Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr6
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: 47432654
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2298022 characters in sequence are not A, C, G, or T
File 98 of 136
Found at i:32820259 original size:88 final size:88
Alignment explanation
Indices: 32820095--32820260 Score: 203
Period size: 88 Copynumber: 1.9 Consensus size: 88
32820085 CACTACTGCT
* * * *
32820095 TAGGGAGACAGGATCTGCAATTTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGCTGGTGCT
1 TAGGAAGACAAGATCTACAATTTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGCTGATGCT
**
32820160 TTCGATCTGCTTCACTGCCAGTA
66 TTAAATCTGCTTCACTGCCAGTA
* *
32820183 TAGGAAGACAAGATCTACAATCTTT-GACCTACTCCGCTGCTGCTCAGGGAGAT-AGGACTGATG
1 TAGGAAGACAAGATCTACAAT-TTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGG-CTGAT-
*
32820246 GC-TTAAATTTGCTTC
63 GCTTTAAATCTGCTTC
32820261 CCTACTACCT
Statistics
Matches: 66, Mismatches: 9, Indels: 6
0.81 0.11 0.07
Matches are distributed among these distances:
87 3 0.05
88 58 0.88
89 5 0.08
ACGTcount: A:0.25, C:0.23, G:0.24, T:0.28
Consensus pattern (88 bp):
TAGGAAGACAAGATCTACAATTTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGCTGATGCT
TTAAATCTGCTTCACTGCCAGTA
Found at i:32820392 original size:220 final size:219
Alignment explanation
Indices: 32819838--32820377 Score: 893
Period size: 220 Copynumber: 2.5 Consensus size: 219
32819828 CGTCAGGGAA
*
32819838 ATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTACAATTTTCAAC
1 ATAAGATTCG-CGTCTTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGCAATTTTCAAC
* * * *
32819903 CTACTCCATTGCTACTCAGAGAGATAAGGCTGGTGCTTTCGATCTACTTCACTGCCAGTACAAGA
65 CTACTCCACTGCTGCTCAGGGAGATAAGGCTGGTGCTTTCGATCTGCTTCACTGCCAGTACAAGA
* *
32819968 AGACAAGATCTACAATCTTCGACCTACTCCGCTGCTGCTTAGGAAGATATGGCTGGTGGCTTAAA
130 AGACAAGATCTACAATCTTCGACCTACTCCGCTGCTGCTCAGGAAGATATGGCTGATGGCTTAAA
32820033 TATGCTTCCCTACTACCTTGAGAAG
195 TATGCTTCCCTACTACCTTGAGAAG
* * *
32820058 ATAAGATTCGACATCTTCAATCTGCTCCACTACTGCTTAGGGAGACAGGATCTGCAATTTTCAAC
1 ATAAGATTCG-CGTCTTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGCAATTTTCAAC
* *
32820123 CTACTCCACTGCTGCTCAGGGAGATAAGGCTGGTGCTTTCGATCTGCTTCACTGCCAGTATAGGA
65 CTACTCCACTGCTGCTCAGGGAGATAAGGCTGGTGCTTTCGATCTGCTTCACTGCCAGTACAAGA
* *
32820188 AGACAAGATCTACAATCTTTGACCTACTCCGCTGCTGCTCAGGGAGATA-GGACTGATGGCTTAA
130 AGACAAGATCTACAATCTTCGACCTACTCCGCTGCTGCTCAGGAAGATATGG-CTGATGGCTTAA
*
32820252 ATTTGCTTCCCTACTACCTTGAGAAG
194 ATATGCTTCCCTACTACCTTGAGAAG
*
32820278 ATAAGATTCGCTGTCTTCGATCTACTCCACTACTGCTTAGGGAGACAAGATCTGCAATTTTCAAC
1 ATAAGATTCGC-GTCTTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGCAATTTTCAAC
32820343 CTACTCCACTGCTGCTCAGGGAGATAAGGCTGGTG
65 CTACTCCACTGCTGCTCAGGGAGATAAGGCTGGTG
32820378 GCTTAAATCT
Statistics
Matches: 298, Mismatches: 20, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
219 3 0.01
220 295 0.99
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (219 bp):
ATAAGATTCGCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGCAATTTTCAACC
TACTCCACTGCTGCTCAGGGAGATAAGGCTGGTGCTTTCGATCTGCTTCACTGCCAGTACAAGAA
GACAAGATCTACAATCTTCGACCTACTCCGCTGCTGCTCAGGAAGATATGGCTGATGGCTTAAAT
ATGCTTCCCTACTACCTTGAGAAG
Found at i:32821349 original size:8 final size:7
Alignment explanation
Indices: 32821330--32821366 Score: 51
Period size: 7 Copynumber: 5.4 Consensus size: 7
32821320 TGGCATCTCC
32821330 TTTTTCT
1 TTTTTCT
32821337 TTTTTCT
1 TTTTTCT
32821344 TCTTTTC-
1 T-TTTTCT
32821351 TTTTTCT
1 TTTTTCT
32821358 TTTTT-T
1 TTTTTCT
32821364 TTT
1 TTT
32821367 CCTTTTTTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
6 9 0.32
7 14 0.50
8 5 0.18
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (7 bp):
TTTTTCT
Found at i:32821374 original size:11 final size:10
Alignment explanation
Indices: 32821330--32821365 Score: 54
Period size: 10 Copynumber: 3.5 Consensus size: 10
32821320 TGGCATCTCC
32821330 TTTTTCTTTT
1 TTTTTCTTTT
*
32821340 TTCTTCTTTT
1 TTTTTCTTTT
32821350 CTTTTTCTTTT
1 -TTTTTCTTTT
32821361 TTTTT
1 TTTTT
32821366 TCCTTTTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
10 14 0.61
11 9 0.39
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (10 bp):
TTTTTCTTTT
Found at i:32826780 original size:20 final size:21
Alignment explanation
Indices: 32826737--32826785 Score: 57
Period size: 20 Copynumber: 2.3 Consensus size: 21
32826727 ATAGATATAT
*
32826737 ATATATATAGATATGTAAACAA
1 ATATATA-AAATATGTAAACAA
32826759 AT-TATAAAATATGTATAA-AA
1 ATATATAAAATATGTA-AACAA
32826779 ATATATA
1 ATATATA
32826786 TGAGTACATA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
20 12 0.50
21 10 0.42
22 2 0.08
ACGTcount: A:0.57, C:0.02, G:0.06, T:0.35
Consensus pattern (21 bp):
ATATATAAAATATGTAAACAA
Found at i:32826850 original size:161 final size:161
Alignment explanation
Indices: 32826677--32827006 Score: 653
Period size: 161 Copynumber: 2.1 Consensus size: 161
32826667 AGTATAAAAA
32826677 TTATATATATGAGTATGTATTAATGTGTTTATGAATATGAAAATACGTATATAGATATATATATA
1 TTATATATATGAGTATGTATTAATGTGTTTATGAATATGAAAATACGTATATAGATATATATATA
32826742 TATAGATATGTAAACAAATTATAAAATATGTATAAAAATATATATGAGTACATATATGTACATAT
66 TATAGATATGTAAACAAATTATAAAATATGTATAAAAATATATATGAGTACATATATGTACATAT
32826807 ATAAGTTATAAAAAATATGTACGTATCTATG
131 ATAAGTTATAAAAAATATGTACGTATCTATG
32826838 TTATATATATGAGTATGTATTAATGTGTTTATGAATATGAAAATACGTATATAGATATATATATA
1 TTATATATATGAGTATGTATTAATGTGTTTATGAATATGAAAATACGTATATAGATATATATATA
32826903 TATAGATATGTAAACAAATTATAAAATATGTATAAAAATATATATGAGTACATATATGTACATAT
66 TATAGATATGTAAACAAATTATAAAATATGTATAAAAATATATATGAGTACATATATGTACATAT
32826968 ATAAGTTATAAAAAATATGTACGTATCTATG
131 ATAAGTTATAAAAAATATGTACGTATCTATG
32826999 -TATATATA
1 TTATATATA
32827007 GATTATAAAA
Statistics
Matches: 169, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
160 8 0.05
161 161 0.95
ACGTcount: A:0.46, C:0.04, G:0.12, T:0.39
Consensus pattern (161 bp):
TTATATATATGAGTATGTATTAATGTGTTTATGAATATGAAAATACGTATATAGATATATATATA
