Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
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: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 296 of 325
Found at i:94409407 original size:22 final size:22
Alignment explanation
Indices: 94409382--94409424 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
94409372 GAGTTATTAT
*
94409382 TTTAAGGTTTATGGA-TTATGGG
1 TTTAAGGATTAT-GATTTATGGG
*
94409404 TTTAGGGATTATGATTTATGG
1 TTTAAGGATTATGATTTATGG
94409425 TTATGTAAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 2 0.11
22 16 0.89
ACGTcount: A:0.23, C:0.00, G:0.30, T:0.47
Consensus pattern (22 bp):
TTTAAGGATTATGATTTATGGG
Found at i:94411939 original size:138 final size:138
Alignment explanation
Indices: 94411691--94411962 Score: 474
Period size: 138 Copynumber: 2.0 Consensus size: 138
94411681 TAATAATGTA
* * *
94411691 TGGATGCTTTGTGGAGTCCCTGTTTTGAATTTTAGAATCATATGTAATCTCTTTAAAAATTGGCA
1 TGGATGCTTTGTGGAGTACCTGTTTTGAATTTTAGAACCATATGTAATCTCCTTAAAAATTGGCA
94411756 TTAAATTGTTTTTAGGTTTTATAATAACATTTCTCTTTGTTATGTTATTATGCAACTTATTTGAT
66 TTAAATTGTTTTTAGGTTTTATAATAACATTTCTCTTTGTTATGTTATTATGCAACTTATTTGAT
94411821 TTAACGTT
131 TTAACGTT
* *
94411829 TGGATGCTTT-TAGGAGTACTTGTTTTGAATTTTAGAACCATATGTAATTTCCTTAAAAATTGGC
1 TGGATGCTTTGT-GGAGTACCTGTTTTGAATTTTAGAACCATATGTAATCTCCTTAAAAATTGGC
*
94411893 ATTAAATTGTTTTTAGGTTTTATATTAACATTTCTCTTTGTTATGTTATTATGCAACTTATTTGA
65 ATTAAATTGTTTTTAGGTTTTATAATAACATTTCTCTTTGTTATGTTATTATGCAACTTATTTGA
94411958 TTTAA
130 TTTAA
94411963 AATTTTAAAA
Statistics
Matches: 127, Mismatches: 6, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
137 1 0.01
138 126 0.99
ACGTcount: A:0.27, C:0.10, G:0.15, T:0.49
Consensus pattern (138 bp):
TGGATGCTTTGTGGAGTACCTGTTTTGAATTTTAGAACCATATGTAATCTCCTTAAAAATTGGCA
TTAAATTGTTTTTAGGTTTTATAATAACATTTCTCTTTGTTATGTTATTATGCAACTTATTTGAT
TTAACGTT
Found at i:94413047 original size:43 final size:43
Alignment explanation
Indices: 94412973--94413079 Score: 169
Period size: 43 Copynumber: 2.5 Consensus size: 43
94412963 TTTTTAAATT
* *
94412973 TCATTACCTTTAGCGGCGTTTGTGGGGAAAGCGCCGCTAAAGG
1 TCATGACCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGG
* *
94413016 TCTTGACCTCTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGG
1 TCATGACCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGG
*
94413059 TCATGACCTTTAGCGGTGTTT
1 TCATGACCTTTAGCGGCGTTT
94413080 TTTTTAAATA
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 57 1.00
ACGTcount: A:0.20, C:0.21, G:0.31, T:0.28
Consensus pattern (43 bp):
TCATGACCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGG
Found at i:94415223 original size:18 final size:19
Alignment explanation
Indices: 94415200--94415240 Score: 75
Period size: 18 Copynumber: 2.2 Consensus size: 19
94415190 AAGCCCCCTC
94415200 AAAAAACCTAACCC-AAAA
1 AAAAAACCTAACCCTAAAA
94415218 AAAAAACCTAACCCTAAAA
1 AAAAAACCTAACCCTAAAA
94415237 AAAA
1 AAAA
94415241 GAGAAAAAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 14 0.64
19 8 0.36
ACGTcount: A:0.68, C:0.24, G:0.00, T:0.07
Consensus pattern (19 bp):
AAAAAACCTAACCCTAAAA
Found at i:94415301 original size:8 final size:8
Alignment explanation
Indices: 94415290--94415322 Score: 66
Period size: 8 Copynumber: 4.1 Consensus size: 8
94415280 ACTAAGAAAC
94415290 CCTAGCCA
1 CCTAGCCA
94415298 CCTAGCCA
1 CCTAGCCA
94415306 CCTAGCCA
1 CCTAGCCA
94415314 CCTAGCCA
1 CCTAGCCA
94415322 C
1 C
94415323 TTTCCCACTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.24, C:0.52, G:0.12, T:0.12
Consensus pattern (8 bp):
CCTAGCCA
Found at i:94415602 original size:21 final size:21
Alignment explanation
Indices: 94415578--94415630 Score: 106
Period size: 21 Copynumber: 2.5 Consensus size: 21
94415568 TTTCGAATCT
94415578 TTTTTTTCTTTTTTTGTGTTG
1 TTTTTTTCTTTTTTTGTGTTG
94415599 TTTTTTTCTTTTTTTGTGTTG
1 TTTTTTTCTTTTTTTGTGTTG
94415620 TTTTTTTCTTT
1 TTTTTTTCTTT
94415631 CTTTATATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.00, C:0.06, G:0.11, T:0.83
Consensus pattern (21 bp):
TTTTTTTCTTTTTTTGTGTTG
Found at i:94417313 original size:12 final size:12
Alignment explanation
Indices: 94417296--94417331 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
94417286 ATTCATTTGA
94417296 CATTCATGCATT
1 CATTCATGCATT
94417308 CATTCATGCATT
1 CATTCATGCATT
*
94417320 CATTCATACATT
1 CATTCATGCATT
94417332 GCATATCCCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.28, C:0.25, G:0.06, T:0.42
Consensus pattern (12 bp):
CATTCATGCATT
Found at i:94425907 original size:72 final size:71
Alignment explanation
Indices: 94425809--94425974 Score: 226
Period size: 72 Copynumber: 2.3 Consensus size: 71
94425799 GAGTTAAGCC
** * *
94425809 TTTT-AATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACAC
1 TTTTCAATTTTTGTTTTT-AATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACAC
94425873 TGAGGTA
65 TGAGGTA
* * *
94425880 TTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTTAGCCTCAGGTCACGC
1 TTTTCAATTTTTGT-TTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACAC
94425945 TGAGGTA
65 TGAGGTA
* *
94425952 TTTTCAATTTCTGTTTTCAATTT
1 TTTTCAATTTTTGTTTTTAATTT
94425975 ACGTTGTTCA
Statistics
Matches: 84, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
71 12 0.14
72 68 0.81
73 4 0.05
ACGTcount: A:0.23, C:0.15, G:0.20, T:0.42
Consensus pattern (71 bp):
TTTTCAATTTTTGTTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACACT
GAGGTA
Found at i:94426078 original size:140 final size:140
Alignment explanation
Indices: 94425907--94426520 Score: 988
Period size: 140 Copynumber: 4.5 Consensus size: 140
94425897 TTAATTTCAA
*
94425907 CTCATATTGCGAGAGGTGAGTTTAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
*
94425972 TTTACGTTGTTCAAGAATCAACTTATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
66 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
94426037 TCAAAATCAG
131 TCAAAATCAG
* *
94426047 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCATGCTAAGGTATTTTCAATTTCTGTTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
* * *
94426112 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAAGTGGGTTGGACATTTTAATTTCTACTTTT
66 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
94426177 TCAAAATCAG
131 TCAAAATCAG
*
94426187 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGTTGAGGTATTTTCAATTTCTGTTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
*
94426252 TTTATGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
66 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
94426317 TCAAAATCAG
131 TCAAAATCAG
*
94426327 CTCATATTGTGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAA-------TTT--A
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
94426383 --T--GTTGTTCAAGAATC-ACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
66 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
*
94426443 TCAAAATTAG
131 TCAAAATCAG
94426453 CTCATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGCTGAGGTATTTTCAATTTCTGTCTT
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-TCAC--GCTGAGGTATTTTCAATTTCTGT-TT
94426517 TCAA
62 TCAA
94426521 AAAAAAAATC
Statistics
Matches: 443, Mismatches: 18, Indels: 28
0.91 0.04 0.06
Matches are distributed among these distances:
125 2 0.00
126 86 0.19
127 14 0.03
128 16 0.04
129 1 0.00
131 1 0.00
133 3 0.01
136 3 0.01
138 1 0.00
140 316 0.71
ACGTcount: A:0.25, C:0.16, G:0.21, T:0.38
Consensus pattern (140 bp):
CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
TCAAAATCAG
Found at i:94426250 original size:13 final size:13
Alignment explanation
Indices: 94426232--94426265 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
94426222 CGTTGAGGTA
*
94426232 TTTTCAATTTCTG
1 TTTTCAATTTATG
94426245 TTTTCAATTTATG
1 TTTTCAATTTATG
94426258 TTGTTCAA
1 TT-TTCAA
94426266 GAATCAACTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.21, C:0.12, G:0.09, T:0.59
Consensus pattern (13 bp):
TTTTCAATTTATG
Found at i:94426429 original size:126 final size:128
Alignment explanation
Indices: 94426245--94426509 Score: 473
Period size: 126 Copynumber: 2.1 Consensus size: 128
94426235 TCAATTTCTG
94426245 TTTTCAATTTATGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTC
1 TTTTCAATTTATGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTC
*
94426310 TACTTTTTCAAAATCAGCTCATATTGTGAGAGGTGAGTTGAGCCTCAGG-TCAC-GCTGAGGTA
66 TACTTTTTCAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACAGCTGAGGTA
94426372 TTTTCAATTTATGTTGTTCAAGAATC-ACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTC
1 TTTTCAATTTATGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTC
*
94426436 TACTTTTTCAAAATTAGCTCATATTGCGAGAGGTGAGTTGAGCCTCGGTTCACATGCTGAGGTA
66 TACTTTTTCAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCGGTTCACA-GCTGAGGTA
94426500 TTTTCAATTT
1 TTTTCAATTT
94426510 CTGTCTTTCA
Statistics
Matches: 133, Mismatches: 2, Indels: 5
0.95 0.01 0.04
Matches are distributed among these distances:
125 2 0.02
126 86 0.65
127 26 0.20
128 19 0.14
ACGTcount: A:0.25, C:0.15, G:0.21, T:0.38
Consensus pattern (128 bp):
TTTTCAATTTATGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTC
TACTTTTTCAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCGGTTCACAGCTGAGGTA
Found at i:94426624 original size:49 final size:49
Alignment explanation
Indices: 94426546--94426641 Score: 165
Period size: 49 Copynumber: 2.0 Consensus size: 49
94426536 ATATTACGAG
*
94426546 AAATGAGTTGAGCCTCAACACACGTTGAGGTAATTTCAATTTCTGTTCA
1 AAATGAGTTGAGCCTCAACACACGCTGAGGTAATTTCAATTTCTGTTCA
* *
94426595 AAATGAGTTGAGCCTCAAGATACGCTGAGGTAATTTCAATTTCTGTT
1 AAATGAGTTGAGCCTCAACACACGCTGAGGTAATTTCAATTTCTGTT
94426642 TTCAAAATTC
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 44 1.00
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.33
Consensus pattern (49 bp):
AAATGAGTTGAGCCTCAACACACGCTGAGGTAATTTCAATTTCTGTTCA
Found at i:94426765 original size:79 final size:75
Alignment explanation
Indices: 94426595--94426949 Score: 441
Period size: 79 Copynumber: 4.7 Consensus size: 75
94426585 TTTCTGTTCA
* * *
94426595 AAATGAGTTGAGCCTCAAGATACGCTGAGGTAATTTCAATTTCTG-TTTTC--AAAATTCAACTC
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTC
94426657 ATATTGCGAG
66 ATATTGCGAG
* *
94426667 AAATTAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAAAAAATCA
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTGTTTTTC----AAAAAAATCA
*
94426732 ACTCATATTGTGAG
62 ACTCATATTGCGAG
*
94426746 AAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTC
