Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 181 of 378
Found at i:52947057 original size:13 final size:13
Alignment explanation
Indices: 52947039--52947065 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
52947029 TTAGTGAGAA
52947039 AACGCATTTATTT
1 AACGCATTTATTT
52947052 AACGCATTTATTT
1 AACGCATTTATTT
52947065 A
1 A
52947066 TGAATGCGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.33, C:0.15, G:0.07, T:0.44
Consensus pattern (13 bp):
AACGCATTTATTT
Found at i:52950870 original size:58 final size:57
Alignment explanation
Indices: 52950794--52950911 Score: 193
Period size: 59 Copynumber: 2.1 Consensus size: 57
52950784 AACAAACCTC
* *
52950794 AATAATTTTTTTTAAAAATATGTCGTTATTTTTTCA-ATTGCATCATTTTTTATAGT
1 AATAATTTTTTTTAAAAATATGTCGTCATTATTTCACATTGCATCATTTTTTATAGT
52950850 AATAATATTTTTTTAAAAAATATGTCGTCATTATTTCACATTGCATCATTTTTTATAGT
1 AATAAT-TTTTTTT-AAAAATATGTCGTCATTATTTCACATTGCATCATTTTTTATAGT
52950909 AAT
1 AAT
52950912 TTATGTCGTC
Statistics
Matches: 57, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
56 6 0.11
57 7 0.12
58 21 0.37
59 23 0.40
ACGTcount: A:0.33, C:0.08, G:0.07, T:0.52
Consensus pattern (57 bp):
AATAATTTTTTTTAAAAATATGTCGTCATTATTTCACATTGCATCATTTTTTATAGT
Found at i:52952520 original size:28 final size:27
Alignment explanation
Indices: 52952484--52952538 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 27
52952474 TTTTATCATG
* *
52952484 ATTTGAATATTAATATTAATATATTTTA
1 ATTTAAATAATAATATTAATA-ATTTTA
*
52952512 ATTTAAATAATATTATTAATAATTTTA
1 ATTTAAATAATAATATTAATAATTTTA
52952539 GGTACATTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
27 6 0.25
28 18 0.75
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (27 bp):
ATTTAAATAATAATATTAATAATTTTA
Found at i:52952816 original size:19 final size:19
Alignment explanation
Indices: 52952794--52952834 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
52952784 GATATGCTCA
*
52952794 ATTTTATTATTCGATTTTT
1 ATTTTATTATTAGATTTTT
*
52952813 ATTTTATTATTATATTTTT
1 ATTTTATTATTAGATTTTT
52952832 ATT
1 ATT
52952835 ATTTGAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.71
Consensus pattern (19 bp):
ATTTTATTATTAGATTTTT
Found at i:52959764 original size:21 final size:20
Alignment explanation
Indices: 52959726--52959784 Score: 59
Period size: 21 Copynumber: 3.0 Consensus size: 20
52959716 AGCTTCTCGA
*
52959726 AGAAGAAG-AGAAGGAAAAGCG
1 AGAAGAAGAAGAA-CAAAAG-G
*
52959747 TGAAGAAGAAGAACAAAAGG
1 AGAAGAAGAAGAACAAAAGG
*
52959767 AGAGGAA-AAGAACAAAAG
1 AGAAGAAGAAGAACAAAAG
52959785 AACGAGAGAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
19 11 0.33
20 6 0.18
21 12 0.36
22 4 0.12
ACGTcount: A:0.61, C:0.05, G:0.32, T:0.02
Consensus pattern (20 bp):
AGAAGAAGAAGAACAAAAGG
Found at i:52959791 original size:22 final size:19
Alignment explanation
Indices: 52959750--52959798 Score: 53
Period size: 19 Copynumber: 2.4 Consensus size: 19
52959740 AAAAGCGTGA
*
52959750 AGAAGAAGAACAAAAGGAG
1 AGAAAAAGAACAAAAGGAG
*
52959769 AGGAAAAGAACAAAAGAACGAG
1 AGAAAAAGAACAAAAG---GAG
52959791 AGAAAAAG
1 AGAAAAAG
52959799 CTCAGGAGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
19 14 0.58
22 10 0.42
ACGTcount: A:0.65, C:0.06, G:0.29, T:0.00
Consensus pattern (19 bp):
AGAAAAAGAACAAAAGGAG
Found at i:52961325 original size:129 final size:129
Alignment explanation
Indices: 52961095--52961351 Score: 347
Period size: 129 Copynumber: 2.0 Consensus size: 129
52961085 TCAACGATCA
* * * *
52961095 GATGGGAGAGATACTTCAAGCTGCGTTCAAAATGGTTTCTCCGAGTGTCAGGTGAAGGGAATTGA
1 GATGGGAGAGATACTTCAAGCTGCATTCAAAATGGCTTCTCCGAGTGTCAGGTGAAAGGAATCGA
* * *
52961160 TAAAAAAGAGGATGTCAATGGAGGCATTGCTTTGGAA-AGCGAGGCATTGTTTGGACATTCACCT
66 AAAAAAACAGGATGTCAATGGAGGCATTGCTTTGGAATA-CCAGGCATTGTTTGGACATTCACCT
* * * *
52961224 GATGGGAGAGATTCTTC-AGTCTGCATTCAAGATGGCTTCTCTGAGTGTCAGGTTAAAGGAATCG
1 GATGGGAGAGATACTTCAAG-CTGCATTCAAAATGGCTTCTCCGAGTGTCAGGTGAAAGGAATCG
* ** *
52961288 AAAAAAAACAGGATGTCAATGGGGGGGTTGCTTTGGAATACCAGGCATTGTTTGGGCATTCACC
65 AAAAAAAACAGGATGTCAATGGAGGCATTGCTTTGGAATACCAGGCATTGTTTGGACATTCACC
52961352 AGACAGTAGA
Statistics
Matches: 111, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
128 2 0.02
129 108 0.97
130 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.30, T:0.27
Consensus pattern (129 bp):
GATGGGAGAGATACTTCAAGCTGCATTCAAAATGGCTTCTCCGAGTGTCAGGTGAAAGGAATCGA
AAAAAAACAGGATGTCAATGGAGGCATTGCTTTGGAATACCAGGCATTGTTTGGACATTCACCT
Found at i:52962546 original size:12 final size:13
Alignment explanation
Indices: 52962523--52962547 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
52962513 TTCAAGTAGA
52962523 TTTTAAATTTTTT
1 TTTTAAATTTTTT
52962536 TTTTAAATTTTT
1 TTTTAAATTTTT
52962548 AATTAGTATT
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:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTTAAATTTTTT
Found at i:52963784 original size:31 final size:31
Alignment explanation
Indices: 52963749--52963815 Score: 89
Period size: 31 Copynumber: 2.2 Consensus size: 31
52963739 ATAAAAAATT
*
52963749 AAATTAATCCTTTATATTAAAAATTTCAACC
1 AAATTAATCCATTATATTAAAAATTTCAACC
* ** *
52963780 AAATTGATTGATTATATTAAAAATTTTAACC
1 AAATTAATCCATTATATTAAAAATTTCAACC
52963811 AAATT
1 AAATT
52963816 GACGTGATTG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.46, C:0.10, G:0.03, T:0.40
Consensus pattern (31 bp):
AAATTAATCCATTATATTAAAAATTTCAACC
Found at i:52965845 original size:22 final size:23
Alignment explanation
Indices: 52965800--52965856 Score: 64
Period size: 22 Copynumber: 2.5 Consensus size: 23
52965790 AAAAAATATT
*
52965800 TTTTATTTTTTCTTCTTCTTCCC
1 TTTTATTTTTTCTTCTTCTCCCC
52965823 TTTTATTATTTT-TT-TTCTCCCC
1 TTTTATT-TTTTCTTCTTCTCCCC
**
52965845 TTCAATTTTTTC
1 TTTTATTTTTTC
52965857 ATGCTCTCTC
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
21 4 0.14
22 12 0.41
23 9 0.31
24 4 0.14
ACGTcount: A:0.09, C:0.23, G:0.00, T:0.68
Consensus pattern (23 bp):
TTTTATTTTTTCTTCTTCTCCCC
Found at i:52967480 original size:50 final size:49
Alignment explanation
Indices: 52967362--52967491 Score: 197
Period size: 50 Copynumber: 2.6 Consensus size: 49
52967352 TTGGTACGCA
* * **
52967362 TAGTAGCCTGCACTTAGTACTACACATGCGACCAACAATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAACAATCTAATACACG
* *
52967411 TAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCATCTAATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AACAATCTAATACACG
52967461 TAGTAGCCTGCACTTAGTACTACACACGTGA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA
52967492 TCACAGTTTT
Statistics
Matches: 74, Mismatches: 6, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
49 31 0.42
50 43 0.58
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.24
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAACAATCTAATACACG
Found at i:52967535 original size:101 final size:99
Alignment explanation
Indices: 52967362--52967548 Score: 259
Period size: 101 Copynumber: 1.9 Consensus size: 99
52967352 TTGGTACGCA
* * *
52967362 TAGTAGCCTGCACTTAGTACTACACATGCGACCAACAATCTGGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAACAATCGGGTACACATAGTAGCCTGCACTTA
*
52967427 GTACTACACACGTGACCTCACCATCTAATACACG
66 GTACTACACACGAGACCTCACCATCTAATACACG
* * * *
52967461 TAGTAGCCTGCACTTAGTACTACACACGTGATC-ACAGTTTTCGGGTACGCATAGTAGCCTGCAC
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAACA---ATCGGGTACACATAGTAGCCTGCAC
*
52967525 TTAGTACTACACATGAGACCTCAC
63 TTAGTACTACACACGAGACCTCAC
52967549 AATAGATCAT
Statistics
Matches: 76, Mismatches: 9, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
98 3 0.04
99 30 0.39
101 43 0.57
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.25
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAACAATCGGGTACACATAGTAGCCTGCACTTA
GTACTACACACGAGACCTCACCATCTAATACACG
Found at i:52969264 original size:15 final size:15
Alignment explanation
Indices: 52969208--52969272 Score: 73
Period size: 15 Copynumber: 4.4 Consensus size: 15
52969198 TAAAGATAAC
*
52969208 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
52969222 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
*
52969237 GAA-AAACCCAGAATA
1 -AAGAAATCCAGAATA
52969252 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
52969267 AAGAAA
1 AAGAAA
52969273 CCCAAGATAC
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
14 11 0.26
15 29 0.67
16 3 0.07
ACGTcount: A:0.63, C:0.14, G:0.14, T:0.09
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:52969274 original size:30 final size:31
Alignment explanation
Indices: 52969208--52969276 Score: 92
Period size: 30 Copynumber: 2.3 Consensus size: 31
52969198 TAAAGATAAC
*
52969208 AAGAAAACC-GAATAAAGAAATCCAAGATAG
1 AAGAAACCCAGAATAAAGAAATCCAAGATAG
52969238 AA-AAACCCAGAATAAAGAAATCC-AGAATA-
1 AAGAAACCCAGAATAAAGAAATCCAAG-ATAG
52969267 AAGAAACCCA
1 AAGAAACCCA
52969277 AGATACGATA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
29 9 0.26
30 26 0.74
ACGTcount: A:0.61, C:0.17, G:0.13, T:0.09
Consensus pattern (31 bp):
AAGAAACCCAGAATAAAGAAATCCAAGATAG
Found at i:52969295 original size:16 final size:16
Alignment explanation
Indices: 52969274--52969305 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
52969264 ATAAAGAAAC
52969274 CCAAGATACGATACTA
1 CCAAGATACGATACTA
52969290 CCAAGATACGATACTA
1 CCAAGATACGATACTA
52969306 TGCCGGAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.25, G:0.12, T:0.19
Consensus pattern (16 bp):
CCAAGATACGATACTA
Found at i:52972337 original size:50 final size:52
Alignment explanation
Indices: 52972276--52972414 Score: 171
Period size: 50 Copynumber: 2.8 Consensus size: 52
52972266 TATTGGTACG
52972276 CATAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCA-TCT-AATACA
1 CATAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCAGTCTCAATACA
* * ** *
52972326 CGTAGTAGCCTGCACTTAGTACTACACACGTGA--TCA-CAGTTTTCGGTACG
1 CATAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCAG-TCTCAATACA
* *
52972376 CATAGTAGCCTGCACTTAGTACTACACATGCGACCTCAC
1 CATAGTAGCCTGCACTTAGTACTACACACGTGACCTCAC
52972415 AATAGATCAT
Statistics
Matches: 75, Mismatches: 8, Indels: 9
0.82 0.09 0.10
Matches are distributed among these distances:
47 2 0.03
48 3 0.04
49 2 0.03
50 65 0.87
52 3 0.04
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.25
Consensus pattern (52 bp):
CATAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCAGTCTCAATACA
Found at i:52976335 original size:28 final size:28
Alignment explanation
Indices: 52976266--52976366 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
52976256 GACAAGATTG
* * * *
52976266 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
52976296 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
52976324 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
52976353 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
52976367 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:52982476 original size:69 final size:69
Alignment explanation
Indices: 52982365--52982505 Score: 282
Period size: 69 Copynumber: 2.0 Consensus size: 69
52982355 CAAATGCTTC
52982365 AATTGATAGTGTGATAGATATCTCTGACTTCCGTTGACCCTTGAGCTAGATAGGCGACACTATAA
1 AATTGATAGTGTGATAGATATCTCTGACTTCCGTTGACCCTTGAGCTAGATAGGCGACACTATAA
52982430 GAAA
66 GAAA
52982434 AATTGATAGTGTGATAGATATCTCTGACTTCCGTTGACCCTTGAGCTAGATAGGCGACACTATAA
1 AATTGATAGTGTGATAGATATCTCTGACTTCCGTTGACCCTTGAGCTAGATAGGCGACACTATAA
52982499 GAAA
66 GAAA
52982503 AAT
1 AAT
52982506 GAAAGGAGAG
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
69 72 1.00
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (69 bp):
AATTGATAGTGTGATAGATATCTCTGACTTCCGTTGACCCTTGAGCTAGATAGGCGACACTATAA
GAAA
Found at i:52982881 original size:47 final size:48
Alignment explanation
Indices: 52982808--52982987 Score: 212
Period size: 47 Copynumber: 3.8 Consensus size: 48
52982798 GTAAAGAGCT
*