TATAGATATGTAAACAAATTATAAAATATGTATAAAAATATATATGAGTACATATATGTACATAT
ATAAGTTATAAAAAATATGTACGTATCTATG
Found at i:32826941 original size:20 final size:21
Alignment explanation
Indices: 32826898--32826946 Score: 57
Period size: 20 Copynumber: 2.3 Consensus size: 21
32826888 ATAGATATAT
*
32826898 ATATATATAGATATGTAAACAA
1 ATATATA-AAATATGTAAACAA
32826920 AT-TATAAAATATGTATAA-AA
1 ATATATAAAATATGTA-AACAA
32826940 ATATATA
1 ATATATA
32826947 TGAGTACATA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
20 12 0.50
21 10 0.42
22 2 0.08
ACGTcount: A:0.57, C:0.02, G:0.06, T:0.35
Consensus pattern (21 bp):
ATATATAAAATATGTAAACAA
Found at i:32827050 original size:33 final size:33
Alignment explanation
Indices: 32826974--32827051 Score: 93
Period size: 33 Copynumber: 2.4 Consensus size: 33
32826964 ATATATAAGT
* *
32826974 TATAAAAAATATGTACGTATCTATGTATATATA
1 TATAAAAAAAATGTACGTATCTATATATATATA
* * * * *
32827007 GATTATAAAAATGTACGTATGTATATATGTATA
1 TATAAAAAAAATGTACGTATCTATATATATATA
32827040 TATAAAAAAAAT
1 TATAAAAAAAAT
32827052 AAAAGAGGGG
Statistics
Matches: 35, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.49, C:0.04, G:0.10, T:0.37
Consensus pattern (33 bp):
TATAAAAAAAATGTACGTATCTATATATATATA
Found at i:32833087 original size:36 final size:37
Alignment explanation
Indices: 32833040--32833131 Score: 116
Period size: 37 Copynumber: 2.5 Consensus size: 37
32833030 GTCTCCAAAT
*
32833040 TCACAATTCAATTCAATTTCACTTTTTCACTTTCAA-
1 TCACAATTCAATTCAATTTCACTTTTCCACTTTCAAG
* *
32833076 TCACAATTCAATTCAAAATTCACTTTTCCATTTTCAAG
1 TCACAATTCAATTC-AATTTCACTTTTCCACTTTCAAG
*
32833114 TCA-ATATTCATTTCAATT
1 TCACA-ATTCAATTCAATT
32833132 CCTCACATAT
Statistics
Matches: 48, Mismatches: 5, Indels: 5
0.83 0.09 0.09
Matches are distributed among these distances:
36 14 0.29
37 23 0.48
38 11 0.23
ACGTcount: A:0.33, C:0.23, G:0.01, T:0.43
Consensus pattern (37 bp):
TCACAATTCAATTCAATTTCACTTTTCCACTTTCAAG
Found at i:32833132 original size:36 final size:35
Alignment explanation
Indices: 32833040--32833132 Score: 107
Period size: 36 Copynumber: 2.5 Consensus size: 35
32833030 GTCTCCAAAT
*
32833040 TCACAATTCAATTCAATTTCACTTTTTCACTTTCAA
1 TCACAATTCAATTCAA-TTCACTTTTCCACTTTCAA
*
32833076 TCACAATTCAATTCAAAATTCACTTTTCCATTTTCAA
1 TCACAATTCAATTC--AATTCACTTTTCCACTTTCAA
*
32833113 GTCA-ATATTCATTTCAATTC
1 -TCACA-ATTCAATTCAATTC
32833133 CTCACATATA
Statistics
Matches: 50, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
36 19 0.38
37 18 0.36
38 13 0.26
ACGTcount: A:0.32, C:0.24, G:0.01, T:0.43
Consensus pattern (35 bp):
TCACAATTCAATTCAATTCACTTTTCCACTTTCAA
Found at i:32833440 original size:17 final size:18
Alignment explanation
Indices: 32833406--32833441 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
32833396 GAATTTTTTA
32833406 TCCAATTTATACCCTAAT
1 TCCAATTTATACCCTAAT
*
32833424 TCCAATTTA-ATCCTAAT
1 TCCAATTTATACCCTAAT
32833441 T
1 T
32833442 AACTCATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.33, C:0.25, G:0.00, T:0.42
Consensus pattern (18 bp):
TCCAATTTATACCCTAAT
Found at i:32842981 original size:25 final size:25
Alignment explanation
Indices: 32842946--32842995 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
32842936 CTTATATATA
32842946 TTGATACCTATGGATAAAATAAATT
1 TTGATACCTATGGATAAAATAAATT
* ** *
32842971 TTGATATCTATTTATTAAATAAATT
1 TTGATACCTATGGATAAAATAAATT
32842996 CCAAGTATTG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.42, C:0.06, G:0.08, T:0.44
Consensus pattern (25 bp):
TTGATACCTATGGATAAAATAAATT
Found at i:32851324 original size:25 final size:25
Alignment explanation
Indices: 32851282--32851390 Score: 98
Period size: 24 Copynumber: 4.4 Consensus size: 25
32851272 AATTCATATT
32851282 CGGGAACGCTCATGTGAG-CATATAAA
1 CGGGAA-GCTCATGTGAGCCATAT-AA
* *
32851308 CGGGAAGCTCTTTTGAGCCATATAA
1 CGGGAAGCTCATGTGAGCCATATAA
** *
32851333 CGGGAAGCTCATAAGAGCCATA-AT
1 CGGGAAGCTCATGTGAGCCATATAA
** *
32851357 CGGGAAGCTCATACGAGCCA-ATAT
1 CGGGAAGCTCATGTGAGCCATATAA
*
32851381 CGGGTAGCTC
1 CGGGAAGCTC
32851391 CGGAGAGCCA
Statistics
Matches: 73, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
23 1 0.01
24 31 0.42
25 30 0.41
26 11 0.15
ACGTcount: A:0.31, C:0.22, G:0.27, T:0.20
Consensus pattern (25 bp):
CGGGAAGCTCATGTGAGCCATATAA
Found at i:32851375 original size:49 final size:49
Alignment explanation
Indices: 32851303--32851474 Score: 143
Period size: 49 Copynumber: 3.4 Consensus size: 49
32851293 ATGTGAGCAT
* * ** **
32851303 ATAAACGGGAAGCTCTTTTGAGCCATATAACGGGAAGCTCATAAGAGCC
1 ATAATCGGGAAGCTCATAAGAGCCATATAACGGGAAGCTCCGAAGAGCC
* * * *
32851352 ATAATCGGGAAGCTCATACGAGCCA-ATATCGGGTAGCTCCGGAGAGCC
1 ATAATCGGGAAGCTCATAAGAGCCATATAACGGGAAGCTCCGAAGAGCC
** * *
32851400 ATTAATCAAGAAGCTCATGAAAGAGCC-TTTAATCAGGAAGCTCCGAAGAGCC
1 A-TAATCGGGAAGCTCAT--AAGAGCCATATAA-CGGGAAGCTCCGAAGAGCC
32851452 ATATATC-GGAACGCTCATAAGAG
1 ATA-ATCGGGAA-GCTCATAAGAG
32851475 TTGCGGTGTG
Statistics
Matches: 98, Mismatches: 18, Indels: 13
0.76 0.14 0.10
Matches are distributed among these distances:
48 19 0.19
49 35 0.36
50 5 0.05
51 13 0.13
52 26 0.27
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (49 bp):
ATAATCGGGAAGCTCATAAGAGCCATATAACGGGAAGCTCCGAAGAGCC
Found at i:32851473 original size:25 final size:25
Alignment explanation
Indices: 32851276--32851474 Score: 124
Period size: 25 Copynumber: 8.0 Consensus size: 25
32851266 TCCGTCAATT
**
32851276 CATAT-TCGGGAACGCTCATGTGAG-
1 CATATATCGGGAA-GCTCATAAGAGC
* * **
32851300 CATATAAACGGGAAGCTCTTTTGAGC
1 CATAT-ATCGGGAAGCTCATAAGAGC
*
32851326 CATATAACGGGAAGCTCATAAGAGC
1 CATATATCGGGAAGCTCATAAGAGC
*
32851351 CATA-ATCGGGAAGCTCATACGAGC
1 CATATATCGGGAAGCTCATAAGAGC
* ***
32851375 CA-ATATCGGGTAGCTCCGGAGAGC
1 CATATATCGGGAAGCTCATAAGAGC
**
32851399 CAT-TAATCAAGAAGCTCATGAAAGAGC
1 CATAT-ATCGGGAAGCTCAT--AAGAGC
* * **
32851426 C-TTTAATCAGGAAGCTCCGAAGAGC
1 CATAT-ATCGGGAAGCTCATAAGAGC
32851451 CATATATC-GGAACGCTCATAAGAG
1 CATATATCGGGAA-GCTCATAAGAG
32851475 TTGCGGTGTG
Statistics
Matches: 139, Mismatches: 25, Indels: 21
0.75 0.14 0.11
Matches are distributed among these distances:
