Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 296 of 333
Found at i:97689077 original size:30 final size:29
Alignment explanation
Indices: 97689022--97689078 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 29
97689012 TATACTGAAC
97689022 AATTTTATAATATAAAATTAATATTTATA
1 AATTTTATAATATAAAATTAATATTTATA
*
97689051 AATTTCTATACTA-AAAATTCAATATTTA
1 AATTT-TATAATATAAAATT-AATATTTA
97689079 ATTTTTCATA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
29 11 0.44
30 14 0.56
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (29 bp):
AATTTTATAATATAAAATTAATATTTATA
Found at i:97691076 original size:3 final size:3
Alignment explanation
Indices: 97690995--97691065 Score: 52
Period size: 3 Copynumber: 22.3 Consensus size: 3
97690985 TAGTGAATAC
* * * *
97690995 AAT AAT AAGA AAT AAT AAT AAC AAT AAT AAT ATT CAATT AAT AAT ACT
1 AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT -AA-T AAT AAT AAT
* *
97691043 ATAT GAT AAT AAT GAT AAT AAT A
1 A-AT AAT AAT AAT AAT AAT AAT A
97691066 GTGAAATAAT
Statistics
Matches: 52, Mismatches: 12, Indels: 8
0.72 0.17 0.11
Matches are distributed among these distances:
3 45 0.87
4 6 0.12
5 1 0.02
ACGTcount: A:0.59, C:0.04, G:0.04, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:97691096 original size:21 final size:19
Alignment explanation
Indices: 97691043--97691100 Score: 64
Period size: 21 Copynumber: 2.9 Consensus size: 19
97691033 TAATAATACT
*
97691043 ATATGATAATAATGATAATA
1 ATATGATAATAAT-ATAAAA
97691063 ATAGTGA-AATAATATAAAA
1 ATA-TGATAATAATATAAAA
97691082 ATGTATGATAATAATATAA
1 A--TATGATAATAATATAA
97691101 TTACATAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
19 6 0.18
20 12 0.36
21 15 0.45
ACGTcount: A:0.57, C:0.00, G:0.10, T:0.33
Consensus pattern (19 bp):
ATATGATAATAATATAAAA
Found at i:97692302 original size:17 final size:18
Alignment explanation
Indices: 97692280--97692316 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
97692270 TGGACTAAAA
*
97692280 TTTTATTT-GTTTTTGTT
1 TTTTATTTGGTTTTGGTT
97692297 TTTTATTTGGTTTTGGTT
1 TTTTATTTGGTTTTGGTT
97692315 TT
1 TT
97692317 GTTTTGTCTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.05, C:0.00, G:0.16, T:0.78
Consensus pattern (18 bp):
TTTTATTTGGTTTTGGTT
Found at i:97692727 original size:91 final size:93
Alignment explanation
Indices: 97692611--97692793 Score: 262
Period size: 94 Copynumber: 2.0 Consensus size: 93
97692601 GTTTTAATTC
* * * *
97692611 GACCTACTGCAACTTCAGAGGTATAGGATTTGTAGC-T-TCTTGCTCCACTATAACTTTAGGGAG
1 GACCTACTACAACTTCAGAGGTATAGGATTTGTAGCTTATCTTGCTCCACTACAACTTCAAGGAG
* **
97692674 ATAATACTCGCTATGGTAGATTCAATCT
66 ATAAGACTCGCTATAATAGATTCAATCT
* *
97692702 GACCTACTACAACTTTAGGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTACAACTTCAAGGA
1 GACCTACTACAACTTCAGAGGTATAGGATTTGTAGCTT-ATCTTGCTCCACTACAACTTCAAGGA
97692767 GATAAGACTCGCTATAATAGATTCAAT
65 GATAAGACTCGCTATAATAGATTCAAT
97692794 TCGGCCCATT
Statistics
Matches: 80, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
91 33 0.41
92 1 0.01
94 46 0.57
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.32
Consensus pattern (93 bp):
GACCTACTACAACTTCAGAGGTATAGGATTTGTAGCTTATCTTGCTCCACTACAACTTCAAGGAG
ATAAGACTCGCTATAATAGATTCAATCT
Found at i:97692810 original size:94 final size:93
Alignment explanation
Indices: 97692611--97692839 Score: 248
Period size: 94 Copynumber: 2.5 Consensus size: 93
97692601 GTTTTAATTC
* * * * *
97692611 GACCTACTGCAACTTCAGAGGTATAGGATTTGTAGC-T-TCTTGCTCCACTATAACTTTAGGGAG
1 GACCCACTACAACTTCAGAGGTATAGGATTTGTAGCTTATCTTGCTCCACTACAACTTCAAGGAG
* **
97692674 ATAATACTCGCTATGGTAGATTCAATCT
66 ATAAGACTCGCTATAATAGATTCAATCT
* * *
97692702 GACCTACTACAACTTTAGGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTACAACTTCAAGGA
1 GACCCACTACAACTTCAGAGGTATAGGATTTGTAGCTT-ATCTTGCTCCACTACAACTTCAAGGA
97692767 GATAAGACTCGCTATAATAGATTCAAT-T
65 GATAAGACTCGCTATAATAGATTCAATCT
* * ** * * *
97692795 CGGCCCATTGTAACTTCAGCGGTTTATGATTTGTAGCTTTATCTT
1 -GACCCACTACAACTTCAGAGGTATAGGATTTGTAGC-TTATCTT
97692840 ACTTCGCTGT
Statistics
Matches: 115, Mismatches: 18, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
91 33 0.29
92 1 0.01
93 1 0.01
94 78 0.68
95 2 0.02
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.34
Consensus pattern (93 bp):
GACCCACTACAACTTCAGAGGTATAGGATTTGTAGCTTATCTTGCTCCACTACAACTTCAAGGAG
ATAAGACTCGCTATAATAGATTCAATCT
Found at i:97692964 original size:138 final size:138
Alignment explanation
Indices: 97692711--97692997 Score: 317
Period size: 138 Copynumber: 2.1 Consensus size: 138
97692701 TGACCTACTA
* *
97692711 CAACTTTAGGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTACAACTTCAAGGAGATAAGACT
1 CAACTTCAGGGGTATAGGATTGGTAGCTTCATCTTGCTCCACTACAACTTCAAGGAGATAAGACT
* ** * * ** * * *
97692776 CGCTATAATAGATTCAATTCGGCCCATTGTAACTTCAGCGGTTTATGATTTGTAGCTTTATCTTA
66 CACTATAATAGATTCAACCCGACCCACTACAACTTCAGCGGTATAGGATTTGTAGCTTCATCTTA
* *
97692841 CTTCGCTG
131 CTCCACTG
* * * * ** *
97692849 TAACTTCAGGGGTATAGGATTGGTAGCTTCATCTTGCTCTACTGCAATTTCTGGGAGATAAGATT
1 CAACTTCAGGGGTATAGGATTGGTAGCTTCATCTTGCTCCACTACAACTTCAAGGAGATAAGACT
** *
97692914 CACTATGGTA-ACTTTAACCCGACCCACTACAACTTCAAG-GGTATAGGATTTGTAGCTTCATCT
66 CACTATAATAGA-TTCAACCCGACCCACTACAACTTC-AGCGGTATAGGATTTGTAGCTTCATCT
*
97692977 TGCTCCACTG
129 TACTCCACTG
97692987 CAACTTCAGGG
1 CAACTTCAGGG
97692998 AAATAAGATT
Statistics
Matches: 121, Mismatches: 26, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
137 1 0.01
138 118 0.98
139 2 0.02
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.33
Consensus pattern (138 bp):
CAACTTCAGGGGTATAGGATTGGTAGCTTCATCTTGCTCCACTACAACTTCAAGGAGATAAGACT
CACTATAATAGATTCAACCCGACCCACTACAACTTCAGCGGTATAGGATTTGTAGCTTCATCTTA
CTCCACTG
Found at i:97693061 original size:232 final size:229
Alignment explanation
Indices: 97692621--97693074 Score: 545
Period size: 232 Copynumber: 2.0 Consensus size: 229
97692611 GACCTACTGC
* * * *
97692621 AACTTCAGAGGTATAGGATTTGTAGCTTCTTGCTCCACTATAACTTTAGGGAGATAATACTCGCT
1 AACTTCAGAGGTATAGGATTGGTAGCTTCTTGCTCCACTACAACTTTAGGGAGATAAGACTCACT
* * * * *
97692686 ATGGTAGATTCAATCTGACCTACTACAACTTTAGGGGTATAGGATTTGTAGCTTCATCTTGCTCC
66 ATGGTAGATTCAACCCGACCCACTACAACTTCAAGGGTATAGGATTTGTAGCTTCATCTTGCTCC
* * * * * * *
97692751 ACTACAACTTCAAGGAGATAAGACTCGCTATAATAGATTCAATTCGGCCCATTGTAACTTCAGCG
131 ACTACAACTTCAAGGAAATAAGACTCACTATAATAAATTCAATCCGACCCACTGCAACTTCAGCG
* **
97692816 GTTTATGATTTGTAGCTTT-ATCTTACTTCGCTGT
196 GTGTAAAATTTGTAG-TTTCATCTTACTTCGCTGT
* * * * *
97692850 AACTTCAGGGGTATAGGATTGGTAGCTTCATCTTGCTCTACTGCAA-TTTCTGGGAGATAAGATT
1 AACTTCAGAGGTATAGGATTGGTAGC-T--TCTTGCTCCACTACAACTTT-AGGGAGATAAGACT
*
97692914 CACTATGGTA-ACTTTAACCCGACCCACTACAACTTCAAGGGTATAGGATTTGTAGCTTCATCTT
62 CACTATGGTAGA-TTCAACCCGACCCACTACAACTTCAAGGGTATAGGATTTGTAGCTTCATCTT
* * * * *
97692978 GCTCCACTGCAACTTCAGGGAAATAAGATTCACTATGATAAATTCAATCCGATCCACTGCAACTT
126 GCTCCACTACAACTTCAAGGAAATAAGACTCACTATAATAAATTCAATCCGACCCACTGCAACTT
* *
97693043 TAGGGGTGTAAAATTTGTAGTTTCATCTTACT
191 CAGCGGTGTAAAATTTGTAGTTTCATCTTACT
97693075 CTACTGCAAC
Statistics
Matches: 187, Mismatches: 32, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
229 24 0.13
230 1 0.01
231 7 0.04
232 155 0.83
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.34
Consensus pattern (229 bp):
AACTTCAGAGGTATAGGATTGGTAGCTTCTTGCTCCACTACAACTTTAGGGAGATAAGACTCACT
ATGGTAGATTCAACCCGACCCACTACAACTTCAAGGGTATAGGATTTGTAGCTTCATCTTGCTCC
ACTACAACTTCAAGGAAATAAGACTCACTATAATAAATTCAATCCGACCCACTGCAACTTCAGCG
GTGTAAAATTTGTAGTTTCATCTTACTTCGCTGT
Found at i:97693949 original size:94 final size:94
Alignment explanation
Indices: 97692850--97693948 Score: 1114
Period size: 94 Copynumber: 11.7 Consensus size: 94
97692840 ACTTCGCTGT
* * * * *
97692850 AACTTCAGGGGTATAGGATTGGTAGCTTCATCTTGCTCTACTGCAATTTCTGGGAGATAAGATTC
1 AACTTCAGGGGTATAGGATTTGTAGCTTCATCTTACTCCACTGCAACTTCAGGGAGATAAGATTC
* * * *
97692915 ACTATGGTAACTTTAACCCGACCCACTAC
66 GCTATGGTAACTTCAATCCGACCCACTGC
* * *
97692944 AACTTCAAGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTGCAACTTCAGGGAAATAAGATTC
1 AACTTCAGGGGTATAGGATTTGTAGCTTCATCTTACTCCACTGCAACTTCAGGGAGATAAGATTC
* * * *
97693009 ACTATGATAAATTCAATCCGATCCACTGC
66 GCTATGGTAACTTCAATCCGACCCACTGC
* * ** * * * *
97693038 AACTTTAGGGGTGTAAAATTTGTAGTTTCATCTTACTCTACTGCAACTTTAGAGAGATAAGATTC
1 AACTTCAGGGGTATAGGATTTGTAGCTTCATCTTACTCCACTGCAACTTCAGGGAGATAAGATTC
* * *
97693103 GTTATGGTAACTTTAATCCGACCCACAGC
66 GCTATGGTAACTTCAATCCGACCCACTGC
* * * * * * *
97693132 AACTTCAGAGGTATAAGATTTGTAGCTTCATCTTGCTCCACTGCAAATTTAGGAAGATAAGACTC
1 AACTTCAGGGGTATAGGATTTGTAGCTTCATCTTACTCCACTGCAACTTCAGGGAGATAAGATTC
*
97693197 GCTATGGTAGA-TTCAATCCAACCCACTGC
66 GCTATGGTA-ACTTCAATCCGACCCACTGC
* * * * * *
97693226 AACTTCAGGGGTATAGGATTTGTAGCTTCATTTTACTCTACTACAAATTCAAGGAGATAAGTTTC
1 AACTTCAGGGGTATAGGATTTGTAGCTTCATCTTACTCCACTGCAACTTCAGGGAGATAAGATTC
* *
97693291 GCTATGGTAACTTCAATCTGACGCACTGC
66 GCTATGGTAACTTCAATCCGACCCACTGC
* * *
97693320 AACTTCAAGGGTATAGGATTTGTAGCTTCATC-TAGCTCCATTGCAACTTCTA-GAAGATAAGAT
1 AACTTCAGGGGTATAGGATTTGTAGCTTCATCTTA-CTCCACTGCAACTTC-AGGGAGATAAGAT
97693383 TCGCTATGGTAACTTCAATCCGACCCACTGC
64 TCGCTATGGTAACTTCAATCCGACCCACTGC
* * * * * * * *
97693414 AACTTCAAGGGTAGA-GAATTGTAGCTTCATCTTGCTCCATTGCAATTTTAGGGAGATAAGACTC
1 AACTTCAGGGGTATAGGATTTGTAGCTTCATCTTACTCCACTGCAACTTCAGGGAGATAAGATTC
* ** *
97693478 GCTATGATAGA-TTCAATGTGACCCAATGC
66 GCTATGGTA-ACTTCAATCCGACCCACTGC
* * * * * * * *
97693507 AACTTTAGGGGTATCGGATTTGTAACTTCATCTTGCTCCACTACAATTTTAAGGAGATAAGACTT
1 AACTTCAGGGGTATAGGATTTGTAGCTTCATCTTACTCCACTGCAACTTCAGGGAGATAAGA-TT
* * *
97693572 -GCTATAGTAGA-TTCAATCTGACCCAGTGC
65 CGCTATGGTA-ACTTCAATCCGACCCACTGC
* * * * * * * *