52982808 GATGCCATGTCCCAGACACGGTCTTACACTAGCTCAT-ATCTCATGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCATCTCATGTC
* * *
52982855 GGTGCCATGTCCCAGACATGGCCTTACACT-GACT-ATCATCTCGTAGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTAG-CTCATCATCTCAT-GTC
* * *
52982903 GATG-CATGTCCCAGACAT-GTCTTACACTAGCAC-TCGTCTCGATGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCATCTC-ATGTC
*
52982949 GATGCCATGTCCCAGACATGGTCTTACACTGGCTC-TCAT
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCAT
52982988 AATGTTTCTG
Statistics
Matches: 112, Mismatches: 13, Indels: 15
0.80 0.09 0.11
Matches are distributed among these distances:
46 25 0.22
47 65 0.58
48 22 0.20
ACGTcount: A:0.22, C:0.32, G:0.19, T:0.27
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCATCTCATGTC
Found at i:52982975 original size:94 final size:93
Alignment explanation
Indices: 52982806--52983027 Score: 270
Period size: 94 Copynumber: 2.4 Consensus size: 93
52982796 GGGTAAAGAG
* * *
52982806 CTGATGCCATGTCCCAGACACGGTCTTACACTAGCTCATATCTCATGTCGGTGCCATGTCCCAGA
1 CTGATG-CATGTCCCAGACAC-GTCTTACACTAGCACATATCTCATGCCGATGCCATGTCCCAGA
*
52982871 CATGGCCTTACACTGACTATCAT-CTCGTAGT
64 CATGGCCTTACACTGACTATCATAAT-GT-GT
* *
52982902 C-GATGCATGTCCCAGACATGTCTTACACTAGCAC-TCGTCTCGATGCCGATGCCATGTCCCAGA
1 CTGATGCATGTCCCAGACACGTCTTACACTAGCACAT-ATCTC-ATGCCGATGCCATGTCCCAGA
* * * *
52982965 CATGGTCTTACACTGGCTCTCATAATGTTT
64 CATGGCCTTACACTGACTATCATAATGTGT
*
52982995 CTGATGCATGTCCCAGACACATCTTACACTAGC
1 CTGATGCATGTCCCAGACACGTCTTACACTAGC
52983028 GCACAATGAC
Statistics
Matches: 110, Mismatches: 12, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
92 1 0.01
93 20 0.18
94 83 0.75
95 5 0.05
96 1 0.01
ACGTcount: A:0.23, C:0.31, G:0.18, T:0.28
Consensus pattern (93 bp):
CTGATGCATGTCCCAGACACGTCTTACACTAGCACATATCTCATGCCGATGCCATGTCCCAGACA
TGGCCTTACACTGACTATCATAATGTGT
Found at i:52983005 original size:47 final size:46
Alignment explanation
Indices: 52982808--52983013 Score: 184
Period size: 47 Copynumber: 4.4 Consensus size: 46
52982798 GTAAAGAGCT
* * * *
52982808 GATGCCATGTCCCAGACACGGTCTTACACTAGCTCAT-ATCTCATGTC
1 GATG-CATGTCCCAGACATGGTCTTACACTGGCTC-TCATCTCGTTTC
* * * * *
52982855 GGTGCCATGTCCCAGACATGGCCTTACACTGACTATCATCTCGTAGTC
1 GATG-CATGTCCCAGACATGGTCTTACACTGGCTCTCATCTCGT-TTC
* * * **
52982903 GATGCATGTCCCAGACAT-GTCTTACACTAGCACTCGTCTCGATGCC
1 GATGCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTCG-TTTC
*
52982949 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTTTC
1 GATG-CATGTCCCAGACATGGTCTTACACTGGCTCTCAT-CTCGTTTC
52982996 TGATGCATGTCCCAGACA
1 -GATGCATGTCCCAGACA
52983014 CATCTTACAC
Statistics
Matches: 131, Mismatches: 21, Indels: 14
0.79 0.13 0.08
Matches are distributed among these distances:
46 24 0.18
47 79 0.60
48 27 0.21
49 1 0.01
ACGTcount: A:0.22, C:0.31, G:0.19, T:0.28
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTCGTTTC
Found at i:52983984 original size:59 final size:59
Alignment explanation
Indices: 52983918--52984030 Score: 190
Period size: 59 Copynumber: 1.9 Consensus size: 59
52983908 TCACCAACTC
52983918 AATTTTGACCATTTCTCTTTCTTATGTCCCCTACAGCTGGCTAGCATCCTCTCTCACTT
1 AATTTTGACCATTTCTCTTTCTTATGTCCCCTACAGCTGGCTAGCATCCTCTCTCACTT
* ** *
52983977 AATTTTGACCATTTCTCTTTCTTCTGTCCCCTATGGTTGGCTAGCATCCTCTCT
1 AATTTTGACCATTTCTCTTTCTTATGTCCCCTACAGCTGGCTAGCATCCTCTCT
52984031 AAGGTTTATT
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
59 50 1.00
ACGTcount: A:0.15, C:0.31, G:0.12, T:0.42
Consensus pattern (59 bp):
AATTTTGACCATTTCTCTTTCTTATGTCCCCTACAGCTGGCTAGCATCCTCTCTCACTT
Found at i:52990476 original size:47 final size:48
Alignment explanation
Indices: 52990402--52990631 Score: 219
Period size: 47 Copynumber: 4.9 Consensus size: 48
52990392 GTGAGTAAGG
* *
52990402 TGCCGATGCCATGTCCCAGACACGGTCTTACACTAGCTCGT-ATCTCA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCATCTCA
* * * *
52990449 TGTCAATGCCATGTCCTAGACATGGTCTTACACT-GACT-ATCATCTCG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAG-CTCATCATCTCA
* * * * *
52990496 TAGCCGATG-CATGTCCCAAACAT-GTCTTTCACTGGCTTA-CATCTTGA
1 T-GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCATC-TCA
* * *
52990543 GGTCGATG-CATGTCCCAAACAT-GTCTTACACTAGCTC-TCATCTCGA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCATCTC-A
*
52990589 TGCCGATGCCATATCCCAGACATGGTCTTACACTAGCTC-TCAT
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCAT
52990632 AATGTGGCTA
Statistics
Matches: 150, Mismatches: 23, Indels: 19
0.78 0.12 0.10
Matches are distributed among these distances:
45 1 0.01
46 60 0.40
47 65 0.43
48 24 0.16
ACGTcount: A:0.23, C:0.30, G:0.17, T:0.29
Consensus pattern (48 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCATCTCA
Found at i:52990585 original size:46 final size:47
Alignment explanation
Indices: 52990402--52990631 Score: 231
Period size: 46 Copynumber: 4.9 Consensus size: 47
52990392 GTGAGTAAGG
*
52990402 TGCCGATGCCATGTCCCAGACACGGTCTTACACTAGCTCGT-ATCTC-A
1 TGCCGATGCCATGTCCCAGACA-TGTCTTACACTAGCTC-TCATCTCGA
* * * *
52990449 TGTCAATGCCATGTCCTAGACATGGTCTTACACT-GACTATCATCTCG-
1 TGCCGATGCCATGTCCCAGACAT-GTCTTACACTAG-CTCTCATCTCGA
* * * *
52990496 TAGCCGATG-CATGTCCCAAACATGTCTTTCACTGGCT-TACATCTTGA
1 T-GCCGATGCCATGTCCCAGACATGTCTTACACTAGCTCT-CATCTCGA
* * *
52990543 GGTCGATG-CATGTCCCAAACATGTCTTACACTAGCTCTCATCTCGA
1 TGCCGATGCCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCGA
*
52990589 TGCCGATGCCATATCCCAGACATGGTCTTACACTAGCTCTCAT
1 TGCCGATGCCATGTCCCAGACAT-GTCTTACACTAGCTCTCAT
52990632 AATGTGGCTA
Statistics
Matches: 152, Mismatches: 20, Indels: 21
0.79 0.10 0.11
Matches are distributed among these distances:
45 1 0.01
46 64 0.42
47 63 0.41
48 24 0.16
ACGTcount: A:0.23, C:0.30, G:0.17, T:0.29
Consensus pattern (47 bp):
TGCCGATGCCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCGA
Found at i:52990656 original size:47 final size:45
Alignment explanation
Indices: 52990401--52990657 Score: 173
Period size: 47 Copynumber: 5.5 Consensus size: 45
52990391 CGTGAGTAAG
* *
52990401 GTGCCGATGCCATGTCCCAGACACGGTCTTACACTAGCTCGT-ATCT
1 GTGCCGATG-CATGTCCCAGACATGGTCTTACACTAGCTC-TCATAT
* * * * * *
52990447 CATGTCAATGCCATGTCCTAGACATGGTCTTACACT-GACTATCATCT
1 -GTGCCGATG-CATGTCCCAGACATGGTCTTACACTAG-CTCTCATAT
* * * *
52990494 CGTAGCCGATGCATGTCCCAAACAT-GTCTTTCACTGGCT-TACATCTT
1 -GT-GCCGATGCATGTCCCAGACATGGTCTTACACTAGCTCT-CAT-AT
* * * *
52990541 GAGGTCGATGCATGTCCCAAACAT-GTCTTACACTAGCTCTCATCT
1 G-TGCCGATGCATGTCCCAGACATGGTCTTACACTAGCTCTCATAT
*
52990586 CGATGCCGATGCCATATCCCAGACATGGTCTTACACTAGCTCTCATAAT
1 -G-TGCCGATG-CATGTCCCAGACATGGTCTTACACTAGCTCTCAT-AT
**
52990635 GTGGCTAATGCATGTCCCAGACA
1 GT-GCCGATGCATGTCCCAGACA
52990658 CGTCTTAGGC
Statistics
Matches: 171, Mismatches: 26, Indels: 26
0.77 0.12 0.12
Matches are distributed among these distances:
45 2 0.01
46 60 0.35
47 78 0.46
48 30 0.18
49 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (45 bp):
GTGCCGATGCATGTCCCAGACATGGTCTTACACTAGCTCTCATAT
Found at i:52990663 original size:140 final size:141
Alignment explanation
Indices: 52990405--52990663 Score: 330
Period size: 140 Copynumber: 1.8 Consensus size: 141
52990395 AGTAAGGTGC
* * * *
52990405 CGATGCCATGTCCCAGACACGGTCTTACACTAGCTCGTATCTCATGTCAATGCCATGTCCTAGAC
1 CGATGCCATGTCCCAAACACGGTCTTACACTAGCTCGTATCTCATGCCAATGCCATATCCCAGAC
* * *
52990470 ATGGTCTTACACTGACTATCATCTCGTAGCCGATGCATGTCCCAAACATGTCTTTCACTGGCTTA
66 ATGGTCTTACACTGACTATCATATCGTAGCCAATGCATGTCCCAAACACGTCTTTCACTGGCTTA
52990535 CATCTTGAGGT
131 CATCTTGAGGT
* *
52990546 CGATG-CATGTCCCAAACA-TGTCTTACACTAGCTC-TCATCTCGATGCCGATGCCATATCCCAG
1 CGATGCCATGTCCCAAACACGGTCTTACACTAGCTCGT-ATCTC-ATGCCAATGCCATATCCCAG
* * * *
52990608 ACATGGTCTTACACT-AGCTCTCATAAT-GTGGCTAATGCATGTCCCAGACACGTCTT
64 ACATGGTCTTACACTGA-CTATCAT-ATCGTAGCCAATGCATGTCCCAAACACGTCTT
52990664 AGGCTAGCGC
Statistics
Matches: 101, Mismatches: 13, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
138 1 0.01
139 21 0.21
140 73 0.72
141 6 0.06
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.29
Consensus pattern (141 bp):
CGATGCCATGTCCCAAACACGGTCTTACACTAGCTCGTATCTCATGCCAATGCCATATCCCAGAC
ATGGTCTTACACTGACTATCATATCGTAGCCAATGCATGTCCCAAACACGTCTTTCACTGGCTTA
CATCTTGAGGT
Found at i:52991185 original size:18 final size:18
Alignment explanation
Indices: 52991141--52991185 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
52991131 ATAGCAACTC
*
52991141 CAACTTTTCATTATTTCA
1 CAACTTATCATTATTTCA
52991159 CACACTTATCATCTATTT-A
1 CA-ACTTATCAT-TATTTCA
52991178 CAACTTAT
1 CAACTTAT
52991186 GCAAAATAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
18 8 0.33
19 11 0.46
20 5 0.21
ACGTcount: A:0.31, C:0.24, G:0.00, T:0.44
Consensus pattern (18 bp):
CAACTTATCATTATTTCA
Found at i:52992314 original size:3 final size:3
Alignment explanation
Indices: 52992299--52992330 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
52992289 AAGTTGGATG
*
52992299 TTA TTA CTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
52992331 TAGTATGTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:52994676 original size:20 final size:21
Alignment explanation
Indices: 52994633--52994678 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
52994623 ACTATTTTAT
52994633 TATGGG-CCAACTGTATTGAA
1 TATGGGCCCAACTGTATTGAA
*
52994653 -ATGGGCCCAACTGTGTT-AA
1 TATGGGCCCAACTGTATTGAA
52994672 TATGGGC
1 TATGGGC
52994679 AAGGCCCAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.28
Consensus pattern (21 bp):
TATGGGCCCAACTGTATTGAA
Found at i:52994771 original size:60 final size:60
Alignment explanation
Indices: 52994673--52994807 Score: 157
Period size: 60 Copynumber: 2.2 Consensus size: 60
52994663 CTGTGTTAAT
* * *
52994673 ATGGGCAAGGCCCAATATATCTCGACTTGTAATAGGGCTACGACCCAGATTGATACTGAC
1 ATGGGCTAGGCCCAATATATCTCGAATTGTAATAGGGCTACGACCCAGATTAATACTGAC
* * * * *
52994733 ATGGGCTAGGCCCAATATA-CTCTGATATTGTAA-GGGGCTATGGCCCAGATTAATATTGAT
1 ATGGGCTAGGCCCAATATATCTC-GA-ATTGTAATAGGGCTACGACCCAGATTAATACTGAC
52994793 ATGGGCTAAGGCCCA
1 ATGGGCT-AGGCCCA
52994808 GTTAACTCTG
Statistics
Matches: 64, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
59 3 0.05
60 48 0.75
61 13 0.20
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.25
Consensus pattern (60 bp):
ATGGGCTAGGCCCAATATATCTCGAATTGTAATAGGGCTACGACCCAGATTAATACTGAC
Found at i:52997856 original size:129 final size:128
Alignment explanation
Indices: 52997598--52997937 Score: 389
Period size: 129 Copynumber: 2.6 Consensus size: 128
52997588 GTCCAACGAA
* * * * * * *
52997598 AAATCGAAACCCAGCACGGTAGGGTATGATTCCCCGAATTTCCAAACTTTGAACATTGCCTT-AT
1 AAATCGCAACCCAGCACGGTAGGGCACGATTCCCCGAATTGCCAAACATCGAACATTGCCTTCGT
** * ** * *
52997662 TTTAGAATTTAGAGAA-CACAAGTGAAATTCTAAAGGGATATTCGATTATTTTGAACAAACAGG
66 TTTAGAATTTTTA-AATGACAAGTGAAAAACCAAAGGAATATTCGATTATTTTGAACAAACAGG
* * *
52997725 AAATCGCAACCCAGCACGGTAGGGCACGATTCCCCGAATTGCCTAACATGGAACATTACCTTCGT
1 AAATCGCAACCCAGCACGGTAGGGCACGATTCCCCGAATTGCCAAACATCGAACATTGCCTTCGT
* * *
52997790 TTAAAGAATTTTTAAATGA-ATAGTGAAAAACCAAAGGAATATTCGATTATTTTGAACAAGCGGG
66 TT-TAGAATTTTTAAATGACA-AGTGAAAAACCAAAGGAATATTCGATTATTTTGAACAAACAGG
* * * * *
52997854 AAATTGCAACCTAGCATGATAGGGCACGATTCCCCGAATTGCCAAACATCGAACATTGCCTCCGT
1 AAATCGCAACCCAGCACGGTAGGGCACGATTCCCCGAATTGCCAAACATCGAACATTGCCTTCG-
52997919 TTTTTAGAATTTTTAAATG
65 -TTTTAGAATTTTTAAATG
52997938 GATAATTATA
Statistics
Matches: 179, Mismatches: 28, Indels: 9
0.83 0.13 0.04
Matches are distributed among these distances:
127 54 0.30
128 6 0.03
129 102 0.57
130 14 0.08
131 3 0.02
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.27
Consensus pattern (128 bp):
AAATCGCAACCCAGCACGGTAGGGCACGATTCCCCGAATTGCCAAACATCGAACATTGCCTTCGT
TTTAGAATTTTTAAATGACAAGTGAAAAACCAAAGGAATATTCGATTATTTTGAACAAACAGG
Found at i:52998316 original size:2 final size:2
Alignment explanation
Indices: 52998309--52998334 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