23 1 0.01
24 47 0.34
25 58 0.42
26 14 0.10
27 19 0.14
ACGTcount: A:0.34, C:0.22, G:0.25, T:0.20
Consensus pattern (25 bp):
CATATATCGGGAAGCTCATAAGAGC
Found at i:32851596 original size:24 final size:24
Alignment explanation
Indices: 32851538--32851620 Score: 76
Period size: 24 Copynumber: 3.4 Consensus size: 24
32851528 GAGCTATTAA
* *
32851538 CGGGAAGTTCGTGAGAGCCATATAT
1 CGGGAAGCTCATGAGAGCCA-ATAT
**
32851563 CAAGAAGCTCATGAGAGCCAATAT
1 CGGGAAGCTCATGAGAGCCAATAT
* * * *
32851587 CGGGATGCTCATAAGAGCTAATAA
1 CGGGAAGCTCATGAGAGCCAATAT
*
32851611 CGGGACGCTC
1 CGGGAAGCTC
32851621 TTGCAAGCTA
Statistics
Matches: 47, Mismatches: 11, Indels: 1
0.80 0.19 0.02
Matches are distributed among these distances:
24 31 0.66
25 16 0.34
ACGTcount: A:0.33, C:0.20, G:0.28, T:0.19
Consensus pattern (24 bp):
CGGGAAGCTCATGAGAGCCAATAT
Found at i:32853757 original size:35 final size:36
Alignment explanation
Indices: 32853717--32853788 Score: 92
Period size: 36 Copynumber: 2.0 Consensus size: 36
32853707 ACTAGGATCA
32853717 CATATC-TCCAAAGATCACCTTCCATATTTGCCAAG
1 CATATCTTCCAAAGATCACCTTCCATATTTGCCAAG
*** * *
32853752 CATATCTTTGGAAGATCACTTTCCTTATTTGCCAAG
1 CATATCTTCCAAAGATCACCTTCCATATTTGCCAAG
32853788 C
1 C
32853789 TCTGGAGATG
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
35 6 0.19
36 25 0.81
ACGTcount: A:0.28, C:0.28, G:0.11, T:0.33
Consensus pattern (36 bp):
CATATCTTCCAAAGATCACCTTCCATATTTGCCAAG
Found at i:32859706 original size:19 final size:20
Alignment explanation
Indices: 32859684--32859725 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
32859674 TTTTTTTGGG
*
32859684 AAATAACTT-AGTTAATGAA
1 AAATAACTTAAGTCAATGAA
* *
32859703 AAATCATTTAAGTCAATGAA
1 AAATAACTTAAGTCAATGAA
32859723 AAA
1 AAA
32859726 ATAAAGCATG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
19 7 0.37
20 12 0.63
ACGTcount: A:0.55, C:0.07, G:0.10, T:0.29
Consensus pattern (20 bp):
AAATAACTTAAGTCAATGAA
Found at i:32869895 original size:201 final size:199
Alignment explanation
Indices: 32869549--32870862 Score: 1114
Period size: 201 Copynumber: 6.7 Consensus size: 199
32869539 GGAGGAAGTT
* * * * * *
32869549 GAGTTCCTAATATCCCTTTCTTTACCACCACAATAATCTGAAACATTTGGTGTTGAAATTAAAGC
1 GAGTTCCTAACATCCATTTCTTTAACACCAGAATAATCCGAAACATTTGGTGTTGAACTTAAAGC
* *
32869614 TTCAGAGCAACTTGATGCAAGGGTCACCGGACGT-GTCATGTTTCTCATATCCAATTCATCTCTC
66 TTCAGAGCAACTTGATGCAAGGGTCACTGGAC-TAGTCATGTTTCTCATATCCAATTCATCCCTC
* * ** * *
32869678 ACAACATTGATGGGTTCTGGAGATGAGGAAAAGGAGTTGCCGGTATCCATTTCTTTAACAACGGA
130 GCAACATTTATGGGTTCTGGAGATGAGGAAAA-GAGTT-CCAATATCCATTTCTTTAACACCAGA
*
32869743 GGGCATG
193 GGGAATG
*
32869750 GAGTTCCT-ACAATCCATTTCTTTAACACCAGAATAATCCAAAACATTTGGTGTTGAACTTAAAG
1 GAGTTCCTAAC-ATCCATTTCTTTAACACCAGAATAATCCGAAACATTTGGTGTTGAACTTAAAG
* * * *
32869814 CTTCAGAGCAGCTTGATGCAAGGGTCACTGAACTAGTCATGTTTCTTACATCCAATTCATCCCTC
65 CTTCAGAGCAACTTGATGCAAGGGTCACTGGACTAGTCATGTTTCTCATATCCAATTCATCCCTC
* * * ***
32869879 GCAACATTTGTGGGTTCTGGAGATGAGGAAATGGAGTTCCCAATATCCATTTCTTTAAAAGTGGA
130 GCAACATTTATGGGTTCTGGAGATGAGGAAA-AGAGTT-CCAATATCCATTTCTTTAACACCAGA
*
32869944 GGGCATG
193 GGGAATG
** * ** *
32869951 GAGTTCCTAACATCCACCTCTTTAACACAAGAATAATATGAAACATTTGATGTTGAACTTAAAGC
1 GAGTTCCTAACATCCATTTCTTTAACACCAGAATAATCCGAAACATTTGGTGTTGAACTTAAAGC
* * * * * * *
32870016 TTCATAGCAGCTTGCTGCAAGGGTCACTGGACTAATCCTGTTTCTCATATCTAATTCATCCCTCA
66 TTCAGAGCAACTTGATGCAAGGGTCACTGGACTAGTCATGTTTCTCATATCCAATTCATCCCTCG
* * *
32870081 CAACATTCATGGGTTCTGGAGACGAGGAAATAGAGTTCACAATAAT-CATTTCTTGAACACCAGA
131 CAACATTTATGGGTTCTGGAGATGAGGAAA-AGAGTTC-CAAT-ATCCATTTCTTTAACACCAGA
*
32870145 GGTAAT-
193 GGGAATG
** * * *
32870151 G-G--------A--CATTTCTTCGACACCAGAATAATCCAAAATATTTGGTGTTGAACTTAGAGC
1 GAGTTCCTAACATCCATTTCTTTAACACCAGAATAATCCGAAACATTTGGTGTTGAACTTAAAGC
* * * * * ** *
32870205 TCCACAGAAACTTAATGTATTGGTCACTGGACTAGTCGTGTTTCTCATATCCAATTCATCCCTCG
66 TTCAGAGCAACTTGATGCAAGGGTCACTGGACTAGTCATGTTTCTCATATCCAATTCATCCCTCG
* * * * * * *
32870270 TAACATCTA-----TC---AGTTCA-G--CAGA--TCCAATATCCATATCTTTAACACCGGAGGG
131 CAACATTTATGGGTTCTGGAGATGAGGAAAAGAGTTCCAATATCCATTTCTTTAACACCAGAGGG
**
32870322 AACA
196 AATG
* *
32870326 GAGTTCCTAAAATCCATTTCTTCT-ACACCAGAATAATCTGAAACATTTGGTGTTGAACTTAAAG
1 GAGTTCCTAACATCCATTTCTT-TAACACCAGAATAATCCGAAACATTTGGTGTTGAACTTAAAG
* * * * ** * *
32870390 CTTCAGAGAAACTTGATGTAATGGTCACTGGACTAGTCGTGTTTCTCATATATAGTTCATCCCTT
65 CTTCAGAGCAACTTGATGCAAGGGTCACTGGACTAGTCATGTTTCTCATATCCAATTCATCCCTC
** *** * * * ** * * * *
32870455 GCTTCATTTACAAGTTTTGGGGATGAAGAAGCTGAGTTACTAATACCCATTTCTTCAACAGCAGA
130 GCAACATTTATGGGTTCTGGAGATGAGGAA-AAGAGTT-CCAATATCCATTTCTTTAACACCAGA
** *
32870520 GCAAATA
193 GGGAATG
* * * *
32870527 GAGTTCCTAACATCCGTTTCTTCAACACCAGAATAATCCGAAACATTTGGTGCTGAGCTTAAAGC
1 GAGTTCCTAACATCCATTTCTTTAACACCAGAATAATCCGAAACATTTGGTGTTGAACTTAAAGC
** * * *
32870592 TTCAGAGCAACTTGACACAAGGGTCACTGGGCTAGTCATGGTTCTCATATCCAATTCATCCCTCA
66 TTCAGAGCAACTTGATGCAAGGGTCACTGGACTAGTCATGTTTCTCATATCCAATTCATCCCTCG
* * ** * * * ** * *
32870657 CATCATCTATAAGTCCTCGAGATGAGGAAACACAGCACCTAGTATCCGTTTCTTTAACACCAGAG
131 CAACATTTATGGGTTCTGGAGATGAGGAAA-AGAGTTCC-AATATCCATTTCTTTAACACCAGAG
32870722 GGAATG
194 GGAATG
* ** * * * *
32870728 GAGTTCCTCACATCCATTTCCGTGAGACCAGAATAAT------CATTTGATGTTGAACTTGAAGC
1 GAGTTCCTAACATCCATTTCTTTAACACCAGAATAATCCGAAACATTTGGTGTTGAACTTAAAGC
* * * * * * *
32870787 TTCAGTGCAACTTGATGTAAGAGTCAGTGAACTAGTCATGTTTCTCATATACAATTCATTCCTCG
66 TTCAGAGCAACTTGATGCAAGGGTCACTGGACTAGTCATGTTTCTCATATCCAATTCATCCCTCG
32870852 CAACATTTATG
131 CAACATTTATG
32870863 AGTTTCCCAA
Statistics
Matches: 891, Mismatches: 184, Indels: 82
0.77 0.16 0.07
Matches are distributed among these distances:
173 2 0.00
174 23 0.03
175 3 0.00
176 1 0.00
177 3 0.00
180 1 0.00
181 3 0.00
184 3 0.00
186 107 0.12
189 98 0.11
191 2 0.00
194 3 0.00
195 80 0.09
198 3 0.00
199 1 0.00
200 6 0.01
201 548 0.62
202 4 0.00
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (199 bp):
GAGTTCCTAACATCCATTTCTTTAACACCAGAATAATCCGAAACATTTGGTGTTGAACTTAAAGC