97693601 AACTTTAAGGGTATGGGATTTGTAGCTTCATCTTGCTCTACTGCAACTTCAAGGAGTTAAGATTT
1 AACTTCAGGGGTATAGGATTTGTAGCTTCATCTTACTCCACTGCAACTTCAGGGAGATAAGATTC
* * *
97693666 GTTATGGTAACTTCAATCCGACCCAGTGA
66 GCTATGGTAACTTCAATCCGACCCACTGC
** * * * *
97693695 AACTTCATAGGAATAGGATTTGTAGCTTTATCTTACACTCCACTGCAACTTTAGAGAGATAAGAT
1 AACTTCAGGGGTATAGGATTTGTAGCTTCATCTT--ACTCCACTGCAACTTCAGGGAGATAAGAT
* * * **
97693760 TTGCTATGGTAGCTTTAATTTGACCCACTGC
64 TCGCTATGGTAACTTCAATCCGACCCACTGC
* * * * * * *
97693791 AAATTCAGGGGTATATGATTTGTAACTTCATCTTACTCCACTACAACTTTAGGGAGATAGGATTT
1 AACTTCAGGGGTATAGGATTTGTAGCTTCATCTTACTCCACTGCAACTTCAGGGAGATAAGATTC
* * * * * *
97693856 ACTATTGTAGCTTCAATCTGACCCATTAC
66 GCTATGGTAACTTCAATCCGACCCACTGC
* * *
97693885 AACTTCAGGGGTATAGGGTTTGTAGTTTCATCTTACTCTACTGCAACTTCAGGGAGATAAGATT
1 AACTTCAGGGGTATAGGATTTGTAGCTTCATCTTACTCCACTGCAACTTCAGGGAGATAAGATT
97693949 TGAGGTTTCA
Statistics
Matches: 842, Mismatches: 150, Indels: 26
0.83 0.15 0.03
Matches are distributed among these distances:
92 1 0.00
93 79 0.09
94 685 0.81
95 3 0.00
96 74 0.09
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (94 bp):
AACTTCAGGGGTATAGGATTTGTAGCTTCATCTTACTCCACTGCAACTTCAGGGAGATAAGATTC
GCTATGGTAACTTCAATCCGACCCACTGC
Found at i:97697337 original size:52 final size:52
Alignment explanation
Indices: 97697260--97697362 Score: 138
Period size: 52 Copynumber: 2.0 Consensus size: 52
97697250 GGAATAGATA
* * *
97697260 TGATATGTGCACCCGTATAAGACCATAGCT-GGCTATGGCATCGGTATGATG
1 TGATATGTGCACCCGTATAAGACCATAGATGGGATATGGCATCGATATGATG
*
97697311 TGATAATGTGC-CTCCGTATAAGACCATATATGGGATATGGCATCGATATGAT
1 TGAT-ATGTGCAC-CCGTATAAGACCATAGATGGGATATGGCATCGATATGAT
97697363 ATGTGATCCG
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
51 5 0.11
52 22 0.49
53 18 0.40
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.29
Consensus pattern (52 bp):
TGATATGTGCACCCGTATAAGACCATAGATGGGATATGGCATCGATATGATG
Found at i:97697373 original size:46 final size:47
Alignment explanation
Indices: 97697256--97697383 Score: 134
Period size: 52 Copynumber: 2.6 Consensus size: 47
97697246 TGACGGAATA
* * *
97697256 GATATGATATGTGCACCCGTATAAGACCATAGCTGGCTATGGCATCG
1 GATATGATATGTGCATCCGTATAAGACCATAGATGGATATGGCATCG
* *
97697303 GTATGATGTGATAATGTGCCTCCGTATAAGACCATATATGGGATATGGCATC-
1 G-AT-A--TGAT-ATGTGCATCCGTATAAGACCATAGAT-GGATATGGCATCG
*
97697355 GATATGATATGTG-ATCCGTGTAAGACCAT
1 GATATGATATGTGCATCCGTATAAGACCAT
97697384 GGCAGAGCTA
Statistics
Matches: 68, Mismatches: 7, Indels: 13
0.77 0.08 0.15
Matches are distributed among these distances:
46 14 0.21
47 6 0.09
48 6 0.09
49 1 0.01
50 1 0.01
51 6 0.09
52 23 0.34
53 11 0.16
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (47 bp):
GATATGATATGTGCATCCGTATAAGACCATAGATGGATATGGCATCG
Found at i:97702658 original size:12 final size:11
Alignment explanation
Indices: 97702637--97702700 Score: 58
Period size: 12 Copynumber: 5.5 Consensus size: 11
97702627 ATAAAATGAC
*
97702637 AATACTATAAT
1 AATACAATAAT
97702648 GAATACAATAAT
1 -AATACAATAAT
*
97702660 AAGA-AATAAT
1 AATACAATAAT
97702670 AATAACAATAAT
1 AAT-ACAATAAT
97702682 AATATTCAATTAAT
1 AATA--CAA-TAAT
97702696 AATAC
1 AATAC
97702701 TATATGATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
10 8 0.18
11 5 0.11
12 20 0.45
13 3 0.07
14 8 0.18
ACGTcount: A:0.59, C:0.08, G:0.03, T:0.30
Consensus pattern (11 bp):
AATACAATAAT
Found at i:97702753 original size:18 final size:18
Alignment explanation
Indices: 97702730--97702794 Score: 60
Period size: 18 Copynumber: 3.3 Consensus size: 18
97702720 TAATAGTGAA
97702730 ATAATATAAAAATGTATG
1 ATAATATAAAAATGTATG
*
97702748 ATAATAATGATAATAATAGTGA-A
1 ATAAT-AT-A-AA-AAT-GT-ATG
97702771 ATAATATAAAAATGTATG
1 ATAATATAAAAATGTATG
97702789 ATAATA
1 ATAATA
97702795 ATATAATTAC
Statistics
Matches: 38, Mismatches: 2, Indels: 14
0.70 0.04 0.26
Matches are distributed among these distances:
17 1 0.03
18 13 0.34
19 5 0.13
20 3 0.08
21 3 0.08
22 5 0.13
23 7 0.18
24 1 0.03
ACGTcount: A:0.57, C:0.00, G:0.11, T:0.32
Consensus pattern (18 bp):
ATAATATAAAAATGTATG
Found at i:97702757 original size:41 final size:41
Alignment explanation
Indices: 97702703--97702801 Score: 191
Period size: 41 Copynumber: 2.4 Consensus size: 41
97702693 AATAATACTA
97702703 TATGATAATAATGATAATAATAGTGAAATAATATAAAAATG
1 TATGATAATAATGATAATAATAGTGAAATAATATAAAAATG
97702744 TATGATAATAATGATAATAATAGTGAAATAATATAAAAATG
1 TATGATAATAATGATAATAATAGTGAAATAATATAAAAATG
97702785 TATGATAATAAT-ATAAT
1 TATGATAATAATGATAAT
97702802 TACATAAAAT
Statistics
Matches: 58, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
40 5 0.09
41 53 0.91
ACGTcount: A:0.56, C:0.00, G:0.11, T:0.33
Consensus pattern (41 bp):
TATGATAATAATGATAATAATAGTGAAATAATATAAAAATG
Found at i:97702776 original size:3 final size:3
Alignment explanation
Indices: 97702654--97702765 Score: 57
Period size: 3 Copynumber: 36.3 Consensus size: 3
97702644 TAATGAATAC
* * * *
97702654 AAT AAT AAGA AAT AAT AAT AAC AAT AAT AAT ATT CAATT AAT AAT ACT
1 AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT -AA-T AAT AAT AAT
* * * * * *
97702702 ATAT GAT AAT AAT GAT AAT AAT AGT GA- AAT AAT -AT AAA AAT GTAT
1 A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT
* *
97702747 GAT AAT AAT GAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT A
97702766 GTGAAATAAT
Statistics
Matches: 79, Mismatches: 23, Indels: 14
0.68 0.20 0.12
Matches are distributed among these distances:
2 3 0.04
3 67 0.85
4 8 0.10
5 1 0.01
ACGTcount: A:0.58, C:0.03, G:0.07, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:97704370 original size:43 final size:43
Alignment explanation
Indices: 97704086--97704358 Score: 289
Period size: 43 Copynumber: 6.3 Consensus size: 43
97704076 AAAATTAAAA
* * *
97704086 AAACGCCGCTAAAGACCATGACCTTTAACGGCACTTTTTTCGC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTTCAC
* * ** *
97704129 AAACGCTGCTAAAGACCATGACCTTTAGCGGCACTTTTCCCGC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTTCAC
* * *
97704172 AAACGCCGCTAAAAACCATGACCTTTAGTGGCGCTTTTGTCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTTCAC
* * *
97704215 AAACGCTGCTAAAGACCATGACTTTTAGCGGCGTTTTTTTCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTTCAC
** * * * *
97704258 AAACGCCATTAAGGACCATGACATTTAGCAGCGCTTTTTTTCAA
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGC-TTTTTTCAC
* * * * *
97704302 AAACACCGCT-ATGTAACA-AACCTTTAGTGGCGCTTTTTTCAC
1 AAACGCCGCTAAAG-ACCATGACCTTTAGCGGCGCTTTTTTCAC
97704344 AAACGCCGCTAAAGA
1 AAACGCCGCTAAAGA
97704359 ATATAACCTT
Statistics
Matches: 190, Mismatches: 37, Indels: 7
0.81 0.16 0.03
Matches are distributed among these distances:
42 18 0.09
43 154 0.81
44 18 0.09
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.27
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTTCAC
Found at i:97717190 original size:42 final size:41
Alignment explanation
Indices: 97717104--97717201 Score: 115
Period size: 42 Copynumber: 2.4 Consensus size: 41
97717094 AATAATGATA
* ** *
97717104 TTTTGCGGCGTTTTCAATAAAAATGTTATTATAGCTCAATT
1 TTTTGCGGCGTTTTTAATAAAAATGCCATTATAGCTCAAGT
* *
97717145 TTTTGCGGCGTTTTTACTAAAAAGTGCCATTATAGCTTAAGT
1 TTTTGCGGCGTTTTTAATAAAAA-TGCCATTATAGCTCAAGT
**
97717187 TTTTGTAGCGTTTTT
1 TTTTGCGGCGTTTTT
97717202 GGGAAAATCG
Statistics
Matches: 48, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
41 21 0.44
42 27 0.56
ACGTcount: A:0.24, C:0.12, G:0.17, T:0.46
Consensus pattern (41 bp):
TTTTGCGGCGTTTTTAATAAAAATGCCATTATAGCTCAAGT
Found at i:97717374 original size:8 final size:8
Alignment explanation
Indices: 97717363--97717458 Score: 101
Period size: 8 Copynumber: 11.9 Consensus size: 8
97717353 ATATTAAATA
97717363 TTAAATTT
1 TTAAATTT
*
97717371 TTAAGTTT
1 TTAAATTT
*
97717379 TT-TATTT
1 TTAAATTT
97717386 TTAAA-TT
1 TTAAATTT
97717393 TTAAA-TT
1 TTAAATTT
97717400 TTAAA-TT
1 TTAAATTT
97717407 TTAAATTT
1 TTAAATTT
97717415 TTAAATTT
1 TTAAATTT
97717423 TTAAATTTTT
1 TTAAA--TTT
97717433 TTGAAGATTT
1 TT-AA-ATTT
97717443 TTATAATTT
1 TTA-AATTT
97717452 TTAAATT
1 TTAAATT
97717459 ATCATATAAA
Statistics
Matches: 77, Mismatches: 4, Indels: 14
0.81 0.04 0.15
Matches are distributed among these distances:
7 26 0.34
8 29 0.38
9 8 0.10
10 11 0.14
11 2 0.03
12 1 0.01
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.62
Consensus pattern (8 bp):
TTAAATTT
Found at i:97717374 original size:15 final size:15
Alignment explanation
Indices: 97717356--97717432 Score: 102
Period size: 15 Copynumber: 5.1 Consensus size: 15
97717346 GACTAAAATA
*
97717356 TTAAATATTAAATTT
1 TTAAATTTTAAATTT
* **
97717371 TTAAGTTTTTTATTT
1 TTAAATTTTAAATTT
97717386 TTAAATTTTAAA-TT
1 TTAAATTTTAAATTT
97717400 TTAAATTTTAAATTT
1 TTAAATTTTAAATTT
97717415 TTAAATTTTTAAATTT
1 TTAAA-TTTTAAATTT
97717431 TT
1 TT
97717433 TTGAAGATTT
Statistics
Matches: 53, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
14 14 0.26
15 27 0.51
16 12 0.23
ACGTcount: A:0.36, C:0.00, G:0.01, T:0.62
Consensus pattern (15 bp):
TTAAATTTTAAATTT
Found at i:97717379 original size:7 final size:7
Alignment explanation
Indices: 97717351--97717431 Score: 81
Period size: 7 Copynumber: 11.0 Consensus size: 7
97717341 ATATGGACTA
*
97717351 AAATATT
1 AAATTTT
*
97717358 AAATATT
1 AAATTTT
97717365 AAATTTTT
1 AAA-TTTT
*
97717373 AAGTTTTT
1 AA-ATTTT
* *
97717381 TATTTTT
1 AAATTTT
97717388 AAATTTT
1 AAATTTT
97717395 AAATTTT
1 AAATTTT
97717402 AAATTTT
1 AAATTTT
97717409 AAATTTTT
1 AAA-TTTT
97717417 AAATTTTT
1 AAA-TTTT
97717425 AAATTTT
1 AAATTTT
97717432 TTTGAAGATT
Statistics
Matches: 66, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
7 41 0.62
8 25 0.38
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (7 bp):
