Consensus pattern (28 bp):
ACATTCATATGGCCCATTAGGCCCAATC
Done.