TTCAGAGCAACTTGATGCAAGGGTCACTGGACTAGTCATGTTTCTCATATCCAATTCATCCCTCG
CAACATTTATGGGTTCTGGAGATGAGGAAAAGAGTTCCAATATCCATTTCTTTAACACCAGAGGG
AATG
Found at i:32871420 original size:99 final size:99
Alignment explanation
Indices: 32871256--32871506 Score: 351
Period size: 99 Copynumber: 2.5 Consensus size: 99
32871246 ATGGGCATCA
* * * * * *
32871256 TCCCTAATACTTAAACAGCTCATAGGGGCATCATTA-TTGCTACTTGGCCTGCTAACGGGACAAT
1 TCCCCAATACTTAACCTGCTTATAGGGGCATCATCACTT-CTACTTGGCCTGCTAAAGGGACAAT
* *
32871320 CTTCACCAGCAGTTGGTCCACTTACAGGGGCATTT
65 CTTCACCAGCAGTTGCTCCACTTACAGGAGCATTT
* **
32871355 TCCCCAATACTTAACCTGCTTATAGGGGCATCAACACTTCTACTTGGCCTGCTAAAGGGGTAATC
1 TCCCCAATACTTAACCTGCTTATAGGGGCATCATCACTTCTACTTGGCCTGCTAAAGGGACAATC
32871420 TTCACCAGCAGTTGCTCCACTTACAGGAGCATTT
66 TTCACCAGCAGTTGCTCCACTTACAGGAGCATTT
* ** *
32871454 TCCCCCATACTTAACCTGCTTATAGGGGCATCATCACCGCTACTAGGCCTGCT
1 TCCCCAATACTTAACCTGCTTATAGGGGCATCATCACTTCTACTTGGCCTGCT
32871507 TATAGGAGCA
Statistics
Matches: 135, Mismatches: 16, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
99 133 0.99
100 2 0.01
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (99 bp):
TCCCCAATACTTAACCTGCTTATAGGGGCATCATCACTTCTACTTGGCCTGCTAAAGGGACAATC
TTCACCAGCAGTTGCTCCACTTACAGGAGCATTT
Found at i:32871510 original size:33 final size:33
Alignment explanation
Indices: 32871468--32871588 Score: 115
Period size: 33 Copynumber: 3.7 Consensus size: 33
32871458 CCATACTTAA
*
32871468 CCTGCTTATAGGGGCATCATCACC-GCTACTAGG
1 CCTGCTTATAGGAGCATCATC-CCAGCTACTAGG
*
32871501 CCTGCTTATAGGAGCATCATCCCAGGTACTTGAGG
1 CCTGCTTATAGGAGCATCATCCCAGCTAC-T-AGG
* * *
32871536 --TGCTCACAGGGGCATCATCCCTA-CTACTAGG
1 CCTGCTTATAGGAGCATCATCCC-AGCTACTAGG
* *
32871567 GCTACTTATAGGAGCATCATCC
1 CCTGCTTATAGGAGCATCATCC
32871589 GTTCTACTTA
Statistics
Matches: 72, Mismatches: 10, Indels: 12
0.77 0.11 0.13
Matches are distributed among these distances:
31 3 0.04
32 3 0.04
33 61 0.85
34 2 0.03
35 3 0.04
ACGTcount: A:0.23, C:0.29, G:0.23, T:0.25
Consensus pattern (33 bp):
CCTGCTTATAGGAGCATCATCCCAGCTACTAGG
Found at i:32871531 original size:66 final size:66
Alignment explanation
Indices: 32871461--32871588 Score: 168
Period size: 66 Copynumber: 1.9 Consensus size: 66
32871451 TTTTCCCCCA
* * * *
32871461 TACTTAACCTGCTTATAGGGGCATCATCACC-GCTACTAGGCCTGCTTATAGGAGCATCATCCCA
1 TACTTAACCTGCTCACAGGGGCATCATC-CCTACTACTAGGCCTACTTATAGGAGCATCATCCCA
32871525 GG
65 GG
* ** *
32871527 TACTTGAGGTGCTCACAGGGGCATCATCCCTACTACTAGGGCTACTTATAGGAGCATCATCC
1 TACTTAACCTGCTCACAGGGGCATCATCCCTACTACTAGGCCTACTTATAGGAGCATCATCC
32871589 GTTCTACTTA
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
65 2 0.04
66 51 0.96
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (66 bp):
TACTTAACCTGCTCACAGGGGCATCATCCCTACTACTAGGCCTACTTATAGGAGCATCATCCCAG
G
Found at i:32871545 original size:99 final size:99
Alignment explanation
Indices: 32871256--32871550 Score: 238
Period size: 99 Copynumber: 3.0 Consensus size: 99
32871246 ATGGGCATCA
* * * * ** ** * * *
32871256 TCCCTAATACTTAAACAGCTCATAGGGGCATCATTATTGCTACTTGGCCTGCTAACGG-GACAAT
1 TCCCCAATACTTAACCTGCTTATAGGGGCATCAACACCGCTACTAGGCCTGCTAAAGGAG-TAAT
* * *
32871320 CTTCACCAGCAGTTG-GTCCACTTACAGGGGCATTT
65 CATCACCAGCACTTGAG-CCACTCACAGGGGCATTT
** * *
32871355 TCCCCAATACTTAACCTGCTTATAGGGGCATCAACACTTCTACTTGGCCTGCTAAAGGGGTAATC
1 TCCCCAATACTTAACCTGCTTATAGGGGCATCAACACCGCTACTAGGCCTGCTAAAGGAGTAATC
* * ** * *
32871420 TTCACCAGCAGTTGCTCCACTTACAGGAGCATTT
66 ATCACCAGCACTTGAGCCACTCACAGGGGCATTT
* * * *
32871454 TCCCCCATACTTAACCTGCTTATAGGGGCATCATCACCGCTACTAGGCCTGCTTATAGGAG-CAT
1 TCCCCAATACTTAACCTGCTTATAGGGGCATCAACACCGCTACTAGGCCTGC-TAAAGGAGTAAT
* ***
32871518 CATC-CCAGGTACTTGAGGTGCTCACAGGGGCAT
65 CATCACCA-GCACTTGAGCCACTCACAGGGGCAT
32871551 CATCCCTACT
Statistics
Matches: 162, Mismatches: 30, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
98 3 0.02
99 152 0.94
100 7 0.04
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.27
Consensus pattern (99 bp):
TCCCCAATACTTAACCTGCTTATAGGGGCATCAACACCGCTACTAGGCCTGCTAAAGGAGTAATC
ATCACCAGCACTTGAGCCACTCACAGGGGCATTT
Found at i:32878188 original size:17 final size:17
Alignment explanation
Indices: 32878166--32878205 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
32878156 TAAATTTAAT
*
32878166 TTTTAATTTACA-TATTA
1 TTTTAATTTA-ATTATGA
32878183 TTTTAATTTAATTATGA
1 TTTTAATTTAATTATGA
32878200 TTTTAA
1 TTTTAA
32878206 AAAAATGATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 1 0.05
17 20 0.95
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.60
Consensus pattern (17 bp):
TTTTAATTTAATTATGA
Found at i:32884016 original size:17 final size:17
Alignment explanation
Indices: 32883996--32884037 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
32883986 AATAATAAAC
32883996 AATAATATATAATATGT
1 AATAATATATAATATGT
*
32884013 AATAATATGTAATATGT
1 AATAATATATAATATGT
32884030 AAT-ATATA
1 AATAATATA
32884038 ATGTATAATG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 4 0.17
17 19 0.83
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.40
Consensus pattern (17 bp):
AATAATATATAATATGT
Found at i:32884176 original size:17 final size:17
Alignment explanation
Indices: 32884154--32884197 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
32884144 TAAACTACTA
*
32884154 ATATATTATATACCA-T
1 ATATATTATATAACATT
*
32884170 ATGATATGATATAACATT
1 AT-ATATTATATAACATT
32884188 ATATATTATA
1 ATATATTATA
32884198 GTAGGAGTGT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
16 2 0.09
17 18 0.78
18 3 0.13
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.43
Consensus pattern (17 bp):
ATATATTATATAACATT
Found at i:32893528 original size:31 final size:29
Alignment explanation
Indices: 32893490--32893563 Score: 85
Period size: 29 Copynumber: 2.5 Consensus size: 29
32893480 CTAACGGCTC
*
32893490 AGTGACTAAAATGTTACAACGTGATAACATA
1 AGTGACTAAAATGTTAC-ACGTCA-AACATA
* **
32893521 AGTGACTAAAACGTTACATTTCAAACATA
1 AGTGACTAAAATGTTACACGTCAAACATA
*
32893550 AGTAACTAAAATGT
1 AGTGACTAAAATGT
32893564 AACCTGAGCC
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