AAATTTT
Found at i:97717404 original size:37 final size:37
Alignment explanation
Indices: 97717351--97717431 Score: 110
Period size: 37 Copynumber: 2.2 Consensus size: 37
97717341 ATATGGACTA
* * *
97717351 AAATATTAAATATTAAATTTTTAAGTTTTT-TATTTTT
1 AAATTTTAAATATTAAA-TTTTAAATTTTTAAATTTTT
*
97717388 AAATTTTAAATTTTAAATTTTAAATTTTTAAATTTTT
1 AAATTTTAAATATTAAATTTTAAATTTTTAAATTTTT
97717425 AAATTTT
1 AAATTTT
97717432 TTTGAAGATT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
36 11 0.28
37 28 0.72
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (37 bp):
AAATTTTAAATATTAAATTTTAAATTTTTAAATTTTT
Found at i:97718463 original size:17 final size:16
Alignment explanation
Indices: 97718441--97718484 Score: 54
Period size: 17 Copynumber: 2.8 Consensus size: 16
97718431 GGACTAAATT
*
97718441 TTTATTTGTTTTTGTTG
1 TTTATTTGTTTTTG-GG
*
97718458 TTTATTTATTTTTGGG
1 TTTATTTGTTTTTGGG
97718474 TTT-TTTGTTTT
1 TTTATTTGTTTT
97718485 GTTTTGTCTG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 7 0.29
16 4 0.17
17 13 0.54
ACGTcount: A:0.07, C:0.00, G:0.16, T:0.77
Consensus pattern (16 bp):
TTTATTTGTTTTTGGG
Found at i:97731377 original size:42 final size:42
Alignment explanation
Indices: 97731316--97731430 Score: 153
Period size: 42 Copynumber: 2.7 Consensus size: 42
97731306 CTTCGTTTTC
** *
97731316 TCGATGCCATAGTTCAACTATGGTCTTACACATCTTCA-CATAA
1 TCGATGCCATAGCCCAACTATGGTCTTACACATATTCATC-T-A
*
97731359 T-GATGCCATAGCCCAACTATGGTCTTGCACATATTCATCTA
1 TCGATGCCATAGCCCAACTATGGTCTTACACATATTCATCTA
*
97731400 TCGATGCCATAGCCCAGCTATGGTCTTACAC
1 TCGATGCCATAGCCCAACTATGGTCTTACAC
97731431 GAATCACATA
Statistics
Matches: 64, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
41 2 0.03
42 60 0.94
43 2 0.03
ACGTcount: A:0.27, C:0.28, G:0.15, T:0.30
Consensus pattern (42 bp):
TCGATGCCATAGCCCAACTATGGTCTTACACATATTCATCTA
Found at i:97731537 original size:31 final size:31
Alignment explanation
Indices: 97731502--97731712 Score: 314
Period size: 31 Copynumber: 6.8 Consensus size: 31
97731492 CTTGTCACTT
* *
97731502 GTAGCCGGAGCTACCACTATTCACTGATCAG
1 GTAGCCGGAGCTACCAATTTTCACTGATCAG
*
97731533 GTAGCCGGAGCTACCATTTTTCACTGATCAG
1 GTAGCCGGAGCTACCAATTTTCACTGATCAG
97731564 GTAGCCGGAGCTACCAATTTTCACTGATCAG
1 GTAGCCGGAGCTACCAATTTTCACTGATCAG
*
97731595 GTAGCCGGAGCTACCAATTTTCATTGATCAG
1 GTAGCCGGAGCTACCAATTTTCACTGATCAG
*
97731626 GTAGCCGGAACTACCAATTTTCACTGATCAG
1 GTAGCCGGAGCTACCAATTTTCACTGATCAG
* * * *
97731657 GTAGCAGAAGCTACCACTTTTCACTGATTAG
1 GTAGCCGGAGCTACCAATTTTCACTGATCAG
* * *
97731688 GTAGCTGAAGCTACCACTTTTCACT
1 GTAGCCGGAGCTACCAATTTTCACT
97731713 TGTCATTTGT
Statistics
Matches: 168, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 168 1.00
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.27
Consensus pattern (31 bp):
GTAGCCGGAGCTACCAATTTTCACTGATCAG
Found at i:97731794 original size:50 final size:51
Alignment explanation
Indices: 97731688--97731816 Score: 190
Period size: 50 Copynumber: 2.5 Consensus size: 51
97731678 CACTGATTAG
* * * *
97731688 GTAGCTGAAGCTACCACTTTTCACTTGTCATTTGTTATTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGT
*
97731739 GTAGCCGAAGCTATCACTTATCACTT-TCACTTT-TCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCA-TTTGTCATTGATCAGATAAGT
97731789 GTAGCCGAAGCTATCACTTATCACTTGT
1 GTAGCCGAAGCTATCACTTATCACTTGT
97731817 TGCCATGGTC
Statistics
Matches: 71, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
50 44 0.62
51 27 0.38
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.36
Consensus pattern (51 bp):
GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGT
Found at i:97752004 original size:12 final size:12
Alignment explanation
Indices: 97751987--97752011 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
97751977 TCCACATCCT
97751987 CGACCATGACCA
1 CGACCATGACCA
97751999 CGACCATGACCA
1 CGACCATGACCA
97752011 C
1 C
97752012 AATCATTTCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.44, G:0.16, T:0.08
Consensus pattern (12 bp):
CGACCATGACCA
Found at i:97772612 original size:42 final size:42
Alignment explanation
Indices: 97772551--97772665 Score: 153
Period size: 42 Copynumber: 2.7 Consensus size: 42
97772541 CTTCGTTTTC
** *
97772551 TCGATGCCATAGTTCAACTATGGTCTTACACATCTTCA-CATAA
1 TCGATGCCATAGCCCAACTATGGTCTTACACATATTCATC-T-A
*
97772594 T-GATGCCATAGCCCAACTATGGTCTTGCACATATTCATCTA
1 TCGATGCCATAGCCCAACTATGGTCTTACACATATTCATCTA
*
97772635 TCGATGCCATAGCCCAGCTATGGTCTTACAC
1 TCGATGCCATAGCCCAACTATGGTCTTACAC
97772666 GAATCACATA
Statistics
Matches: 64, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
41 2 0.03
42 60 0.94
43 2 0.03
ACGTcount: A:0.27, C:0.28, G:0.15, T:0.30
Consensus pattern (42 bp):
TCGATGCCATAGCCCAACTATGGTCTTACACATATTCATCTA
Found at i:97772772 original size:31 final size:31
Alignment explanation
Indices: 97772737--97772947 Score: 314
Period size: 31 Copynumber: 6.8 Consensus size: 31
97772727 CTTGTCACTT
* *
97772737 GTAGCCGGAGCTACCACTATTCACTGATCAG
1 GTAGCCGGAGCTACCAATTTTCACTGATCAG
*
97772768 GTAGCCGGAGCTACCATTTTTCACTGATCAG
1 GTAGCCGGAGCTACCAATTTTCACTGATCAG
97772799 GTAGCCGGAGCTACCAATTTTCACTGATCAG
1 GTAGCCGGAGCTACCAATTTTCACTGATCAG
*
97772830 GTAGCCGGAGCTACCAATTTTCATTGATCAG
1 GTAGCCGGAGCTACCAATTTTCACTGATCAG
*
97772861 GTAGCCGGAACTACCAATTTTCACTGATCAG
1 GTAGCCGGAGCTACCAATTTTCACTGATCAG
* * * *
97772892 GTAGCAGAAGCTACCACTTTTCACTGATTAG
1 GTAGCCGGAGCTACCAATTTTCACTGATCAG
* * *
97772923 GTAGCTGAAGCTACCACTTTTCACT
1 GTAGCCGGAGCTACCAATTTTCACT
97772948 TGTCATTTGT
Statistics
Matches: 168, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 168 1.00
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.27
Consensus pattern (31 bp):
GTAGCCGGAGCTACCAATTTTCACTGATCAG
Found at i:97773029 original size:50 final size:51
Alignment explanation
Indices: 97772923--97773051 Score: 190
Period size: 50 Copynumber: 2.5 Consensus size: 51
97772913 CACTGATTAG
* * * *
97772923 GTAGCTGAAGCTACCACTTTTCACTTGTCATTTGTTATTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGT
*
97772974 GTAGCCGAAGCTATCACTTATCACTT-TCACTTT-TCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCA-TTTGTCATTGATCAGATAAGT
97773024 GTAGCCGAAGCTATCACTTATCACTTGT
1 GTAGCCGAAGCTATCACTTATCACTTGT
97773052 TGCCATGGTC
Statistics
Matches: 71, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
50 44 0.62
51 27 0.38
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.36
Consensus pattern (51 bp):
GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGT
Found at i:97793323 original size:12 final size:12
Alignment explanation
Indices: 97793306--97793330 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
97793296 TCCACATCCT
97793306 CGACCATGACCA
1 CGACCATGACCA
97793318 CGACCATGACCA
1 CGACCATGACCA
97793330 C
1 C
97793331 AATCATTTCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.44, G:0.16, T:0.08
Consensus pattern (12 bp):
CGACCATGACCA
Found at i:97810023 original size:12 final size:12
Alignment explanation
Indices: 97810008--97810044 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
97809998 ATCATAAGGA
*
97810008 TAACAATAATAG
1 TAACAGTAATAG
*
97810020 TAACAGTAACAG
1 TAACAGTAATAG
97810032 TAACAGTAATAG
1 TAACAGTAATAG
97810044 T
1 T
97810045 CAGGTACAGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.51, C:0.11, G:0.14, T:0.24
Consensus pattern (12 bp):
TAACAGTAATAG
Found at i:97812138 original size:8 final size:8
Alignment explanation
Indices: 97812127--97812176 Score: 59
Period size: 8 Copynumber: 6.4 Consensus size: 8
97812117 TATTATATGC
*
97812127 TTATTTTA
1 TTATTATA
97812135 TTATTATA
1 TTATTATA
97812143 TTA-TAT-
1 TTATTATA
97812149 TATATTATA
1 T-TATTATA
*
97812158 TTAATATA
1 TTATTATA
97812166 TTATTATA
1 TTATTATA
97812174 TTA
1 TTA
97812177 ATTTCTTAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
6 1 0.03
7 5 0.14
8 29 0.81
9 1 0.03
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (8 bp):
TTATTATA
Found at i:97812144 original size:5 final size:5
Alignment explanation
Indices: 97812136--97812176 Score: 57
Period size: 5 Copynumber: 8.0 Consensus size: 5
97812126 CTTATTTTAT
97812136 TATTA TATTA TATTA TATTA TATTA -ATATA TTATTA TATTA
1 TATTA TATTA TATTA TATTA TATTA TAT-TA -TATTA TATTA
97812177 ATTTCTTAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
4 2 0.06
5 27 0.82
6 2 0.06
7 2 0.06
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TATTA
Found at i:97812146 original size:16 final size:16
Alignment explanation
Indices: 97812114--97812176 Score: 67
Period size: 16 Copynumber: 4.0 Consensus size: 16
97812104 TTTCTTTATG
*
97812114 TTTTATTA-TATGCTTA
1 TTTTATTATTAT-ATTA
97812130 TTTTATTATTATATTA
1 TTTTATTATTATATTA
*
97812146 TATTA-TATTATATTA
1 TTTTATTATTATATTA
* *
97812161 ATATATTATTATATTA
1 TTTTATTATTATATTA
97812177 ATTTCTTAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
15 12 0.30
16 25 0.62
17 3 0.08
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.62
Consensus pattern (16 bp):
TTTTATTATTATATTA
Found at i:97828729 original size:40 final size:41
Alignment explanation
Indices: 97828681--97828851 Score: 294
Period size: 40 Copynumber: 4.2 Consensus size: 41
97828671 AGTAAATATA
*
97828681 TGCAAACACTCATCTTACCAATGTCAATATGCATATCTGAT
1 TGCAAACACTCATCTCACCAATGTCAATATGCATATCTGAT
*
97828722 TGC-AACACTCATCTCACCAATGTCAATATGCACATCTGAT
1 TGCAAACACTCATCTCACCAATGTCAATATGCATATCTGAT
97828762 TGCAAACACTCATCTCACCAATGTCAATATGCATATCTG-T
1 TGCAAACACTCATCTCACCAATGTCAATATGCATATCTGAT
97828802 TGCAAACACTCATCTCACCAATGTCAATATGCATATCTG-T
1 TGCAAACACTCATCTCACCAATGTCAATATGCATATCTGAT
*
97828842 CGCAAACACT
1 TGCAAACACT
97828852 AGAGTTCCGT
Statistics
Matches: 125, Mismatches: 4, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