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTC
94426811 ATATTGCGAG
66 ATATTGCGAG
** * * *
94426821 AGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTG-TTGTCAAAAAAATCAACT-
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTC
*
94426884 AGTATTGTGAG
66 A-TATTGCGAG
*** * * *
94426895 AGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCCGTTTTTCAA
1 AAATGAGTTGAGCCTCAAG--ACACGCTGAGGTATTTTCAATTTCTGTTTTTCAA
94426950 TTTCTGCCTT
Statistics
Matches: 252, Mismatches: 20, Indels: 17
0.87 0.07 0.06
Matches are distributed among these distances:
72 41 0.16
73 6 0.02
74 43 0.17
75 63 0.25
76 23 0.09
77 6 0.02
79 70 0.28
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.32
Consensus pattern (75 bp):
AAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTC
ATATTGCGAG
Found at i:94426876 original size:154 final size:150
Alignment explanation
Indices: 94426595--94426949 Score: 459
Period size: 151 Copynumber: 2.4 Consensus size: 150
94426585 TTTCTGTTCA
* * *
94426595 AAATGAGTTGAGCCTCAAGATACGCTGAGGTAATTTCAATTTCTG-TTTTC--AAAATTCAACTC
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTC
* * * *
94426657 ATATTGCGAGAAATTAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTCTGTTTTTCAAAA
66 ATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTGTC----
94426722 AAAAAAATCAACTCA-TATTGTGAG
127 AAAAAAATCAACT-AGTATTGTGAG
*
94426746 AAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTC
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTC
** *
94426811 ATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTG-TTGTCAAAA
66 ATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTGTCAAAA
94426875 AAATCAACTAGTATTGTGAG
131 AAATCAACTAGTATTGTGAG
*** * * *
94426895 AGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCCGTTTTTCAA
1 AAATGAGTTGAGCCTCAAG--ACACGCTGAGGTATTTTCAATTTCTGTTTTTCAA
94426950 TTTCTGCCTT
Statistics
Matches: 180, Mismatches: 18, Indels: 12
0.86 0.09 0.06
Matches are distributed among these distances:
148 1 0.01
149 37 0.21
151 73 0.41
152 5 0.03
153 4 0.02
154 60 0.33
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.32
Consensus pattern (150 bp):
AAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTC
ATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTGTCAAAA
AAATCAACTAGTATTGTGAG
Found at i:94427073 original size:77 final size:77
Alignment explanation
Indices: 94426964--94427541 Score: 304
Period size: 88 Copynumber: 7.0 Consensus size: 77
94426954 TGCCTTTCAA
* * *
94426964 AAAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATTTTCA
1 AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGATCACACGCTGAGCTATTTTCA
*
94427029 ATTTCTGTCTTT
66 ATTTCTGTTTTT
* * * * *
94427041 AAAAAAAATTAACTCATATTTCGAGAGGTGAGTTGAG-CTTCAGATCACACACTGAGGTATTTTT
1 AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT-GGATCACACGCTGAGCTA--TTT
* *
94427105 TCAATTTATATTTTT
63 TCAATTTCTGTTTTT
* * * * * * *
94427120 CAAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGATCACATG-TCGGGGTATTTTC
1 AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGATCACACGCT-GAGCTATTTTC
**
94427184 AAAATCTGTTTTT
65 AATTTCTGTTTTT
* * * **
94427197 CAGATTTTGTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTG
1 -A-A---------AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGATCACACGCTG
*
94427262 AGCTATTTTCAATTTCTATTTTTTTTTT
55 AGCTATTTTCAATTTC-----TGTTTTT
* * ** * * * *
94427290 CAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCTTTTTAATTTCTGCGAAAGTTGAGTT
1 -AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC-CTTGGA--TC-AC--ACGCTGAGCT
*
94427355 GAGTCTTTTAATTTCTGTTTTT
59 -A-T-TTTCAATTTCTGTTTTT
* * * * ** *
94427377 --CAAAAATCAACTCATATTGCGAAAGGTGAGTTGAACCTT-CAGTCACA-TATCGAGGTATTTT
1 AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGA-TCACACGCT-GAGCTATTTT
**
94427438 CAAAATCTGCTTTTCAAGTT
64 CAATTTCTG--TTT----TT
* **
94427458 AAGTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTAT
1 AA-----AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGATCACACGCTGAGCTAT
94427523 TTTCAATTTCTGTTTTT
61 TTTCAATTTCTGTTTTT
94427540 AA
1 AA
94427542 TGTCTGTTTT
Statistics
Matches: 378, Mismatches: 76, Indels: 89
0.70 0.14 0.16
Matches are distributed among these distances:
75 9 0.02
76 4 0.01
77 66 0.17
78 6 0.02
79 60 0.16
80 3 0.01
81 4 0.01
82 5 0.01
83 35 0.09
84 34 0.09
86 5 0.01
87 7 0.02
88 112 0.30
89 8 0.02
90 1 0.00
91 1 0.00
92 10 0.03
93 8 0.02
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.37
Consensus pattern (77 bp):
AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGATCACACGCTGAGCTATTTTCA
ATTTCTGTTTTT
Found at i:94427145 original size:79 final size:77
Alignment explanation
Indices: 94426964--94427168 Score: 241
Period size: 79 Copynumber: 2.6 Consensus size: 77
94426954 TGCCTTTCAA
* * * *
94426964 AAAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTT-GGCTCACGCGCTGAGCTATTTTC
1 AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-CTTCGGATCACACACTGAGCTATTTTC
* *
94427028 AATTTCTGTCTTT
65 AATTTATATCTTT
* * * *
94427041 AAAAAAAATTAACTCATATTTCGAGAGGTGAGTTGAGCTTCAGATCACACACTGAGGTATTTTTT
1 AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCGGATCACACACTGAGCTA--TTTT
*
94427106 CAATTTATATTTTT
64 CAATTTATATCTTT
* * * *
94427120 CAAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGATCACA
1 AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCGGATCACA
94427169 TGTCGGGGTA
Statistics
Matches: 107, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
76 3 0.03
77 47 0.44
79 57 0.53
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.32
Consensus pattern (77 bp):
AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCGGATCACACACTGAGCTATTTTCA
ATTTATATCTTT
Found at i:94427318 original size:250 final size:241
Alignment explanation
Indices: 94426723--94427539 Score: 854
Period size: 255 Copynumber: 3.3 Consensus size: 241
94426713 TTTTCAAAAA
* * ** * *
94426723 AAAAAATCAACTCATATTGTGAGAAATGAGTTGAGCC-T--CAAGACATGCTGAGGTATTTTCAA
1 AAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGC-TCACGTGCTGAGCTATTTTCAA
* * *
94426785 TTTCTGTTTTTCAAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG--GACACGCT
65 TTTCTGTTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACT
* * * * *
94426847 GAGGTA-ATTTCAATTTCTGTTGTCAAAAAAATCAACT-AGTATTGTGAGAGGCGAGTTGAGCCT
130 GAGGTATTTTTCAATTTCTTTTTTCAAAAAAATCAACTCA-TATTGCGAGAGGTGAGTTGAGCCT
* * ** *
94426910 CAGGTCACACGCCGAGGTATTTTCAATTTCCGTTTTTCAATTTCTGCCTTTC
194 C-GGTCACATGTCGAGGTATTTTCAAAATCTGTTTTTCAATTT-TG--TTTC
*
94426962 AAAAAAAAAATCAACTCATATTGCGA-AAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATTT
1 ----AAAAAATCAACTCATATTGCGAGAA-GTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTT
* * *
94427026 TCAATTTCTGTCTTTAAAAAAAATT-AACTCATATTTCGAGAGGTGAGTTGAGCTTCAGATCACA
61 TCAATTTCTGTTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACA
* * *
94427090 CACTGAGGTATTTTTTCAATTTATATTTTTCAAAAAAATCAACTCACATTGCGAGATGTGAGTTG
126 CACTGAGGTA-TTTTTCAATTTCT-TTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTG
*
94427155 AGCCTCGGATCACATGTCGGGGTATTTTCAAAATCTGTTTTTCAGATTTTGTTTTC
189 AGCCTCGG-TCACATGTCGAGGTATTTTCAAAATCTGTTTTTCA-ATTTTG-TTTC
94427211 -AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAAT
1 AAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAAT
* *
94427275 TTCTATTTTTTTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCTTTTTA-ATTT
66 TTC-----TGTTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGC--TTCAGA--T
* * * * *
94427339 CTGCGAAAGTTGAGTTGAGTCTTTT-AATTTCTGTTTTTC--AAAAATCAACTCATATTGCGAAA
122 C-AC-ACA-CTGAGGT-A-T-TTTTCAATTTCT-TTTTTCAAAAAAATCAACTCATATTGCGAGA
* * * * **
94427401 GGTGAGTTGAACCTTCAGTCACATATCGAGGTATTTTCAAAATCTGCTTTTCAAGTTAAGTTTC
180 GGTGAGTTGAGCC-TCGGTCACATGTCGAGGTATTTTCAAAATCTGTTTTTCAA-TTTTGTTTC
*
94427465 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAAT
1 AAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAAT
94427530 TTCTGTTTTT
66 TTCTGTTTTT
94427540 AATGTCTGTT
Statistics
Matches: 489, Mismatches: 53, Indels: 57
0.82 0.09 0.10
Matches are distributed among these distances:
242 2 0.00
243 32 0.07
244 64 0.13
245 67 0.14
246 2 0.00
247 12 0.02
249 30 0.06
250 102 0.21
251 6 0.01
252 3 0.01
253 2 0.00
254 6 0.01
255 135 0.28
256 8 0.02
257 14 0.03
258 4 0.01
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (241 bp):
AAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAAT
TTCTGTTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTG
AGGTATTTTTCAATTTCTTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCG
GTCACATGTCGAGGTATTTTCAAAATCTGTTTTTCAATTTTGTTTC
Found at i:94427353 original size:30 final size:30
Alignment explanation
Indices: 94427310--94427371 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
94427300 CAACTCATAT
*
94427310 TGCGAGAGGTGAGTTGAG-CTTTTTAATTTC
1 TGCGAAAGGTGAGTTGAGTC-TTTTAATTTC
*
94427340 TGCGAAAGTTGAGTTGAGTCTTTTAATTTC
1 TGCGAAAGGTGAGTTGAGTCTTTTAATTTC
94427370 TG
1 TG
94427372 TTTTTCAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 28 0.97
31 1 0.03
ACGTcount: A:0.21, C:0.10, G:0.27, T:0.42
Consensus pattern (30 bp):
TGCGAAAGGTGAGTTGAGTCTTTTAATTTC
Found at i:94428232 original size:30 final size:32
Alignment explanation
Indices: 94428198--94428283 Score: 117
Period size: 30 Copynumber: 2.8 Consensus size: 32
94428188 GCCCCCCCCC
94428198 AAAAACCTAACCCCCCAAAAAAAAG-AAAAA-
1 AAAAACCTAACCCCCCAAAAAAAAGAAAAAAG
*
94428228 AAAAACCTAA--CCCTAAAAAAAAGAAAAAAG
1 AAAAACCTAACCCCCCAAAAAAAAGAAAAAAG
94428258 AAAAACCTAACTCCCCCCAAAAAAAA
1 AAAAACCTAA--CCCCCCAAAAAAAA
94428284 CTAAGAAACC
Statistics
Matches: 48, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
28 12 0.25
29 5 0.10
30 20 0.42
34 11 0.23
ACGTcount: A:0.65, C:0.26, G:0.03, T:0.06
Consensus pattern (32 bp):
AAAAACCTAACCCCCCAAAAAAAAGAAAAAAG
Found at i:94428580 original size:11 final size:11
Alignment explanation
Indices: 94428564--94428602 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
94428554 TTCTTTCGAA
94428564 TCTTTTTTTTT
1 TCTTTTTTTTT
94428575 TCTTTTTTTTT
1 TCTTTTTTTTT
* *
94428586 GTGTTATTTTTT
1 -TCTTTTTTTTT
94428598 TCTTT
1 TCTTT
94428603 CTTTATATAT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
11 14 0.61
12 9 0.39
ACGTcount: A:0.03, C:0.08, G:0.05, T:0.85
Consensus pattern (11 bp):
TCTTTTTTTTT
Found at i:94430792 original size:24 final size:26
Alignment explanation
Indices: 94430760--94430808 Score: 75
Period size: 24 Copynumber: 2.0 Consensus size: 26
94430750 AACATTCCAC