29 18 0.49
30 3 0.08
31 16 0.43
ACGTcount: A:0.46, C:0.14, G:0.14, T:0.27
Consensus pattern (29 bp):
AGTGACTAAAATGTTACACGTCAAACATA
Found at i:32895139 original size:66 final size:66
Alignment explanation
Indices: 32895033--32895161 Score: 231
Period size: 66 Copynumber: 2.0 Consensus size: 66
32895023 CATTTCAGAG
*
32895033 AGCACACTCCCGCGAACCTCATCCTTACAGCAGGATTACCAGTCCATGCTAAATCCCCTGCAAGA
1 AGCACACTCCCGCGAACCTCATCCTTACAGCAGGATTACCAGTCCAGGCTAAATCCCCTGCAAGA
32895098 T
66 T
* *
32895099 AGCACACTCCCGCGAACCTTATCCTTACAGCGGGATTACCAGTCCAGGCTAAATCCCCTGCAA
1 AGCACACTCCCGCGAACCTCATCCTTACAGCAGGATTACCAGTCCAGGCTAAATCCCCTGCAA
32895162 TGACAATTAA
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
66 60 1.00
ACGTcount: A:0.28, C:0.36, G:0.16, T:0.19
Consensus pattern (66 bp):
AGCACACTCCCGCGAACCTCATCCTTACAGCAGGATTACCAGTCCAGGCTAAATCCCCTGCAAGA
T
Found at i:32897860 original size:21 final size:21
Alignment explanation
Indices: 32897834--32897887 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
32897824 CAGCGGTGGC
*
32897834 GGTGAGATTAGTTACTGTAGT
1 GGTGAGATTAGATACTGTAGT
*
32897855 GGTGAGATTGGATACTGTAGT
1 GGTGAGATTAGATACTGTAGT
*
32897876 AGTGAGATTAGA
1 GGTGAGATTAGA
32897888 AACAGCGGTG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.28, C:0.04, G:0.35, T:0.33
Consensus pattern (21 bp):
GGTGAGATTAGATACTGTAGT
Found at i:32900562 original size:2 final size:2
Alignment explanation
Indices: 32900557--32900593 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
32900547 ACAGATGCAA
32900557 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
32900594 TAAACAGAGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:32902373 original size:6 final size:6
Alignment explanation
Indices: 32902362--32902399 Score: 58
Period size: 6 Copynumber: 6.2 Consensus size: 6
32902352 TTTGCAACCC
*
32902362 AAGGGG AAGGGG AAAGGG AAGGGG AAGGGG AAAGGGG A
1 AAGGGG AAGGGG AAGGGG AAGGGG AAGGGG -AAGGGG A
32902400 GAAGAAGGGT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
6 23 0.79
7 6 0.21
ACGTcount: A:0.39, C:0.00, G:0.61, T:0.00
Consensus pattern (6 bp):
AAGGGG
Found at i:32902385 original size:18 final size:18
Alignment explanation
Indices: 32902362--32902397 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
32902352 TTTGCAACCC
32902362 AAGGGGAAGGGGAAAGGG
1 AAGGGGAAGGGGAAAGGG
32902380 AAGGGGAAGGGGAAAGGG
1 AAGGGGAAGGGGAAAGGG
32902398 GAGAAGAAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.00, G:0.61, T:0.00
Consensus pattern (18 bp):
AAGGGGAAGGGGAAAGGG
Found at i:32902406 original size:18 final size:18
Alignment explanation
Indices: 32902367--32902408 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
32902357 AACCCAAGGG
**
32902367 GAAGGGGAAAGGGAAGGG
1 GAAGGGGAAAGGGAAGAA
*
32902385 GAAGGGGAAAGGGGAGAA
1 GAAGGGGAAAGGGAAGAA
32902403 GAAGGG
1 GAAGGG
32902409 TAACCAAACA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.40, C:0.00, G:0.60, T:0.00
Consensus pattern (18 bp):
GAAGGGGAAAGGGAAGAA
Found at i:32910746 original size:24 final size:24
Alignment explanation
Indices: 32910718--32910772 Score: 67
Period size: 23 Copynumber: 2.3 Consensus size: 24
32910708 GTGTCATGTT
* *
32910718 ATTATTCATTGATGATACATGAAAC
1 ATTATTCACT-ATGATACATCAAAC
*
32910743 -TTATGCACTATGATACATCAAAC
1 ATTATTCACTATGATACATCAAAC
32910766 ATTATTC
1 ATTATTC
32910773 CTTTTATTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
23 13 0.52
24 12 0.48
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.36
Consensus pattern (24 bp):
ATTATTCACTATGATACATCAAAC
Found at i:32918679 original size:153 final size:155
Alignment explanation
Indices: 32918470--32918776 Score: 519
Period size: 153 Copynumber: 2.0 Consensus size: 155
32918460 TAGAATACCC
*
32918470 TTAGCATTAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCATAAATTTGTTTTGGT-AA-GATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
* * *
32918535 TTATCAATAATAAATATTTTAATCATATTTAAACATAATTATTTTTAAACCCATTTTAATTAAAA
64 TTATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACACATTTTAATTAAAA
*
32918600 TATATAATTTCATAAAATTCTTAATAA
129 TATATAATTTAATAAAATTCTTAATAA
32918627 TTAGCATAAATTTGTTTTGGT-A-ATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTATT
1 TTAGCATAAATTTGTTTTGGTAAGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTATT
* *
32918690 ATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAATA
66 ATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACACATTTTAATTAAAATA
32918755 TATAATTTAATAAAATTCTTAA
131 TATAATTTAATAAAATTCTTAA
32918777 NNNNNNNNNN
Statistics
Matches: 143, Mismatches: 7, Indels: 4
0.93 0.05 0.03
Matches are distributed among these distances:
153 122 0.85
155 1 0.01
157 20 0.14
ACGTcount: A:0.42, C:0.05, G:0.05, T:0.49
Consensus pattern (155 bp):
TTAGCATAAATTTGTTTTGGTAAGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTATT
ATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACACATTTTAATTAAAATA
TATAATTTAATAAAATTCTTAATAA
Found at i:32918757 original size:18 final size:17
Alignment explanation
Indices: 32918736--32918770 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
32918726 TTATTATTAA
*
32918736 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
32918754 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
32918771 TCTTAANNNN
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:32926856 original size:67 final size:67
Alignment explanation
Indices: 32926785--32926997 Score: 163
Period size: 67 Copynumber: 3.1 Consensus size: 67
32926775 TTGATTCATA
32926785 CAAAATATTAATTGTATATATTTTACCGAATTTATTAATATAAACAGTTATATTAATTAATTTCG
1 CAAAATATTAATTGTATATATTTTACCGAATTTATTAATATAAACAGTTATATTAATTAATTTCG
32926850 GC
66 GC
** * ** * *
32926852 CAAAATA-TAAAAG-ACATGAAAATTA---ATATTCTTTTGGAA-A-AAATGCAATTAATATATG
1 CAAAATATTAATTGTATAT--ATTTTACCGA-ATT-TATT--AATATAAA--CAGTT-ATAT-T-
* ***
32926910 AATTTGA-TTCATA
55 AA-TTAATTTCGGC
32926923 CAAAATATTAATTGTATATATTTTACCGAATTTATTAATATAAACAGTTATATTAATTAATTTCG
1 CAAAATATTAATTGTATATATTTTACCGAATTTATTAATATAAACAGTTATATTAATTAATTTCG