40 88 0.70
41 37 0.30
ACGTcount: A:0.33, C:0.28, G:0.10, T:0.29
Consensus pattern (41 bp):
TGCAAACACTCATCTCACCAATGTCAATATGCATATCTGAT
Found at i:97828816 original size:81 final size:80
Alignment explanation
Indices: 97828681--97828851 Score: 290
Period size: 81 Copynumber: 2.1 Consensus size: 80
97828671 AGTAAATATA
*
97828681 TGCAAACACTCATCTTACCAATGTCAATATGCATATCTGATTGCAACACTCATCTCACCAATGTC
1 TGCAAACACTCATCTCACCAATGTCAATATGCATATCTGATTGCAACACTCATCTCACCAATGTC
97828746 AATATGCACATCTGAT
66 AATATGCACATCTG-T
97828762 TGCAAACACTCATCTCACCAATGTCAATATGCATATCTG-TTGCAAACACTCATCTCACCAATGT
1 TGCAAACACTCATCTCACCAATGTCAATATGCATATCTGATTGC-AACACTCATCTCACCAATGT
*
97828826 CAATATGCATATCTGT
65 CAATATGCACATCTGT
*
97828842 CGCAAACACT
1 TGCAAACACT
97828852 AGAGTTCCGT
Statistics
Matches: 86, Mismatches: 3, Indels: 3
0.93 0.03 0.03
Matches are distributed among these distances:
80 14 0.16
81 72 0.84
ACGTcount: A:0.33, C:0.28, G:0.10, T:0.29
Consensus pattern (80 bp):
TGCAAACACTCATCTCACCAATGTCAATATGCATATCTGATTGCAACACTCATCTCACCAATGTC
AATATGCACATCTGT
Found at i:97832408 original size:16 final size:16
Alignment explanation
Indices: 97832382--97832432 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
97832372 GACATAGCTC
*
97832382 TTCTCAAACAACGGTTG
1 TTCT-AAACAACAGTTG
* *
97832399 TTCTAAACAACAATTA
1 TTCTAAACAACAGTTG
*
97832415 TTCCAAACAACAGTTG
1 TTCTAAACAACAGTTG
97832431 TT
1 TT
97832433 TTTCCGGAAG
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
16 24 0.86
17 4 0.14
ACGTcount: A:0.37, C:0.22, G:0.10, T:0.31
Consensus pattern (16 bp):
TTCTAAACAACAGTTG
Found at i:97833208 original size:16 final size:16
Alignment explanation
Indices: 97833184--97833214 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
97833174 TTTGTTGAGT
*
97833184 ATTGTCAAGACAAGAC
1 ATTGACAAGACAAGAC
97833200 ATTGACAAGACAAGA
1 ATTGACAAGACAAGA
97833215 GACTAGTACA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.16, G:0.19, T:0.16
Consensus pattern (16 bp):
ATTGACAAGACAAGAC
Found at i:97843134 original size:20 final size:20
Alignment explanation
Indices: 97843109--97843149 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
97843099 CTAGAGATAT
*
97843109 AGATAGTATGTGCTTTGATC
1 AGATAGTATGTGCATTGATC
97843129 AGATAGTATGTGCATTGATC
1 AGATAGTATGTGCATTGATC
97843149 A
1 A
97843150 AATTATAAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.29, C:0.10, G:0.24, T:0.37
Consensus pattern (20 bp):
AGATAGTATGTGCATTGATC
Found at i:97846300 original size:14 final size:13
Alignment explanation
Indices: 97846247--97846347 Score: 55
Period size: 14 Copynumber: 7.1 Consensus size: 13
97846237 TTATTATGTT
97846247 TCTATTTATATTTA
1 TCTATTT-TATTTA
97846261 T-T-TTGTTATTCTAA
1 TCTATT-TTATT-T-A
97846275 TACTATTATTATTTA
1 T-CTATT-TTATTTA
97846290 TCTAATTTTATTTA
1 TCT-ATTTTATTTA
*
97846304 TCTATTTATATTTC
1 TCTATTT-TATTTA
*
97846318 TACTATTACTATATT-
1 T-CTATT-TTAT-TTA
97846333 TCTATTTCTATTTA
1 TCTATTT-TATTTA
97846347 T
1 T
97846348 ATACTAATAT
Statistics
Matches: 70, Mismatches: 4, Indels: 26
0.70 0.04 0.26
Matches are distributed among these distances:
12 6 0.09
13 9 0.13
14 30 0.43
15 14 0.20
16 4 0.06
17 7 0.10
ACGTcount: A:0.27, C:0.10, G:0.01, T:0.62
Consensus pattern (13 bp):
TCTATTTTATTTA
Found at i:97846378 original size:43 final size:43
Alignment explanation
Indices: 97846275--97846378 Score: 104
Period size: 43 Copynumber: 2.4 Consensus size: 43
97846265 GTTATTCTAA
* * * *
97846275 TACTATTATTATTTATCTAATTTTATTTATCTATTTATATTTC
1 TACTATTATTATTTTTCTAATTTTATTTATATACTAATATTTC
* * *
97846318 TACTATTACTATATTTCT-ATTTCTATTTATATACTAATATTATT
1 TACTATTATTATTTTTCTAATTT-TATTTATATACTAATATT-TC
*
97846362 TTC-ATTATTATTTTTCT
1 TACTATTATTATTTTTCT
97846379 TATATATTTT
Statistics
Matches: 49, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
42 4 0.08
43 42 0.86
44 3 0.06
ACGTcount: A:0.28, C:0.11, G:0.00, T:0.62
Consensus pattern (43 bp):
TACTATTATTATTTTTCTAATTTTATTTATATACTAATATTTC
Found at i:97846486 original size:3 final size:3
Alignment explanation
Indices: 97846478--97846634 Score: 123
Period size: 3 Copynumber: 52.7 Consensus size: 3
97846468 TTTAAAACTT
97846478 TTA TTA TTA TTA TTA -TA TT- TCTA TGTA TTA -TA TT- TCTA TT- TATA
1 TTA TTA TTA TTA TTA TTA TTA T-TA T-TA TTA TTA TTA T-TA TTA T-TA
* * * *
97846522 TTTA TGTA TTA ATA TCA TTA TT- TTT TTA TT- TTT TTA -TA TTA TTA
1 -TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
97846566 TTA TTA TAA TTA TTA TTA CTA TTA TTA CTA TTA TTTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA
*
97846612 TTA TTA TTA CTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TT
97846635 TATAATAGTA
Statistics
Matches: 125, Mismatches: 15, Indels: 28
0.74 0.09 0.17
Matches are distributed among these distances:
2 13 0.10
3 98 0.78
4 13 0.10
5 1 0.01
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:97846815 original size:2 final size:2
Alignment explanation
Indices: 97846808--97846836 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
97846798 ATTATTCCGT
97846808 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
97846837 TTATTTATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:97858982 original size:54 final size:54
Alignment explanation
Indices: 97858913--97859019 Score: 171
Period size: 54 Copynumber: 2.0 Consensus size: 54
97858903 CGAAGTCTAG
*
97858913 CTGAAGCACATAAGTGCTAAACAGAAGCCCGAAGGATAACTGAAGTACACAAGA
1 CTGAAGCACATAAGTGCTAAACAGAAGCCCGAAGGATAACTGAAGCACACAAGA
* *
97858967 CTGAAGCAC-TCAAGTGCTAAACGGAAGCCCGAAGGCTAACTGAAGCACACAAG
1 CTGAAGCACAT-AAGTGCTAAACAGAAGCCCGAAGGATAACTGAAGCACACAAG
97859020 TGCCCTAAGG
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
53 1 0.02
54 48 0.98
ACGTcount: A:0.41, C:0.23, G:0.23, T:0.12
Consensus pattern (54 bp):
CTGAAGCACATAAGTGCTAAACAGAAGCCCGAAGGATAACTGAAGCACACAAGA
Found at i:97865943 original size:36 final size:36
Alignment explanation
Indices: 97865832--97865985 Score: 152
Period size: 36 Copynumber: 4.3 Consensus size: 36
97865822 ACTATTTGTT
* * * *
97865832 TGGTGTGTTTTGGAGGGACTAGCTCTTTTGAGCAT-
1 TGGTGTGTTTTGGAGGGATTGGCTCGTGTGAGCATC
* * * * * * *
97865867 TGGTGTG-TTTCGATTGGACTAGCTCTTATGGGCAT-
1 TGGTGTGTTTTGGA-GGGATTGGCTCGTGTGAGCATC
*
97865902 TGGTGTATTTTGGAGGGATTGGCTCGTGTGAGCATC
1 TGGTGTGTTTTGGAGGGATTGGCTCGTGTGAGCATC
*
97865938 TGGTGTGTCTTGGAGGGATTGGCTCGTGTGAGCATC
1 TGGTGTGTTTTGGAGGGATTGGCTCGTGTGAGCATC
*
97865974 TAGTGTGTTTTG
1 TGGTGTGTTTTG
97865986 ATTGGACTGA
Statistics
Matches: 100, Mismatches: 16, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
34 5 0.05
35 46 0.46
36 49 0.49
ACGTcount: A:0.13, C:0.12, G:0.36, T:0.39
Consensus pattern (36 bp):
TGGTGTGTTTTGGAGGGATTGGCTCGTGTGAGCATC
Found at i:97866824 original size:20 final size:20
Alignment explanation
Indices: 97866775--97866830 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
97866765 AGTTTATGCT
* * *
97866775 AAGTAAATGAAATGGAAAGT
1 AAGTAAATGGAATGGTAAGA
97866795 AAGTAAATGGAATGGTAAGA
1 AAGTAAATGGAATGGTAAGA
*
97866815 AAGTAAATGGAGTGGT
1 AAGTAAATGGAATGGT
97866831 TCATAGTATT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.48, C:0.00, G:0.30, T:0.21
Consensus pattern (20 bp):
AAGTAAATGGAATGGTAAGA
Found at i:97869578 original size:13 final size:13
Alignment explanation
Indices: 97869560--97869584 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
97869550 CATTAAAGCC
97869560 AAGGCAACCTTAT
1 AAGGCAACCTTAT
97869573 AAGGCAACCTTA
1 AAGGCAACCTTA
97869585 GCTTCATAAG
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:0.40, C:0.24, G:0.16, T:0.20
Consensus pattern (13 bp):
AAGGCAACCTTAT
Found at i:97869627 original size:113 final size:114
Alignment explanation
Indices: 97869452--97869677 Score: 418
Period size: 113 Copynumber: 2.0 Consensus size: 114
97869442 TTTCGTGTAC
*
97869452 ACCTATATAAGGCAACCTTAGCTTCATAAGTAAGTTCTATACTTTATTTGATAATTCTTATTTCC
1 ACCTATATAAGGCAACCTTAGCTTCATAAGTAAGTTCTATACTTTATTTGATAATTCATATTTCC
*
97869517 TTTCAGTAATTCTCTATGCGTTTTCCGGGAAAGCATTAAAGCCAAGGCA
66 TTTCAGTAATTATCTATGCGTTTTCCGGGAAAGCATTAAAGCCAAGGCA
*
97869566 ACCT-TATAAGGCAACCTTAGCTTCATAAGTAAGTTCTATACTTTCTTTGATAATTCATATTTCC
1 ACCTATATAAGGCAACCTTAGCTTCATAAGTAAGTTCTATACTTTATTTGATAATTCATATTTCC
97869630 TTTCAGTAATTATCTATGCGTTTTCCGGGAAAGCATTAAAGCCAAGGC
66 TTTCAGTAATTATCTATGCGTTTTCCGGGAAAGCATTAAAGCCAAGGC
97869678 CTGTTTGAAG
Statistics
Matches: 109, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
113 105 0.96
114 4 0.04
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.37
Consensus pattern (114 bp):
ACCTATATAAGGCAACCTTAGCTTCATAAGTAAGTTCTATACTTTATTTGATAATTCATATTTCC
TTTCAGTAATTATCTATGCGTTTTCCGGGAAAGCATTAAAGCCAAGGCA
Found at i:97870095 original size:22 final size:22
Alignment explanation
Indices: 97870070--97870113 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
97870060 GTGAAAGGTC
97870070 TGGCTTTGAATGTTGAGGTAAG
1 TGGCTTTGAATGTTGAGGTAAG
*
97870092 TGGCTTTGAATGTTGATGTAAG
1 TGGCTTTGAATGTTGAGGTAAG
97870114 AAATGAAAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.23, C:0.05, G:0.34, T:0.39
Consensus pattern (22 bp):
TGGCTTTGAATGTTGAGGTAAG
Found at i:97874715 original size:24 final size:24
Alignment explanation
Indices: 97874676--97874745 Score: 104
Period size: 24 Copynumber: 2.9 Consensus size: 24
97874666 TATTGACATC
*
97874676 CAAATCAGCACACATAGTGCCATT
1 CAAATCCGCACACATAGTGCCATT
*
97874700 CAATTCCGCACACATAGTGCCATT
1 CAAATCCGCACACATAGTGCCATT
* *
97874724 CAAATCCACACACTTAGTGCCA
1 CAAATCCGCACACATAGTGCCA
97874746 ATGTTGACCC
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 41 1.00
ACGTcount: A:0.34, C:0.33, G:0.11, T:0.21
Consensus pattern (24 bp):