94430760 ATTAATAAATTATA-AAAT-TATTAA
1 ATTAATAAATTATATAAATATATTAA
*
94430784 ATTATTAAATTATATAAATATATTA
1 ATTAATAAATTATATAAATATATTA
94430809 TTAAAAGTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 13 0.59
25 4 0.18
26 5 0.23
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (26 bp):
ATTAATAAATTATATAAATATATTAA
Found at i:94430844 original size:9 final size:9
Alignment explanation
Indices: 94430766--94430908 Score: 83
Period size: 9 Copynumber: 16.3 Consensus size: 9
94430756 CCACATTAAT
94430766 AAATTA-TA
1 AAATTATTA
94430774 AAATTATT-
1 AAATTATTA
94430782 AAATTATT-
1 AAATTATTA
94430790 AAATTATATAA
1 AAATTAT-T-A
94430801 ATATATTATTA
1 A-A-ATTATTA
*
94430812 AAAGTTATGA
1 AAA-TTATTA
*
94430822 AAATTTTATAA
1 AAA--TTATTA
94430833 AAATTATTA
1 AAATTATTA
* *
94430842 AAAATATAA
1 AAATTATTA
**
94430851 AAAAAATTA
1 AAATTATTA
*
94430860 AAATTATAA
1 AAATTATTA
94430869 AAATTA--A
1 AAATTATTA
94430876 AAATTA--A
1 AAATTATTA
94430883 AAATTA--A
1 AAATTATTA
94430890 AAATTA-TA
1 AAATTATTA
94430898 AAATTA-TA
1 AAATTATTA
94430906 AAA
1 AAA
94430909 AAATTATAAA
Statistics
Matches: 115, Mismatches: 11, Indels: 18
0.80 0.08 0.12
Matches are distributed among these distances:
7 21 0.18
8 33 0.29
9 34 0.30
10 9 0.08
11 11 0.10
12 2 0.02
13 5 0.04
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.36
Consensus pattern (9 bp):
AAATTATTA
Found at i:94430845 original size:21 final size:22
Alignment explanation
Indices: 94430790--94430848 Score: 59
Period size: 21 Copynumber: 2.7 Consensus size: 22
94430780 TTAAATTATT
*
94430790 AAATTATATAAATATATTATTAA
1 AAATTAT-TAAAAATATTATTAA
* * *
94430813 AAGTTA-TGAAAATTTTA-TAA
1 AAATTATTAAAAATATTATTAA
94430833 AAATTATTAAAAATAT
1 AAATTATTAAAAATAT
94430849 AAAAAAAATT
Statistics
Matches: 28, Mismatches: 7, Indels: 4
0.72 0.18 0.10
Matches are distributed among these distances:
20 8 0.29
21 15 0.54
23 5 0.18
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (22 bp):
AAATTATTAAAAATATTATTAA
Found at i:94430852 original size:38 final size:37
Alignment explanation
Indices: 94430810--94430937 Score: 100
Period size: 36 Copynumber: 3.3 Consensus size: 37
94430800 AATATATTAT
*
94430810 TAAAAGTTATGAAAATTTTATAAAAATTATTAAAAATA
1 TAAAAATTAT-AAAATTTTATAAAAATTATTAAAAATA
**
94430848 TAAAAAAAATTAAAA--TTATAAAAATTAAAAATTAAAAAT-
1 TAAAAATTA-TAAAATTTTATAAAAATT----ATTAAAAATA
* * *
94430887 TAAAAATTATAAAATTATAAAAAAATTATAAAAAATA
1 TAAAAATTATAAAATTTTATAAAAATTATTAAAAATA
*
94430924 GGTAAAAGTTATAA
1 --TAAAAATTATAA
94430938 TAAAAAAAAG
Statistics
Matches: 71, Mismatches: 9, Indels: 19
0.72 0.09 0.19
Matches are distributed among these distances:
36 19 0.27
38 15 0.21
39 19 0.27
40 18 0.25
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (37 bp):
TAAAAATTATAAAATTTTATAAAAATTATTAAAAATA
Found at i:94430864 original size:6 final size:7
Alignment explanation
Indices: 94430852--94430908 Score: 78
Period size: 7 Copynumber: 7.7 Consensus size: 7
94430842 AAAATATAAA
94430852 AAAAATT
1 AAAAATT
*
94430859 AAAATTAT
1 AAAAAT-T
94430867 AAAAATT
1 AAAAATT
94430874 AAAAATT
1 AAAAATT
94430881 AAAAATT
1 AAAAATT
94430888 AAAAATT
1 AAAAATT
94430895 ATAAAATT
1 A-AAAATT
94430903 ATAAAA
1 A-AAAA
94430909 AAATTATAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
7 28 0.61
8 18 0.39
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (7 bp):
AAAAATT
Found at i:94430872 original size:15 final size:15
Alignment explanation
Indices: 94430852--94430900 Score: 73
Period size: 15 Copynumber: 3.3 Consensus size: 15
94430842 AAAATATAAA
94430852 AAAAATTAAAATTAT
1 AAAAATTAAAATTAT
*
94430867 AAAAATTAAAAAT-T
1 AAAAATTAAAATTAT
94430881 AAAAATTAAAAATTAT
1 AAAAATT-AAAATTAT
94430897 AAAA
1 AAAA
94430901 TTATAAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
14 8 0.27
15 17 0.57
16 5 0.17
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (15 bp):
AAAAATTAAAATTAT
Found at i:94430873 original size:36 final size:38
Alignment explanation
Indices: 94430773--94430920 Score: 108
Period size: 36 Copynumber: 3.8 Consensus size: 38
94430763 AATAAATTAT
* * ** *
94430773 AAAATTATTAAATTAT-TAAATTATATAAATATATTATTA
1 AAAATTATAAAATTATAAAAATTATA-AAA-ATAAAAATA
* *
94430812 AAAGTTATGAAAATTTTATAAAAATTATTAAAAATATAAA-A
1 AAAATTAT-AAAA--TTATAAAAATTA-TAAAAATAAAAATA
*
94430853 AAAA-T-TAAAATTATAAAAATTA-AAAATTAAAAATTA
1 AAAATTATAAAATTATAAAAATTATAAAAATAAAAA-TA
94430889 AAAATTATAAAATTATAAAAAAATTATAAAAA
1 AAAATTATAAAATTAT--AAAAATTATAAAAA
94430921 ATAGGTAAAA
Statistics
Matches: 88, Mismatches: 9, Indels: 22
0.74 0.08 0.18
Matches are distributed among these distances:
34 9 0.10
36 17 0.19
37 1 0.01
38 13 0.15
39 8 0.09
40 12 0.14
41 8 0.09
42 9 0.10
43 9 0.10
44 2 0.02
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.35
Consensus pattern (38 bp):
AAAATTATAAAATTATAAAAATTATAAAAATAAAAATA
Found at i:94430913 original size:11 final size:11
Alignment explanation
Indices: 94430897--94430921 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
94430887 TAAAAATTAT
94430897 AAAATTATAAA
1 AAAATTATAAA
94430908 AAAATTATAAA
1 AAAATTATAAA
94430919 AAA
1 AAA
94430922 TAGGTAAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (11 bp):
AAAATTATAAA
Found at i:94430919 original size:8 final size:8
Alignment explanation
Indices: 94430766--94430908 Score: 98
Period size: 8 Copynumber: 17.4 Consensus size: 8
94430756 CCACATTAAT
94430766 AAATTATA
1 AAATTATA
*
94430774 AAATTATT
1 AAATTATA
*
94430782 AAATTATT
1 AAATTATA
94430790 AAATTATA
1 AAATTATA
94430798 TAAA-TATA
1 -AAATTATA
**
94430806 TTATTA-A
1 AAATTATA
*
94430813 AAGTTATGA
1 AAATTAT-A
94430822 AAATTTTATAA
1 AAA--TTAT-A
94430833 AAATTATTA
1 AAATTA-TA
*
94430842 AAAATATAA
1 AAATTAT-A
**
94430851 AAAAAATTA
1 AAATTA-TA
94430860 AAATTATAA
1 AAATTAT-A
94430869 AAATTA-A
1 AAATTATA
94430876 AAATTA-A
1 AAATTATA
94430883 AAATTA-A
1 AAATTATA
94430890 AAATTATA
1 AAATTATA
94430898 AAATTATA
1 AAATTATA
94430906 AAA
1 AAA
94430909 AAATTATAAA
Statistics
Matches: 111, Mismatches: 13, Indels: 22
0.76 0.09 0.15
Matches are distributed among these distances:
7 26 0.23
8 42 0.38
9 33 0.30
10 2 0.02
11 8 0.07
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.36
Consensus pattern (8 bp):
AAATTATA
Found at i:94440292 original size:31 final size:29
Alignment explanation
Indices: 94440232--94440292 Score: 81
Period size: 29 Copynumber: 2.2 Consensus size: 29
94440222 TTCATTTGTA
*
94440232 TATTTTTATATTTTATTATATAACATATT
1 TATTTTTAAATTTTATTATATAACATATT
* *
94440261 TATTTTTAAATTTTCTTTTATAA-ATA-T
1 TATTTTTAAATTTTATTATATAACATATT
94440288 TATTT
1 TATTT
94440293 GTTTTAATAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 6 0.21
28 3 0.10
29 20 0.69
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (29 bp):
TATTTTTAAATTTTATTATATAACATATT
Found at i:94447880 original size:44 final size:44
Alignment explanation
Indices: 94447798--94447903 Score: 115
Period size: 44 Copynumber: 2.4 Consensus size: 44
94447788 TTTAGCCACC
*** *
94447798 AGTCTTATCTCTCTAAGGTAACAAGAGAGCAGGTTGAAGTTTGT
1 AGTCTTATCTCTCTAAGGTAACAAGAGAGCACACTGAAGATTGT
* *
94447842 AGTCTTATCTTTCTAAGGTAGCAAG-GAAGCACACTGAAGATTGT
1 AGTCTTATCTCTCTAAGGTAACAAGAG-AGCACACTGAAGATTGT
* *
94447886 AGATTTTATCTCCCTAAG
1 AG-TCTTATCTCTCTAAG
94447904 CAGTAGTGGA
Statistics
Matches: 51, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
43 1 0.02
44 38 0.75
45 12 0.24
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.32
Consensus pattern (44 bp):
AGTCTTATCTCTCTAAGGTAACAAGAGAGCACACTGAAGATTGT
Found at i:94448014 original size:177 final size:177
Alignment explanation
Indices: 94447282--94447990 Score: 925
Period size: 177 Copynumber: 4.0 Consensus size: 177
94447272 TATCCCCGTG
* * ** * * * *
94447282 AGGTAGAAAGGGAGCAGGCCGAAGATTGTAGTCTTATCTTCTTGAGGTAGCAAGGAAGCATACTG
1 AGGTAGCAAGAGAGCAGGTTGAAGTTTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTA
** * *
94447347 AAGATCATAGATCTTATCTCCCTAAACAGTAGTGGAGTAGATCGAAGATGGCAAATCTTATCTTC
66 AAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAAATCTTATCTTC
* * * *
94447412 TCGAGGTAGCAGGGGAGCAGATTTTAGCCATCAGCCTTACCTCTCTA
131 CCGAGGTAGCAGGGGAGCAAATTTTAGCCACCAGCCTTATCTCTCTA
* *
94447459 AGGTAGCAAGAGAGCAGGTTGAAGTTTGTAGTCTTATCTTCCTGAGGAAGCAAGAAAGCAGACTA
1 AGGTAGCAAGAGAGCAGGTTGAAGTTTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTA
* * * *
94447524 AAGATTGTAGATCTTATTTCCCTAAGCAGTAGTGGA-AATGATCGAAGATGACGAATCTTATCTT
66 AAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCA-GATCGAAGATGGCAAATCTTATCTT
** * * *
94447588 CCCGATATAGTAGAGGAGCAAATTTTAGCCACCAGCCTTATCTCTCTG
130 CCCGAGGTAGCAGGGGAGCAAATTTTAGCCACCAGCCTTATCTCTCTA
* * * * * * *
94447636 ATGTGGTAAGAGAGTAAGTTGAAGTTTGAAGTCTTATCTTCCTTAGGTAGCAAGGAAGCAGACTA
1 AGGTAGCAAGAGAGCAGGTTGAAGTTTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTA
* ** *
94447701 AAGATTGTAGATCTTATCTCCTTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATTTTC
66 AAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAAATCTTATCTTC
* * *
94447766 CCGAGGTAGTAGGGGAGCAGATTTTAGCCACCAGTCTTATCTCTCTA
131 CCGAGGTAGCAGGGGAGCAAATTTTAGCCACCAGCCTTATCTCTCTA
* * * * *
94447813 AGGTAACAAGAGAGCAGGTTGAAGTTTGTAGTCTTATCTTTCTAAGGTAGCAAGGAAGCACACTG
1 AGGTAGCAAGAGAGCAGGTTGAAGTTTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTA
*
94447878 AAGATTGTAGATTTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAAATCTTATCTTC
66 AAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAAATCTTATCTTC
* * * * * *
94447943 TCGAGGTAGCAGGGGAACAAATTTTAGCTACTAGTCTTATCTCCCTA
131 CCGAGGTAGCAGGGGAGCAAATTTTAGCCACCAGCCTTATCTCTCTA
94447990 A
1 A
94447991 AGTTGCAGTG
Statistics
Matches: 460, Mismatches: 70, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
176 1 0.00
177 458 1.00
178 1 0.00
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.28
Consensus pattern (177 bp):
AGGTAGCAAGAGAGCAGGTTGAAGTTTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTA
AAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAAATCTTATCTTC
CCGAGGTAGCAGGGGAGCAAATTTTAGCCACCAGCCTTATCTCTCTA
Found at i:94449642 original size:15 final size:15
Alignment explanation
Indices: 94449619--94449653 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
94449609 TTATTCTAAA
*
94449619 ATTAATTTATATATT
1 ATTAATTTACATATT
*
94449634 ATTATTTTACATATT
1 ATTAATTTACATATT
94449649 ATTAA
1 ATTAA
94449654 CTTTTGATTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (15 bp):
ATTAATTTACATATT
Found at i:94452147 original size:22 final size:23
Alignment explanation