32926988 GC
66 GC
32926990 CAAAATAT
1 CAAAATAT
32926998 AAAAGACATG
Statistics
Matches: 104, Mismatches: 22, Indels: 40
0.63 0.13 0.24
Matches are distributed among these distances:
64 1 0.01
65 6 0.06
66 13 0.12
67 25 0.24
68 7 0.07
69 8 0.08
70 7 0.07
71 17 0.16
72 13 0.12
73 6 0.06
74 1 0.01
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.39
Consensus pattern (67 bp):
CAAAATATTAATTGTATATATTTTACCGAATTTATTAATATAAACAGTTATATTAATTAATTTCG
GC
Found at i:32926914 original size:138 final size:138
Alignment explanation
Indices: 32926760--32927033 Score: 539
Period size: 138 Copynumber: 2.0 Consensus size: 138
32926750 ACATAAATAT
*
32926760 AATTAATATATTAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATTAATA
1 AATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATTAATA
32926825 TAAACAGTTATATTAATTAATTTCGGCCAAAATATAAAAGACATGAAAATTAATATTCTTTTGGA
66 TAAACAGTTATATTAATTAATTTCGGCCAAAATATAAAAGACATGAAAATTAATATTCTTTTGGA
32926890 AAAAATGC
131 AAAAATGC
32926898 AATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATTAATA
1 AATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATTAATA
32926963 TAAACAGTTATATTAATTAATTTCGGCCAAAATATAAAAGACATGAAAATTAATATTCTTTTGGA
66 TAAACAGTTATATTAATTAATTTCGGCCAAAATATAAAAGACATGAAAATTAATATTCTTTTGGA
32927028 AAAAAT
131 AAAAAT
32927034 ATAATTCATT
Statistics
Matches: 135, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
138 135 1.00
ACGTcount: A:0.45, C:0.08, G:0.08, T:0.39
Consensus pattern (138 bp):
AATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATTAATA
TAAACAGTTATATTAATTAATTTCGGCCAAAATATAAAAGACATGAAAATTAATATTCTTTTGGA
AAAAATGC
Found at i:32935096 original size:25 final size:25
Alignment explanation
Indices: 32934960--32935096 Score: 70
Period size: 25 Copynumber: 5.5 Consensus size: 25
32934950 AGCTCATGTG
* * * *
32934960 AGCCATGTAACGGGAAGCTCAGAAG
1 AGCCATATATCGGGAAGCTCCGAAA
*
32934985 AGCCATA-ATCGGGAAG-TTC-AAGCA
1 AGCCATATATCGGGAAGCTCCGAA--A
* * *
32935009 AGCCA-ATATCGGGAAGCTTCGGAG
1 AGCCATATATCGGGAAGCTCCGAAA
* *
32935033 AGCCAT-TAATCGAGAAGCTCATGAAAA
1 AGCCATAT-ATCGGGAAGCTC-CG-AAA
* *
32935060 ATCC-TTTAATCGGGAAGCTCCGAAA
1 AGCCATAT-ATCGGGAAGCTCCGAAA
32935085 AGCCATATATCG
1 AGCCATATATCG
32935097 AAATGCTCAT
Statistics
Matches: 84, Mismatches: 17, Indels: 22
0.68 0.14 0.18
Matches are distributed among these distances:
22 2 0.02
23 2 0.02
24 28 0.33
25 29 0.35
26 6 0.07
27 17 0.20
ACGTcount: A:0.36, C:0.21, G:0.25, T:0.18
Consensus pattern (25 bp):
AGCCATATATCGGGAAGCTCCGAAA
Found at i:32937746 original size:40 final size:41
Alignment explanation
Indices: 32937649--32937747 Score: 155
Period size: 41 Copynumber: 2.4 Consensus size: 41
32937639 TTGATCTCGG
* * *
32937649 TTTCGCACACTTAGTGCCCGTTATTTAACATCATTATTTAA
1 TTTCGCACACTTAGTGCTCGTTATTCAACATCATCATTTAA
*
32937690 TTTCGCACACTTAGTGCTCGTTATTCAACCTCATCATTTAA
1 TTTCGCACACTTAGTGCTCGTTATTCAACATCATCATTTAA
32937731 -TTCGCACACTTAGTGCT
1 TTTCGCACACTTAGTGCT
32937748 AATCATATAG
Statistics
Matches: 54, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
40 17 0.31
41 37 0.69
ACGTcount: A:0.24, C:0.25, G:0.11, T:0.39
Consensus pattern (41 bp):
TTTCGCACACTTAGTGCTCGTTATTCAACATCATCATTTAA
Found at i:32940602 original size:45 final size:47
Alignment explanation
Indices: 32940551--32940658 Score: 139
Period size: 45 Copynumber: 2.3 Consensus size: 47
32940541 TTTGTATGTG
** ** *
32940551 TATTTGAAATAATTGTTTGAAATGTTTCACATAT-AAA-CATAATGA
1 TATTTGAAATAATTAATTGAAACATTTCACATATAAAATAATAATGA
*
32940596 TATTTGAAATAATTAATTGAAACATTTTACATATAAAAATAATAATGA
1 TATTTGAAATAATTAATTGAAACATTTCACATAT-AAAATAATAATGA
32940644 TATTTGAAATAATTA
1 TATTTGAAATAATTA
32940659 CTTAATTTTA
Statistics
Matches: 54, Mismatches: 6, Indels: 3
0.86 0.10 0.05
Matches are distributed among these distances:
45 29 0.54
47 3 0.06
48 22 0.41
ACGTcount: A:0.47, C:0.05, G:0.08, T:0.40
Consensus pattern (47 bp):
TATTTGAAATAATTAATTGAAACATTTCACATATAAAATAATAATGA
Found at i:32941111 original size:19 final size:19
Alignment explanation
Indices: 32941087--32941123 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
32941077 GCTAATGTGT
32941087 TAAAAATAATAA-TTAAAAA
1 TAAAAATAA-AACTTAAAAA
32941106 TAAAAATAAAACTTAAAA
1 TAAAAATAAAACTTAAAA
32941124 CAATATGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 2 0.12
19 15 0.88
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.24
Consensus pattern (19 bp):
TAAAAATAAAACTTAAAAA
Found at i:32952198 original size:21 final size:20
Alignment explanation
Indices: 32952174--32952215 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 20
32952164 CTTCATATAT
32952174 TTTTTAGAATTTTTTTGAAAA
1 TTTTTAGAATTTTTTT-AAAA
*
32952195 TTTTTATAATTTTTTTAAAA
1 TTTTTAGAATTTTTTTAAAA
32952215 T
1 T
32952216 ATATATAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (20 bp):
TTTTTAGAATTTTTTTAAAA
Found at i:32952222 original size:20 final size:21
Alignment explanation
Indices: 32952181--32952223 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
32952171 TATTTTTTAG
* *
32952181 AATTTTTTTGAAAATTTTTAT
1 AATTTTTTTGAAAATATATAT
32952202 AATTTTTTT-AAAATATATAT
1 AATTTTTTTGAAAATATATAT
32952222 AA
1 AA
32952224 AATTTGGAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (21 bp):
AATTTTTTTGAAAATATATAT
Found at i:32952242 original size:18 final size:19
Alignment explanation
Indices: 32952219--32952255 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
32952209 TTAAAATATA
32952219 TATAAA-ATTTGGAATTTT
1 TATAAATATTTGGAATTTT
*
32952237 TATAAATCTTTGGAATTTT
1 TATAAATATTTGGAATTTT
32952256 AAAAATTATT
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:0.35, C:0.03, G:0.11, T:0.51
Consensus pattern (19 bp):
TATAAATATTTGGAATTTT
Found at i:32952256 original size:18 final size:19
Alignment explanation
Indices: 32952226--32952261 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
32952216 ATATATAAAA
*
32952226 TTTGGAATTTTTATAAATC
1 TTTGGAATTTTTAAAAATC
32952245 TTTGGAA-TTTTAAAAAT
1 TTTGGAATTTTTAAAAAT