CAAATCCGCACACATAGTGCCATT
Found at i:97884712 original size:21 final size:19
Alignment explanation
Indices: 97884688--97884727 Score: 53
Period size: 21 Copynumber: 2.0 Consensus size: 19
97884678 TTAATCCTTA
97884688 AATTTCTATTTTTAGAAATTT
1 AATTTCTA-TTTTA-AAATTT
*
97884709 AATTTTTATTTTAAAATTT
1 AATTTCTATTTTAAAATTT
97884728 TAAAATTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 6 0.33
20 5 0.28
21 7 0.39
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.60
Consensus pattern (19 bp):
AATTTCTATTTTAAAATTT
Found at i:97885279 original size:18 final size:20
Alignment explanation
Indices: 97885258--97885297 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
97885248 TTTTATGAAT
97885258 TTTTTAT-A-TTTTAAAATA
1 TTTTTATAATTTTTAAAATA
*
97885276 -TTTTATAATTTTTAAATTA
1 TTTTTATAATTTTTAAAATA
97885295 TTT
1 TTT
97885298 ATTGACGTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 4
0.78 0.04 0.17
Matches are distributed among these distances:
17 6 0.33
18 1 0.06
19 9 0.50
20 2 0.11
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (20 bp):
TTTTTATAATTTTTAAAATA
Found at i:97886481 original size:41 final size:44
Alignment explanation
Indices: 97886408--97886489 Score: 116
Period size: 42 Copynumber: 1.9 Consensus size: 44
97886398 CGTGACTATG
*
97886408 TTAAAAGAAAGATGACAAAAAGAGGAT-GGGAAAGAACAATCTA
1 TTAAAAGAAAGATGACAAAAAGAGGATAGGAAAAGAACAATCTA
**
97886451 TTAAAAGAAAGAT-A-GTAAAGAGGATAGGAAAAGAACAAT
1 TTAAAAGAAAGATGACAAAAAGAGGATAGGAAAAGAACAAT
97886490 ATTTTCTTGA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
41 9 0.26
42 13 0.37
43 13 0.37
ACGTcount: A:0.57, C:0.05, G:0.23, T:0.15
Consensus pattern (44 bp):
TTAAAAGAAAGATGACAAAAAGAGGATAGGAAAAGAACAATCTA
Found at i:97887625 original size:15 final size:15
Alignment explanation
Indices: 97887605--97887639 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
97887595 AAGTTTTTAC
97887605 TTCGCAAGCAGAGGG
1 TTCGCAAGCAGAGGG
97887620 TTCGCAAGCAGAGGG
1 TTCGCAAGCAGAGGG
97887635 TTCGC
1 TTCGC
97887640 CAGTGGCATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.23, C:0.23, G:0.37, T:0.17
Consensus pattern (15 bp):
TTCGCAAGCAGAGGG
Found at i:97887787 original size:27 final size:27
Alignment explanation
Indices: 97887735--97887791 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
97887725 GGTAAGGGGT
*
97887735 GTTTGCCAGTTGGTTTGGTGAACTGGG
1 GTTTGCCAGTTGGTTTGGTCAACTGGG
*
97887762 GTTTGCTAGTTGGTTTGG-CAAGCTGGG
1 GTTTGCCAGTTGGTTTGGTCAA-CTGGG
97887789 GTT
1 GTT
97887792 CAGCAACAGG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
26 2 0.07
27 25 0.93
ACGTcount: A:0.11, C:0.11, G:0.40, T:0.39
Consensus pattern (27 bp):
GTTTGCCAGTTGGTTTGGTCAACTGGG
Found at i:97887836 original size:27 final size:27
Alignment explanation
Indices: 97887806--97887863 Score: 62
Period size: 27 Copynumber: 2.1 Consensus size: 27
97887796 AACAGGTCTA
* *
97887806 GCGAATTGAGGTTTGCTAGTTGGTTTG
1 GCGAACTGAGGTTTGCCAGTTGGTTTG
* * * *
97887833 GCGAGCTAAGGTTCGCCAATTGGTTTG
1 GCGAACTGAGGTTTGCCAGTTGGTTTG
97887860 GCGA
1 GCGA
97887864 GCTGGGGTCC
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.17, C:0.14, G:0.36, T:0.33
Consensus pattern (27 bp):
GCGAACTGAGGTTTGCCAGTTGGTTTG
Found at i:97887864 original size:27 final size:27
Alignment explanation
Indices: 97887825--97887885 Score: 86
Period size: 27 Copynumber: 2.3 Consensus size: 27
97887815 GGTTTGCTAG
*
97887825 TTGGTTTGGCGAGCTAAGGTTCGCCAA
1 TTGGTTTGGCGAGCTAAGGTCCGCCAA
**
97887852 TTGGTTTGGCGAGCTGGGGTCCGCCAA
1 TTGGTTTGGCGAGCTAAGGTCCGCCAA
*
97887879 TAGGTTT
1 TTGGTTT
97887886 AGTGAATTGG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.15, C:0.18, G:0.36, T:0.31
Consensus pattern (27 bp):
TTGGTTTGGCGAGCTAAGGTCCGCCAA
Found at i:97896186 original size:20 final size:20
Alignment explanation
Indices: 97896143--97896186 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
97896133 CGGACTGCCA
*
97896143 TGGTTTTAATTTATGGTTAT
1 TGGTTTTAATTTATGGTTAC
* **
97896163 TGGTTTTATTTTATTTTTAC
1 TGGTTTTAATTTATGGTTAC
97896183 TGGT
1 TGGT
97896187 CATATTTTTG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.16, C:0.02, G:0.18, T:0.64
Consensus pattern (20 bp):
TGGTTTTAATTTATGGTTAC
Found at i:97901974 original size:21 final size:22
Alignment explanation
Indices: 97901927--97901975 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
97901917 GGACCCAAAC
* *
97901927 TTTTAATTTCTTATCTTAATTA
1 TTTTTATTTCTTATATTAATTA
97901949 TTTTTATTT-TTATATT-ATTA
1 TTTTTATTTCTTATATTAATTA
97901969 TATTTTA
1 T-TTTTA
97901976 AAATAAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 5 0.21
21 11 0.46
22 8 0.33
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (22 bp):
TTTTTATTTCTTATATTAATTA
Found at i:97902975 original size:34 final size:34
Alignment explanation
Indices: 97902932--97903004 Score: 139
Period size: 34 Copynumber: 2.2 Consensus size: 34
97902922 GATGCATGAA
97902932 ACTTATGCACTGACAATACATCAAATACTATTCT
1 ACTTATGCACTGACAATACATCAAATACTATTCT
97902966 ACTTATGCACTGACAATACATCAAATACTATTCT
1 ACTTATGCACTGACAATACATCAAATACTATTCT
97903000 A-TTAT
1 ACTTAT
97903005 TAATGCCTAA
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
33 4 0.10
34 35 0.90
ACGTcount: A:0.38, C:0.22, G:0.05, T:0.34
Consensus pattern (34 bp):
ACTTATGCACTGACAATACATCAAATACTATTCT
Found at i:97907215 original size:21 final size:21
Alignment explanation
Indices: 97907189--97907241 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
97907179 AGCGGTGGCG
* *
97907189 GTGAGAATAGTTACTGTAGCA
1 GTGAGAATAGATACTCTAGCA
* *
97907210 GTGAGATTGGATACTCTAGCA
1 GTGAGAATAGATACTCTAGCA
*
97907231 GTGAGATTAGA
1 GTGAGAATAGA
97907242 AACAATGGTG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.28
Consensus pattern (21 bp):
GTGAGAATAGATACTCTAGCA
Found at i:97907893 original size:18 final size:18
Alignment explanation
Indices: 97907867--97907901 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
97907857 TAACAAATAT
*
97907867 ACTTCAAATCTAGTTGGC
1 ACTTAAAATCTAGTTGGC
97907885 ACTTAAAATCTAGTTGG
1 ACTTAAAATCTAGTTGG
97907902 ACTACCACGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.34
Consensus pattern (18 bp):
ACTTAAAATCTAGTTGGC
Found at i:97908045 original size:31 final size:29
Alignment explanation
Indices: 97907981--97908049 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
97907971 ATGATAATAT
*** *
97907981 AAGTGACTAAAATGTAACATTTCAAACAT
1 AAGTGACTAAAATGTAACAAGGCAAACAA
97908010 AAGTGACTAAAATGTAACCTAAGGCAAACAA
1 AAGTGACTAAAATGTAA-C-AAGGCAAACAA
97908041 AAGTGACTA
1 AAGTGACTA
97908050 TTTTGTAGTT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 17 0.50
30 1 0.03
31 16 0.47
ACGTcount: A:0.49, C:0.14, G:0.14, T:0.22
Consensus pattern (29 bp):
AAGTGACTAAAATGTAACAAGGCAAACAA
Found at i:97911765 original size:7 final size:7
Alignment explanation
Indices: 97911753--97911782 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
97911743 CCTACATAAC
97911753 ATGTTAA
1 ATGTTAA
97911760 ATGTTAA
1 ATGTTAA
97911767 ATGTTAA
1 ATGTTAA
97911774 ATGTTAA
1 ATGTTAA
97911781 AT
1 AT
97911783 TTTATAATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.43, C:0.00, G:0.13, T:0.43
Consensus pattern (7 bp):
ATGTTAA
Found at i:97923747 original size:18 final size:18
Alignment explanation
Indices: 97923699--97923749 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
97923689 ATGAGGTACT
97923699 CTGTGTACCG-TACTGCTA
1 CTGT-TACCGTTACTGCTA
*** *
97923717 CTGTTATTATTACTGTTA
1 CTGTTACCGTTACTGCTA
97923735 CTGTTACCGTTACTG
1 CTGTTACCGTTACTG
97923750 GCACGGTGTA
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
17 2 0.08
18 23 0.92
ACGTcount: A:0.18, C:0.22, G:0.18, T:0.43
Consensus pattern (18 bp):
CTGTTACCGTTACTGCTA
Found at i:97923916 original size:18 final size:18
Alignment explanation
Indices: 97923895--97923973 Score: 72
Period size: 18 Copynumber: 4.4 Consensus size: 18
97923885 TAATCAATTG
97923895 TTACTGAATCAA-TGACTA
1 TTACTGAAT-AACTGACTA
*
97923913 TTACTGAATAATTGACTGA
1 TTACTGAATAACTGACT-A
* * **
97923932 -TATTGAATAAATGACCG
1 TTACTGAATAACTGACTA
*
97923949 TTACTGAATAACTGATTA
1 TTACTGAATAACTGACTA
97923967 TTACTGA
1 TTACTGA
97923974 TGACTAACTG
Statistics
Matches: 49, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
17 2 0.04
18 46 0.94
19 1 0.02
ACGTcount: A:0.38, C:0.13, G:0.14, T:0.35
Consensus pattern (18 bp):
TTACTGAATAACTGACTA
Found at i:97928160 original size:53 final size:53
Alignment explanation
Indices: 97928079--97928229 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
97928069 CTTACACGGT
* *
97928079 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTA
*
97928134 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
** *
97928187 TCACATTGCACCGATGCCATAGCCCAGCTATGGTCTTAAACGG
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGG
97928230 GCGCACTTAT
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.26
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:97932552 original size:5 final size:5
Alignment explanation
Indices: 97932542--97932570 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
97932532 TATAATTGAA
97932542 AATAT AATAT AATAT AATAT AATAT AATA
1 AATAT AATAT AATAT AATAT AATAT AATA
97932571 AAGAAAGTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (5 bp):
AATAT
Found at i:97934587 original size:22 final size:22
Alignment explanation
Indices: 97934556--97934611 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 22
97934546 AGGGTTGATG
* *
97934556 ACACGGGCGTGTCATATCAGCC
1 ACACGGGCGTGTCACATAAGCC
*
97934578 ACACGAGCGTGTCACATAAGCC
1 ACACGGGCGTGTCACATAAGCC
*
97934600 ACTCGGGCGTGT
1 ACACGGGCGTGT
97934612 GATACTATTC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.23, C:0.30, G:0.29, T:0.18