52998299 TAAATACTTA
52998309 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
52998335 TATGTAATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:53000734 original size:44 final size:46
Alignment explanation
Indices: 53000670--53000780 Score: 131
Period size: 45 Copynumber: 2.5 Consensus size: 46
53000660 ATCCTGCTCT
**
53000670 ACTGCAACTTCAAAGAGATAAGGAT-TG-TGA-CTTCAATCTACTCC
1 ACTGCAACTTCAGGGAGATAAGGATCTGCT-ATCTTCAATCTACTCC
* * * *
53000714 ACTGCAACTTCAGGGGGATAA-GATCTGCTATCTTTAGTCTGCTCC
1 ACTGCAACTTCAGGGAGATAAGGATCTGCTATCTTCAATCTACTCC
53000759 ACTGCAACTTCAGGGAGATAAG
1 ACTGCAACTTCAGGGAGATAAG
53000781 ACTTGCAATT
Statistics
Matches: 56, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
43 3 0.05
44 21 0.38
45 32 0.57
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.27
Consensus pattern (46 bp):
ACTGCAACTTCAGGGAGATAAGGATCTGCTATCTTCAATCTACTCC
Found at i:53000849 original size:89 final size:87
Alignment explanation
Indices: 53000751--53001026 Score: 324
Period size: 89 Copynumber: 3.2 Consensus size: 87
53000741 CTATCTTTAG
* *
53000751 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCAATTTTCAGCCTGTTACCTTACTACTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCAATCTTCAGCCTGTTACCCTACTACTTAA
*
53000816 GGGATTAAGGCTTATTGTCTTCGA
66 GGG-TTAAGGCTTGTT-TCTTCGA
* * *
53000840 TTTGCTCCACTGCAACTTCAGGGAGACAAGA-TCTGAAATCTTCAGCCTGTTACCCTACTACTTA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACT-TGCAATCTTCAGCCTGTTACCCTACTACTTA
*
53000904 GGGGGTTAAGGCTTGTTTTCTTCGA
65 -AGGGTTAAGGCTTG-TTTCTTCGA
*
53000929 TCTGCTCCACTGGAGA---C---GAGAT----C-TGCAATCTTCAGCCTGTTACCCTACTACTTA
1 TCTGCTCCACTGCA-ACTTCAGGGAGATAAGACTTGCAATCTTCAGCCTGTTACCCTACTACTTA
*
53000983 GAGGGTTAAGGCTTGCTTCTTCGA
65 -AGGGTTAAGGCTTGTTTCTTCGA
53001007 TCTGCTCCACTGCAACTTCA
1 TCTGCTCCACTGCAACTTCA
53001027 AGGATTCAAG
Statistics
Matches: 164, Mismatches: 14, Indels: 26
0.80 0.07 0.13
Matches are distributed among these distances:
77 1 0.01
78 21 0.13
79 44 0.27
80 1 0.01
84 4 0.02
87 1 0.01
88 1 0.01
89 85 0.52
90 6 0.04
ACGTcount: A:0.22, C:0.25, G:0.20, T:0.32
Consensus pattern (87 bp):
TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCAATCTTCAGCCTGTTACCCTACTACTTAA
GGGTTAAGGCTTGTTTCTTCGA
Found at i:53000992 original size:79 final size:78
Alignment explanation
Indices: 53000861--53001018 Score: 271
Period size: 79 Copynumber: 2.0 Consensus size: 78
53000851 GCAACTTCAG
* *
53000861 GGAGACAAGATCTGAAATCTTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTTGTTTTCTT
1 GGAGACAAGATCTGAAATCTTCAGCCTGTTACCCTACTACTTAGAGGGTTAAGGCTTG-CTTCTT
53000926 CGATCTGCTCCACT
65 CGATCTGCTCCACT
* *
53000940 GGAGACGAGATCTGCAATCTTCAGCCTGTTACCCTACTACTTAGAGGGTTAAGGCTTGCTTCTTC
1 GGAGACAAGATCTGAAATCTTCAGCCTGTTACCCTACTACTTAGAGGGTTAAGGCTTGCTTCTTC
53001005 GATCTGCTCCACT
66 GATCTGCTCCACT
53001018 G
1 G
53001019 CAACTTCAAG
Statistics
Matches: 75, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
78 20 0.27
79 55 0.73
ACGTcount: A:0.21, C:0.25, G:0.22, T:0.32
Consensus pattern (78 bp):
GGAGACAAGATCTGAAATCTTCAGCCTGTTACCCTACTACTTAGAGGGTTAAGGCTTGCTTCTTC
GATCTGCTCCACT
Found at i:53012676 original size:127 final size:129
Alignment explanation
Indices: 53012531--53012863 Score: 352
Period size: 129 Copynumber: 2.6 Consensus size: 129
53012521 GTCTAACGAA
* * * * *
53012531 AAATCGAAACCCAGCACGGTAAGGTACGATTCCCCGAATTTCCAAACTTTGAACATTGCCTT-AT
1 AAATCGCAACCCAGCACGGTAAGGCACGATTCCCCGAATTGCCAAACATCGAACATTGCCTTCAT
* ** * * * *
53012595 TT-TAGAATTTGGAGAA-C-ATAAGTGAAATTCTAAAGGGATGTTCAATTATTTTGAACAAATAG
66 TTAAAGAATTTGGA-AATCAAT-AGTGAAAAACCAAAGGAATATTCAATTATTTTGAACAAACAG
53012657 G
129 G
* * * * *
53012658 AAATCGCAACCCAGCACGGT-AGGACACGATTCCCTGAATTGCCTAACATCGAACTTTACCTTCG
1 AAATCGCAACCCAGCACGGTAAGG-CACGATTCCCCGAATTGCCAAACATCGAACATTGCCTTCA
** * * *
53012722 TTTAAAGAATTTTTAAATGAATAGTGAAAAACCAAAGGAATATTCAATTATTTTGAACAAGCGGG
65 TTTAAAGAATTTGGAAATCAATAGTGAAAAACCAAAGGAATATTCAATTATTTTGAACAAACAGG
* * * * *
53012787 AAATTGCAACCCAGCACGATAGGGCACGATTCCCCGAATTGCCAAACATCCAACATTGCCTTCGT
1 AAATCGCAACCCAGCACGGTAAGGCACGATTCCCCGAATTGCCAAACATCGAACATTGCCTTC-A
53012852 TTTAAAGAATTT
65 TTTAAAGAATTT
53012864 TTAAATGGAT
Statistics
Matches: 168, Mismatches: 31, Indels: 11
0.80 0.15 0.05
Matches are distributed among these distances:
126 3 0.02
127 49 0.29
128 5 0.03
129 95 0.57
130 16 0.10
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.27
Consensus pattern (129 bp):
AAATCGCAACCCAGCACGGTAAGGCACGATTCCCCGAATTGCCAAACATCGAACATTGCCTTCAT
TTAAAGAATTTGGAAATCAATAGTGAAAAACCAAAGGAATATTCAATTATTTTGAACAAACAGG
Found at i:53012778 original size:129 final size:130
Alignment explanation
Indices: 53012626--53012870 Score: 366
Period size: 129 Copynumber: 1.9 Consensus size: 130
53012616 GTGAAATTCT
* * * *
53012626 AAAGGGATGTTCAATTATTTTGAACAAATAGGAAATCGCAACCCAGCACGGTAGGACACGATTCC
1 AAAGGAATATTCAATTATTTTGAACAAACAGGAAATCGCAACCCAGCACGATAGGACACGATTCC
* * * *
53012691 CTGAATTGCCTAACATCGAACTTTACCTTCG-TTTAAAGAATTTTTAAATGAATAGTGAAAAACC
66 CCGAATTGCCAAACATCCAACATTACCTTCGTTTTAAAGAATTTTTAAATGAATAGTGAAAAACC
* * * *
53012755 AAAGGAATATTCAATTATTTTGAACAAGCGGGAAATTGCAACCCAGCACGATAGGGCACGATTCC
1 AAAGGAATATTCAATTATTTTGAACAAACAGGAAATCGCAACCCAGCACGATAGGACACGATTCC
*
53012820 CCGAATTGCCAAACATCCAACATTGCCTTCGTTTTAAAGAATTTTTAAATG
66 CCGAATTGCCAAACATCCAACATTACCTTCGTTTTAAAGAATTTTTAAATG
53012871 GATAATTATA
Statistics
Matches: 102, Mismatches: 13, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
129 83 0.81
130 19 0.19
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.27
Consensus pattern (130 bp):
AAAGGAATATTCAATTATTTTGAACAAACAGGAAATCGCAACCCAGCACGATAGGACACGATTCC
CCGAATTGCCAAACATCCAACATTACCTTCGTTTTAAAGAATTTTTAAATGAATAGTGAAAAACC
Found at i:53013907 original size:20 final size:20
Alignment explanation
Indices: 53013866--53013907 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
53013856 ATTAAATAAT
* *
53013866 TAGATATATATTTTCATATA
1 TAGATATATATATACATATA
*
53013886 TAGATATATATATACATGTA
1 TAGATATATATATACATATA
53013906 TA
1 TA
53013908 TAAATGAAAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.43, C:0.05, G:0.07, T:0.45
Consensus pattern (20 bp):
TAGATATATATATACATATA
Found at i:53017513 original size:31 final size:31
Alignment explanation
Indices: 53017470--53017574 Score: 131
Period size: 31 Copynumber: 3.4 Consensus size: 31
53017460 CTATGGCATC
*
53017470 CATAA-AGATAGTCCGTTAGGACAATAAACA
1 CATAATAGATAGTCCGTTGGGACAATAAACA
* *
53017500 CATAATAGGTAGTCCGTTGGGATAATAAACA
1 CATAATAGATAGTCCGTTGGGACAATAAACA
* * **
53017531 TAGAATAGATAGTTTGTTGGGACAATAAACA
1 CATAATAGATAGTCCGTTGGGACAATAAACA
*
53017562 CAAAATAGATAGT
1 CATAATAGATAGT
53017575 TTTTGAGACA
Statistics
Matches: 63, Mismatches: 11, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
30 5 0.08
31 58 0.92
ACGTcount: A:0.44, C:0.11, G:0.20, T:0.25
Consensus pattern (31 bp):
CATAATAGATAGTCCGTTGGGACAATAAACA
Found at i:53017575 original size:31 final size:31
Alignment explanation
Indices: 53017488--53017589 Score: 125
Period size: 31 Copynumber: 3.3 Consensus size: 31
53017478 TAGTCCGTTA
* * **
53017488 GGACAATAAACACATAATAGGTAGTCCGTTG
1 GGACAATAAACACAAAATAGATAGTTTGTTG
* * *
53017519 GGATAATAAACATAGAATAGATAGTTTGTTG
1 GGACAATAAACACAAAATAGATAGTTTGTTG
53017550 GGACAATAAACACAAAATAGATAGTTT-TTG
1 GGACAATAAACACAAAATAGATAGTTTGTTG
*
53017580 AGACAATAAA
1 GGACAATAAA
53017590 TATAGAACAA
Statistics
Matches: 61, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
30 12 0.20
31 49 0.80
ACGTcount: A:0.45, C:0.10, G:0.20, T:0.25
Consensus pattern (31 bp):
GGACAATAAACACAAAATAGATAGTTTGTTG
Found at i:53017604 original size:30 final size:31
Alignment explanation
Indices: 53017489--53017605 Score: 110
Period size: 31 Copynumber: 3.8 Consensus size: 31
53017479 AGTCCGTTAG
* * * ** *
53017489 GACAATAAACACATAATAGGTAGTCCGTTGG
1 GACAATAAACATAGAATAGATAGTTTGTTGA
* *
53017520 GATAATAAACATAGAATAGATAGTTTGTTGG
1 GACAATAAACATAGAATAGATAGTTTGTTGA
* *
53017551 GACAATAAACACAAAATAGATAGTTT-TTGA
1 GACAATAAACATAGAATAGATAGTTTGTTGA
* * *
53017581 GACAATAAATATAGAACAAATAGTT
1 GACAATAAACATAGAATAGATAGTT
53017606 CATCGGGATA
Statistics
Matches: 71, Mismatches: 15, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
30 23 0.32
31 48 0.68
ACGTcount: A:0.46, C:0.09, G:0.18, T:0.26
Consensus pattern (31 bp):
GACAATAAACATAGAATAGATAGTTTGTTGA
Found at i:53023162 original size:2 final size:2
Alignment explanation
Indices: 53023155--53023193 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
53023145 TTAAAAATTA
53023155 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
53023194 GGACATATAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:53024121 original size:22 final size:22
Alignment explanation
Indices: 53024082--53024124 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
53024072 ATCACTCTTC
* *
53024082 CTCTCCTTTTATTTTTCTTTTT
1 CTCTCCATTTATTATTCTTTTT
*
53024104 CTCTCCATTTGTTATTCTTTT
1 CTCTCCATTTATTATTCTTTT
53024125 CTTCTTCTGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.07, C:0.23, G:0.02, T:0.67
Consensus pattern (22 bp):
CTCTCCATTTATTATTCTTTTT
Found at i:53025314 original size:121 final size:121
Alignment explanation
Indices: 53025100--53025341 Score: 466
Period size: 121 Copynumber: 2.0 Consensus size: 121
53025090 ATGGGCCAAC
*
53025100 GGGCCCAATTCGGTAAGTATGCGCAGTAAGTGTTCTGATGGTACGTAAATGGTTAGGATATGCAT
1 GGGCCCAATTCGGTAAGTATACGCAGTAAGTGTTCTGATGGTACGTAAATGGTTAGGATATGCAT
53025165 GAAAACCCTAAAAGTAGCTAAATTAATATAATACCCTTATGTATGGAAAATTACCA
66 GAAAACCCTAAAAGTAGCTAAATTAATATAATACCCTTATGTATGGAAAATTACCA
*
53025221 GGGCCCAATTCGGTAAGTATACGCGGTAAGTGTTCTGATGGTACGTAAATGGTTAGGATATGCAT
1 GGGCCCAATTCGGTAAGTATACGCAGTAAGTGTTCTGATGGTACGTAAATGGTTAGGATATGCAT
53025286 GAAAACCCTAAAAGTAGCTAAATTAATATAATACCCTTATGTATGGAAAATTACCA
66 GAAAACCCTAAAAGTAGCTAAATTAATATAATACCCTTATGTATGGAAAATTACCA
53025342 TGATACCCCT
Statistics
Matches: 119, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
121 119 1.00
ACGTcount: A:0.36, C:0.15, G:0.21, T:0.28
Consensus pattern (121 bp):
GGGCCCAATTCGGTAAGTATACGCAGTAAGTGTTCTGATGGTACGTAAATGGTTAGGATATGCAT
GAAAACCCTAAAAGTAGCTAAATTAATATAATACCCTTATGTATGGAAAATTACCA
Found at i:53025523 original size:27 final size:27
Alignment explanation
Indices: 53025483--53025560 Score: 113
Period size: 27 Copynumber: 2.9 Consensus size: 27
53025473 AGGAAGCGTC
*
53025483 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
*
53025510 CTGGTGGCTCTGCCACATATT-TCTGTT
1 CTGGTGGCTCTGCCACA-ATTATCTGAT
*
53025537 CTGGTGGCTCTGCCACGATTATCT
1 CTGGTGGCTCTGCCACAATTATCT
53025561 ATATTTGGTG
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
26 3 0.07
27 40 0.87
28 3 0.07
ACGTcount: A:0.15, C:0.26, G:0.23, T:0.36
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:53025589 original size:54 final size:54
Alignment explanation
Indices: 53025483--53025603 Score: 136
Period size: 54 Copynumber: 2.2 Consensus size: 54
53025473 AGGAAGCGTC
* * *
53025483 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATTTCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTACCACATATATCTGTT
* * * * *
53025537 CTGGTGGCTCTGCCACGATTATCTATATTTGGTGACTCTATCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAATTATCT-GATCTGGTGACTCTACCACATATATCTGTT
**
53025591 CTGGCAGCTATGC
1 CTGGTGGCTATGC
53025604 TGCATATTTC
Statistics
Matches: 55, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
54 39 0.71
55 16 0.29
ACGTcount: A:0.17, C:0.24, G:0.21, T:0.37
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTACCACATATATCTGTT
Found at i:53027335 original size:50 final size:50
Alignment explanation
Indices: 53027252--53027396 Score: 238
Period size: 50 Copynumber: 2.9 Consensus size: 50
53027242 AAAATCAAAT
* * * *
53027252 ATATAACATCACATATGTACATATCTATATGGCCGAATATGCCA-GTTAAA