32952262 TATTTTAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.36, C:0.03, G:0.11, T:0.50
Consensus pattern (19 bp):
TTTGGAATTTTTAAAAATC
Found at i:32952280 original size:20 final size:20
Alignment explanation
Indices: 32952252--32952292 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
32952242 ATCTTTGGAA
32952252 TTTTAAAAATTATTTTAAAT
1 TTTTAAAAATTATTTTAAAT
* *
32952272 TTTTGAAAATTATTTTGAAT
1 TTTTAAAAATTATTTTAAAT
32952292 T
1 T
32952293 ATTTTGTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.56
Consensus pattern (20 bp):
TTTTAAAAATTATTTTAAAT
Found at i:32953062 original size:22 final size:23
Alignment explanation
Indices: 32953009--32953067 Score: 68
Period size: 22 Copynumber: 2.7 Consensus size: 23
32952999 ATGCAATCTT
* *
32953009 AGATATGA-TATGTAATCTTAGA
1 AGATATGATTCTGTAATATTAGA
32953031 AGATATGATTCTGTAATATTAG-
1 AGATATGATTCTGTAATATTAGA
* *
32953053 AGATTTGATTTTGTA
1 AGATATGATTCTGTA
32953068 GATAGCTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
22 21 0.66
23 11 0.34
ACGTcount: A:0.36, C:0.03, G:0.19, T:0.42
Consensus pattern (23 bp):
AGATATGATTCTGTAATATTAGA
Found at i:32956703 original size:22 final size:23
Alignment explanation
Indices: 32956644--32956704 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 23
32956634 TATGCAATCT
* *
32956644 AAGATATGA-TATGTAATTTTAG
1 AAGATATGATTCTGTAATCTTAG
*
32956666 AAGATATGGTTCTGTAATCTTAG
1 AAGATATGATTCTGTAATCTTAG
* *
32956689 -AGATTTGATTTTGTAA
1 AAGATATGATTCTGTAA
32956705 ATAGCTTTTA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
22 21 0.66
23 11 0.34
ACGTcount: A:0.34, C:0.03, G:0.20, T:0.43
Consensus pattern (23 bp):
AAGATATGATTCTGTAATCTTAG
Found at i:32958641 original size:71 final size:72
Alignment explanation
Indices: 32958555--32958697 Score: 279
Period size: 71 Copynumber: 2.0 Consensus size: 72
32958545 TTAATTTAAG
32958555 TTTTAAATATTTAAGATGTATTTAAATTAAAATATAAAGTAATTTCATCCAATAGTACATCATTA
1 TTTTAAATATTTAAGATGTATTTAAATTAAAATATAAAGTAATTTCATCCAATAGTACATCATTA
32958620 TTATTGT
66 TTATTGT
32958627 TTTTAAATA-TTAAGATGTATTTAAATTAAAATATAAAGTAATTTCATCCAATAGTACATCATTA
1 TTTTAAATATTTAAGATGTATTTAAATTAAAATATAAAGTAATTTCATCCAATAGTACATCATTA
32958691 TTATTGT
66 TTATTGT
32958698 AAATAAATAC
Statistics
Matches: 71, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
71 62 0.87
72 9 0.13
ACGTcount: A:0.42, C:0.07, G:0.07, T:0.44
Consensus pattern (72 bp):
TTTTAAATATTTAAGATGTATTTAAATTAAAATATAAAGTAATTTCATCCAATAGTACATCATTA
TTATTGT
Found at i:32974407 original size:13 final size:11
Alignment explanation
Indices: 32974371--32974401 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
32974361 CCGTCCGTAT
32974371 TAATTTTTATA
1 TAATTTTTATA
*
32974382 TTATTTTTATA
1 TAATTTTTATA
32974393 TAATTTTTA
1 TAATTTTTA
32974402 AATATATATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (11 bp):
TAATTTTTATA
Found at i:32974544 original size:30 final size:30
Alignment explanation
Indices: 32974517--32974585 Score: 102
Period size: 30 Copynumber: 2.3 Consensus size: 30
32974507 GATATAACTT
32974517 ATCAAGCAAATGCCTCTAAAATAATAACAGA
1 ATCAA-CAAATGCCTCTAAAATAATAACAGA
* *
32974548 ATTAACAAATGCCTCTAAAATAATAACAAA
1 ATCAACAAATGCCTCTAAAATAATAACAGA
*
32974578 ATTAACAA
1 ATCAACAA
32974586 TAAAACAAGT
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
30 32 0.89
31 4 0.11
ACGTcount: A:0.55, C:0.17, G:0.06, T:0.22
Consensus pattern (30 bp):
ATCAACAAATGCCTCTAAAATAATAACAGA
Found at i:32976292 original size:66 final size:62
Alignment explanation
Indices: 32976184--32976307 Score: 176
Period size: 66 Copynumber: 1.9 Consensus size: 62
32976174 ATAATGTGGT
32976184 AAGCAAAAATTTTATTGTTTCATAAATGCTTTTACTATTAAATTATAAATGTTATTATGAGG
1 AAGCAAAAATTTTATTGTTTCATAAATGCTTTTACTATTAAATTATAAATGTTATTATGAGG
* * * *
32976246 AAGCGAAAATTTTGATTGTTTTATAAATGGTTTTTTTACTATTAAATTATAATTGTTATTAT
1 AAGCAAAAATTTT-ATTGTTTCATAAAT-G--CTTTTACTATTAAATTATAAATGTTATTAT
32976308 TAAAGTAAAG
Statistics
Matches: 54, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
62 12 0.22
63 13 0.24
64 1 0.02
66 28 0.52
ACGTcount: A:0.36, C:0.05, G:0.11, T:0.48
Consensus pattern (62 bp):
AAGCAAAAATTTTATTGTTTCATAAATGCTTTTACTATTAAATTATAAATGTTATTATGAGG
Found at i:32977865 original size:13 final size:14
Alignment explanation
Indices: 32977849--32977882 Score: 52
Period size: 13 Copynumber: 2.4 Consensus size: 14
32977839 ATTTTTTCGG
32977849 AAATTTTTTAT-TA
1 AAATTTTTTATCTA
32977862 AAATTTTTTATCGTA
1 AAATTTTTTATC-TA
32977877 AAATTT
1 AAATTT
32977883 AACTACATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 11 0.58
15 8 0.42
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (14 bp):
AAATTTTTTATCTA
Found at i:32979867 original size:6 final size:6
Alignment explanation
Indices: 32979858--32979888 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
32979848 CAAAATAGTC
32979858 AAGGGA AAGGGA AAGGGA AAGGGA AAGGGA A
1 AAGGGA AAGGGA AAGGGA AAGGGA AAGGGA A
32979889 GTACTTGATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (6 bp):
AAGGGA
Found at i:32980980 original size:30 final size:31
Alignment explanation
Indices: 32980936--32981015 Score: 112
Period size: 30 Copynumber: 2.6 Consensus size: 31
32980926 CATTTACCTA
32980936 AATGTGGAAA-CCTTTGTGGCCGTTATTTGAT
1 AATGT-GAAAGCCTTTGTGGCCGTTATTTGAT
32980967 -ATGTGAAAGCCTTTGTGGCCGTTATTTGAT
1 AATGTGAAAGCCTTTGTGGCCGTTATTTGAT
* *
32980997 AAAGT-AAAGCCTTAGTGGC
1 AATGTGAAAGCCTTTGTGGC
32981016 TAATTCTGTT
Statistics
Matches: 45, Mismatches: 2, Indels: 5
0.87 0.04 0.10
Matches are distributed among these distances:
29 4 0.09
30 38 0.84
31 3 0.07
ACGTcount: A:0.25, C:0.14, G:0.26, T:0.35
Consensus pattern (31 bp):
AATGTGAAAGCCTTTGTGGCCGTTATTTGAT
Found at i:32983047 original size:56 final size:56
Alignment explanation
Indices: 32982961--32983070 Score: 202
Period size: 56 Copynumber: 2.0 Consensus size: 56
32982951 CTTTTGAAGC
*
32982961 ATTGCTATGAGTAGTATTGGTTGTATCATTGCGATAAAAAAAAGATAAACACAACA
1 ATTGCTATGAGCAGTATTGGTTGTATCATTGCGATAAAAAAAAGATAAACACAACA
*
32983017 ATTGCTATGAGCAGTATTGGTTGTATCATTGCGATAAAACAAAGATAAACACAA