Indices: 94452118--94452169 Score: 81
Period size: 22 Copynumber: 2.3 Consensus size: 23
94452108 TTTTTCTTTT
94452118 TATT-TATTTTATTATTTA-TAC
1 TATTATATTTTATTATTTATTAC
*
94452139 TATTATATTTTATTATTTATTAT
1 TATTATATTTTATTATTTATTAC
94452162 TATTATAT
1 TATTATAT
94452170 CCATTCTTCA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
21 4 0.14
22 14 0.50
23 10 0.36
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (23 bp):
TATTATATTTTATTATTTATTAC
Found at i:94452338 original size:23 final size:23
Alignment explanation
Indices: 94452312--94452397 Score: 88
Period size: 23 Copynumber: 3.7 Consensus size: 23
94452302 TATATATATC
*
94452312 GTATATGTTTTTATATATTTTAT
1 GTATATATTTTTATATATTTTAT
*
94452335 GTATATATTCTTA-ATATTATTA-
1 GTATATATTTTTATATATT-TTAT
*
94452357 GTTATATATCTTTTATACTATTTCAT
1 G-TATATAT-TTTTATA-TATTTTAT
94452383 GTATATA-TTTTATAT
1 GTATATATTTTTATAT
94452398 TATCCTTATT
Statistics
Matches: 53, Mismatches: 4, Indels: 13
0.76 0.06 0.19
Matches are distributed among these distances:
22 7 0.13
23 28 0.53
24 4 0.08
25 9 0.17
26 5 0.09
ACGTcount: A:0.30, C:0.05, G:0.06, T:0.59
Consensus pattern (23 bp):
GTATATATTTTTATATATTTTAT
Found at i:94452584 original size:23 final size:24
Alignment explanation
Indices: 94452524--94452597 Score: 116
Period size: 23 Copynumber: 3.1 Consensus size: 24
94452514 TTCTAATATG
*
94452524 TATATACTATGTAAATATTTC-AA
1 TATATATTATGTAAATATTTCTAA
94452547 TACTATATTATGTAAATATTTCTAA
1 TA-TATATTATGTAAATATTTCTAA
94452572 TATAT-TTATGTAAATATTTCTAA
1 TATATATTATGTAAATATTTCTAA
94452595 TAT
1 TAT
94452598 TAATATATTT
Statistics
Matches: 48, Mismatches: 1, Indels: 4
0.91 0.02 0.08
Matches are distributed among these distances:
23 23 0.48
24 21 0.44
25 4 0.08
ACGTcount: A:0.41, C:0.07, G:0.04, T:0.49
Consensus pattern (24 bp):
TATATATTATGTAAATATTTCTAA
Found at i:94455628 original size:22 final size:23
Alignment explanation
Indices: 94455599--94455652 Score: 74
Period size: 22 Copynumber: 2.4 Consensus size: 23
94455589 CCATGACTAA
*
94455599 CATTCATTCGTCATTTATTCAAT
1 CATTCATTCGTCATTCATTCAAT
* *
94455622 -ATTCATTTGTCATTCATTCATT
1 CATTCATTCGTCATTCATTCAAT
94455644 CATTCATTC
1 CATTCATTC
94455653 ATTGCACGTA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
22 19 0.73
23 7 0.27
ACGTcount: A:0.24, C:0.22, G:0.04, T:0.50
Consensus pattern (23 bp):
CATTCATTCGTCATTCATTCAAT
Found at i:94455640 original size:4 final size:4
Alignment explanation
Indices: 94455631--94455655 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
94455621 TATTCATTTG
94455631 TCAT TCAT TCAT TCAT TCAT TCAT T
1 TCAT TCAT TCAT TCAT TCAT TCAT T
94455656 GCACGTATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.52
Consensus pattern (4 bp):
TCAT
Found at i:94463937 original size:74 final size:74
Alignment explanation
Indices: 94463837--94464230 Score: 413
Period size: 73 Copynumber: 5.1 Consensus size: 74
94463827 TATTCTGATG
* *
94463837 TTTTTATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG-ACAC
1 TTTTAATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCACAC
*
94463901 -TTGAGGTA
66 GCTGAGGTA
94463909 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-AC
1 TTTT-AATTTCTGT-TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCAC
94463973 ACGCTGAGGTAA
64 ACGCTGAGGT-A
* * *
94463985 TGTTAATTTCTGTTCTTCAGTTTGTGTTTCAAAAAATCAATTCATATTGCGAGAGATGAGTTGAG
1 TTTTAATTTCTGTT-TTCA-----------AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
* *
94464050 TCTCAGGTCACACACTGAGGTA
54 CCTCAGG-CACACGCTGAGGTA
* *
94464072 TTTTCAATTTATG-TTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCAC
1 TTTT-AATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-CAC
94464134 ACGCTGAGGTA
64 ACGCTGAGGTA
* * * *
94464145 TTTTAATTTCTGTTTTTCAAAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGTCTTAGGTTAC
1 TTTTAATTTCTG-TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-CAC
* *
94464210 ACACTTAGGTA
64 ACGCTGAGGTA
94464221 TTTTCAATTT
1 TTTT-AATTT
94464231 TTACCTTTTC
Statistics
Matches: 275, Mismatches: 23, Indels: 43
0.81 0.07 0.13
Matches are distributed among these distances:
72 11 0.04
73 63 0.23
74 55 0.20
75 19 0.07
76 57 0.21
77 5 0.02
86 42 0.15
87 5 0.02
88 18 0.07
ACGTcount: A:0.29, C:0.15, G:0.20, T:0.36
Consensus pattern (74 bp):
TTTTAATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCACAC
GCTGAGGTA
Found at i:94464194 original size:76 final size:74
Alignment explanation
Indices: 94464011--94464273 Score: 305
Period size: 76 Copynumber: 3.5 Consensus size: 74
94464001 TCAGTTTGTG
*
94464011 TTTCAAAAAATCAATTCATATTGCGAGAGATGAGTTGAGTCTCAGGTCACACACTGAGGTATTTT
1 TTTC-AAAAATCAACTCATATTGCGAGAGATGAGTTGAGTCTCAGGTCACACACTGAGGTATTTT
94464076 CAATTTATG-
65 CAATTTATGT
* * * *
94464085 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTATTTT-
1 TTTCAAAAATCAACTCATATTGCGAGAGATGAGTTGAGTCTCAGGTCACACACTGAGGTATTTTC
*
94464149 AATTTCTGTT
66 AATTTATG-T
* * * * *
94464159 TTTCAAAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGTCTTAGGTTACACACTTAGGTATTT
1 TTTC--AAAAATCAACTCATATTGCGAGAGATGAGTTGAGTCTCAGGTCACACACTGAGGTATTT
**
94464224 TCAATTTTTACCT
64 TCAA--TTTATGT
* * * *
94464237 TTTCAAAAGTTAACTCATAATCCGAGAGATGAGTTGA
1 TTTCAAAAATCAACTCATATTGCGAGAGATGAGTTGA
94464274 ACTTCAATTC
Statistics
Matches: 162, Mismatches: 20, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
72 7 0.04
73 55 0.34
74 8 0.05
76 82 0.51
77 2 0.01
78 5 0.03
79 3 0.02
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.35
Consensus pattern (74 bp):
TTTCAAAAATCAACTCATATTGCGAGAGATGAGTTGAGTCTCAGGTCACACACTGAGGTATTTTC
AATTTATGT
Found at i:94465335 original size:12 final size:12
Alignment explanation
Indices: 94465318--94465365 Score: 55
Period size: 12 Copynumber: 4.1 Consensus size: 12
94465308 TTTTTTCTTT
94465318 TTATTTATTTTA
1 TTATTTATTTTA
**
94465330 TTATTTATACTA
1 TTATTTATTTTA
94465342 TTA--TATTTTA
1 TTATTTATTTTA
94465352 TTATTTATTATTA
1 TTATTTATT-TTA
94465365 T
1 T
94465366 ATCCATTCTT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
10 8 0.28
12 17 0.59
13 4 0.14
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (12 bp):
TTATTTATTTTA
Found at i:94465351 original size:22 final size:20
Alignment explanation
Indices: 94465318--94465367 Score: 75
Period size: 22 Copynumber: 2.5 Consensus size: 20
94465308 TTTTTTCTTT
94465318 TTATT-TATTTTATTATTTA
1 TTATTATATTTTATTATTTA
94465337 TACTATTATATTTTATTATTTA
1 T--TATTATATTTTATTATTTA
94465359 TTATTATAT
1 TTATTATAT
94465368 CCATTCTTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
19 1 0.04
20 8 0.29
21 4 0.14
22 15 0.54
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (20 bp):
TTATTATATTTTATTATTTA
Found at i:94465537 original size:23 final size:23
Alignment explanation
Indices: 94465496--94466106 Score: 122
Period size: 23 Copynumber: 26.3 Consensus size: 23
94465486 ATCATTTCTA
* *
94465496 ATATATATATATCGCATATGTTTTT
1 ATATATAT-TAT-GTATATATTTTT
94465521 ATATATATTATGTATATATTTTT
1 ATATATATTATGTATATATTTTT
94465544 A-ATATTATTA-GTTATATATCTTTT
1 ATATA-TATTATG-TATATAT-TTTT
94465568 ATACTAT-TTCATGTATATATTTTT
1 ATA-TATATT-ATGTATATATTTTT
*** *
94465592 ATAT-TACCCT-TAT-TATTATT
1 ATATATATTATGTATATATTTTT
94465612 AT-TA-A-TAT-TAATATATGTTTT
1 ATATATATTATGT-ATATAT-TTTT
* *
94465633 AT-TATA-T-G-TATATATCTTT
1 ATATATATTATGTATATATTTTT
* *
94465652 A-ATATATATCTGTATATATTTAT
1 ATATATAT-TATGTATATATTTTT
*
94465675 GTA-ATATTAT-TA-ATAGTTGTTT
1 ATATATATTATGTATATA-TT-TTT
* *
94465697 -TTTAACATTAT-TAT-TATTTCTAAT
1 ATAT-ATATTATGTATATATTT-T--T
* * **
94465721 ATGTATATACTATGTAAATATTTCA
1 A--TATATATTATGTATATATTTTT
*
94465746 ATACTATATTATGTATACATTTTTT
1 ATA-TATATTATGTATATA-TTTTT
*
94465771 ATATATATTACGTATATATATCTTT
1 ATATATATTATGTATATAT-T-TTT
* *
94465796 TTA-ATA-T-TGTAT-T-TTTAT
1 ATATATATTATGTATATATTTTT
* * *
94465814 ATATGTCATGTA--TATAT-TTCTA
1 ATATAT-AT-TATGTATATATTTTT
* *
94465836 ATACTATATTA--CAT-T-TTTTAC
1 ATA-TATATTATGTATATATTTT-T
*
94465857 ATATTATCTTATGTATATATTTTTT
1 ATA-TATATTATGTATATA-TTTTT
* *
94465882 AAAAACTATATTATGTATTTATTTTT
1 --ATA-TATATTATGTATATATTTTT
* * *
94465908 AACACTATATTACGTACATATTTTT
1 -ATA-TATATTATGTATATATTTTT
94465933 AATATCATTATTATGTATATATTTTT
1 -ATAT-A-TATTATGTATATATTTTT
*
94465959 A-ATATATATATGTGTATA--TTT
1 ATATATAT-TATGTATATATTTTT
*
94465980 ATGTAGTATTAT-TA-ATAGTTGTTT
1 ATATA-TATTATGTATATA-TT-TTT
*
94466004 TTA-ATATTAT-TAT-TATTTCTAAT
1 ATATATATTATGTATATATTT-T--T
*
94466027 ATGTATATATTATATATATA-TTTT
1 A--TATATATTATGTATATATTTTT
*
94466051 -CA-ATATTATGTATATACTTTTT
1 ATATATATTATGTATATA-TTTTT
* *
94466073 AATACTATTATTATGTTTATATTTTA
1 -ATA-TA-TATTATGTATATATTTTT
94466099 ATATATAT
1 ATATATAT
94466107 GCGTATGTAT
Statistics
Matches: 440, Mismatches: 70, Indels: 154
0.66 0.11 0.23
Matches are distributed among these distances:
18 6 0.01
19 14 0.03
20 43 0.10
21 44 0.10
22 50 0.11
23 73 0.17
24 60 0.14
25 61 0.14
26 46 0.10
27 36 0.08
28 7 0.02
ACGTcount: A:0.34, C:0.06, G:0.05, T:0.55
Consensus pattern (23 bp):
ATATATATTATGTATATATTTTT
Found at i:94465914 original size:25 final size:25
Alignment explanation
Indices: 94465865--94465979 Score: 110
Period size: 25 Copynumber: 4.6 Consensus size: 25
94465855 ACATATTATC
94465865 TTATGTATATATTTTTTAAAAACTATA
1 TTATGTATATA-TTTTT-AAAACTATA
* *
94465892 TTATGTATTTATTTTTAACACTATA
1 TTATGTATATATTTTTAAAACTATA
* * *
94465917 TTACGTACATATTTTTAATA-TCATTA
1 TTATGTATATATTTTTAAAACT-A-TA
*
94465943 TTATGTATATATTTTTAATA-TATA
1 TTATGTATATATTTTTAAAACTATA
*
94465967 -TATGTGTATATTT
1 TTATGTATATATTT
94465980 ATGTAGTATT
Statistics
Matches: 77, Mismatches: 9, Indels: 8
0.82 0.10 0.09
Matches are distributed among these distances:
23 12 0.16
24 3 0.04
25 26 0.34
26 26 0.34
27 10 0.13
ACGTcount: A:0.35, C:0.05, G:0.05, T:0.55
Consensus pattern (25 bp):
TTATGTATATATTTTTAAAACTATA
Found at i:94466056 original size:20 final size:21
Alignment explanation
Indices: 94466033--94466076 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
94466023 TAATATGTAT
94466033 ATATTATATATATA-TTTTCA
1 ATATTATATATATACTTTTCA
* *
94466053 ATATTATGTATATACTTTTTA
1 ATATTATATATATACTTTTCA
94466074 ATA
1 ATA
94466077 CTATTATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.39, C:0.05, G:0.02, T:0.55
Consensus pattern (21 bp):
ATATTATATATATACTTTTCA
Found at i:94466057 original size:46 final size:46
Alignment explanation
Indices: 94466002--94466107 Score: 119
Period size: 47 Copynumber: 2.3 Consensus size: 46
94465992 TAATAGTTGT
*
94466002 TTTTAATATTAT-TAT-TA-TTTCTAATATGTATATATTATATATATA