1 ATATAACATCACATATGTACATACCTATGTGGCCGAATAT-ACATGATAAA
53027302 ATATAACATCACATATGTACATACCTATGTGGCCGAATATACATGATAAA
1 ATATAACATCACATATGTACATACCTATGTGGCCGAATATACATGATAAA
53027352 ATATAACATCACATATGTACATACCTATGTGGCCGAATATACATG
1 ATATAACATCACATATGTACATACCTATGTGGCCGAATATACATG
53027397 GTCATTTAGC
Statistics
Matches: 90, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
49 2 0.02
50 88 0.98
ACGTcount: A:0.40, C:0.19, G:0.12, T:0.29
Consensus pattern (50 bp):
ATATAACATCACATATGTACATACCTATGTGGCCGAATATACATGATAAA
Found at i:53028686 original size:19 final size:20
Alignment explanation
Indices: 53028662--53028699 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
53028652 GGTACCACCA
53028662 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
53028681 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
53028700 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:53028995 original size:46 final size:45
Alignment explanation
Indices: 53028928--53029093 Score: 167
Period size: 46 Copynumber: 3.6 Consensus size: 45
53028918 CGCCCCTAAG
* *
53028928 TGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAA
1 TGAACTCGGACTCAACTCAACGAGTTCGGGCGTT-GCATCCATAAA
* *
53028974 TGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-T-CA
1 TGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTGCATCCATAAA
* * * *
53029021 CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGGC-GTTGCATCCATAAA
*
53029067 TGAACTTGGACTCAACTCAACGAGTTC
1 TGAACTCGGACTCAACTCAACGAGTTC
53029094 AGATGCTCAA
Statistics
Matches: 100, Mismatches: 12, Indels: 16
0.78 0.09 0.12
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 1 0.01
46 52 0.52
47 29 0.29
48 2 0.02
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (45 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGGCGTTGCATCCATAAA
Found at i:53029040 original size:93 final size:93
Alignment explanation
Indices: 53028929--53029099 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
53028919 GCCCCTAAGT
* *
53028929 GAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
*
53028994 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCAGATGCCTAGTTACATCTCAC
* * * * *
53029022 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTTGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
53029087 CGAGTTCAGATGC
66 CGAGTTCAGATGC
53029100 TCAACCATCC
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCAGATGCCTAGTTACATCTCAC
Found at i:53029552 original size:29 final size:29
Alignment explanation
Indices: 53029519--53029574 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
53029509 ATTTAATACG
53029519 AACTTTAAAAAAATTACACTTTTGCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCTA
*** *
53029548 AACTTTTGCATAATTACACTTTTGCCC
1 AACTTTAAAAAAATTACACTTTTGCCC
53029575 CTAGGCTCGG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.34, C:0.23, G:0.05, T:0.38
Consensus pattern (29 bp):
AACTTTAAAAAAATTACACTTTTGCCCTA
Found at i:53032632 original size:40 final size:40
Alignment explanation
Indices: 53032588--53032726 Score: 183
Period size: 40 Copynumber: 3.5 Consensus size: 40
53032578 GTTATAATAG
**
53032588 CTCGCACAAATGCCTTCGGGA-CTTAACCCAGATTTGGGAA
1 CTCGCACAAATGCCTTC-GGATCTTAGTCCAGATTTGGGAA
53032628 CTCGCACAAATGCCTTCGGATCTTAGTCCAGATTTGGGAA
1 CTCGCACAAATGCCTTCGGATCTTAGTCCAGATTTGGGAA
* * * **
53032668 CTCACACAAATGCCTTCGGATCTTAGTCCGGATATGGTCA
1 CTCGCACAAATGCCTTCGGATCTTAGTCCAGATTTGGGAA
53032708 CTCAGCACAAA-GCCTTCGG
1 CTC-GCACAAATGCCTTCGG
53032727 GACTTAGCTC
Statistics
Matches: 89, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
39 3 0.03
40 80 0.90
41 6 0.07
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CTCGCACAAATGCCTTCGGATCTTAGTCCAGATTTGGGAA
Found at i:53039543 original size:19 final size:20
Alignment explanation
Indices: 53039519--53039556 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
53039509 GGTACCACCA
53039519 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
53039538 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
53039557 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:53039944 original size:93 final size:92
Alignment explanation
Indices: 53039786--53039955 Score: 295
Period size: 93 Copynumber: 1.8 Consensus size: 92
53039776 GCCCCTAAGT
*
53039786 GAACTCGGACTCAACTCAACGAGCTCGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAAC
1 GAACTCGGACTCAACTCAACGAGCTCGGCATTCGCATCCATAAATGAACTCGGACTCAACTCAAC
53039851 GAGTTCGGATGCCTAGTTACATCTCAC
66 GAGTTCGGATGCCTAGTTACATCTCAC
* * *
53039878 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGG-CATTCGCATCCATAAATGAACTCGGACTCAACTCAA
53039943 CGAGTTCGGATGC
65 CGAGTTCGGATGC
53039956 TCAACCATCC
Statistics
Matches: 73, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
92 27 0.37
93 46 0.63
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCTCGGCATTCGCATCCATAAATGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATCTCAC
Found at i:53039945 original size:46 final size:46
Alignment explanation
Indices: 53039781--53039952 Score: 208
Period size: 45 Copynumber: 3.7 Consensus size: 46
53039771 AACCCGCCCC
* * *
53039781 TAAGTGAACTCGGACTCAACTCAACGAGCTCGG-CGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* * *
53039826 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
53039874 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
53039919 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
53039953 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 12, Indels: 15
0.80 0.09 0.11
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 33 0.31
46 29 0.27
47 29 0.27
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:53042415 original size:5 final size:5
Alignment explanation
Indices: 53042405--53042432 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
53042395 TTGTGTGTTC
53042405 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
53042433 TACAAATTGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:53044755 original size:40 final size:40
Alignment explanation
Indices: 53044710--53044789 Score: 151
Period size: 40 Copynumber: 2.0 Consensus size: 40
53044700 TACAGAGTCA
53044710 ACTCCTCAAGCCAGAAAAAAAGTTGAGAATAGAGTTGCTT
1 ACTCCTCAAGCCAGAAAAAAAGTTGAGAATAGAGTTGCTT
*
53044750 ACTCCTCAAGCCAGAACAAAAGTTGAGAATAGAGTTGCTT
1 ACTCCTCAAGCCAGAAAAAAAGTTGAGAATAGAGTTGCTT
53044790 CTTCACCACA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.39, C:0.19, G:0.20, T:0.23
Consensus pattern (40 bp):
ACTCCTCAAGCCAGAAAAAAAGTTGAGAATAGAGTTGCTT
Found at i:53048619 original size:21 final size:21
Alignment explanation
Indices: 53048593--53048632 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
53048583 CTTGTAGGCT
53048593 AATCCCACACGTCCATGTGGA
1 AATCCCACACGTCCATGTGGA
*
53048614 AATCCCACGCGTCCATGTG
1 AATCCCACACGTCCATGTG
53048633 TGATAGCTCC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.25, C:0.35, G:0.20, T:0.20
Consensus pattern (21 bp):
AATCCCACACGTCCATGTGGA
Found at i:53051252 original size:21 final size:19
Alignment explanation
Indices: 53051228--53051272 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 19
53051218 TTTAAAATTA
53051228 AATTTTTGAAAATATATTTTT
1 AATTTTTG-AAATAT-TTTTT
*
53051249 AATTTTTTGAATTATTTTTT
1 AA-TTTTTGAAATATTTTTT
53051269 AATT
1 AATT
53051273 AATTTTAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
19 2 0.09
20 7 0.32
21 7 0.32
22 6 0.27
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.62
Consensus pattern (19 bp):
AATTTTTGAAATATTTTTT
Found at i:53051267 original size:20 final size:22
Alignment explanation
Indices: 53051225--53051272 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
53051215 ATATTTAAAA
*
53051225 TTAAATTTTTGAAAATATATTT
1 TTAATTTTTTGAAAATATATTT
*
53051247 TTAATTTTTTG-AATTAT-TTT
1 TTAATTTTTTGAAAATATATTT
53051267 TTAATT
1 TTAATT
53051273 AATTTTAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 9 0.38
21 5 0.21
22 10 0.42
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.62
Consensus pattern (22 bp):
TTAATTTTTTGAAAATATATTT
Found at i:53051272 original size:11 final size:13
Alignment explanation
Indices: 53051247--53051278 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
53051237 AAATATATTT
53051247 TTAATTTTTTGAA
1 TTAATTTTTTGAA
53051260 TT-ATTTTTT-AA
1 TTAATTTTTTGAA
53051271 TTAATTTT
1 TTAATTTT
53051279 AAATAAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 4 0.22
12 12 0.67
13 2 0.11
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (13 bp):
TTAATTTTTTGAA
Found at i:53054376 original size:37 final size:37
Alignment explanation
Indices: 53054326--53054402 Score: 154
Period size: 37 Copynumber: 2.1 Consensus size: 37
53054316 CTTTGACAAA
53054326 TAAAATGTTCATGATTATGGGATTCCATAAGATGTTC
1 TAAAATGTTCATGATTATGGGATTCCATAAGATGTTC
53054363 TAAAATGTTCATGATTATGGGATTCCATAAGATGTTC
1 TAAAATGTTCATGATTATGGGATTCCATAAGATGTTC
53054400 TAA
1 TAA
53054403 CAGTGTATTG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.34, C:0.10, G:0.18, T:0.38
Consensus pattern (37 bp):
TAAAATGTTCATGATTATGGGATTCCATAAGATGTTC
Found at i:53057310 original size:49 final size:49
Alignment explanation
Indices: 53057257--53057475 Score: 177
Period size: 49 Copynumber: 4.6 Consensus size: 49
53057247 ACATCTAAGT
*
53057257 CGATGCCATGTCCCAGATAGGTCTTACACTAACTTACATACATCAAGGC
1 CGATGCCATGTCCCAGACAGGTCTTACACTAACTTACATACATCAAGGC
* * * ** * * *
53057306 CGATGCCATGCCCCAGAGAAGTCTTACACTGGCTCT-CACT-TATC-TGTGT
1 CGATGCCATGTCCCAGACAGGTCTTACACTAACT-TACA-TACATCAAG-GC
*
53057355 CGATGCCATGTCCCAGACAGGTCTTACACTAAC--AC--ACCTCAA-GC
1 CGATGCCATGTCCCAGACAGGTCTTACACTAACTTACATACATCAAGGC
* * * * ***
53057399 CGATGCCATGTCCCAGATATGTCTTACACTAACTTGCATATC-TTAATTT
1 CGATGCCATGTCCCAGACAGGTCTTACACTAACTTACATA-CATCAAGGC
*
53057448 CGATGCGATGTCCCAGACAGGTCTTACA
1 CGATGCCATGTCCCAGACAGGTCTTACA
53057476 ATGGCTCTCA
Statistics
Matches: 132, Mismatches: 26, Indels: 24
0.73 0.14 0.13
Matches are distributed among these distances:
44 32 0.24
45 2 0.02
46 1 0.01
47 1 0.01
48 5 0.04
49 89 0.67
50 2 0.02
ACGTcount: A:0.26, C:0.30, G:0.17, T:0.26
Consensus pattern (49 bp):
CGATGCCATGTCCCAGACAGGTCTTACACTAACTTACATACATCAAGGC
Found at i:53057369 original size:98 final size:91
Alignment explanation
Indices: 53057232--53057475 Score: 283
Period size: 93 Copynumber: 2.6 Consensus size: 91
53057222 CAAACATAGC
*
53057232 CTTACACTGGCTCTCACATCTAAGTCGATGCCATGTCCCAGATAGGTCTTACACTAACTTACATA
1 CTTACACTGGCTCTCACATCTAAGTCGATGCCATGTCCCAGACAGGTCTTACACTAAC--AC--A
53057297 CATCAAGGCCGATGCCATGCCCCAGAGAAGT
62 CATCAA-GCCGATGCCATGCCCCAGAGAAGT
** *
53057328 CTTACACTGGCTCTCACTTATCTGTGTCGATGCCATGTCCCAGACAGGTCTTACACTAACACACC
1 CTTACACTGGCTCTCAC--ATCTAAGTCGATGCCATGTCCCAGACAGGTCTTACACTAACACACA
* * *
53057393 TCAAGCCGATGCCATGTCCCAGATATGT
64 TCAAGCCGATGCCATGCCCCAGAGAAGT
** * * *
53057421 CTTACACTAACT-TGCATATCTTAATTTCGATGCGATGTCCCAGACAGGTCTTACA
1 CTTACACTGGCTCT-CACATC-TAA-GTCGATGCCATGTCCCAGACAGGTCTTACA
53057476 ATGGCTCTCA
Statistics
Matches: 129, Mismatches: 14, Indels: 13
0.83 0.09 0.08
Matches are distributed among these distances:
91 3 0.02
92 2 0.02
93 61 0.47
94 6 0.05
96 19 0.15
98 38 0.29
ACGTcount: A:0.26, C:0.30, G:0.17, T:0.27
Consensus pattern (91 bp):
CTTACACTGGCTCTCACATCTAAGTCGATGCCATGTCCCAGACAGGTCTTACACTAACACACATC
AAGCCGATGCCATGCCCCAGAGAAGT
Found at i:53057513 original size:142 final size:142
Alignment explanation
Indices: 53057257--53057532 Score: 401
Period size: 142 Copynumber: 1.9 Consensus size: 142
53057247 ACATCTAAGT
53057257 CGATGCCATGTCCCAGATAGGTCTTACACTAACTTACATACATCAAGGCCGATGCCATGCCCCAG
1 CGATGCCATGTCCCAGATAGGTCTTACACTAACTTACATACATCAAGGCCGATGCCATGCCCCAG
* * * *
53057322 AGAAGTCTTACACTGGCTCTCACTTATCTGTGTCGATGCCATGTCCCAGACAGGTCTTACACTAA
66 ACAAGTCTTACAATGGCTCTCACATATCTGTATCGATGCCATGTCCCAGACAGGTCTTACACTAA
53057387 CACACCTCAAGC
131 CACACCTCAAGC
* * * *** * *