Consensus pattern (22 bp):
ACACGGGCGTGTCACATAAGCC
Found at i:97940725 original size:14 final size:14
Alignment explanation
Indices: 97940689--97940729 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
97940679 TATTTAAAAA
*
97940689 ATAATAATTATAAT
1 ATAATAAATATAAT
*
97940703 -TGA-AAATATAAT
1 ATAATAAATATAAT
97940715 ATAATAAATATAAT
1 ATAATAAATATAAT
97940729 A
1 A
97940730 ATAAAGAAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
12 8 0.36
13 4 0.18
14 10 0.45
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (14 bp):
ATAATAAATATAAT
Found at i:97940749 original size:17 final size:19
Alignment explanation
Indices: 97940729--97940774 Score: 55
Period size: 17 Copynumber: 2.6 Consensus size: 19
97940719 TAAATATAAT
97940729 AATAAAGAAAGT-AAA-AG
1 AATAAAGAAAGTAAAATAG
97940746 AATAAAAGAAA-TAAAATAG
1 AAT-AAAGAAAGTAAAATAG
97940765 AA-AAAGAAAG
1 AATAAAGAAAG
97940775 GACAGAAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
17 11 0.44
18 10 0.40
19 4 0.16
ACGTcount: A:0.74, C:0.00, G:0.15, T:0.11
Consensus pattern (19 bp):
AATAAAGAAAGTAAAATAG
Found at i:97942719 original size:22 final size:22
Alignment explanation
Indices: 97942688--97942743 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 22
97942678 AGGGTTGATG
* *
97942688 ACACGGGCGTGTCATATCAGCC
1 ACACGGGCGTGTCACATAAGCC
*
97942710 ACACGAGCGTGTCACATAAGCC
1 ACACGGGCGTGTCACATAAGCC
*
97942732 ACTCGGGCGTGT
1 ACACGGGCGTGT
97942744 GATACTATTC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.23, C:0.30, G:0.29, T:0.18
Consensus pattern (22 bp):
ACACGGGCGTGTCACATAAGCC
Found at i:97948854 original size:5 final size:5
Alignment explanation
Indices: 97948844--97948872 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
97948834 TATAATTGAA
97948844 AATAT AATAT AATAT AATAT AATAT AATA
1 AATAT AATAT AATAT AATAT AATAT AATA
97948873 AAGAAAGTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (5 bp):
AATAT
Found at i:97948891 original size:17 final size:19
Alignment explanation
Indices: 97948864--97948914 Score: 56
Period size: 17 Copynumber: 2.8 Consensus size: 19
97948854 AATATAATAT
*
97948864 AATATAATAAAGAAAGT-A
1 AATAGAATAAAGAAAGTAA
97948882 AA-AGAATAAAAGAAA-TAA
1 AATAGAAT-AAAGAAAGTAA
97948900 AATAGAA-AAAGAAAG
1 AATAGAATAAAGAAAG
97948915 GACAGAAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 8
0.76 0.03 0.22
Matches are distributed among these distances:
17 12 0.43
18 12 0.43
19 4 0.14
ACGTcount: A:0.73, C:0.00, G:0.14, T:0.14
Consensus pattern (19 bp):
AATAGAATAAAGAAAGTAA
Found at i:97950890 original size:22 final size:22
Alignment explanation
Indices: 97950859--97950914 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 22
97950849 AGGGTTGATG
* *
97950859 ACACGGGCGTGTCATATCAGCC
1 ACACGGGCGTGTCACATAAGCC
*
97950881 ACACGAGCGTGTCACATAAGCC
1 ACACGGGCGTGTCACATAAGCC
*
97950903 ACTCGGGCGTGT
1 ACACGGGCGTGT
97950915 GATACTATTC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.23, C:0.30, G:0.29, T:0.18
Consensus pattern (22 bp):
ACACGGGCGTGTCACATAAGCC
Found at i:97957063 original size:5 final size:5
Alignment explanation
Indices: 97957053--97957081 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
97957043 TATAATTGAA
97957053 AATAT AATAT AATAT AATAT AATAT AATA
1 AATAT AATAT AATAT AATAT AATAT AATA
97957082 AAGAAAGTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (5 bp):
AATAT
Found at i:97957100 original size:17 final size:19
Alignment explanation
Indices: 97957073--97957123 Score: 56
Period size: 17 Copynumber: 2.8 Consensus size: 19
97957063 AATATAATAT
*
97957073 AATATAATAAAGAAAGT-A
1 AATAGAATAAAGAAAGTAA
97957091 AA-AGAATAAAAGAAA-TAA
1 AATAGAAT-AAAGAAAGTAA
97957109 AATAGAA-AAAGAAAG
1 AATAGAATAAAGAAAG
97957124 GACAGAAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 8
0.76 0.03 0.22
Matches are distributed among these distances:
17 12 0.43
18 12 0.43
19 4 0.14
ACGTcount: A:0.73, C:0.00, G:0.14, T:0.14
Consensus pattern (19 bp):
AATAGAATAAAGAAAGTAA
Found at i:97959096 original size:22 final size:22
Alignment explanation
Indices: 97959065--97959120 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 22
97959055 AGGGTTGATG
* *
97959065 ACACGGGCGTGTCATATCAGCC
1 ACACGGGCGTGTCACATAAGCC
*
97959087 ACACGAGCGTGTCACATAAGCC
1 ACACGGGCGTGTCACATAAGCC
*
97959109 ACTCGGGCGTGT
1 ACACGGGCGTGT
97959121 GATACTATTC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.23, C:0.30, G:0.29, T:0.18
Consensus pattern (22 bp):
ACACGGGCGTGTCACATAAGCC
Found at i:97963696 original size:17 final size:20
Alignment explanation
Indices: 97963659--97963696 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
97963649 AAATTCTCCC
97963659 ATTTTTTATCTAAACAATTA
1 ATTTTTTATCTAAACAATTA
97963679 ATTTTTT-T-TAAA-AATTA
1 ATTTTTTATCTAAACAATTA
97963696 A
1 A
97963697 ACATTTTCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 6 0.33
18 4 0.22
19 1 0.06
20 7 0.39
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (20 bp):
ATTTTTTATCTAAACAATTA
Found at i:97964955 original size:41 final size:39
Alignment explanation
Indices: 97964868--97964946 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
97964858 CATATATTCA
97964868 TACATATATAGGCTTAGAAATTAATATAAAATGGATTTT
1 TACATATATAGGCTTAGAAATTAATATAAAATGGATTTT
97964907 TACATATATAGGCTTAGAAATTAATATAAAATGGATTTT
1 TACATATATAGGCTTAGAAATTAATATAAAATGGATTTT
97964946 T
1 T
97964947 CTTAATATAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.43, C:0.05, G:0.13, T:0.39
Consensus pattern (39 bp):
TACATATATAGGCTTAGAAATTAATATAAAATGGATTTT
Found at i:97966190 original size:2 final size:2
Alignment explanation
Indices: 97966183--97966220 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
97966173 TGAAGCGCGG
*
97966183 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA AA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
97966221 AGGCATTTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (2 bp):
GA
Found at i:97967798 original size:3 final size:3
Alignment explanation
Indices: 97967790--97967814 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
97967780 GGGTACCTTA
97967790 TGG TGG TGG TGG TGG TGG TGG TGG T
1 TGG TGG TGG TGG TGG TGG TGG TGG T
97967815 TTGGGGGATC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.00, G:0.64, T:0.36
Consensus pattern (3 bp):
TGG
Found at i:97972770 original size:16 final size:15
Alignment explanation
Indices: 97972749--97972798 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 15
97972739 TTTTTAAAAA
97972749 TTAATTTATACTATTT
1 TTAATTTATA-TATTT
97972765 TTAATTTA-ATATTT
1 TTAATTTATATATTT
97972779 TATGAATTTATATATATT
1 T-T-AATTTATATAT-TT
97972797 TT
1 TT
97972799 TATAATTTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
14 6 0.20
15 2 0.07
16 14 0.47
17 5 0.17
18 3 0.10
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (15 bp):
TTAATTTATATATTT
Found at i:97973300 original size:28 final size:28
Alignment explanation
Indices: 97973242--97973294 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
97973232 TGGTTTATAT
***
97973242 GAATTTAATTTTTTTACTTTATTTTAAA
1 GAATTTAATTTTTTTACTTTATCGGAAA
97973270 GAATTTAATTTTTTTACTTT-TCGGA
1 GAATTTAATTTTTTTACTTTATCGGA
97973295 TTAGAAATGT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 2 0.09
28 20 0.91
ACGTcount: A:0.28, C:0.06, G:0.08, T:0.58
Consensus pattern (28 bp):
GAATTTAATTTTTTTACTTTATCGGAAA
Found at i:97975529 original size:20 final size:19
Alignment explanation
Indices: 97975498--97975569 Score: 83
Period size: 19 Copynumber: 3.7 Consensus size: 19
97975488 CTCTTTCAAC
97975498 AAAAATTACAAAATAATTTT
1 AAAAATT-CAAAATAATTTT
97975518 CAAAAATTCAAAATAATTTT
1 -AAAAATTCAAAATAATTTT
* *
97975538 TAAAATTTAAAAT-ATTTAT
1 AAAAATTCAAAATAATTT-T
*
97975557 AAAAATTCTAAAT
1 AAAAATTCAAAAT
97975570 TTTATATTTT
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
18 4 0.09
19 22 0.49
20 12 0.27
21 7 0.16
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.38
Consensus pattern (19 bp):
AAAAATTCAAAATAATTTT
Found at i:97975544 original size:19 final size:19
Alignment explanation
Indices: 97975499--97975560 Score: 72
Period size: 20 Copynumber: 3.2 Consensus size: 19
97975489 TCTTTCAACA
*
97975499 AAAATTACAAAATAATTTTCA
1 AAAATT-CAAAATAATTTT-T
97975520 AAAATTCAAAATAATTTTT
1 AAAATTCAAAATAATTTTT
* *
97975539 AAAATTTAAAAT-ATTTAT
1 AAAATTCAAAATAATTTTT
97975557 AAAA
1 AAAA
97975561 ATTCTAAATT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
18 9 0.24
19 11 0.29
20 12 0.32
21 6 0.16
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (19 bp):
AAAATTCAAAATAATTTTT
Found at i:97975569 original size:19 final size:19
Alignment explanation
Indices: 97975519--97975575 Score: 57
Period size: 19 Copynumber: 3.1 Consensus size: 19
97975509 AATAATTTTC
*
97975519 AAAAATTCAAAATAATTT-T
1 AAAAATTCTAAAT-ATTTAT
*
97975538 TAAAATT-TAAAATATTTAT
1 AAAAATTCT-AAATATTTAT
97975557 AAAAATTCTAAAT-TTTAT
1 AAAAATTCTAAATATTTAT
97975575 A
1 A
97975576 TTTTAAAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
18 10 0.31
19 21 0.66
20 1 0.03
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (19 bp):
AAAAATTCTAAATATTTAT
Found at i:97975597 original size:10 final size:10
Alignment explanation
Indices: 97975582--97975636 Score: 56
Period size: 10 Copynumber: 5.4 Consensus size: 10
97975572 TATATTTTAA
97975582 AAAAAAATTT
1 AAAAAAATTT
97975592 AAAAAAATTT
1 AAAAAAATTT
* *
97975602 TAAAAAATTC
1 AAAAAAATTT
* * *
97975612 CAAAGAATAT
1 AAAAAAATTT
97975622 AAAAAAAGTTT
1 AAAAAAA-TTT
97975633 AAAA
1 AAAA
97975637 TTTTAAATTT
Statistics
Matches: 35, Mismatches: 9, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