1 TTTTAATATTATGTATATACTTTCTAATA-CTAT-TATTATATATATA
* * *
94466047 TTTTCAATATTATGTATATACTTTTTAATACTATTATTATGTTTATA
1 TTTT-AATATTATGTATATACTTTCTAATACTATTATTATATATATA
94466094 TTTTAATATATATG
1 TTTTAATAT-TATG
94466108 CGTATGTATA
Statistics
Matches: 52, Mismatches: 4, Indels: 8
0.81 0.06 0.12
Matches are distributed among these distances:
45 4 0.08
46 13 0.25
47 22 0.42
48 5 0.10
49 8 0.15
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.58
Consensus pattern (46 bp):
TTTTAATATTATGTATATACTTTCTAATACTATTATTATATATATA
Found at i:94466104 original size:70 final size:70
Alignment explanation
Indices: 94465914--94466106 Score: 159
Period size: 70 Copynumber: 2.7 Consensus size: 70
94465904 TTTTAACACT
* * * * *
94465914 ATATTACGTACATATTTTTAATATCATTATTATGTATATATTTTTAATATATA-TATGTGTATAT
1 ATATTATGTATATATTTTTAATAT-ATTATTATGTTTATA-TTTTAATATATATTATATATATAT
*
94465978 TTATGTA
64 TTATGCA
* * * *
94465985 GTATTAT-TAATAGTTGTTTTTAATATTATTATTAT-TTCTA-A-TAT-GTATATATTATATATA
1 ATATTATGT-ATA--TATTTTTAATA-TATTATTATGTT-TATATTTTAATATATATTATATATA
94466045 TATTT-T-CA
61 TATTTATGCA
94466053 ATATTATGTATATACTTTTTAATACTATTATTATGTTTATATTTTAATATATAT
1 ATATTATGTATATA-TTTTTAATA-TATTATTATGTTTATATTTTAATATATAT
94466107 GCGTATGTAT
Statistics
Matches: 95, Mismatches: 15, Indels: 25
0.70 0.11 0.19
Matches are distributed among these distances:
66 1 0.01
67 20 0.21
68 13 0.14
69 10 0.11
70 21 0.22
71 7 0.07
72 2 0.02
73 20 0.21
74 1 0.01
ACGTcount: A:0.35, C:0.04, G:0.06, T:0.56
Consensus pattern (70 bp):
ATATTATGTATATATTTTTAATATATTATTATGTTTATATTTTAATATATATTATATATATATTT
ATGCA
Found at i:94471777 original size:16 final size:15
Alignment explanation
Indices: 94471744--94471817 Score: 51
Period size: 16 Copynumber: 4.6 Consensus size: 15
94471734 GAATCATCTA
* *
94471744 AAAATATCAAAAGAT
1 AAAATATTAAAAAAT
94471759 AAAATATTAAAAAATT
1 AAAATATTAAAAAA-T
*
94471775 AAAACT-TGTCCTAAAAAT
1 AAAA-TAT-T--AAAAAAT
*
94471793 AAAATATTAGAAAATT
1 AAAATATTA-AAAAAT
94471809 AAAATATTA
1 AAAATATTA
94471818 TCATAATGAA
Statistics
Matches: 47, Mismatches: 5, Indels: 13
0.72 0.08 0.20
Matches are distributed among these distances:
15 12 0.26
16 20 0.43
17 4 0.09
18 6 0.13
19 5 0.11
ACGTcount: A:0.62, C:0.05, G:0.04, T:0.28
Consensus pattern (15 bp):
AAAATATTAAAAAAT
Found at i:94472738 original size:22 final size:22
Alignment explanation
Indices: 94472708--94472749 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
94472698 TTTTGAACAC
* *
94472708 AAGATAAAACAAAAGTTCATTT
1 AAGACAAAAAAAAAGTTCATTT
*
94472730 AAGACAAAAAAAAATTTCAT
1 AAGACAAAAAAAAAGTTCAT
94472750 GCAACTAAGG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.60, C:0.10, G:0.07, T:0.24
Consensus pattern (22 bp):
AAGACAAAAAAAAAGTTCATTT
Found at i:94477879 original size:29 final size:29
Alignment explanation
Indices: 94477835--94477893 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
94477825 AATTTTAAAT
* *
94477835 TTTTACCTAAAGGTATATATTAACGTTAA
1 TTTTACCTAAACGTATATATTAACATTAA
*
94477864 TTTTACCTAAACGTATATATTTACATTAA
1 TTTTACCTAAACGTATATATTAACATTAA
94477893 T
1 T
94477894 CTTAAAATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.37, C:0.12, G:0.07, T:0.44
Consensus pattern (29 bp):
TTTTACCTAAACGTATATATTAACATTAA
Found at i:94481954 original size:14 final size:14
Alignment explanation
Indices: 94481930--94481963 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
94481920 TGAAACATCG
94481930 TAATATTTATTATTT
1 TAAT-TTTATTATTT
94481945 TAATTTTATTATTT
1 TAATTTTATTATTT
94481959 TAATT
1 TAATT
94481964 AAAATATCCT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 15 0.79
15 4 0.21
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (14 bp):
TAATTTTATTATTT
Found at i:94487296 original size:13 final size:13
Alignment explanation
Indices: 94487280--94487345 Score: 78
Period size: 13 Copynumber: 5.1 Consensus size: 13
94487270 TTTAAACCAA
*
94487280 ACTTTTTAAGAGC
1 ACTTTTTAAAAGC
* *
94487293 ACTTCTCAAAAGC
1 ACTTTTTAAAAGC
* *
94487306 ACTTTTTCACAGC
1 ACTTTTTAAAAGC
94487319 ACTTTTTAAAAGC
1 ACTTTTTAAAAGC
*
94487332 ACTTTTCAAAAGC
1 ACTTTTTAAAAGC
94487345 A
1 A
94487346 TTGCCAAACT
Statistics
Matches: 43, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 43 1.00
ACGTcount: A:0.35, C:0.23, G:0.09, T:0.33
Consensus pattern (13 bp):
ACTTTTTAAAAGC
Found at i:94489785 original size:17 final size:17
Alignment explanation
Indices: 94489763--94489795 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
94489753 ACTCAACATC
94489763 GCTAACTCCTTTTCCAT
1 GCTAACTCCTTTTCCAT
94489780 GCTAACTCCTTTTCCA
1 GCTAACTCCTTTTCCA
94489796 CCAATCCGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.18, C:0.36, G:0.06, T:0.39
Consensus pattern (17 bp):
GCTAACTCCTTTTCCAT
Found at i:94494981 original size:16 final size:16
Alignment explanation
Indices: 94494960--94494991 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
94494950 ACGTATAAGA
94494960 GTTTTGTTATTTATAT
1 GTTTTGTTATTTATAT
94494976 GTTTTGTTATTTATAT
1 GTTTTGTTATTTATAT
94494992 ATAATATATA
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:0.19, C:0.00, G:0.12, T:0.69
Consensus pattern (16 bp):
GTTTTGTTATTTATAT
Found at i:94495415 original size:36 final size:36
Alignment explanation
Indices: 94495368--94495449 Score: 94
Period size: 36 Copynumber: 2.3 Consensus size: 36
94495358 TTGTGAACCA
* *
94495368 TGTTAACTTGGTGAAT-TATATTATTATGGCGAACTG
1 TGTTAATTTGGTG-ATCTATATTAATATGGCGAACTG
* * *
94495404 TGTTAATTTGGTGATCTGTATTAATCTGGTGAACTG
1 TGTTAATTTGGTGATCTATATTAATATGGCGAACTG
*
94495440 TATTAATTTG
1 TGTTAATTTG
94495450 CCAAATTGTG
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
35 2 0.05
36 37 0.95
ACGTcount: A:0.26, C:0.07, G:0.22, T:0.45
Consensus pattern (36 bp):
TGTTAATTTGGTGATCTATATTAATATGGCGAACTG
Found at i:94495427 original size:18 final size:18
Alignment explanation
Indices: 94495370--94495449 Score: 81
Period size: 18 Copynumber: 4.4 Consensus size: 18
94495360 GTGAACCATG
* * *
94495370 TTAACTTGGTGAATTATA
1 TTAATTTGGTGAACTGTA
* *
94495388 TT-ATTATGGCGAACTGTG
1 TTAATT-TGGTGAACTGTA
*
94495406 TTAATTTGGTGATCTGTA
1 TTAATTTGGTGAACTGTA
*
94495424 TTAATCTGGTGAACTGTA
1 TTAATTTGGTGAACTGTA
94495442 TTAATTTG
1 TTAATTTG
94495450 CCAAATTGTG
Statistics
Matches: 49, Mismatches: 11, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
17 2 0.04
18 44 0.90
19 3 0.06
ACGTcount: A:0.26, C:0.07, G:0.21, T:0.45
Consensus pattern (18 bp):
TTAATTTGGTGAACTGTA
Found at i:94496108 original size:17 final size:17
Alignment explanation
Indices: 94496086--94496159 Score: 76
Period size: 17 Copynumber: 4.4 Consensus size: 17
94496076 TTATGATGGA
94496086 GCATGAACTGTTATTTT
1 GCATGAACTGTTATTTT
* *
94496103 GCATGAATTGTTATTCT
1 GCATGAACTGTTATTTT
* * *
94496120 GTATGAACTGATATTTC
1 GCATGAACTGTTATTTT
** *
94496137 ATATGAACTATTATTTT
1 GCATGAACTGTTATTTT
94496154 GCATGA
1 GCATGA
94496160 GTTGTAATTT
Statistics
Matches: 44, Mismatches: 13, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
17 44 1.00
ACGTcount: A:0.28, C:0.11, G:0.16, T:0.45
Consensus pattern (17 bp):
GCATGAACTGTTATTTT
Found at i:94496151 original size:51 final size:51
Alignment explanation
Indices: 94496088--94496196 Score: 148
Period size: 51 Copynumber: 2.1 Consensus size: 51
94496078 ATGATGGAGC
* * *
94496088 ATGAACTGTTATTTTGCATGAATTGTTATTCT-GTATGAACTGATATTTCAT
1 ATGAACTATTATTTTGCATGAATTGTAATT-TGGTAAGAACTGATATTTCAT
* *
94496139 ATGAACTATTATTTTGCATGAGTTGTAATTTGGTAAGAACTGTTATTTCAT
1 ATGAACTATTATTTTGCATGAATTGTAATTTGGTAAGAACTGATATTTCAT
*
94496190 ATAAACT
1 ATGAACT
94496197 GATGTTTGGT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
50 1 0.02
51 50 0.98
ACGTcount: A:0.30, C:0.09, G:0.16, T:0.45
Consensus pattern (51 bp):
ATGAACTATTATTTTGCATGAATTGTAATTTGGTAAGAACTGATATTTCAT
Found at i:94498355 original size:31 final size:31
Alignment explanation
Indices: 94498317--94498381 Score: 130
Period size: 31 Copynumber: 2.1 Consensus size: 31
94498307 GCTAAAAAGA
94498317 TAATAAAGATGGCTCTTTTTTTGTTTGGCAT
1 TAATAAAGATGGCTCTTTTTTTGTTTGGCAT
94498348 TAATAAAGATGGCTCTTTTTTTGTTTGGCAT
1 TAATAAAGATGGCTCTTTTTTTGTTTGGCAT
94498379 TAA
1 TAA
94498382 GTATGCTTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.25, C:0.09, G:0.18, T:0.48
Consensus pattern (31 bp):
TAATAAAGATGGCTCTTTTTTTGTTTGGCAT
Found at i:94505367 original size:14 final size:14
Alignment explanation
Indices: 94505345--94505410 Score: 71
Period size: 14 Copynumber: 4.6 Consensus size: 14
94505335 TATTTGAATA
*
94505345 TATTCTTTTTCAAT
1 TATTATTTTTCAAT
*
94505359 TATTATTTTTGAAT
1 TATTATTTTTCAAT
*
94505373 ATATTATATTTTAAAT
1 -TATTAT-TTTTCAAT
94505389 TATTATTTTTCTAAT
1 TATTATTTTTC-AAT
94505404 T-TTATTT
1 TATTATTT
94505411 ATATTATTTG
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
14 22 0.49
15 16 0.36
16 7 0.16
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.65
Consensus pattern (14 bp):
TATTATTTTTCAAT
Found at i:94505377 original size:15 final size:14
Alignment explanation
Indices: 94505313--94505398 Score: 73
Period size: 15 Copynumber: 5.6 Consensus size: 14
94505303 AATTTTAATG
94505313 TTATTGTTTGAATTAA
1 TTATT-TTTGAATT-A
94505329 TTTAATTATTTGAATATA
1 -TT-ATT-TTTGAAT-TA
* *
94505347 TTCTTTTTCAATTA
1 TTATTTTTGAATTA
94505361 TTATTTTTGAATATA
1 TTATTTTTGAAT-TA
*
94505376 TTATATTTTAAATTA
1 TTAT-TTTTGAATTA
94505391 TTATTTTT
1 TTATTTTT
94505399 CTAATTTTAT
Statistics
Matches: 59, Mismatches: 6, Indels: 11
0.78 0.08 0.14
Matches are distributed among these distances:
14 16 0.27
15 18 0.31
16 9 0.15
17 4 0.07
18 11 0.19
19 1 0.02
ACGTcount: A:0.31, C:0.02, G:0.05, T:0.62
Consensus pattern (14 bp):
TTATTTTTGAATTA
Found at i:94505392 original size:30 final size:29
Alignment explanation
Indices: 94505337--94505398 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 29
94505327 AATTTAATTA
* *
94505337 TTTGAATATATTCTTTTTCAATTATTATT
1 TTTGAATATATTATTTTTAAATTATTATT
94505366 TTTGAATATATTATATTTTAAATTATTATT
1 TTTGAATATATTAT-TTTTAAATTATTATT
94505396 TTT
1 TTT
94505399 CTAATTTTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 13 0.43
30 17 0.57
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (29 bp):
TTTGAATATATTATTTTTAAATTATTATT
Found at i:94505397 original size:29 final size:28
Alignment explanation
Indices: 94505333--94505397 Score: 87
Period size: 29 Copynumber: 2.3 Consensus size: 28
94505323 AATTAATTTA
* *
94505333 ATTA-TTTGAATATATTCTTTTTCAATT
1 ATTATTTTGAATATATTATTTTTAAATT
94505360 ATTATTTTTGAATATATTATATTTTAAATT
1 ATTA-TTTTGAATATATTAT-TTTTAAATT