53057399 CGATGCCATGTCCCAGATATGTCTTACACTAACTTGCATATC-TTAATTTCGATGCGATGTCCCA
1 CGATGCCATGTCCCAGATAGGTCTTACACTAACTTACATA-CATCAAGGCCGATGCCATGCCCCA
* * *
53057463 GACAGGTCTTACAATGGCTCTCACATATCTGTATCGATGCCATGTCCCAGACAGGTTTTACACTG
65 GACAAGTCTTACAATGGCTCTCACATATCTGTATCGATGCCATGTCCCAGACAGGTCTTACACTA
53057528 ACACA
130 ACACA
53057533 TGCATCACCC
Statistics
Matches: 118, Mismatches: 15, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
142 117 0.99
143 1 0.01
ACGTcount: A:0.26, C:0.29, G:0.17, T:0.27
Consensus pattern (142 bp):
CGATGCCATGTCCCAGATAGGTCTTACACTAACTTACATACATCAAGGCCGATGCCATGCCCCAG
ACAAGTCTTACAATGGCTCTCACATATCTGTATCGATGCCATGTCCCAGACAGGTCTTACACTAA
CACACCTCAAGC
Found at i:53058617 original size:14 final size:14
Alignment explanation
Indices: 53058581--53058619 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
53058571 AAGCTCCTAA
53058581 TCACTAAAATTAAT
1 TCACTAAAATTAAT
*
53058595 TCGCTAAAATTAAT
1 TCACTAAAATTAAT
*
53058609 TCACCAAAATT
1 TCACTAAAATT
53058620 TTCATGCATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.46, C:0.18, G:0.03, T:0.33
Consensus pattern (14 bp):
TCACTAAAATTAAT
Found at i:53065033 original size:49 final size:49
Alignment explanation
Indices: 53064932--53065248 Score: 196
Period size: 49 Copynumber: 6.6 Consensus size: 49
53064922 CGATGCTGAC
** * ** * *
53064932 GCCATGTTTCAAACATGGTCTTACACTGGCTCTCA--CATCTAAGTCGAT
1 GCCATGTCCCAAACA-GGTCTTACACTGACTCTCACTCATCTGGGCCAAT
*
53064980 GCCATGTCCCAAATAGGTCTTACACTGACT-T-ACATACATC-GAGGCCAAT
1 GCCATGTCCCAAACAGGTCTTACACTGACTCTCAC-T-CATCTG-GGCCAAT
* * * * *
53065029 GCCATGTCCCAGACAGGTCTTACACTGGCTCTCACTTATCTGTGCCGAT
1 GCCATGTCCCAAACAGGTCTTACACTGACTCTCACTCATCTGGGCCAAT
* * * *
53065078 GCCATGTCCCAAACAGGTCTTACACTAACACAC-CTCAAGCT--G---AT
1 GCCATGTCCCAAACAGGTCTTACACTGACTCTCACTC-ATCTGGGCCAAT
* * *
53065122 GCCATGTCTCAGACAGGTCTTACACT-AGCT-TGCA-T-ATCTTGAGGCCGAT
1 GCCATGTCCCAAACAGGTCTTACACTGA-CTCT-CACTCATC-TG-GGCCAAT
* * * * * * *
53065171 GCCATGTCCCAGACCGGTCTTACACTGGCTCTCACTTATCTGTGTCGAT
1 GCCATGTCCCAAACAGGTCTTACACTGACTCTCACTCATCTGGGCCAAT
*
53065220 GCCATGTCCCAGACAGGTCTTACACTGAC
1 GCCATGTCCCAAACAGGTCTTACACTGAC
53065249 ACACACATCA
Statistics
Matches: 213, Mismatches: 33, Indels: 45
0.73 0.11 0.15
Matches are distributed among these distances:
42 2 0.01
43 2 0.01
44 29 0.14
45 1 0.00
46 2 0.01
47 15 0.07
48 14 0.07
49 136 0.64
50 7 0.03
51 5 0.02
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.27
Consensus pattern (49 bp):
GCCATGTCCCAAACAGGTCTTACACTGACTCTCACTCATCTGGGCCAAT
Found at i:53065169 original size:93 final size:95
Alignment explanation
Indices: 53064948--53065245 Score: 270
Period size: 93 Copynumber: 3.1 Consensus size: 95
53064938 TTTCAAACAT
* ** * *
53064948 GGTCTTACACTGGCTCTCAC-ATCTAAGTCGATGCCATGTCCCAAATAGGTCTTACACTGACTTA
1 GGTCTTACACTAGCTCTCACTATCTGGGCCGATGCCATGTCCCAAACAGGTCTTACACTGA--TA
* *
53065012 CATACATCGAGGCCAATGCCATGTCCCAGACA
64 CACACATCGAAGCCAATGCCATGTCCCAGACA
* *
53065044 GGTCTTACACTGGCTCTCACTTATCTGTGCCGATGCCATGTCCCAAACAGGTCTTACACT-A-AC
1 GGTCTTACACTAGCTCTCAC-TATCTGGGCCGATGCCATGTCCCAAACAGGTCTTACACTGATAC
* ** *
53065107 ACACCTC-AAGCTGATGCCATGTCTCAGACA
65 ACACATCGAAGCCAATGCCATGTCCCAGACA
* * *
53065137 GGTCTTACACTAGCT-TGCA-TATCTTGAGGCCGATGCCATGTCCCAGACCGGTCTTACACTGGC
1 GGTCTTACACTAGCTCT-CACTATC-TG-GGCCGATGCCATGTCCCAAACAGGTCTTACACT-GA
* * * *
53065200 T-CTCACTTATCTG-TGTCGATGCCATGTCCCAGACA
62 TACACAC--ATC-GAAGCCAATGCCATGTCCCAGACA
53065235 GGTCTTACACT
1 GGTCTTACACT
53065246 GACACACACA
Statistics
Matches: 169, Mismatches: 21, Indels: 22
0.80 0.10 0.10
Matches are distributed among these distances:
91 4 0.02
92 3 0.02
93 65 0.38
94 7 0.04
95 4 0.02
96 20 0.12
97 3 0.02
98 63 0.37
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.27
Consensus pattern (95 bp):
GGTCTTACACTAGCTCTCACTATCTGGGCCGATGCCATGTCCCAAACAGGTCTTACACTGATACA
CACATCGAAGCCAATGCCATGTCCCAGACA
Found at i:53065236 original size:142 final size:142
Alignment explanation
Indices: 53064977--53065252 Score: 430
Period size: 142 Copynumber: 1.9 Consensus size: 142
53064967 CATCTAAGTC
*
53064977 GATGCCATGTCCCAAATAGGTCTTACACTGACTTACATACATCGAGGCCAATGCCATGTCCCAGA
1 GATGCCATGTCCCAAACAGGTCTTACACTGACTTACATACATCGAGGCCAATGCCATGTCCCAGA
53065042 CAGGTCTTACACTGGCTCTCACTTATCTGTGCCGATGCCATGTCCCAAACAGGTCTTACACTAAC
66 CAGGTCTTACACTGGCTCTCACTTATCTGTGCCGATGCCATGTCCCAAACAGGTCTTACACTAAC
53065107 ACACCTCAAGCT
131 ACACCTCAAGCT
* * * * *
53065119 GATGCCATGTCTCAGACAGGTCTTACACT-AGCTTGCATATC-TTGAGGCCGATGCCATGTCCCA
1 GATGCCATGTCCCAAACAGGTCTTACACTGA-CTTACATA-CATCGAGGCCAATGCCATGTCCCA
* * * *
53065182 GACCGGTCTTACACTGGCTCTCACTTATCTGTGTCGATGCCATGTCCCAGACAGGTCTTACACTG
64 GACAGGTCTTACACTGGCTCTCACTTATCTGTGCCGATGCCATGTCCCAAACAGGTCTTACACTA
53065247 ACACAC
129 ACACAC
53065253 ACATCACCCA
Statistics
Matches: 122, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
141 1 0.01
142 120 0.98
143 1 0.01
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.26
Consensus pattern (142 bp):
GATGCCATGTCCCAAACAGGTCTTACACTGACTTACATACATCGAGGCCAATGCCATGTCCCAGA
CAGGTCTTACACTGGCTCTCACTTATCTGTGCCGATGCCATGTCCCAAACAGGTCTTACACTAAC
ACACCTCAAGCT
Found at i:53068067 original size:151 final size:151
Alignment explanation
Indices: 53067793--53068097 Score: 583
Period size: 151 Copynumber: 2.0 Consensus size: 151
53067783 CTTCTTACAA
53067793 TAGTGAAACCTTTTGTCTCGCTTCTTTGGTGCTACCAAAACAAAAGCTTACTTTCTGCCTTACTA
1 TAGTGAAACCTTTTGTCTCGCTTCTTTGGTGCTACCAAAACAAAAGCTTACTTTCTGCCTTACTA
53067858 TCCAAACCAAACTCATTGTCGAGTTTGTCTCTACTCAACAAATGACCCTTCATATCTTTGAATGA
66 TCCAAACCAAACTCATTGTCGAGTTTGTCTCTACTCAACAAATGACCCTTCATATCTTTGAATGA
53067923 GAGTTTATCTTTGCCATAAAT
131 GAGTTTATCTTTGCCATAAAT
* *
53067944 TAGTGAAACCTTTTGTCTCGCTTTTTTGGTGCTACCAAAACAAAAGCTTGCTTTCTGCCTTACTA
1 TAGTGAAACCTTTTGTCTCGCTTCTTTGGTGCTACCAAAACAAAAGCTTACTTTCTGCCTTACTA
*
53068009 TCCAAACCAAACTCATTGTCGAGTTTGTCTCTACTCAGCAAATGACCCTTCATATCTTTGAATGA
66 TCCAAACCAAACTCATTGTCGAGTTTGTCTCTACTCAACAAATGACCCTTCATATCTTTGAATGA
53068074 GAGTTTATCTTTGCCATAAAT
131 GAGTTTATCTTTGCCATAAAT
53068095 TAG
1 TAG
53068098 GGTCTCCTTG
Statistics
Matches: 151, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
151 151 1.00
ACGTcount: A:0.27, C:0.23, G:0.13, T:0.36
Consensus pattern (151 bp):
TAGTGAAACCTTTTGTCTCGCTTCTTTGGTGCTACCAAAACAAAAGCTTACTTTCTGCCTTACTA
TCCAAACCAAACTCATTGTCGAGTTTGTCTCTACTCAACAAATGACCCTTCATATCTTTGAATGA
GAGTTTATCTTTGCCATAAAT
Found at i:53080360 original size:19 final size:20
Alignment explanation
Indices: 53080319--53080361 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 20
53080309 TTTACTAAAG
* *
53080319 TTTGTAAAATAGATGGTACT
1 TTTGTAAAATAGATGGAAAT
*
53080339 TTTGTGAAATA-ATGGAAAT
1 TTTGTAAAATAGATGGAAAT
53080358 TTTG
1 TTTG
53080362 GGTTGCTATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.35, C:0.02, G:0.21, T:0.42
Consensus pattern (20 bp):
TTTGTAAAATAGATGGAAAT
Found at i:53080923 original size:48 final size:48
Alignment explanation
Indices: 53080866--53080970 Score: 165
Period size: 48 Copynumber: 2.2 Consensus size: 48
53080856 ATGAGAACTT
*
53080866 GTGTAAGACATGTCTAGGACATGCATAAGCCTTGAGATATACAAGCCA
1 GTGTAAGACATGTCTAGGACATGCATAAGCCTCGAGATATACAAGCCA
* ** *
53080914 GTGTAAGACATGTCTGGGACATGCATTGGCCTCGAGATATACAAGCTA
1 GTGTAAGACATGTCTAGGACATGCATAAGCCTCGAGATATACAAGCCA
53080962 GTGTAAGAC
1 GTGTAAGAC
53080971 CTATCTGAGA
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 52 1.00
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.24
Consensus pattern (48 bp):
GTGTAAGACATGTCTAGGACATGCATAAGCCTCGAGATATACAAGCCA
Found at i:53080983 original size:48 final size:48
Alignment explanation
Indices: 53080866--53080983 Score: 157
Period size: 48 Copynumber: 2.5 Consensus size: 48
53080856 ATGAGAACTT
*
53080866 GTGTAAGACATGTCT-AGGACATGCATAAGCCTTGAGATATACAAGCCA
1 GTGTAAGACATGTCTGA-GACATGCATAAGCCTCGAGATATACAAGCCA
* ** *
53080914 GTGTAAGACATGTCTGGGACATGCATTGGCCTCGAGATATACAAGCTA
1 GTGTAAGACATGTCTGAGACATGCATAAGCCTCGAGATATACAAGCCA
* *
53080962 GTGTAAGACCTATCTGAGACAT
1 GTGTAAGACATGTCTGAGACAT
53080984 AGCGTCAGCT
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
48 61 1.00
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.25
Consensus pattern (48 bp):
GTGTAAGACATGTCTGAGACATGCATAAGCCTCGAGATATACAAGCCA
Found at i:53081062 original size:49 final size:49
Alignment explanation
Indices: 53081004--53081175 Score: 145
Period size: 49 Copynumber: 3.6 Consensus size: 49
53080994 TGTTATGTGT
* *
53081004 CAGTGTAAGACTTGTCTGGGACATGGCGTCGACAC-CGATAGATGAGAAC
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGAC-CTCGATAGATGAGAAC
* *** * **
53081053 CAGTGTAAGACCTGTTTGGGACACATCATCGACCTCGATATATGAGAGT
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAGAAC
* * * * * ** *
53081102 CAGTGTAAGACCTGCCTAGGACATGGCATCAACTTTGAT-G-TGCTAGC
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAGAAC
53081149 CAGTGTAAGACCATGTCTGGGA-ATGGC
1 CAGTGTAAGACC-TGTCTGGGACATGGC
53081176 GTCAGCATCT
Statistics
Matches: 97, Mismatches: 24, Indels: 6
0.76 0.19 0.05
Matches are distributed among these distances:
47 21 0.22
48 8 0.08
49 68 0.70
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.24
Consensus pattern (49 bp):
CAGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAGAAC
Found at i:53099432 original size:48 final size:48
Alignment explanation
Indices: 53099378--53099824 Score: 768
Period size: 48 Copynumber: 9.3 Consensus size: 48
53099368 TGTACAAGAT
* * *
53099378 AAATATATAAGAGATAAGTATATGTGGTAAAGCCGAATGGCTAGTGTG
1 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTG
*
53099426 AAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTG
1 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTG
*
53099474 AAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTG
1 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTG
* *
53099522 AAATATGTATGAGATATGTATATTTGGTAAAGCCGAATGGCTAATGTG
1 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTG
*
53099570 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
1 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTG
* *
53099618 AAATATGTATGAGATATGTATATGTGGTAAAGCCAAATGGCTAATGTG
1 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTG
*
53099666 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
1 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTG
53099714 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTG
1 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTG
* *
53099762 AAATATATATGAGATATGTATATGTGGTAAAGCCAAATGGCTAGTGTG
1 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTG
*
53099810 AAATATGTAGGAGAT
1 AAATATGTATGAGAT
53099825 GTGTGTATAT
Statistics
Matches: 386, Mismatches: 13, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
48 386 1.00
ACGTcount: A:0.36, C:0.06, G:0.27, T:0.31
Consensus pattern (48 bp):
AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTG
Found at i:53100015 original size:37 final size:37
Alignment explanation
Indices: 53099965--53100067 Score: 170
Period size: 37 Copynumber: 2.8 Consensus size: 37
53099955 GGAAATATAT
53099965 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
53100002 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * *
53100039 TTCGGGTAAAACCCGATAACTACGTGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
53100068 GGACTATTCG
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 62 1.00
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:53104088 original size:81 final size:81
Alignment explanation
Indices: 53103953--53104216 Score: 404
Period size: 81 Copynumber: 3.3 Consensus size: 81
53103943 CCATTAATCA
* * * *
53103953 GTAAAATGACTATTTTTCCCTTATGAGGTAAAATAACTGTTCTGCCCTTATGAGGTAAAATAATT
1 GTAAAATGACTATTTTGCCCTTATGAGGTAAAATGACTGTTCTGCCCTTATGAGGTAAAATGACT
*
53104018 GTTTTGCCCTTACGTG
66 ATTTTGCCCTTACGTG
*
53104034 GTAAAATGACTATTTTGCCCTTATGAGGTAAAATGACTGTTCTACCCTTATGAGGTAAAATGACT