10 29 0.83
11 6 0.17
ACGTcount: A:0.67, C:0.04, G:0.04, T:0.25
Consensus pattern (10 bp):
AAAAAAATTT
Found at i:97976940 original size:26 final size:24
Alignment explanation
Indices: 97976881--97976941 Score: 61
Period size: 24 Copynumber: 2.5 Consensus size: 24
97976871 AAAAATATGA
* *
97976881 AAAAATAGAAAT-TTTTTAAAAAT
1 AAAAATATAAATAATTTTAAAAAT
* *
97976904 AAAATTTTAAATAATTTTAAAAAT
1 AAAAATATAAATAATTTTAAAAAT
97976928 ATATAAATATAAAT
1 A-A-AAATATAAAT
97976942 TAAAAAATAT
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
23 9 0.31
24 11 0.38
25 1 0.03
26 8 0.28
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.38
Consensus pattern (24 bp):
AAAAATATAAATAATTTTAAAAAT
Found at i:97977090 original size:16 final size:15
Alignment explanation
Indices: 97977057--97977108 Score: 61
Period size: 15 Copynumber: 3.3 Consensus size: 15
97977047 TAAAATATAT
*
97977057 AAATAGAAATTCAAA
1 AAATAGAAATTGAAA
97977072 AAATAGAAATTTGAAAA
1 AAATAGAAA-TTG-AAA
97977089 AAATTA-AAATTGAAA
1 AAA-TAGAAATTGAAA
97977104 AAATA
1 AAATA
97977109 ATTAAATTCT
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
14 2 0.06
15 15 0.45
16 5 0.15
17 9 0.27
18 2 0.06
ACGTcount: A:0.67, C:0.02, G:0.08, T:0.23
Consensus pattern (15 bp):
AAATAGAAATTGAAA
Found at i:97978846 original size:31 final size:32
Alignment explanation
Indices: 97978811--97978878 Score: 111
Period size: 31 Copynumber: 2.2 Consensus size: 32
97978801 AGTGAAGATT
*
97978811 AAAATTTTAAAATATGTG-AATAATTAAAATA
1 AAAATTTTAAAATATGAGAAATAATTAAAATA
*
97978842 AAAATTTTAAAATATGAGAAATAATTAAACTA
1 AAAATTTTAAAATATGAGAAATAATTAAAATA
97978874 AAAAT
1 AAAAT
97978879 AATCAAATTA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
31 17 0.50
32 17 0.50
ACGTcount: A:0.60, C:0.01, G:0.06, T:0.32
Consensus pattern (32 bp):
AAAATTTTAAAATATGAGAAATAATTAAAATA
Found at i:97980181 original size:172 final size:172
Alignment explanation
Indices: 97979895--97980239 Score: 663
Period size: 172 Copynumber: 2.0 Consensus size: 172
97979885 TCATTGATTG
*
97979895 ATTGTACTTTGATTATTTTGATTGTATTAGCTATTTTCAAGGAATTACTTTATATTGACTTAAAT
1 ATTGTACATTGATTATTTTGATTGTATTAGCTATTTTCAAGGAATTACTTTATATTGACTTAAAT
97979960 GCTATGTTAGTAAGCCGAAATTGATATATGATTTGAGGCTTGTATAAGTTATGTATGAGAGCTTA
66 GCTATGTTAGTAAGCCGAAATTGATATATGATTTGAGGCTTGTATAAGTTATGTATGAGAGCTTA
97980025 TTTAGTGCATTCTAATCTGTTCATAAAAGAAACGACTGTGTA
131 TTTAGTGCATTCTAATCTGTTCATAAAAGAAACGACTGTGTA
97980067 ATTGTACATTGATTATTTTGATTGTATTAGCTATTTTCAAGGAATTACTTTATATTGACTTAAAT
1 ATTGTACATTGATTATTTTGATTGTATTAGCTATTTTCAAGGAATTACTTTATATTGACTTAAAT
*
97980132 GCTATGTTAGTAAGCCGAGATTGATATATGATTTGAGGCTTGTATAAGTTATGTATGAGAGCTTA
66 GCTATGTTAGTAAGCCGAAATTGATATATGATTTGAGGCTTGTATAAGTTATGTATGAGAGCTTA
*
97980197 TTTAGTGCATTCTAATCTGTTCATAAAAGGAACGACTGTGTA
131 TTTAGTGCATTCTAATCTGTTCATAAAAGAAACGACTGTGTA
97980239 A
1 A
97980240 GAGAGTGCAA
Statistics
Matches: 170, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
172 170 1.00
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.41
Consensus pattern (172 bp):
ATTGTACATTGATTATTTTGATTGTATTAGCTATTTTCAAGGAATTACTTTATATTGACTTAAAT
GCTATGTTAGTAAGCCGAAATTGATATATGATTTGAGGCTTGTATAAGTTATGTATGAGAGCTTA
TTTAGTGCATTCTAATCTGTTCATAAAAGAAACGACTGTGTA
Found at i:97993310 original size:10 final size:10
Alignment explanation
Indices: 97993295--97993362 Score: 72
Period size: 10 Copynumber: 7.0 Consensus size: 10
97993285 AATTTCAAAG
97993295 AAATATATAA
1 AAATATATAA
97993305 AAATATAT-A
1 AAATATATAA
* *
97993314 AAATTTTTAA
1 AAATATATAA
97993324 ATAATATATAA
1 A-AATATATAA
97993335 TAAAT-T-TAA
1 -AAATATATAA
97993344 AAATATATAA
1 AAATATATAA
97993354 AAATA-ATAA
1 AAATATATAA
97993363 TTTTATTAAT
Statistics
Matches: 49, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
8 4 0.08
9 15 0.31
10 19 0.39
11 10 0.20
12 1 0.02
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (10 bp):
AAATATATAA
Found at i:97994280 original size:104 final size:105
Alignment explanation
Indices: 97994174--97994361 Score: 294
Period size: 103 Copynumber: 1.8 Consensus size: 105
97994164 AAATCAGAAA
*
97994174 AAAAATTA-TAAAAATATT-AAATATTAAAATCATTAAAATTTATATAAACTTAT-TAAAATTAT
1 AAAAATTATTAAAAATATTAAAATATTAAAAT-ATTAAAATTTATATAAACTTATAAAAAATTAT
97994236 AAAAAAAAAT-ATAAAAACTTATTTAAAATATTTAATATTT
65 AAAAAAAAATCATAAAAACTTATTTAAAATATTTAATATTT
* * *
97994276 AAAAATTATTAGAATTATTAAAATATTAAAATATTAAAATTTATATAGACTTATAAAAAATTATA
1 AAAAATTATTAAAAATATTAAAATATTAAAATATTAAAATTTATATAAACTTATAAAAAATTATA
*
97994341 AAAAAAATTCATAAAAACTTA
66 AAAAAAAATCATAAAAACTTA
97994362 AACTAGACCG
Statistics
Matches: 77, Mismatches: 5, Indels: 5
0.89 0.06 0.06
Matches are distributed among these distances:
102 8 0.10
103 29 0.38
104 29 0.38
105 11 0.14
ACGTcount: A:0.59, C:0.03, G:0.01, T:0.37
Consensus pattern (105 bp):
AAAAATTATTAAAAATATTAAAATATTAAAATATTAAAATTTATATAAACTTATAAAAAATTATA
AAAAAAAATCATAAAAACTTATTTAAAATATTTAATATTT
Found at i:97994303 original size:20 final size:20
Alignment explanation
Indices: 97994274--97994339 Score: 56
Period size: 19 Copynumber: 3.6 Consensus size: 20
97994264 TATTTAATAT
97994274 TTAAAA-ATTATTAGAATTA
1 TTAAAATATTATTAGAATTA
97994293 TTAAAATATTA--A-AA-TA
1 TTAAAATATTATTAGAATTA
*
97994309 TTAAAAT-TTATATAGACTTA
1 TTAAAATATTAT-TAGAATTA
*
97994329 -TAAAAAATTAT
1 TTAAAATATTAT
97994340 AAAAAAAATT
Statistics
Matches: 38, Mismatches: 2, Indels: 13
0.72 0.04 0.25
Matches are distributed among these distances:
15 3 0.08
16 9 0.24
17 2 0.05
18 2 0.05
19 12 0.32
20 10 0.26
ACGTcount: A:0.55, C:0.02, G:0.03, T:0.41
Consensus pattern (20 bp):
TTAAAATATTATTAGAATTA
Found at i:97994304 original size:8 final size:8
Alignment explanation
Indices: 97994184--97994315 Score: 69
Period size: 8 Copynumber: 15.6 Consensus size: 8
97994174 AAAAATTATA
97994184 AAAATATT
1 AAAATATT
97994192 -AAATATT
1 AAAATATT
97994199 AAAATCATT
1 AAAAT-ATT
97994208 AAAATTTATAT
1 AAAA--TAT-T
*
97994219 AAACTTATT
1 AAA-ATATT
97994228 AAAAT-TAT
1 AAAATAT-T
97994236 AAAA-A--
1 AAAATATT
*
97994241 AAAATATA
1 AAAATATT
97994249 AAAACTTATTT
1 AAAA--TA-TT
97994260 AAAATATT
1 AAAATATT
*
97994268 -TAATATTT
1 AAAATA-TT
97994276 AAAAATTATT
1 -AAAA-TATT
*
97994286 AGAATTATT
1 A-AAATATT
97994295 AAAATATT
1 AAAATATT
97994303 AAAATATT
1 AAAATATT
97994311 AAAAT
1 AAAAT
97994316 TTATATAGAC
Statistics
Matches: 98, Mismatches: 7, Indels: 38
0.69 0.05 0.27
Matches are distributed among these distances:
5 4 0.04
6 1 0.01
7 12 0.12
8 37 0.38
9 19 0.19
10 13 0.13
11 12 0.12
ACGTcount: A:0.58, C:0.02, G:0.01, T:0.39
Consensus pattern (8 bp):
AAAATATT
Found at i:97994632 original size:6 final size:7
Alignment explanation
Indices: 97994611--97994637 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
97994601 CAGTTCAATT
97994611 AAATAAA
1 AAATAAA
97994618 AAATAAA
1 AAATAAA
97994625 AAATAAA
1 AAATAAA
97994632 AAATAA
1 AAATAA
97994638 TTAAAAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (7 bp):
AAATAAA
Found at i:97994776 original size:19 final size:19
Alignment explanation
Indices: 97994765--97994828 Score: 60
Period size: 19 Copynumber: 3.3 Consensus size: 19
97994755 TTTTATATCA
97994765 ATTTTAATATTTTTATAAT
1 ATTTTAATATTTTTATAAT
97994784 ATTTTAAATATGTTTTATTAAT
1 ATTTT-AATAT-TTTTA-TAAT
* *
97994806 GTTATAAT-TTTTT-TAAT
1 ATTTTAATATTTTTATAAT
*
97994823 AATTTA
1 ATTTTA
97994829 TTAGAATTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 8
0.74 0.10 0.16
Matches are distributed among these distances:
17 7 0.19
19 9 0.24
20 6 0.16
21 8 0.22
22 7 0.19
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (19 bp):
ATTTTAATATTTTTATAAT
Found at i:97994800 original size:30 final size:30
Alignment explanation
Indices: 97994766--97994823 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
97994756 TTTATATCAA
* *
97994766 TTTTAATATTTTTATAATATTTTAAATATG
1 TTTTAATAATGTTATAATATTTTAAATATG
* * *
97994796 TTTTATTAATGTTATAATTTTTTTAATA
1 TTTTAATAATGTTATAATATTTTAAATA
97994824 ATTTATTAGA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.62
Consensus pattern (30 bp):
TTTTAATAATGTTATAATATTTTAAATATG
Found at i:97994932 original size:18 final size:18
Alignment explanation
Indices: 97994910--97994951 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
97994900 TATTAAATAT
*
97994910 TTTTTTATATTTTTTGAT-A
1 TTTTTTA-A-TTTTTAATCA
97994929 TTTTTTAATTTTTAATCA
1 TTTTTTAATTTTTAATCA
97994947 TTTTT
1 TTTTT
97994952 GAGAAAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 7 0.33
18 7 0.33
19 7 0.33
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.74
Consensus pattern (18 bp):
TTTTTTAATTTTTAATCA
Found at i:97994939 original size:8 final size:9
Alignment explanation
Indices: 97994910--97994951 Score: 50
Period size: 10 Copynumber: 4.6 Consensus size: 9
97994900 TATTAAATAT
97994910 TTTTTTATA
1 TTTTTTATA
97994919 TTTTTTGATA
1 TTTTTT-ATA
97994929 TTTTTTA-A
1 TTTTTTATA
*
97994937 TTTTTAATCA
1 TTTTTTAT-A
97994947 TTTTT
1 TTTTT
97994952 GAGAAAAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
8 7 0.24
9 7 0.24
10 15 0.52
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.74
Consensus pattern (9 bp):
TTTTTTATA
Found at i:97995390 original size:19 final size:20
Alignment explanation
Indices: 97995368--97995413 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
97995358 TATTATAATC
*
97995368 TATATTATAATAATA-GTTA
1 TATATTATAATAATACATTA
* *
97995387 TATATAATAATACTACATTA
1 TATATTATAATAATACATTA
97995407 TATATTA
1 TATATTA
97995414 CTTATTATAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 13 0.59
20 9 0.41
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (20 bp):
TATATTATAATAATACATTA