94505390 ATTATTTT
1 ATTATTTT
94505398 TCTAATTTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
27 4 0.12
29 17 0.52
30 12 0.36
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (28 bp):
ATTATTTTGAATATATTATTTTTAAATT
Found at i:94506588 original size:16 final size:16
Alignment explanation
Indices: 94506567--94506634 Score: 59
Period size: 16 Copynumber: 4.2 Consensus size: 16
94506557 TAGTTTGCTG
94506567 TAATAAAATAGAA-TAA
1 TAATAAAATAGAACT-A
* *
94506583 TAATAAAATA-AAGTTG
1 TAATAAAATAGAA-CTA
*
94506599 TAATATAATAGAACTA
1 TAATAAAATAGAACTA
* *
94506615 TAATGAAATAGAACTG
1 TAATAAAATAGAACTA
94506631 TAAT
1 TAAT
94506635 CAGTAATTCA
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
15 2 0.05
16 37 0.88
17 3 0.07
ACGTcount: A:0.57, C:0.03, G:0.10, T:0.29
Consensus pattern (16 bp):
TAATAAAATAGAACTA
Found at i:94506633 original size:32 final size:32
Alignment explanation
Indices: 94506563--94506634 Score: 85
Period size: 32 Copynumber: 2.2 Consensus size: 32
94506553 CATTTAGTTT
94506563 GCTGTAATAAAATAGAATAATAATAAAATAAA
1 GCTGTAATAAAATAGAATAATAATAAAATAAA
* * *
94506595 GTTGTAATATAATAGAACT-ATAATGAAATAGAA
1 GCTGTAATAAAATAGAA-TAATAATAAAATA-AA
94506628 -CTGTAAT
1 GCTGTAAT
94506635 CAGTAATTCA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
32 31 0.91
33 3 0.09
ACGTcount: A:0.54, C:0.04, G:0.12, T:0.29
Consensus pattern (32 bp):
GCTGTAATAAAATAGAATAATAATAAAATAAA
Found at i:94506916 original size:59 final size:59
Alignment explanation
Indices: 94506793--94506927 Score: 191
Period size: 59 Copynumber: 2.3 Consensus size: 59
94506783 TTGTTATTAA
* * *
94506793 ATTTTAAGATGATTATTATTAAAAATATTTTAATAATAAATAATAAATAATTTAATCAT
1 ATTTTAATATAATTATTATTAAAAATAATTTAATAATAAATAATAAATAATTTAATCAT
* * * *
94506852 ATTTTAGTATAGTTATTATTAAATATAATTTAATAA-AAATAATATATAATTTAATCAT
1 ATTTTAATATAATTATTATTAAAAATAATTTAATAATAAATAATAAATAATTTAATCAT
94506910 ATTTTTAATATAATTATT
1 A-TTTTAATATAATTATT
94506928 TTTATATTAA
Statistics
Matches: 66, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
58 22 0.33
59 44 0.67
ACGTcount: A:0.48, C:0.01, G:0.03, T:0.47
Consensus pattern (59 bp):
ATTTTAATATAATTATTATTAAAAATAATTTAATAATAAATAATAAATAATTTAATCAT
Found at i:94517601 original size:17 final size:18
Alignment explanation
Indices: 94517575--94517615 Score: 66
Period size: 17 Copynumber: 2.3 Consensus size: 18
94517565 ATTAAATCTA
*
94517575 TATAAGATATTAT-TTAT
1 TATAAAATATTATCTTAT
94517592 TATAAAATATTATCTTAT
1 TATAAAATATTATCTTAT
94517610 TATAAA
1 TATAAA
94517616 CCAAAATCCA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 12 0.55
18 10 0.45
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.49
Consensus pattern (18 bp):
TATAAAATATTATCTTAT
Found at i:94519028 original size:21 final size:20
Alignment explanation
Indices: 94518989--94519028 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
94518979 CTCGTGTTTC
*
94518989 AATACATAAGATTTTATAAA
1 AATACATAAGATCTTATAAA
*
94519009 AATACATACCGATCTTATAA
1 AATACATA-AGATCTTATAA
94519029 GGTGTAAGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.50, C:0.12, G:0.05, T:0.33
Consensus pattern (20 bp):
AATACATAAGATCTTATAAA
Found at i:94525597 original size:22 final size:22
Alignment explanation
Indices: 94525572--94525615 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
94525562 TTATTTTTTT
*
94525572 ATAA-AAATATATAAATTTTATA
1 ATAATAAATATA-AAATTATATA
*
94525594 ATAATACATATAAAATTATATA
1 ATAATAAATATAAAATTATATA
94525616 CATATTTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (22 bp):
ATAATAAATATAAAATTATATA
Found at i:94525604 original size:21 final size:19
Alignment explanation
Indices: 94525568--94525607 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 19
94525558 ATGTTTATTT
*
94525568 TTTTATAAAAATATATAAA
1 TTTTATAAAAACATATAAA
94525587 TTTTATAATAATACATATAAA
1 TTTTATAA-AA-ACATATAAA
94525608 ATTATATACA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 8 0.44
20 2 0.11
21 8 0.44
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (19 bp):
TTTTATAAAAACATATAAA
Found at i:94527556 original size:28 final size:26
Alignment explanation
Indices: 94527516--94527567 Score: 77
Period size: 28 Copynumber: 1.9 Consensus size: 26
94527506 TTCCTTTTAC
*
94527516 TAAAAAACTAAAATTAATTATAAAAAA
1 TAAAAAACTAAAATAAATTA-AAAAAA
94527543 TAAAATAACTAAAATAAATTAAAAA
1 TAAAA-AACTAAAATAAATTAAAAA
94527568 GATAGAATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 9 0.39
28 14 0.61
ACGTcount: A:0.71, C:0.04, G:0.00, T:0.25
Consensus pattern (26 bp):
TAAAAAACTAAAATAAATTAAAAAAA
Found at i:94527622 original size:21 final size:22
Alignment explanation
Indices: 94527590--94527630 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
94527580 TTCCTTGTAA
*
94527590 AAATCTTAAGTTTTTTCATTCT
1 AAATCTTAAGTTTTTCCATTCT
94527612 AAATC-TAAGTTTTTCCATT
1 AAATCTTAAGTTTTTCCATT
94527631 ATAAGTAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.29, C:0.15, G:0.05, T:0.51
Consensus pattern (22 bp):
AAATCTTAAGTTTTTCCATTCT
Found at i:94530266 original size:35 final size:35
Alignment explanation
Indices: 94530210--94530294 Score: 143
Period size: 35 Copynumber: 2.4 Consensus size: 35
94530200 ATATCTATAA
*
94530210 CTGTATCTGTATCTGAAATGGGCTTAGGCCCGAAT
1 CTGTATCTGTATCTGAAATGGGCTCAGGCCCGAAT
* *
94530245 CTGTTTCTGTATCTGACATGGGCTCAGGCCCGAAT
1 CTGTATCTGTATCTGAAATGGGCTCAGGCCCGAAT
94530280 CTGTATCTGTATCTG
1 CTGTATCTGTATCTG
94530295 GATTGATGCG
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 46 1.00
ACGTcount: A:0.19, C:0.22, G:0.25, T:0.34
Consensus pattern (35 bp):
CTGTATCTGTATCTGAAATGGGCTCAGGCCCGAAT
Found at i:94534973 original size:5 final size:5
Alignment explanation
Indices: 94534963--94535054 Score: 184
Period size: 5 Copynumber: 18.4 Consensus size: 5
94534953 ATAAGAATAT
94534963 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
94535013 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TA
94535055 ACTAAACTAA
Statistics
Matches: 87, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 87 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATTA
Found at i:94539849 original size:22 final size:22
Alignment explanation
Indices: 94539821--94539868 Score: 96
Period size: 22 Copynumber: 2.2 Consensus size: 22
94539811 GATCAAGTCG
94539821 ATGCATGATACTAGCACACTTT
1 ATGCATGATACTAGCACACTTT
94539843 ATGCATGATACTAGCACACTTT
1 ATGCATGATACTAGCACACTTT
94539865 ATGC
1 ATGC
94539869 TTGTCCAAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (22 bp):
ATGCATGATACTAGCACACTTT
Found at i:94543174 original size:11 final size:11
Alignment explanation
Indices: 94543158--94543207 Score: 59
Period size: 11 Copynumber: 4.7 Consensus size: 11
94543148 ATTTAAAAAT
94543158 ATTTTTATATA
1 ATTTTTATATA
*
94543169 ATTTTTATCTA
1 ATTTTTATATA
*
94543180 ATATTTA-ATA
1 ATTTTTATATA
94543190 ATTTTT-TATA
1 ATTTTTATATA
*
94543200 TTTTTTAT
1 ATTTTTAT
94543208 TTATTAATTT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
10 15 0.47
11 17 0.53
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (11 bp):
ATTTTTATATA
Found at i:94543932 original size:26 final size:26
Alignment explanation
Indices: 94543903--94543984 Score: 62
Period size: 26 Copynumber: 3.2 Consensus size: 26
94543893 CCAATGGATA
94543903 TAAAACTATCTTTCTTAATGAGAATT
1 TAAAACTATCTTTCTTAATGAGAATT
* * * ** *
94543929 TAAATGCGAGT-TGTACCCAATG-G-ATA
1 TAAA-ACTA-TCT-TTCTTAATGAGAATT
94543955 TAAAACTATCTTTCTTAATGAGAATT
1 TAAAACTATCTTTCTTAATGAGAATT
94543981 TAAA
1 TAAA
94543985 TGCATGGCGT
Statistics
Matches: 38, Mismatches: 12, Indels: 12
0.61 0.19 0.19
Matches are distributed among these distances:
24 7 0.18
25 4 0.11
26 16 0.42
27 4 0.11
28 7 0.18
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.37
Consensus pattern (26 bp):
TAAAACTATCTTTCTTAATGAGAATT
Found at i:94543961 original size:52 final size:52
Alignment explanation
Indices: 94543883--94543987 Score: 210
Period size: 52 Copynumber: 2.0 Consensus size: 52
94543873 CTTGGTCACT
94543883 CGAGTTGTACCCAATGGATATAAAACTATCTTTCTTAATGAGAATTTAAATG
1 CGAGTTGTACCCAATGGATATAAAACTATCTTTCTTAATGAGAATTTAAATG
94543935 CGAGTTGTACCCAATGGATATAAAACTATCTTTCTTAATGAGAATTTAAATG
1 CGAGTTGTACCCAATGGATATAAAACTATCTTTCTTAATGAGAATTTAAATG
94543987 C
1 C
94543988 ATGGCGTATA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.36, C:0.14, G:0.15, T:0.34
Consensus pattern (52 bp):
CGAGTTGTACCCAATGGATATAAAACTATCTTTCTTAATGAGAATTTAAATG
Found at i:94546907 original size:29 final size:30
Alignment explanation
Indices: 94546864--94546943 Score: 99
Period size: 29 Copynumber: 2.6 Consensus size: 30
94546854 GAAGTGAATC
94546864 AAATCAAAATTTCATATATAAAATTACACA-
1 AAATCAAAA-TTCATATATAAAATTACACAT
* *
94546894 AAATCAAAATTCATATATATAATTACATATT
1 AAATCAAAATTCATATATAAAATTACACA-T
* *
94546925 AAATCATAATTCATGTATA
1 AAATCAAAATTCATATATA
94546944 GTTTTAAGAT
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
29 18 0.41
30 9 0.20
31 17 0.39
ACGTcount: A:0.53, C:0.11, G:0.01, T:0.35
Consensus pattern (30 bp):
AAATCAAAATTCATATATAAAATTACACAT
Found at i:94549844 original size:39 final size:39
Alignment explanation
Indices: 94549785--94549922 Score: 222
Period size: 39 Copynumber: 3.5 Consensus size: 39
94549775 ATCGTGATCT
* *
94549785 GAAGCCCGAAGTCTAGCTGAAGCACATAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
94549824 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
*
94549863 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACA
1 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
* * *
94549902 AAAGCGCAAAGGCTAACTGAA
1 GAAGCCCGAAGGCTAACTGAA
94549923 ACTCATCAGA
Statistics
Matches: 93, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 93 1.00
ACGTcount: A:0.40, C:0.22, G:0.25, T:0.13
Consensus pattern (39 bp):
GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
Found at i:94556098 original size:16 final size:17
Alignment explanation
Indices: 94556067--94556099 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
94556057 CATAAGTATA
94556067 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
94556084 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
94556100 GCTCCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:94556661 original size:46 final size:47
Alignment explanation
Indices: 94556379--94556660 Score: 331
Period size: 46 Copynumber: 6.1 Consensus size: 47
94556369 TTTATCTTTG
* * * * * *
94556379 TCATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TG
1 TCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATA
* ** ***