1 GTAAAATGACTATTTTGCCCTTATGAGGTAAAATGACTGTTCTGCCCTTATGAGGTAAAATGACT
53104099 ATTTTGCCCTTACGTG
66 ATTTTGCCCTTACGTG
* * * *
53104115 GTAAAATGACTGTTTTG-CCTTATGATGTAAAATGACTGTTTTGCCCTTTTGAGGTAAAATGACT
1 GTAAAATGACTATTTTGCCCTTATGAGGTAAAATGACTGTTCTGCCCTTATGAGGTAAAATGACT
**
53104179 ATTTTGCCCTTATATG
66 ATTTTGCCCTTACGTG
*
53104195 GTAAAATGACTGTTTTGCCCTT
1 GTAAAATGACTATTTTGCCCTT
53104217 TTATGATAAG
Statistics
Matches: 169, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
80 74 0.44
81 95 0.56
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.39
Consensus pattern (81 bp):
GTAAAATGACTATTTTGCCCTTATGAGGTAAAATGACTGTTCTGCCCTTATGAGGTAAAATGACT
ATTTTGCCCTTACGTG
Found at i:53104221 original size:27 final size:27
Alignment explanation
Indices: 53103953--53104216 Score: 352
Period size: 27 Copynumber: 9.8 Consensus size: 27
53103943 CCATTAATCA
* *
53103953 GTAAAATGACTATTTTTCCCTTATGAG
1 GTAAAATGACTGTTTTGCCCTTATGAG
* *
53103980 GTAAAATAACTGTTCTGCCCTTATGAG
1 GTAAAATGACTGTTTTGCCCTTATGAG
* * * *
53104007 GTAAAATAATTGTTTTGCCCTTACGTG
1 GTAAAATGACTGTTTTGCCCTTATGAG
*
53104034 GTAAAATGACTATTTTGCCCTTATGAG
1 GTAAAATGACTGTTTTGCCCTTATGAG
* *
53104061 GTAAAATGACTGTTCTACCCTTATGAG
1 GTAAAATGACTGTTTTGCCCTTATGAG
* * *
53104088 GTAAAATGACTATTTTGCCCTTACGTG
1 GTAAAATGACTGTTTTGCCCTTATGAG
*
53104115 GTAAAATGACTGTTTTG-CCTTATGAT
1 GTAAAATGACTGTTTTGCCCTTATGAG
*
53104141 GTAAAATGACTGTTTTGCCCTTTTGAG
1 GTAAAATGACTGTTTTGCCCTTATGAG
*
53104168 GTAAAATGACTATTTTGCCCTTAT-ATG
1 GTAAAATGACTGTTTTGCCCTTATGA-G
53104195 GTAAAATGACTGTTTTGCCCTT
1 GTAAAATGACTGTTTTGCCCTT
53104217 TTATGATAAG
Statistics
Matches: 205, Mismatches: 30, Indels: 4
0.86 0.13 0.02
Matches are distributed among these distances:
26 24 0.12
27 181 0.88
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.39
Consensus pattern (27 bp):
GTAAAATGACTGTTTTGCCCTTATGAG
Found at i:53106326 original size:19 final size:20
Alignment explanation
Indices: 53106285--53106327 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 20
53106275 TTTTGTAAAG
* *
53106285 TTTGTAAAATAAATGGTATT
1 TTTGTAAAATAAATGGAAAT
*
53106305 TTTGTGAAAT-AATGGAAAT
1 TTTGTAAAATAAATGGAAAT
53106324 TTTG
1 TTTG
53106328 GGTTGCTATC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 11 0.55
20 9 0.45
ACGTcount: A:0.37, C:0.00, G:0.19, T:0.44
Consensus pattern (20 bp):
TTTGTAAAATAAATGGAAAT
Found at i:53113438 original size:154 final size:154
Alignment explanation
Indices: 53113152--53113458 Score: 479
Period size: 154 Copynumber: 2.0 Consensus size: 154
53113142 GGGTCACACG
* * * *
53113152 GCCGAAACACGCGTCCGTGTCTTAGGCCATGTAACAATCGAAATAGGGACACACGACCATGTCCC
1 GCCGAAACACACGCCCGTGTCTCAGGCCATGTAACAATCGAAATAGGGACACACGACCATGACCC
* * * * *
53113217 AGCCCGTGTCTATGCCCGTGTAACTCTCTGAGTTGGGTTACACGGCCAAGCCATACACCTGTATG
66 AGCCCGTGTCCATGACCGTGTAACTCTCTGAGTTGGGTCACACGGCCAAGCCACACACCCGTATG
53113282 CTAGGCCGTGTAACACTCGAAATA
131 CTAGGCCGTGTAACACTCGAAATA
* * * *
53113306 GCCGAAACACATGCCCGTGTCTCAGGCCATGTAACAATTGAAATAGGGACACATGACCCTGACCC
1 GCCGAAACACACGCCCGTGTCTCAGGCCATGTAACAATCGAAATAGGGACACACGACCATGACCC
* *
53113371 AGCCCGTGTCCGTGACCGTGTAACTCTCTGAGTTGGGTCACACGGCCAAGCCACACACCCGTGTG
66 AGCCCGTGTCCATGACCGTGTAACTCTCTGAGTTGGGTCACACGGCCAAGCCACACACCCGTATG
53113436 CTAGGCCGTGTAACACTCGAAAT
131 CTAGGCCGTGTAACACTCGAAAT
53113459 GGCCTTACAT
Statistics
Matches: 138, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
154 138 1.00
ACGTcount: A:0.26, C:0.30, G:0.24, T:0.20
Consensus pattern (154 bp):
GCCGAAACACACGCCCGTGTCTCAGGCCATGTAACAATCGAAATAGGGACACACGACCATGACCC
AGCCCGTGTCCATGACCGTGTAACTCTCTGAGTTGGGTCACACGGCCAAGCCACACACCCGTATG
CTAGGCCGTGTAACACTCGAAATA
Found at i:53114838 original size:45 final size:46
Alignment explanation
Indices: 53114740--53114921 Score: 285
Period size: 46 Copynumber: 4.0 Consensus size: 46
53114730 TATATATACA
* * * *
53114740 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
* *
53114786 CATCTCATACACGTTTCGCATTAGCCATTCGGC-TTACCTCATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
* *
53114831 CATCTCATACACGTTTCGCATTAGCCATTCGGCTTTACCTCATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
53114877 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATAT
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATAT
53114922 ATACACTTCC
Statistics
Matches: 127, Mismatches: 8, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
45 44 0.35
46 83 0.65
ACGTcount: A:0.25, C:0.32, G:0.09, T:0.34
Consensus pattern (46 bp):
CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
Found at i:53114867 original size:91 final size:92
Alignment explanation
Indices: 53114740--53114921 Score: 285
Period size: 91 Copynumber: 2.0 Consensus size: 92
53114730 TATATATACA
* * *
53114740 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATCCATCTCATACACGTTTCGC
1 CATCTCATACACATCTCACATTAGCCATTCGGCTTTACCACATATCCATCTCATACACATTTCGC
*
53114805 ATTAGCCATTCGGC-TTACCTCATATC
66 ATTAGCCATTCGGCTTTACCACATATC
* * * *
53114831 CATCTCATACACGTTTCGCATTAGCCATTCGGCTTTACCTCATATCCATCTCATACACATTTCGC
1 CATCTCATACACATCTCACATTAGCCATTCGGCTTTACCACATATCCATCTCATACACATTTCGC
53114896 ATTAGCCATTCGGCTTTACCACATAT
66 ATTAGCCATTCGGCTTTACCACATAT
53114922 ATACACTTCC
Statistics
Matches: 82, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
91 72 0.88
92 10 0.12
ACGTcount: A:0.25, C:0.32, G:0.09, T:0.34
Consensus pattern (92 bp):
CATCTCATACACATCTCACATTAGCCATTCGGCTTTACCACATATCCATCTCATACACATTTCGC
ATTAGCCATTCGGCTTTACCACATATC
Found at i:53114966 original size:47 final size:47
Alignment explanation
Indices: 53114895--53115318 Score: 629
Period size: 47 Copynumber: 9.1 Consensus size: 47
53114885 ACACATTTCG
* * * * * *
53114895 CATTAGCCATTCGGCTTTACCACATATATACACT-TCCACGTTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCA-TGTTCACATTCATCA
*
53114942 CATTGGCCATTCTGCCTTATCACATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
*
53114989 CATTGGCCATTC-GCCTTATCACATATATGCATATTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
*
53115035 CATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* **
53115082 CATTGGCCATTCGGCCTTATCACACATATATATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
*
53115129 CATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
53115176 CATTGGCCATTCGGCCTTATCACA-ATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
** *
53115222 CATTTTCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* * * **
53115269 CATTTGCCATTCGGCCTTATCTCATATATACACATTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
53115316 CAT
1 CAT
53115319 AAAATCCTAA
Statistics
Matches: 353, Mismatches: 21, Indels: 6
0.93 0.06 0.02
Matches are distributed among these distances:
46 89 0.25
47 264 0.75
ACGTcount: A:0.26, C:0.29, G:0.10, T:0.34
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
Found at i:53115046 original size:140 final size:140
Alignment explanation
Indices: 53114895--53115318 Score: 636
Period size: 140 Copynumber: 3.0 Consensus size: 140
53114885 ACACATTTCG
* * * * * * *
53114895 CATTAGCCATTCGGCTTTACCACATATATACACT-TCCACGTTCATCACATTGGCCATTCTGCCT
1 CATTGGCCATTCGGCCTTATCACA-ATATGCA-TGTTCACATTCATCACATTGGCCATTCGGCCT
53114959 TATCACATATATGCATGTTCACATTCATCACATTGGCCATTC-GCCTTATCACATATATGCATAT
64 TATCACATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATGCATAT
53115023 TCACATTCATCA
129 TCACATTCATCA
53115035 CATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
1 CATTGGCCATTCGGCCTTATCACA-ATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
* ** * *
53115100 ATCACACATATATATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTT
65 ATCACATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATGCATATT
53115165 CACATTCATCA
130 CACATTCATCA
**
53115176 CATTGGCCATTCGGCCTTATCACAATATGCATGTTCACATTCATCACATTTTCCATTCGGCCTTA
1 CATTGGCCATTCGGCCTTATCACAATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTA
* * * * *
53115241 TCTCATATATGCATGTTCACATTCATCACATTTGCCATTCGGCCTTATCTCATATATACACATTC
66 TCACATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATGCATATTC
53115306 ACATTCATCA
131 ACATTCATCA
53115316 CAT
1 CAT
53115319 AAAATCCTAA
Statistics
Matches: 257, Mismatches: 25, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
139 1 0.00
140 200 0.78
141 56 0.22
ACGTcount: A:0.26, C:0.29, G:0.10, T:0.34
Consensus pattern (140 bp):
CATTGGCCATTCGGCCTTATCACAATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTA
TCACATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATGCATATTC
ACATTCATCA
Found at i:53115093 original size:187 final size:186
Alignment explanation
Indices: 53114895--53115318 Score: 654
Period size: 187 Copynumber: 2.3 Consensus size: 186
53114885 ACACATTTCG
* * *
53114895 CATTAGCCATTCGGCTTTACCACATATATACACTTCCACGTTCATCACATTGGCCATTCTGCCTT
1 CATTAGCCATTCGGCCTTACCACATATATACACTT-CACATTCATCACATTGGCCATTCGGCCTT
*
53114960 ATCACATATATGCATGTTCACATTCATCACATTGGCCATTC-GCCTTATCACATATATGCATATT
65 ATCACACATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACA-ATATGCATATT
53115024 CACATTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCA
129 CACATTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCA
* **
53115082 CATTGGCCATTCGGCCTTATCACACATATATA-TGTTCACATTCATCACATTGGCCATTCGGCCT
1 CATTAGCCATTCGGCCTTA-C-CACATATATACACTTCACATTCATCACATTGGCCATTCGGCCT
*
53115146 TATCACACATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAATATGCATGTT
64 TATCACACATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAATATGCATATT
** * *
53115211 CACATTCATCACATTTTCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
129 CACATTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCA
* * *
53115269 CATTTGCCATTCGGCCTTATCTCATATATACACATTCACATTCATCACAT
1 CATTAGCCATTCGGCCTTACCACATATATACAC-TTCACATTCATCACAT
53115319 AAAATCCTAA
Statistics
Matches: 215, Mismatches: 17, Indels: 10
0.89 0.07 0.04
Matches are distributed among these distances:
185 9 0.04
187 182 0.85
188 14 0.07
189 10 0.05
ACGTcount: A:0.26, C:0.29, G:0.10, T:0.34
Consensus pattern (186 bp):
CATTAGCCATTCGGCCTTACCACATATATACACTTCACATTCATCACATTGGCCATTCGGCCTTA
TCACACATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAATATGCATATTCA
CATTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCA
Found at i:53115105 original size:22 final size:21
Alignment explanation
Indices: 53114938--53115058 Score: 73
Period size: 22 Copynumber: 5.3 Consensus size: 21
53114928 TTCCACGTTC
53114938 ATCACATTGGCCATTCTGCCTT
1 ATCACATTGGCCATTC-GCCTT
* * *
53114960 ATCACATATATG-CATGTTCACATT
1 ATCACAT-T-GGCCA--TTCGCCTT
53114984 CATCACATTGGCCATTCGCCTT
1 -ATCACATTGGCCATTCGCCTT
* * * *
53115006 ATCACATATATGCATATTCACATT
1 ATCACAT-T-GGC-CATTCGCCTT
53115030 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTC-GCCTT
53115053 ATCACA
1 ATCACA
53115059 CATATGCATG
Statistics
Matches: 74, Mismatches: 14, Indels: 22
0.67 0.13 0.20
Matches are distributed among these distances:
21 7 0.09
22 24 0.32
23 11 0.15
24 15 0.20
25 17 0.23
ACGTcount: A:0.26, C:0.29, G:0.11, T:0.34
Consensus pattern (21 bp):
ATCACATTGGCCATTCGCCTT
Found at i:53115152 original size:22 final size:22
Alignment explanation
Indices: 53115125--53115199 Score: 57
Period size: 22 Copynumber: 3.3 Consensus size: 22
53115115 GTTCACATTC
53115125 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* *
53115147 ATCACACATAT-G-CATGTTC-ACATT
1 AT--CACAT-TGGCCA--TTCGGCCTT
53115171 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
53115194 ATCACA
1 ATCACA
53115200 ATATGCATGT
Statistics
Matches: 40, Mismatches: 4, Indels: 18
0.65 0.06 0.29
Matches are distributed among these distances:
22 12 0.30
23 11 0.28
24 11 0.28
25 6 0.15
ACGTcount: A:0.25, C:0.31, G:0.13, T:0.31
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:53119187 original size:57 final size:57
Alignment explanation
Indices: 53119101--53119235 Score: 184