Found at i:97995408 original size:16 final size:16
Alignment explanation
Indices: 97995355--97995422 Score: 63
Period size: 15 Copynumber: 4.4 Consensus size: 16
97995345 TTACTATAAC
*
97995355 TATTATTATAAT-CTA
1 TATTATAATAATACTA
*
97995370 TATTATAATAATAGT-
1 TATTATAATAATACTA
97995385 TATATATAATAATACTA
1 TAT-TATAATAATACTA
* *
97995402 CATTAT-ATATTACT-
1 TATTATAATAATACTA
97995416 TATTATA
1 TATTATA
97995423 TATTATTATT
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
14 5 0.12
15 21 0.49
16 15 0.35
17 2 0.05
ACGTcount: A:0.44, C:0.06, G:0.01, T:0.49
Consensus pattern (16 bp):
TATTATAATAATACTA
Found at i:97995422 original size:14 final size:13
Alignment explanation
Indices: 97995403--97995441 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 13
97995393 ATAATACTAC
97995403 ATTATATATTACTT
1 ATTATATATTA-TT
97995417 ATTATATATTATT
1 ATTATATATTATT
97995430 ATT-TATTATTAT
1 ATTATA-TATTAT
97995442 ACTAGTTGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 2 0.08
13 11 0.46
14 11 0.46
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (13 bp):
ATTATATATTATT
Found at i:97996939 original size:105 final size:100
Alignment explanation
Indices: 97996822--97997014 Score: 244
Period size: 105 Copynumber: 1.9 Consensus size: 100
97996812 CTCGTAATGC
* *
97996822 CATAACCTAGTTATGGTCTTATCA-TCAAGATACCATAGCCCAACTATGGTTTTACACTTATACA
1 CATAACCCAGTTATGGTCTTATCACTCAA-ATACCATAG-CCAACTATGGTCTTACA-TT-TA-A
97996886 CACACTGCCATGGTCCAACCATGGTCTTACGTTCACGGTGT
61 -ACACTGCCATGGTCCAACCATGGTCTTACGTTCACGGTGT
* * * * * *
97996927 CATAACCCAGTTATGGTCTTTTCACTGAAATGCCATAGCCAGCTATGGTCTTGCATTTAAACATT
1 CATAACCCAGTTATGGTCTTATCACTCAAATACCATAGCCAACTATGGTCTTACATTTAAACACT
*
97996992 TCCATGGTCCAACCATGGTCTTA
66 GCCATGGTCCAACCATGGTCTTA
97997015 TCCGTCAATT
Statistics
Matches: 78, Mismatches: 9, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
100 26 0.33
101 1 0.01
102 2 0.03
103 2 0.03
104 14 0.18
105 30 0.38
106 3 0.04
ACGTcount: A:0.27, C:0.26, G:0.16, T:0.32
Consensus pattern (100 bp):
CATAACCCAGTTATGGTCTTATCACTCAAATACCATAGCCAACTATGGTCTTACATTTAAACACT
GCCATGGTCCAACCATGGTCTTACGTTCACGGTGT
Found at i:97997178 original size:22 final size:24
Alignment explanation
Indices: 97997137--97997180 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
97997127 AACAAAGATA
97997137 TAAATTAAAACATTATATCATTCC
1 TAAATTAAAACATTATATCATTCC
*
97997161 TAAATTAACA-ATTA-ATCATT
1 TAAATTAAAACATTATATCATT
97997181 AAAGTTCAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 6 0.32
23 4 0.21
24 9 0.47
ACGTcount: A:0.48, C:0.14, G:0.00, T:0.39
Consensus pattern (24 bp):
TAAATTAAAACATTATATCATTCC
Found at i:97998461 original size:16 final size:17
Alignment explanation
Indices: 97998442--97998474 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
97998432 AATTTTATAG
97998442 ATTTTA-ATAATTATTA
1 ATTTTATATAATTATTA
*
97998458 ATTTTATATATTTATTA
1 ATTTTATATAATTATTA
97998475 TACATGTATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
ATTTTATATAATTATTA
Found at i:98008281 original size:5 final size:5
Alignment explanation
Indices: 98008271--98008302 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
98008261 GAGGCTGTGA
98008271 AAAAT AAAAT AAAAT AAAAT -AAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
98008303 GAACACATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:98008296 original size:9 final size:9
Alignment explanation
Indices: 98008272--98008302 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
98008262 AGGCTGTGAA
98008272 AAATAAAAT
1 AAATAAAAT
98008281 AAAATAAAAT
1 -AAATAAAAT
98008291 AAATAAAAT
1 AAATAAAAT
98008300 AAA
1 AAA
98008303 GAACACATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (9 bp):
AAATAAAAT
Found at i:98012497 original size:44 final size:44
Alignment explanation
Indices: 98012434--98012521 Score: 167
Period size: 44 Copynumber: 2.0 Consensus size: 44
98012424 GGTGGAGGGA
98012434 TGTATTGTTATACAATTATACATATGATTGCCTATGAGATTTAC
1 TGTATTGTTATACAATTATACATATGATTGCCTATGAGATTTAC
*
98012478 TGTATTGTTATACAATTATACATATGATTGCCTATGAGCTTTAC
1 TGTATTGTTATACAATTATACATATGATTGCCTATGAGATTTAC
98012522 ATGTTAGTGC
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.31, C:0.12, G:0.14, T:0.43
Consensus pattern (44 bp):
TGTATTGTTATACAATTATACATATGATTGCCTATGAGATTTAC
Found at i:98025695 original size:21 final size:21
Alignment explanation
Indices: 98025669--98025720 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 21
98025659 AATGAATAAG
98025669 AATAATAAAATTAATAAGAAT
1 AATAATAAAATTAATAAGAAT
*** * *
98025690 AATAATGGTATTAGTAATAAT
1 AATAATAAAATTAATAAGAAT
98025711 AATAATAAAA
1 AATAATAAAA
98025721 AGAGAGAGGC
Statistics
Matches: 23, Mismatches: 8, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.31
Consensus pattern (21 bp):
AATAATAAAATTAATAAGAAT
Found at i:98032303 original size:15 final size:15
Alignment explanation
Indices: 98032261--98032304 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
98032251 AATTTGGGAG
98032261 AGTTTGGGCAAAAAT
1 AGTTTGGGCAAAAAT
*
98032276 A-TTTGGCCCAAAAAT
1 AGTTTGG-GCAAAAAT
*
98032291 AGTTTGGGTAAAAA
1 AGTTTGGGCAAAAA
98032305 AATTAAGCTC
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
14 5 0.21
15 14 0.58
16 5 0.21
ACGTcount: A:0.41, C:0.09, G:0.23, T:0.27
Consensus pattern (15 bp):
AGTTTGGGCAAAAAT
Found at i:98032794 original size:26 final size:30
Alignment explanation
Indices: 98032756--98032818 Score: 89
Period size: 26 Copynumber: 2.2 Consensus size: 30
98032746 CCCCTGAGGC
98032756 TATATATAAAATT-TT-AATA-AATAAAAA
1 TATATATAAAATTATTAAATATAATAAAAA
*
98032783 T-TATATAAAATTATTAAATATAATATAAA
1 TATATATAAAATTATTAAATATAATAAAAA
98032812 TATATAT
1 TATATAT
98032819 TTTTAAAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
26 11 0.35
27 3 0.10
28 4 0.13
29 8 0.26
30 5 0.16
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (30 bp):
TATATATAAAATTATTAAATATAATAAAAA
Found at i:98033553 original size:29 final size:29
Alignment explanation
Indices: 98033491--98033564 Score: 71
Period size: 29 Copynumber: 2.6 Consensus size: 29
98033481 CTAAATTATA
**
98033491 TTTTTTATAATTTTT-ATAAATTTATATG
1 TTTTTTATTTTTTTTAATAAATTTATATG
**
98033519 AATTTTATTTTTTTTAATAAATTTAATAT-
1 TTTTTTATTTTTTTTAATAAATTT-ATATG
*
98033548 TTTTTTCTTATTTTTTA
1 TTTTTTATT-TTTTTTA
98033565 TTTTTAAATA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
28 11 0.31
29 14 0.39
30 11 0.31
ACGTcount: A:0.30, C:0.01, G:0.01, T:0.68
Consensus pattern (29 bp):
TTTTTTATTTTTTTTAATAAATTTATATG
Found at i:98034373 original size:21 final size:20
Alignment explanation
Indices: 98034349--98034388 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
98034339 ATATTTTCAT
*
98034349 TATTTCATAACATATTAATAA
1 TATTTCATAAAAT-TTAATAA
*
98034370 TATTTTATAAAATTTAATA
1 TATTTCATAAAATTTAATA
98034389 GTATCATTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (20 bp):
TATTTCATAAAATTTAATAA
Found at i:98034539 original size:20 final size:20
Alignment explanation
Indices: 98034516--98034588 Score: 51
Period size: 20 Copynumber: 3.6 Consensus size: 20
98034506 CATTTTAGTC
*
98034516 ATTTTATATAATTTTTTATA
1 ATTTTATATAATTTTTTAAA
* *
98034536 A-TTTCTACAATATTTTTAAA
1 ATTTTATATAAT-TTTTTAAA
* *
98034556 AATTT-TATAATTTCTTGAGAA
1 ATTTTATATAATTT-TTTA-AA
*
98034577 TTTTTATATAAT
1 ATTTTATATAAT
98034589 CCCTAAAAAT
Statistics
Matches: 41, Mismatches: 7, Indels: 8
0.73 0.12 0.14
Matches are distributed among these distances:
19 10 0.24
20 17 0.41
21 8 0.20
22 6 0.15
ACGTcount: A:0.37, C:0.04, G:0.03, T:0.56
Consensus pattern (20 bp):
ATTTTATATAATTTTTTAAA
Found at i:98041880 original size:38 final size:38
Alignment explanation
Indices: 98041786--98041883 Score: 119
Period size: 38 Copynumber: 2.6 Consensus size: 38
98041776 ATAATACAAA
* *
98041786 AACAATAGACGTGCTTAACATGTATTCAGTTCAACTAT
1 AACAATAGACATGCTTAACATGTATTCAATTCAACTAT
* *
98041824 AGA-AGTAGGCATGCTTAACATGTATTCAATTCAAC-AGT
1 A-ACAATAGACATGCTTAACATGTATTCAATTCAACTA-T
*
98041862 AACAATAGACATGTTTAACATG
1 AACAATAGACATGCTTAACATG
98041884 CATCTGGTTT
Statistics
Matches: 50, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
37 2 0.04
38 47 0.94
39 1 0.02
ACGTcount: A:0.39, C:0.16, G:0.15, T:0.30
Consensus pattern (38 bp):
AACAATAGACATGCTTAACATGTATTCAATTCAACTAT
Found at i:98041929 original size:16 final size:16
Alignment explanation
Indices: 98041874--98041920 Score: 94
Period size: 16 Copynumber: 2.9 Consensus size: 16
98041864 CAATAGACAT
98041874 GTTTAACATGCATCTG
1 GTTTAACATGCATCTG
98041890 GTTTAACATGCATCTG
1 GTTTAACATGCATCTG
98041906 GTTTAACATGCATCT
1 GTTTAACATGCATCT
98041921 AATTCAACAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.26, C:0.19, G:0.17, T:0.38
Consensus pattern (16 bp):
GTTTAACATGCATCTG
Found at i:98043735 original size:13 final size:14
Alignment explanation
Indices: 98043719--98043753 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
98043709 ATATCAAAAA
98043719 ATTTTAAATAT-AT
1 ATTTTAAATATCAT
*
98043732 ATTTTAAATTTCAT
1 ATTTTAAATATCAT
98043746 ATTTTAAA
1 ATTTTAAA
98043754 AGGTTATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 10 0.50
14 10 0.50
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (14 bp):
ATTTTAAATATCAT
Found at i:98059872 original size:6 final size:6
Alignment explanation
Indices: 98059861--98059902 Score: 50
Period size: 6 Copynumber: 7.0 Consensus size: 6
98059851 GTCAAACACC
* *
98059861 GAAGAT GAAGAT GAAGAT -AACAT TAGAGAT GAAGAT GAAGAT
1 GAAGAT GAAGAT GAAGAT GAAGAT GA-AGAT GAAGAT GAAGAT
98059903 TGTAACGACT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
5 4 0.13
6 23 0.74
7 4 0.13
ACGTcount: A:0.50, C:0.02, G:0.29, T:0.19
Consensus pattern (6 bp):
GAAGAT
Done.