94556425 TCATGTTGCCATGGTATCTTTCAACCATGTTCTTATTCATTTTCCCG
1 TCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATA
**
94556472 TCATGTTGCCATGGTATCTCTTTCAACCATGGTCTTATTCATTTTC-TA
1 TCATGTTGCCATGGTA--TCTTTCAACCATGGTCTTACACATTTTCATA
*
94556520 TCATGTTGCCATGGTATCTTTCAACCATGGTCCTACACA-TTTCATA
1 TCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATA
*
94556566 TCATGTTGCCATGGTATCTTTCAACCATGATCTTACACA-TTTCATA
1 TCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATA
* * * *
94556612 TCAGGTTGCCATGATATCTTTTAACTATGGTCTTACACA-TTTCATA
1 TCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATA
94556658 TCA
1 TCA
94556661 GAGAGCACAC
Statistics
Matches: 212, Mismatches: 20, Indels: 8
0.88 0.08 0.03
Matches are distributed among these distances:
45 4 0.02
46 148 0.70
47 17 0.08
48 16 0.08
49 27 0.13
ACGTcount: A:0.22, C:0.23, G:0.13, T:0.42
Consensus pattern (47 bp):
TCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATA
Found at i:94558337 original size:15 final size:15
Alignment explanation
Indices: 94558317--94558373 Score: 80
Period size: 15 Copynumber: 3.9 Consensus size: 15
94558307 CGATGAATTT
94558317 ATTGAATTTATATTG
1 ATTGAATTTATATTG
* *
94558332 ATTGAAATTATTTTG
1 ATTGAATTTATATTG
*
94558347 ATTAAATTTATATTG
1 ATTGAATTTATATTG
94558362 ATTGAA-TTATAT
1 ATTGAATTTATAT
94558374 AATATACATG
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
14 6 0.17
15 30 0.83
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.53
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:94558757 original size:23 final size:23
Alignment explanation
Indices: 94558727--94558813 Score: 92
Period size: 21 Copynumber: 4.0 Consensus size: 23
94558717 GCTTTATCGA
* *
94558727 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACCTCATGTGTCGTATT
*
94558750 TCAGGCACCTCGTGTGTCGTA--
1 TCAGGCACCTCATGTGTCGTATT
*
94558771 TCAGGCACCTCGTGTGTCGT-TT
1 TCAGGCACCTCATGTGTCGTATT
* *
94558793 T-AGGCACTTTATGTGTCGTAT
1 TCAGGCACCTCATGTGTCGTAT
94558814 ACTGATCAGG
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
21 35 0.64
22 2 0.04
23 18 0.33
ACGTcount: A:0.15, C:0.22, G:0.25, T:0.38
Consensus pattern (23 bp):
TCAGGCACCTCATGTGTCGTATT
Found at i:94562008 original size:30 final size:33
Alignment explanation
Indices: 94561968--94562036 Score: 83
Period size: 33 Copynumber: 2.2 Consensus size: 33
94561958 TGTCATTATT
94561968 TAATATATTT-ATCAAATAAA-ATC-TTATAATA
1 TAATATATTTAAT-AAATAAATATCTTTATAATA
*
94561999 TAAT-TATTTAATTAATAAATATCTTTTATAATA
1 TAATATATTTAATAAATAAATATC-TTTATAATA
94562032 TAATA
1 TAATA
94562037 AATATCTATT
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
30 11 0.34
31 9 0.28
33 12 0.38
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.46
Consensus pattern (33 bp):
TAATATATTTAATAAATAAATATCTTTATAATA
Found at i:94562042 original size:21 final size:20
Alignment explanation
Indices: 94562003--94562052 Score: 75
Period size: 21 Copynumber: 2.5 Consensus size: 20
94561993 ATAATATAAT
94562003 TATTTAAT-TAATAAATATC
1 TATTTAATATAATAAATATC
*
94562022 TTTTATAATATAATAAATATC
1 TATT-TAATATAATAAATATC
94562043 TATTTAATAT
1 TATTTAATAT
94562053 CTAATACATG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 3 0.11
20 10 0.37
21 14 0.52
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (20 bp):
TATTTAATATAATAAATATC
Found at i:94563588 original size:18 final size:17
Alignment explanation
Indices: 94563558--94563591 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
94563548 GATCCGATTG
*
94563558 AAAAACGAGAATTTTTT
1 AAAAACGAAAATTTTTT
94563575 AAAACACGAAAATTTTT
1 AAAA-ACGAAAATTTTT
94563592 GGGATTCGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.50, C:0.09, G:0.09, T:0.32
Consensus pattern (17 bp):
AAAAACGAAAATTTTTT
Found at i:94564160 original size:26 final size:27
Alignment explanation
Indices: 94564117--94564170 Score: 67
Period size: 26 Copynumber: 2.0 Consensus size: 27
94564107 TATGTATACC
*
94564117 AAATAATACATAATAATACT-AAAATA
1 AAATAATACATAACAATACTGAAAATA
*
94564143 AAATAATA-AGTAACAATAGTGAAAATA
1 AAATAATACA-TAACAATACTGAAAATA
94564170 A
1 A
94564171 TAAGCATAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 1 0.04
26 16 0.67
27 7 0.29
ACGTcount: A:0.65, C:0.06, G:0.06, T:0.24
Consensus pattern (27 bp):
AAATAATACATAACAATACTGAAAATA
Found at i:94564205 original size:18 final size:17
Alignment explanation
Indices: 94564179--94564232 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 17
94564169 AATAAGCATA
94564179 ATAATAAATATAATGATAT
1 ATAA-AAATATAAT-ATAT
*
94564198 ATAAAAATAATACTATAT
1 ATAAAAAT-ATAATATAT
*
94564216 ATAAAAGTAT-ATATAT
1 ATAAAAATATAATATAT
94564232 A
1 A
94564233 CGTACAATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
16 6 0.19
17 2 0.06
18 15 0.48
19 8 0.26
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.35
Consensus pattern (17 bp):
ATAAAAATATAATATAT
Found at i:94564431 original size:26 final size:26
Alignment explanation
Indices: 94564402--94564469 Score: 68
Period size: 26 Copynumber: 2.6 Consensus size: 26
94564392 ATAAAGGGAT
*
94564402 ATAAATAAATGGTAAAACAAAGTAA-A-
1 ATAAATAAAT-GTAAAA-AAAGGAATAG
**
94564428 ATAAATGTATGTAAAAAAAGGAATAG
1 ATAAATAAATGTAAAAAAAGGAATAG
*
94564454 ATAAATAAATATAAAA
1 ATAAATAAATGTAAAA
94564470 GAATATAATA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
24 6 0.18
25 7 0.21
26 21 0.62
ACGTcount: A:0.65, C:0.01, G:0.12, T:0.22
Consensus pattern (26 bp):
ATAAATAAATGTAAAAAAAGGAATAG
Found at i:94564664 original size:29 final size:30
Alignment explanation
Indices: 94564632--94564688 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
94564622 ATTAGCAGCG
* *
94564632 TGAAAATGATAA-AATAACAAATATTTAAA
1 TGAAAATAATAAGAACAACAAATATTTAAA
* *
94564661 TGAAGATAATAAGAACAGCAAATATTTA
1 TGAAAATAATAAGAACAACAAATATTTA
94564689 GAAAGTAAGC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
29 10 0.43
30 13 0.57
ACGTcount: A:0.58, C:0.05, G:0.11, T:0.26
Consensus pattern (30 bp):
TGAAAATAATAAGAACAACAAATATTTAAA
Found at i:94565201 original size:6 final size:7
Alignment explanation
Indices: 94565185--94565209 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
94565175 TCCAGGTAAA
94565185 TTTTTCT
1 TTTTTCT
94565192 TTTTTCT
1 TTTTTCT
94565199 TTTTTCT
1 TTTTTCT
94565206 TTTT
1 TTTT
94565210 ATTTAAAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTCT
Found at i:94568188 original size:33 final size:32
Alignment explanation
Indices: 94568096--94568200 Score: 165
Period size: 32 Copynumber: 3.2 Consensus size: 32
94568086 AAATAATTAA
*
94568096 TTGAAATATTTCACATATAAACATAATGATAT
1 TTGAAATATTTCACATATAAAAATAATGATAT
94568128 TTGAAATATTTCACATATAAAAATAATGATAT
1 TTGAAATATTTCACATATAAAAATAATGATAT
* * *
94568160 TTTAAATATTTTAAATATAAAAAATAATGATAT
1 TTGAAATATTTCACATAT-AAAAATAATGATAT
94568193 TTGAAATA
1 TTGAAATA
94568201 ATTATTTGAT
Statistics
Matches: 67, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
32 46 0.69
33 21 0.31
ACGTcount: A:0.50, C:0.05, G:0.06, T:0.39
Consensus pattern (32 bp):
TTGAAATATTTCACATATAAAAATAATGATAT
Found at i:94574733 original size:24 final size:24
Alignment explanation
Indices: 94574701--94574748 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
94574691 TCAATCAATC
94574701 TATACTATTATTGAATATTGAGGT
1 TATACTATTATTGAATATTGAGGT
94574725 TATACTATTATTGAATATTGAGGT
1 TATACTATTATTGAATATTGAGGT
94574749 GAACTAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.04, G:0.17, T:0.46
Consensus pattern (24 bp):
TATACTATTATTGAATATTGAGGT
Found at i:94588746 original size:18 final size:17
Alignment explanation
Indices: 94588699--94588777 Score: 65
Period size: 18 Copynumber: 4.5 Consensus size: 17
94588689 TTTAAATATA
94588699 TATAAATATATTATTTAAT
1 TATAAATATATTA-TT-AT
94588718 TATAAAGTATATTATTAT
1 TATAAA-TATATTATTAT
*
94588736 TGTAAAT-TA-TATTAAT
1 TATAAATATATTATT-AT
*
94588752 TAT-ATTATATTATTATAT
1 TATAAATATATTA-T-TAT
94588770 TATAAATA
1 TATAAATA
94588778 AACTAAAAAC
Statistics
Matches: 49, Mismatches: 4, Indels: 14
0.73 0.06 0.21
Matches are distributed among these distances:
15 6 0.12
16 8 0.16
17 3 0.06
18 13 0.27
19 12 0.24
20 7 0.14
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.52
Consensus pattern (17 bp):
TATAAATATATTATTAT
Found at i:94588768 original size:13 final size:14
Alignment explanation
Indices: 94588741--94588773 Score: 59
Period size: 13 Copynumber: 2.4 Consensus size: 14
94588731 ATTATTGTAA
94588741 ATTATATTAATTAT
1 ATTATATTAATTAT
94588755 ATTATATT-ATTAT
1 ATTATATTAATTAT
94588768 ATTATA
1 ATTATA
94588774 AATAAACTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 11 0.58
14 8 0.42
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (14 bp):
ATTATATTAATTAT
Found at i:94589009 original size:8 final size:8
Alignment explanation
Indices: 94588996--94589028 Score: 57
Period size: 8 Copynumber: 4.1 Consensus size: 8
94588986 AACGAAACAG
94588996 AGAAGGAA
1 AGAAGGAA
94589004 AGAAGGAA
1 AGAAGGAA
94589012 AGAAGGAA
1 AGAAGGAA
*
94589020 AGAAAGAA
1 AGAAGGAA
94589028 A
1 A
94589029 AGGGAAAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (8 bp):
AGAAGGAA
Found at i:94590529 original size:18 final size:18
Alignment explanation
Indices: 94590506--94590585 Score: 97
Period size: 18 Copynumber: 4.4 Consensus size: 18
94590496 TAAATAAAAG
*
94590506 TACTGAATGACTGATTGT
1 TACTGAATAACTGATTGT
*
94590524 TACTGAATAATTGATTGT
1 TACTGAATAACTGATTGT
* * *
94590542 TACTAAATAACAGATTGC
1 TACTGAATAACTGATTGT
* *
94590560 TACTGAATAATTGATTAT
1 TACTGAATAACTGATTGT
94590578 TACTGAAT
1 TACTGAAT
94590586 GATATTGAAA
Statistics
Matches: 51, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 51 1.00
ACGTcount: A:0.36, C:0.10, G:0.15, T:0.39
Consensus pattern (18 bp):
TACTGAATAACTGATTGT
Found at i:94596718 original size:25 final size:25
Alignment explanation
Indices: 94596690--94596750 Score: 122
Period size: 25 Copynumber: 2.4 Consensus size: 25
94596680 TTAAAATTTG
94596690 TTTTTAATTATAACATAAATTTTTA
1 TTTTTAATTATAACATAAATTTTTA
94596715 TTTTTAATTATAACATAAATTTTTA
1 TTTTTAATTATAACATAAATTTTTA
94596740 TTTTTAATTAT
1 TTTTTAATTAT
94596751 TTATCTATGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (25 bp):
TTTTTAATTATAACATAAATTTTTA
Found at i:94609388 original size:17 final size:17
Alignment explanation
Indices: 94609368--94609402 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
94609358 AAAATATATC
* *
94609368 AAAATTAATATTATAAT
1 AAAATTAAAATTAAAAT
94609385 AAAATTAAAATTAAAAT
1 AAAATTAAAATTAAAAT
94609402 A
1 A
94609403 TTTAACATGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