Period size: 57 Copynumber: 2.4 Consensus size: 57
53119091 CATGAAACAC
* *
53119101 ACTTCGCATACACAGTGCC-C-ACTGACTGATTTCGCACACATAGCGCTCGATTGAAGA
1 ACTT-GCACACACAGTGCCTCAACT-ACTGATCTCGCACACATAGCGCTCGATTGAAGA
* * * *
53119158 ACTTGCACACATAGTGCCTCAACTACTGATCTGGCACACATAGTGCTCGATTGGAGA
1 ACTTGCACACACAGTGCCTCAACTACTGATCTCGCACACATAGCGCTCGATTGAAGA
53119215 ACTTGCACACACAGTGCCTCA
1 ACTTGCACACACAGTGCCTCA
53119236 TAATTCCAGC
Statistics
Matches: 69, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
56 12 0.17
57 54 0.78
58 3 0.04
ACGTcount: A:0.28, C:0.30, G:0.19, T:0.23
Consensus pattern (57 bp):
ACTTGCACACACAGTGCCTCAACTACTGATCTCGCACACATAGCGCTCGATTGAAGA
Found at i:53119231 original size:28 final size:28
Alignment explanation
Indices: 53119134--53119231 Score: 99
Period size: 28 Copynumber: 3.5 Consensus size: 28
53119124 GACTGATTTC
*
53119134 GCACACATAGCGCTCGATTGAAGAACTT
1 GCACACATAGTGCTCGATTGAAGAACTT
* * * * *
53119162 GCACACATAGTGCCTCAACT-ACTGATCTG
1 GCACACATAGTG-CTCGATTGA-AGAACTT
*
53119191 GCACACATAGTGCTCGATTGGAGAACTT
1 GCACACATAGTGCTCGATTGAAGAACTT
*
53119219 GCACACACAGTGC
1 GCACACATAGTGC
53119232 CTCATAATTC
Statistics
Matches: 54, Mismatches: 13, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
28 33 0.61
29 21 0.39
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.21
Consensus pattern (28 bp):
GCACACATAGTGCTCGATTGAAGAACTT
Found at i:53119307 original size:40 final size:40
Alignment explanation
Indices: 53119263--53119755 Score: 828
Period size: 40 Copynumber: 12.4 Consensus size: 40
53119253 CCTTCGAGGT
*
53119263 TTAGCCCGGATATATCACTAGCACAAATGCTCTTCGGAAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAAC
*
53119303 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGAAAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAAC
* *
53119343 TTAGCCTGGATATATCACTAGCACGAATGCTCTTCGGGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAAC
* *
53119383 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAAC
* *
53119423 TTAGCCCGGATGTATTACTAGCACGAATGCTCTTCGG-AC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAAC
*
53119462 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAAC
*
53119502 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAAC
* *
53119542 TTAGCCCGGATACATCACTAGCACAAATGCTCTTCGGAAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAAC
53119582 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGG-AC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAAC
53119621 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAAC
* * *
53119661 TTAGCCCAGATATATCACTAGCACGAATGCTCTTCGGGAG
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAAC
*
53119701 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAAC
53119741 TTAGCCCGGATATAT
1 TTAGCCCGGATATAT
53119756 ATAACTCTCA
Statistics
Matches: 430, Mismatches: 21, Indels: 4
0.95 0.05 0.01
Matches are distributed among these distances:
39 75 0.17
40 355 0.83
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (40 bp):
TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAAC
Found at i:53119537 original size:159 final size:159
Alignment explanation
Indices: 53119263--53119755 Score: 860
Period size: 159 Copynumber: 3.1 Consensus size: 159
53119253 CCTTCGAGGT
*
53119263 TTAGCCCGGATATATCACTAGCACAAATGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACG
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGG-ACTTAGCCCGGATATATCACTAGCACG
* *
53119328 AATGCTCTTCGAAACTTAGCCTGGATATATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGA
65 AATGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGA
53119393 TACATCACTAGCACGAATGCTCTTCGGGAC
130 TACATCACTAGCACGAATGCTCTTCGGGAC
* * *
53119423 TTAGCCCGGATGTATTACTAGCACGAATGCTCTTCGGACTTAGCCCGGATACATCACTAGCACGA
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGACTTAGCCCGGATATATCACTAGCACGA
* *
53119488 ATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGAT
66 ATGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGAT
* *
53119553 ACATCACTAGCACAAATGCTCTTCGGAAC
131 ACATCACTAGCACGAATGCTCTTCGGGAC
53119582 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGACTTAGCCCGGATATATCACTAGCACGA
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGACTTAGCCCGGATATATCACTAGCACGA
* *
53119647 ATGCTCTTCGGAACTTAGCCCAGATATATCACTAGCACGAATGCTCTTCGGGAGTTAGCCCGGAT
66 ATGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGAT
*
53119712 ATATCACTAGCACGAATGCTCTTCGGGAC
131 ACATCACTAGCACGAATGCTCTTCGGGAC
53119741 TTAGCCCGGATATAT
1 TTAGCCCGGATATAT
53119756 ATAACTCTCA
Statistics
Matches: 313, Mismatches: 20, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
159 279 0.89
160 34 0.11
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (159 bp):
TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGACTTAGCCCGGATATATCACTAGCACGA
ATGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGAT
ACATCACTAGCACGAATGCTCTTCGGGAC
Found at i:53121292 original size:46 final size:46
Alignment explanation
Indices: 53121224--53121406 Score: 258
Period size: 46 Copynumber: 4.0 Consensus size: 46
53121214 TATATATACA
** * * *
53121224 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACGTTTCGCATTAGCCATTCGGCTTTACCACATATC
* * *
53121270 TATCTCATACACGTTTCGCATTAGCCATTCGGCTCTACCTCATATC
1 CATCTCATACACGTTTCGCATTAGCCATTCGGCTTTACCACATATC
* *
53121316 CATCTTATACACGTTTCGCATTAGCCATTCGGCTTTACCTCATATC
1 CATCTCATACACGTTTCGCATTAGCCATTCGGCTTTACCACATATC
* *
53121362 CATCTCAGACACATTTCGCATTAGCCATTCGGCTTTACCACATAT
1 CATCTCATACACGTTTCGCATTAGCCATTCGGCTTTACCACATAT
53121407 ATACACTTCC
Statistics
Matches: 122, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 122 1.00
ACGTcount: A:0.25, C:0.31, G:0.10, T:0.34
Consensus pattern (46 bp):
CATCTCATACACGTTTCGCATTAGCCATTCGGCTTTACCACATATC
Found at i:53121451 original size:47 final size:47
Alignment explanation
Indices: 53121380--53121570 Score: 276
Period size: 47 Copynumber: 4.1 Consensus size: 47
53121370 ACACATTTCG
* * * * * *
53121380 CATTAGCCATTCGGCTTTACCACATATATACACT-TCCACGTTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCA-TATTCACATTCATCA
* *
53121427 CATTGGCCATTCTGCCTTATCACATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATATTCACATTCATCA
53121474 CATTGGCCATTCGGCCTTATCACATATATGCATATTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATATTCACATTCATCA
* *
53121521 CATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATATTCACATTCATCA
53121568 CAT
1 CAT
53121571 CTATCATTTT
Statistics
Matches: 132, Mismatches: 11, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
46 1 0.01
47 131 0.99
ACGTcount: A:0.27, C:0.29, G:0.10, T:0.34
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACATATATGCATATTCACATTCATCA
Found at i:53121498 original size:22 final size:22
Alignment explanation
Indices: 53121470--53121544 Score: 71
Period size: 22 Copynumber: 3.3 Consensus size: 22
53121460 GTTCACATTC
53121470 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * * *
53121492 ATCACATATATGCATATTC-ACATT
1 ATCACAT-T-GGC-CATTCGGCCTT
53121516 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
53121539 ATCACA
1 ATCACA
53121545 CATATGCATG
Statistics
Matches: 40, Mismatches: 8, Indels: 10
0.69 0.14 0.17
Matches are distributed among these distances:
22 17 0.43
23 6 0.15
24 6 0.15
25 11 0.28
ACGTcount: A:0.27, C:0.29, G:0.12, T:0.32
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:53121520 original size:25 final size:25
Alignment explanation
Indices: 53121445--53121570 Score: 79
Period size: 25 Copynumber: 5.3 Consensus size: 25
53121435 ATTCTGCCTT
*
53121445 ATCACATATATGCATGTTCACATTC
1 ATCACATATATGCATATTCACATTC
* * * *
53121470 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATGCATATTC-ACATTC
53121492 ATCACATATATGCATATTCACATTC
1 ATCACATATATGCATATTCACATTC
* * * *
53121517 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATGCATATTC-ACATTC
* *
53121539 ATCACACATATGCATGTTCACATTC
1 ATCACATATATGCATATTCACATTC
53121564 ATCACAT
1 ATCACAT
53121571 CTATCATTTT
Statistics
Matches: 71, Mismatches: 20, Indels: 20
0.64 0.18 0.18
Matches are distributed among these distances:
22 20 0.28
23 12 0.17
24 12 0.17
25 27 0.38
ACGTcount: A:0.29, C:0.28, G:0.10, T:0.33
Consensus pattern (25 bp):
ATCACATATATGCATATTCACATTC
Found at i:53128985 original size:28 final size:28
Alignment explanation
Indices: 53128942--53129001 Score: 86
Period size: 28 Copynumber: 2.1 Consensus size: 28
53128932 CTAGACAACT
53128942 CACTAAGGGACAAAGGAG-CCAACCTGTC
1 CACTAAGGGACAAAGGAGCCCAACC-GTC
**
53128970 CACTAAGGGAGGAAGGAGCCCAACCGTC
1 CACTAAGGGACAAAGGAGCCCAACCGTC
53128998 CACT
1 CACT
53129002 TGAAGTGTCC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 23 0.79
29 6 0.21
ACGTcount: A:0.33, C:0.30, G:0.27, T:0.10
Consensus pattern (28 bp):
CACTAAGGGACAAAGGAGCCCAACCGTC
Found at i:53129478 original size:14 final size:14
Alignment explanation
Indices: 53129459--53129488 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
53129449 TCATTGTTTT
53129459 TAATCTAGTTTAAC
1 TAATCTAGTTTAAC
*
53129473 TAATCTATTTTAAC
1 TAATCTAGTTTAAC
53129487 TA
1 TA
53129489 CGAACGCAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.37, C:0.13, G:0.03, T:0.47
Consensus pattern (14 bp):
TAATCTAGTTTAAC
Found at i:53130863 original size:18 final size:18
Alignment explanation
Indices: 53130842--53130881 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
53130832 TATTTTTCCC
*
53130842 TAAAATGAATTTCAAAAA
1 TAAAATCAATTTCAAAAA
*
53130860 TAAAATCAATTTTAAAAA
1 TAAAATCAATTTCAAAAA
53130878 -AAAA
1 TAAAA
53130882 CGAGAAGAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 4 0.20
18 16 0.80
ACGTcount: A:0.65, C:0.05, G:0.03, T:0.28
Consensus pattern (18 bp):
TAAAATCAATTTCAAAAA
Found at i:53136050 original size:43 final size:42
Alignment explanation
Indices: 53136002--53136121 Score: 141
Period size: 43 Copynumber: 2.8 Consensus size: 42
53135992 ACCGAGATGT
*
53136002 GATTACATGTAAGACCATGTCTGGGATATTGGCATCGCTAATC
1 GATTACATGTAAGACCATGTCTGGGATA-TGGCATCGATAATC
* * * * * *
53136045 GATTACATATAAGACCCTGTTTGGGACAATGGCATCGATATTT
1 GATTACATGTAAGACCATGTCTGGGA-TATGGCATCGATAATC
* *
53136088 GATTACATGTAAGACCATATCTAGGATATGGCAT
1 GATTACATGTAAGACCATGTCTGGGATATGGCAT
53136122 TGTACAAGTT
Statistics
Matches: 63, Mismatches: 13, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
42 7 0.11
43 55 0.87
44 1 0.02
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.31
Consensus pattern (42 bp):
GATTACATGTAAGACCATGTCTGGGATATGGCATCGATAATC
Found at i:53142133 original size:22 final size:21
Alignment explanation
Indices: 53142099--53142143 Score: 65
Period size: 20 Copynumber: 2.1 Consensus size: 21
53142089 AACACTAAAA
53142099 TTAAAAAATAAAAATA-AATT
1 TTAAAAAATAAAAATATAATT
53142119 TTAAAAATATGAAAAATATAATT
1 TTAAAAA-AT-AAAAATATAATT
53142142 TT
1 TT
53142144 TTTTCTAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 7 0.32
21 2 0.09
22 7 0.32
23 6 0.27
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (21 bp):
TTAAAAAATAAAAATATAATT
Found at i:53142820 original size:2 final size:2
Alignment explanation
Indices: 53142813--53142861 Score: 82
Period size: 2 Copynumber: 25.0 Consensus size: 2
53142803 GTTGGAAATT
*
53142813 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA AA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
53142855 T- TA TA TA
1 TA TA TA TA
53142862 AAGAAAAAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
1 1 0.02
2 43 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:53150747 original size:31 final size:33
Alignment explanation
Indices: 53150707--53150767 Score: 83
Period size: 31 Copynumber: 1.9 Consensus size: 33
53150697 ATCCTAATTC
53150707 TAAAAA-TTTTAAAGAAATAT-ATAA-AAATACA
1 TAAAAATTTTTAAA-AAATATAATAATAAATACA
*
53150738 TAAATATTTTTAAAAAATATAATAATAAAT
1 TAAAAATTTTTAAAAAATATAATAATAAAT
53150768 TTAAAAATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
31 11 0.42
32 11 0.42
33 4 0.15
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (33 bp):
TAAAAATTTTTAAAAAATATAATAATAAATACA
Found at i:53150758 original size:29 final size:31
Alignment explanation
Indices: 53150707--53150767 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 31
53150697 ATCCTAATTC
53150707 TAAAAATTTTAAAGAAATATATAAAAATACA
1 TAAAAATTTTAAAGAAATATATAAAAATACA
*
53150738 TAAATATTTTTAAA-AAATATAATAATAAAT
1 TAAA-AATTTTAAAGAAATAT-ATAA-AAAT
53150768 TTAAAAATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
31 10 0.38
32 12 0.46
33 4 0.15
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (31 bp):
TAAAAATTTTAAAGAAATATATAAAAATACA
Found at i:53150764 original size:21 final size:22
Alignment explanation
Indices: 53150746--53150788 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
53150736 CATAAATATT
*
53150746 TTTAAAAA-ATATAATAATAAA
1 TTTAAAAATATATAAAAATAAA
53150767 TTTAAAAATATATAAAAATAAA
1 TTTAAAAATATATAAAAATAAA
53150789 AAATATATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (22 bp):
TTTAAAAATATATAAAAATAAA
Found at i:53150784 original size:10 final size:10
Alignment explanation
Indices: 53150721--53150786 Score: 55
Period size: 10 Copynumber: 6.5 Consensus size: 10
53150711 AATTTTAAAG
53150721 AAATATATAA
1 AAATATATAA
*
53150731 AAATACATAA
1 AAATATATAA
* * *
53150741 ATATTTTTAAA
1 AAATATAT-AA
53150752 AAATATAATAA
1 AAATAT-ATAA
53150763 TAAAT-T-TAA
1 -AAATATATAA
53150772 AAATATATAA
1 AAATATATAA
53150782 AAATA
1 AAATA
53150787 AAAAATATAT
Statistics
Matches: 43, Mismatches: 8, Indels: 10
0.70 0.13 0.16
Matches are distributed among these distances:
8 4 0.09
9 4 0.09
10 21 0.49
11 9 0.21
12 5 0.12
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (10 bp):
AAATATATAA
Found at i:53150841 original size:24 final size:24
Alignment explanation
Indices: 53150814--53150877 Score: 80
Period size: 24 Copynumber: 2.7 Consensus size: 24
53150804 AAGAAATCAT
53150814 AATATATAAATTATAAA-A-TTTAAA
1 AATATATAAA--ATAAATATTTTAAA
53150838 AATATATAAAATAAATATTTTAAA
1 AATATATAAAATAAATATTTTAAA
53150862 AA-ATATAATAATAAAT
1 AATATATAA-AATAAAT
53150878 TAAAATATTA
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
22 5 0.14
23 7 0.19
24 25 0.68
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (24 bp):
AATATATAAAATAAATATTTTAAA
Found at i:53150882 original size:18 final size:19
Alignment explanation
Indices: 53150861--53150900 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
53150851 AATATTTTAA
53150861 AAAATATAATAATAA-ATT
1 AAAATATAATAATAATATT
* *
53150879 AAAATATTATATTAATATT
1 AAAATATAATAATAATATT
53150898 AAA
1 AAA
53150901 TAAACTGAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
AAAATATAATAATAATATT
Found at i:53150895 original size:21 final size:20
Alignment explanation
Indices: 53150747--53150882 Score: 73
Period size: 17 Copynumber: 7.3 Consensus size: 20
53150737 ATAAATATTT
53150747 TTAAAAAATATAATAATAAA
1 TTAAAAAATATAATAATAAA
*
53150767 TTTAAAAATAT-ATAA-AAA
1 TTAAAAAATATAATAATAAA
* **
53150785 -TAAAAAATAT-ATTATTGA
1 TTAAAAAATATAATAATAAA
* *
53150803 -CAAGAAATCATAATATATAAA
1 TTAAAAAAT-ATAATA-ATAAA
*
53150824 TTATAAAAT-T--TAA-AAA
1 TTAAAAAATATAATAATAAA
* *
53150840 TATATAAAATA-AAT-AT--T
1 T-TAAAAAATATAATAATAAA
53150857 TTAAAAAATATAATAATAAA
1 TTAAAAAATATAATAATAAA
53150877 TTAAAA
1 TTAAAA
53150883 TATTATATTA
Statistics
Matches: 86, Mismatches: 16, Indels: 28
0.66 0.12 0.22
Matches are distributed among these distances:
16 12 0.14
17 25 0.29
18 15 0.17
19 7 0.08
20 19 0.22
21 3 0.03
22 5 0.06
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.33
Consensus pattern (20 bp):
TTAAAAAATATAATAATAAA
Found at i:53150904 original size:57 final size:53
Alignment explanation
Indices: 53150737--53150904 Score: 157
Period size: 57 Copynumber: 3.0 Consensus size: 53
53150727 ATAAAAATAC
53150737 ATAAATATTTTTAAAAAATATAATAATAAATTTAAAAA-TATAT-AA-AAATAAA
1 ATAAATA-TTTTAAAAAATATAATAATAAA-TTAAAAATTATATAAATAAATAAA
* *
53150789 A-AATATATTATTGACAAGAAATCATAATATATAAATTATAAAATT-TAAAAATATATAAA
1 ATAA-ATATT-TT-A-AA-AAAT-ATAATA-ATAAATTA-AAAATTATATAAATAAATAAA
53150848 ATAAATATTTTAAAAAATATAATAATAAATTAAAATATTATATTAATATTAAATAAA
1 ATAAATATTTTAAAAAATATAATAATAAATTAAAA-ATTATA-TAA-A-TAAATAAA
53150905 CTGAAAATCC
Statistics
Matches: 95, Mismatches: 4, Indels: 29
0.74 0.03 0.23
Matches are distributed among these distances:
51 4 0.04
52 9 0.09
53 12 0.13
54 10 0.11
55 10 0.11
56 12 0.13
57 19 0.20
58 5 0.05
59 12 0.13
60 2 0.02
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.36
Consensus pattern (53 bp):
ATAAATATTTTAAAAAATATAATAATAAATTAAAAATTATATAAATAAATAAA
Found at i:53152486 original size:24 final size:24
Alignment explanation
Indices: 53152459--53152665 Score: 369
Period size: 24 Copynumber: 8.6 Consensus size: 24
53152449 CTTATTATGT
* * *
53152459 TCGCACACATAGAGCTATAGCAAA
1 TCGCACACATAGTGCCATAGTAAA
*
53152483 TCGCACACATAGTGCTATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
53152507 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
53152531 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
53152555 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
53152579 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
53152603 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
*
53152627 TCGCACACATAGTGCCATAGTGAA
1 TCGCACACATAGTGCCATAGTAAA
53152651 TCGCACACATAGTGC
1 TCGCACACATAGTGC
53152666 ATTTGAGATA
Statistics
Matches: 179, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 179 1.00
ACGTcount: A:0.37, C:0.25, G:0.17, T:0.21
Consensus pattern (24 bp):
TCGCACACATAGTGCCATAGTAAA
Found at i:53160390 original size:24 final size:24
Alignment explanation
Indices: 53160363--53160545 Score: 312
Period size: 24 Copynumber: 7.6 Consensus size: 24
53160353 CTTATTATGT
* * *
53160363 TCGCACACATAGAGCTATAGCAAA
1 TCGCACACATAGTGCCATAGTAAA
*
53160387 TCGCACACATAGTGCTATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
53160411 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
53160435 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
53160459 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
*
53160483 TAGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
*
53160507 TCGCACACATAGTGCCATAGTGAA
1 TCGCACACATAGTGCCATAGTAAA
53160531 TCGCACACATAGTGC
1 TCGCACACATAGTGC
53160546 ATTTGAGATA
Statistics
Matches: 153, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 153 1.00
ACGTcount: A:0.37, C:0.25, G:0.17, T:0.21
Consensus pattern (24 bp):
TCGCACACATAGTGCCATAGTAAA
Found at i:53163412 original size:9 final size:9
Alignment explanation
Indices: 53163398--53163438 Score: 82
Period size: 9 Copynumber: 4.6 Consensus size: 9
53163388 TCTAAGTTTA
53163398 TAGAATTAT
1 TAGAATTAT
53163407 TAGAATTAT
1 TAGAATTAT
53163416 TAGAATTAT
1 TAGAATTAT
53163425 TAGAATTAT
1 TAGAATTAT
53163434 TAGAA
1 TAGAA
53163439 CTACTACTAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 32 1.00
ACGTcount: A:0.46, C:0.00, G:0.12, T:0.41
Consensus pattern (9 bp):
TAGAATTAT
Found at i:53166358 original size:48 final size:48
Alignment explanation
Indices: 53166306--53166403 Score: 187
Period size: 48 Copynumber: 2.0 Consensus size: 48
53166296 CTAAGACTTC
*
53166306 TGCTGAAAATCTGATTGTGATCCAAGACAACGAAGTAAGGGAAAGATT
1 TGCTGAAAATCTGATTGTGATCCAAGACAACGAAGCAAGGGAAAGATT
53166354 TGCTGAAAATCTGATTGTGATCCAAGACAACGAAGCAAGGGAAAGATT
1 TGCTGAAAATCTGATTGTGATCCAAGACAACGAAGCAAGGGAAAGATT
53166402 TG
1 TG
53166404 TTTTATCTTC
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.39, C:0.13, G:0.26, T:0.22
Consensus pattern (48 bp):
TGCTGAAAATCTGATTGTGATCCAAGACAACGAAGCAAGGGAAAGATT
Found at i:53179872 original size:29 final size:29
Alignment explanation
Indices: 53179771--53179864 Score: 170
Period size: 29 Copynumber: 3.2 Consensus size: 29
53179761 GTGACGAGAT
*
53179771 TGGCACTATGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
53179800 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
53179829 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
53179858 CGGCACT
1 TGGCACT
53179865 GGGTGTGCGA
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 63 1.00
ACGTcount: A:0.29, C:0.16, G:0.28, T:0.28
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:53179889 original size:58 final size:58
Alignment explanation
Indices: 53179767--53179900 Score: 173
Period size: 58 Copynumber: 2.3 Consensus size: 58
53179757 TACGGTGACG
* *
53179767 AGAT-TGGCACTATGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAA
1 AGATATGGCACTATGTGTGCATGCTGGAAATATACGGCACTAAGTGTGCATGCTCGAA
* * **
53179824 ATATATGGCACTAAGTGTGCATGCTGGAAATATACGGCACTGGGTGTGCGA-GCTCGAA
1 AGATATGGCACTATGTGTGCATGCTGGAAATATACGGCACTAAGTGTGC-ATGCTCGAA
* *
53179882 GGGTATGGCACTATGTGTG
1 AGATATGGCACTATGTGTG
53179901 TGGGCTTAAA
Statistics
Matches: 65, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
57 3 0.05
58 61 0.94
59 1 0.02
ACGTcount: A:0.26, C:0.15, G:0.32, T:0.27
Consensus pattern (58 bp):
AGATATGGCACTATGTGTGCATGCTGGAAATATACGGCACTAAGTGTGCATGCTCGAA
Found at i:53184781 original size:46 final size:46
Alignment explanation
Indices: 53184728--53184903 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
53184718 TATTTGGGCA
53184728 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
53184774 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
53184821 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
53184867 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
53184904 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:53184883 original size:93 final size:93
Alignment explanation
Indices: 53184724--53184895 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
53184714 GGGATATTTG
* *
53184724 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
53184789 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
53184817 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
53184882 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
53184896 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:53187892 original size:15 final size:15
Alignment explanation
Indices: 53187841--53187901 Score: 74
Period size: 15 Copynumber: 4.2 Consensus size: 15
53187831 CATAGTATCG
*
53187841 TATCTTGGGTTTCTT
1 TATCTTGGATTTCTT
53187856 TATC-TGGA-TTCTT
1 TATCTTGGATTTCTT
*
53187869 TAT-TCTGGATTTCTC
1 TATCT-TGGATTTCTT
53187884 TATCTTGGATTTCTT
1 TATCTTGGATTTCTT
53187899 TAT
1 TAT
53187902 TCGGTTTTCT
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
13 8 0.21
14 7 0.18
15 23 0.59
16 1 0.03
ACGTcount: A:0.13, C:0.15, G:0.15, T:0.57
Consensus pattern (15 bp):
TATCTTGGATTTCTT
Found at i:53187900 original size:30 final size:27
Alignment explanation
Indices: 53187850--53187911 Score: 79
Period size: 29 Copynumber: 2.2 Consensus size: 27
53187840 GTATCTTGGG
*
53187850 TTTCTTTATCTGGATTCTTTATTCTGGA
1 TTTCTCTATCTGGATTCTTTATTC-GGA
*
53187878 TTTCTCTATCTTGGATTTCTTTATTCGGT
1 TTTCTCTATC-TGGA-TTCTTTATTCGGA
53187907 TTTCT
1 TTTCT
53187912 TGTTATCTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
28 9 0.30
29 11 0.37
30 10 0.33
ACGTcount: A:0.11, C:0.16, G:0.13, T:0.60
Consensus pattern (27 bp):
TTTCTCTATCTGGATTCTTTATTCGGA
Found at i:53187912 original size:14 final size:14
Alignment explanation
Indices: 53187850--53187912 Score: 58
Period size: 15 Copynumber: 4.4 Consensus size: 14
53187840 GTATCTTGGG
53187850 TTTCTTTA-TCTGGA
1 TTTCTTTATTC-GGA
53187864 -TTCTTTATTCTGGA
1 TTTCTTTATTC-GGA
* *
53187878 TTTCTCTATCTTGGA
1 TTTCTTTAT-TCGGA
*
53187893 TTTCTTTATTCGGT
1 TTTCTTTATTCGGA
53187907 TTTCTT
1 TTTCTT
53187913 GTTATCTTTG
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
13 7 0.17
14 15 0.37
15 18 0.44
16 1 0.02
ACGTcount: A:0.11, C:0.16, G:0.13, T:0.60
Consensus pattern (14 bp):
TTTCTTTATTCGGA
Done.