AAAATTAAAATTAAAAT
Found at i:94617775 original size:26 final size:26
Alignment explanation
Indices: 94617740--94617789 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
94617730 AAATTAATAG
*
94617740 TTAAAATTGAATTT-TTTTTAAAAGA
1 TTAAAATTGAATTTAATTTTAAAAGA
94617765 TTAAAGATTGAATTTAATTTTAAAA
1 TTAAA-ATTGAATTTAATTTTAAAA
94617790 AATAAATAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 5 0.23
26 9 0.41
27 8 0.36
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (26 bp):
TTAAAATTGAATTTAATTTTAAAAGA
Found at i:94617795 original size:26 final size:25
Alignment explanation
Indices: 94617741--94617795 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 25
94617731 AATTAATAGT
* *
94617741 TAAAATTGAATTTTTTTTAAAAGAT
1 TAAAATTGAATTTATTTTAAAAGAA
94617766 TAAAGATTGAATTTAATTTTAAAA-AA
1 TAAA-ATTGAATTT-ATTTTAAAAGAA
94617792 TAAA
1 TAAA
94617796 TAAATATTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
25 4 0.15
26 14 0.54
27 8 0.31
ACGTcount: A:0.51, C:0.00, G:0.07, T:0.42
Consensus pattern (25 bp):
TAAAATTGAATTTATTTTAAAAGAA
Found at i:94617814 original size:19 final size:18
Alignment explanation
Indices: 94617790--94617826 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
94617780 AATTTTAAAA
*
94617790 AATAAATAAATATTAAATT
1 AATAAAAAAATA-TAAATT
94617809 AATAAAAAAATATAAATT
1 AATAAAAAAATATAAATT
94617827 TTAAAGGCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (18 bp):
AATAAAAAAATATAAATT
Found at i:94622704 original size:22 final size:21
Alignment explanation
Indices: 94622665--94622705 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
94622655 CATGTCTTTC
*
94622665 TTTTATAAAAATATATAAACT
1 TTTTATAAAAATACATAAACT
*
94622686 TTTTACTAAATATACATAAA
1 TTTTA-TAAAAATACATAAA
94622706 GATTAAATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 5 0.29
22 12 0.71
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.41
Consensus pattern (21 bp):
TTTTATAAAAATACATAAACT
Found at i:94624430 original size:18 final size:16
Alignment explanation
Indices: 94624403--94624441 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 16
94624393 TTATATATTT
94624403 TTTAATCTTTTTAAAAA
1 TTTAATCTTTTT-AAAA
94624420 TTTATATCTTTTTAAAA
1 TTTA-ATCTTTTTAAAA
94624437 TTTAA
1 TTTAA
94624442 CATAAAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 1 0.05
17 12 0.57
18 8 0.38
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.56
Consensus pattern (16 bp):
TTTAATCTTTTTAAAA
Found at i:94633935 original size:29 final size:30
Alignment explanation
Indices: 94633876--94633933 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
94633866 TCCGAGCCTT
* *
94633876 GGGGTAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
94633906 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
94633934 AGAGTCGAGG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.41, C:0.02, G:0.24, T:0.33
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:94634163 original size:13 final size:13
Alignment explanation
Indices: 94634145--94634176 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
94634135 TTTCCAGCAA
94634145 TTATGAATTTATT
1 TTATGAATTTATT
94634158 TTATGAATTTATT
1 TTATGAATTTATT
*
94634171 TGATGA
1 TTATGA
94634177 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:94634384 original size:50 final size:50
Alignment explanation
Indices: 94634271--94634512 Score: 290
Period size: 50 Copynumber: 4.7 Consensus size: 50
94634261 ATTTGGGTAA
* * *
94634271 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
94634327 AGAGGTCCTC-TGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCC-CATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
94634377 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
94634427 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
94634477 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
94634513 TTTGGCATGT
Statistics
Matches: 166, Mismatches: 16, Indels: 13
0.85 0.08 0.07
Matches are distributed among these distances:
49 2 0.01
50 90 0.54
51 29 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 38 0.23
57 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:94634463 original size:100 final size:103
Alignment explanation
Indices: 94634271--94634520 Score: 355
Period size: 100 Copynumber: 2.4 Consensus size: 103
94634261 ATTTGGGTAA
*
94634271 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCT
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
94634336 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
94634377 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
94634439 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
94634477 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
94634521 GTTATTATCA
Statistics
Matches: 132, Mismatches: 9, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 39 0.30
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:94640522 original size:5 final size:5
Alignment explanation
Indices: 94640512--94640537 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
94640502 GCGTCAACCA
94640512 AAAAG AAAAG AAAAG AAAAG AAAAG A
1 AAAAG AAAAG AAAAG AAAAG AAAAG A
94640538 GAAAAATACC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:94644220 original size:26 final size:27
Alignment explanation
Indices: 94644180--94644230 Score: 70
Period size: 26 Copynumber: 1.9 Consensus size: 27
94644170 TCCTTATATT
*
94644180 TTATGTTTACATATTT-TATTGAAGAA
1 TTATGTTTACATATTTAAATTGAAGAA
94644206 TTATGTTTA-ATTATTTAAATTGAAG
1 TTATGTTTACA-TATTTAAATTGAAG
94644231 TGTGACATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 1 0.05
26 14 0.64
27 7 0.32
ACGTcount: A:0.35, C:0.02, G:0.12, T:0.51
Consensus pattern (27 bp):
TTATGTTTACATATTTAAATTGAAGAA
Found at i:94644527 original size:3 final size:3
Alignment explanation
Indices: 94644519--94644573 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
94644509 AAATCTATGC
94644519 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
94644567 TAT TAT T
1 TAT TAT T
94644574 TTGGCTTTAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:94651222 original size:36 final size:36
Alignment explanation
Indices: 94651182--94651261 Score: 126
Period size: 36 Copynumber: 2.2 Consensus size: 36
94651172 TTATGATTAA
* *
94651182 TTAATTAGTTTGGGTATTAGGTATTAATAGCTTAGG
1 TTAATTAATTTGGGTATTAGGTATTAATAGATTAGG
94651218 TTAATTAATTTGGGTATTAGGTATTAATAGATTAGGG
1 TTAATTAATTTGGGTATTAGGTATTAATAGATTA-GG
94651255 TT-ATTAA
1 TTAATTAA
94651262 GATTAATTAA
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
36 37 0.90
37 4 0.10
ACGTcount: A:0.31, C:0.01, G:0.23, T:0.45
Consensus pattern (36 bp):
TTAATTAATTTGGGTATTAGGTATTAATAGATTAGG
Found at i:94651278 original size:23 final size:23
Alignment explanation
Indices: 94651218--94651286 Score: 88
Period size: 23 Copynumber: 3.0 Consensus size: 23
94651208 ATAGCTTAGG
*
94651218 TTAATTAATTTGGG-TATTAGGTA
1 TTAATTAATTTGGGTTATTAAG-A
*
94651241 TTAA-TAGATTAGGGTTATTAAGA
1 TTAATTA-ATTTGGGTTATTAAGA
94651264 TTAATTAATTTGGGTTATTAAGA
1 TTAATTAATTTGGGTTATTAAGA
94651287 AATTAAAAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
22 2 0.05
23 30 0.75
24 8 0.20
ACGTcount: A:0.35, C:0.00, G:0.20, T:0.45
Consensus pattern (23 bp):
TTAATTAATTTGGGTTATTAAGA
Found at i:94652407 original size:17 final size:16
Alignment explanation
Indices: 94652373--94652423 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
94652363 AATTAAGTAA
* *
94652373 TTTTATTTTACATTAT
1 TTTTATTTTTCATAAT
94652389 TTTTATTTTTCACTAAT
1 TTTTATTTTTCA-TAAT
*
94652406 TTTTGTTTTT-AT-AT
1 TTTTATTTTTCATAAT
94652420 TTTT
1 TTTT
94652424 TTTCAGTGCA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
14 6 0.19
15 1 0.03
16 12 0.39
17 12 0.39
ACGTcount: A:0.20, C:0.06, G:0.02, T:0.73
Consensus pattern (16 bp):
TTTTATTTTTCATAAT
Found at i:94658395 original size:23 final size:25
Alignment explanation
Indices: 94658368--94658459 Score: 100
Period size: 23 Copynumber: 3.7 Consensus size: 25
94658358 AATGAAAAGG
*
94658368 GCACTATGTGTGCGAATGG-GGC-A
1 GCACTATGTGTGCGAATGGAAGCTA
*
94658391 GCACTATGTGTGCGTATGGAAAAGCTA
1 GCACTATGTGTGCGAATGG--AAGCTA
**
94658418 GCACTATGTGTGCGAAT-GAATATA
1 GCACTATGTGTGCGAATGGAAGCTA
94658442 TGCACTATGTGTGCGAAT
1 -GCACTATGTGTGCGAAT
94658460 TTATTAACCG
Statistics
Matches: 59, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
23 18 0.31
24 4 0.07
25 17 0.29
26 3 0.05
27 17 0.29
ACGTcount: A:0.27, C:0.15, G:0.30, T:0.27
Consensus pattern (25 bp):
GCACTATGTGTGCGAATGGAAGCTA
Found at i:94658420 original size:27 final size:24
Alignment explanation
Indices: 94658390--94658459 Score: 86
Period size: 25 Copynumber: 2.8 Consensus size: 24
94658380 CGAATGGGGC
*
94658390 AGCACTATGTGTGCGTATGGAAAAGCT
1 AGCACTATGTGTGCGAAT-GAAAA--T
*
94658417 AGCACTATGTGTGCGAATGAATAT
1 AGCACTATGTGTGCGAATGAAAAT
94658441 ATGCACTATGTGTGCGAAT
1 A-GCACTATGTGTGCGAAT
94658460 TTATTAACCG
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
24 2 0.05
25 17 0.43
26 4 0.10
27 17 0.43
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.29
Consensus pattern (24 bp):
AGCACTATGTGTGCGAATGAAAAT
Found at i:94660672 original size:9 final size:9
Alignment explanation
Indices: 94660660--94660700 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
94660650 CATTAAAATT
94660660 AGAAAGAAA
1 AGAAAGAAA
94660669 AGAAAGAAA
1 AGAAAGAAA
*
94660678 CAAAAAG-AA
1 -AGAAAGAAA
94660687 AG-AAGAAA
1 AGAAAGAAA
94660695 AGAAAG
1 AGAAAG
94660701 TCACGCACGA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
7 3 0.11
8 5 0.19
9 14 0.52
10 5 0.19
ACGTcount: A:0.76, C:0.02, G:0.22, T:0.00
Consensus pattern (9 bp):
AGAAAGAAA
Found at i:94665197 original size:13 final size:13
Alignment explanation
Indices: 94665179--94665203 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
94665169 CACCTATCTA
94665179 TAAAAATAGGGTT
1 TAAAAATAGGGTT
94665192 TAAAAATAGGGT
1 TAAAAATAGGGT
94665204 GTTTCCATTT
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:0.48, C:0.00, G:0.24, T:0.28
Consensus pattern (13 bp):
TAAAAATAGGGTT
Found at i:94665713 original size:19 final size:18
Alignment explanation
Indices: 94665689--94665727 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
94665679 GGTTAGGGTT
94665689 ATGAAAAGAAGAAGAGAGA
1 ATGAAAAGAAGAAGA-AGA
*
94665708 ATGAAAAGGAGAAGAAGA
1 ATGAAAAGAAGAAGAAGA
94665726 AT
1 AT
94665728 AAGATAACTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.62, C:0.00, G:0.31, T:0.08
Consensus pattern (18 bp):
ATGAAAAGAAGAAGAAGA
Done.