1 ATTGCTATGAGCAGTATTGGTTGTATCATTGCGATAAAAAAAAGATAAACACAA
32983071 TAAATTATTT
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
56 52 1.00
ACGTcount: A:0.42, C:0.12, G:0.18, T:0.28
Consensus pattern (56 bp):
ATTGCTATGAGCAGTATTGGTTGTATCATTGCGATAAAAAAAAGATAAACACAACA
Found at i:32994752 original size:3 final size:3
Alignment explanation
Indices: 32994744--32994773 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
32994734 ATGTTTTTAC
32994744 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
32994774 AGGAATTACT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:32995401 original size:26 final size:24
Alignment explanation
Indices: 32995353--32995402 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 24
32995343 ATGCGAACGC
**
32995353 ATAATTGTAAATTTATTTGTATAT
1 ATAATTGTAAATTTATTCATATAT
32995377 ATAATTGTAAATATTTATTCATATAT
1 ATAATTGT-AA-ATTTATTCATATAT
32995403 GTTTGTAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 8 0.36
25 2 0.09
26 12 0.55
ACGTcount: A:0.40, C:0.02, G:0.06, T:0.52
Consensus pattern (24 bp):
ATAATTGTAAATTTATTCATATAT
Found at i:32998911 original size:14 final size:14
Alignment explanation
Indices: 32998880--32998916 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
32998870 CCTTAATTTT
32998880 AATCCTAAAACTCTA
1 AATCCTAAAAC-CTA
*
32998895 AATCTTAAAACCTA
1 AATCCTAAAACCTA
32998909 AATCCTAA
1 AATCCTAA
32998917 TAAGCCTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
14 10 0.50
15 10 0.50
ACGTcount: A:0.49, C:0.24, G:0.00, T:0.27
Consensus pattern (14 bp):
AATCCTAAAACCTA
Found at i:32999890 original size:24 final size:23
Alignment explanation
Indices: 32999835--32999892 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 23
32999825 CGTTCTGATT
*
32999835 TTTTTTCTTTATCGATTTATTTG
1 TTTTTTATTTATCGATTTATTTG
*
32999858 TTTATTTATTTATCTATTTACTTT-
1 TTT-TTTATTTATCGATTTA-TTTG
32999882 TATTTTTATTT
1 T-TTTTTATTT
32999893 TCTTTTTGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
23 3 0.10
24 22 0.73
25 5 0.17
ACGTcount: A:0.17, C:0.07, G:0.03, T:0.72
Consensus pattern (23 bp):
TTTTTTATTTATCGATTTATTTG
Found at i:33003781 original size:25 final size:24
Alignment explanation
Indices: 33003753--33003816 Score: 67
Period size: 23 Copynumber: 2.6 Consensus size: 24
33003743 CTTTGTGAGG
* *
33003753 TTCCTGATTAATGGCTTTCTAGAGC
1 TTCCTGA-TAATGGCTTGCTAGAAC
* *
33003778 TTCCCGAT-ATGGCTTGCTTGAAC
1 TTCCTGATAATGGCTTGCTAGAAC
33003801 TTCCTGATATATGGCT
1 TTCCTGATA-ATGGCT
33003817 ATCCGGAGTT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
23 19 0.59
24 1 0.03
25 12 0.38
ACGTcount: A:0.19, C:0.22, G:0.20, T:0.39
Consensus pattern (24 bp):
TTCCTGATAATGGCTTGCTAGAAC
Found at i:33010885 original size:30 final size:30
Alignment explanation
Indices: 33010841--33010902 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
33010831 ACTTAACAAG
33010841 CAAATGCCTATAAAAAAATAACAAAATTAA
1 CAAATGCCTATAAAAAAATAACAAAATTAA
* * *
33010871 CAAATGTCTTTAAAATAATAACAAAATTAA
1 CAAATGCCTATAAAAAAATAACAAAATTAA
33010901 CA
1 CA
33010903 GTAAAATAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.60, C:0.13, G:0.03, T:0.24
Consensus pattern (30 bp):
CAAATGCCTATAAAAAAATAACAAAATTAA
Found at i:33012657 original size:17 final size:17
Alignment explanation
Indices: 33012629--33012669 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
33012619 AAAAAAAATC
33012629 ATTTTATCATTTTATTT-A
1 ATTTT-TCATTTT-TTTAA
33012647 ATTTTTCATTTTTTTAA
1 ATTTTTCATTTTTTTAA
33012664 ATTTTT
1 ATTTTT
33012670 AAACTTTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.14
17 14 0.64
18 5 0.23
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.71
Consensus pattern (17 bp):
ATTTTTCATTTTTTTAA
Found at i:33013374 original size:31 final size:31
Alignment explanation
Indices: 33013307--33013384 Score: 93
Period size: 32 Copynumber: 2.5 Consensus size: 31
33013297 AAAGTATAAT
*
33013307 TTTTTGACAAGTTCAGATACCAACTAGGCAC
1 TTTTTGACAAGTTCAGATACCAAATAGGCAC
** * *
33013338 TTTTTGAACAAGTTTTGATACTAAATAGGTAC
1 TTTTTG-ACAAGTTCAGATACCAAATAGGCAC
*
33013370 TTTTGGACAAGTTCA
1 TTTTTGACAAGTTCA
33013385 AAGGGTAAAC
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
31 13 0.34
32 25 0.66
ACGTcount: A:0.32, C:0.15, G:0.17, T:0.36
Consensus pattern (31 bp):
TTTTTGACAAGTTCAGATACCAAATAGGCAC
Found at i:33016842 original size:17 final size:17
Alignment explanation
Indices: 33016799--33016861 Score: 63
Period size: 17 Copynumber: 3.5 Consensus size: 17
33016789 ATTGAAATTT
*
33016799 TTAAAAATTATTTAATATA
1 TTAAATATT-TTTAA-ATA
*
33016818 TTTCAATATTTTTAAATA
1 -TTAAATATTTTTAAATA
*
33016836 TTAAATAATTTTAAATA
1 TTAAATATTTTTAAATA
*
33016853 TAAAATATT
1 TTAAATATT
33016862 CACAAAATAT
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
17 22 0.59
18 3 0.08
19 5 0.14
20 7 0.19
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (17 bp):
TTAAATATTTTTAAATA
Found at i:33016896 original size:20 final size:20
Alignment explanation
Indices: 33016847--33016897 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 20
33016837 TAAATAATTT
*
33016847 TAAATATAAAATATTCACAA
1 TAAATATAAAATACTCACAA
33016867 -AATATATAAAATACTCATCAA
1 TAA-ATATAAAATACTCA-CAA
33016888 TAAAT-TAAAA
1 TAAATATAAAA
33016898 AAAAAACTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
19 2 0.07
20 18 0.67
21 5 0.19
22 2 0.07
ACGTcount: A:0.61, C:0.10, G:0.00, T:0.29
Consensus pattern (20 bp):
TAAATATAAAATACTCACAA
Found at i:33017127 original size:13 final size:13
Alignment explanation
Indices: 33017119--33017148 Score: 51
Period size: 13 Copynumber: 2.2 Consensus size: 13
33017109 TATTTTTTTA
33017119 TTATATTTTAATT
1 TTATATTTTAATT
33017132 TTATATTTTAAATT
1 TTATATTTT-AATT
33017146 TTA
1 TTA
33017149 AAGTTGCCCC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.56
14 7 0.44
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (13 bp):
TTATATTTTAATT
Found at i:33017719 original size:91 final size:91
Alignment explanation
Indices: 33017559--33017835 Score: 319
Period size: 91 Copynumber: 3.0 Consensus size: 91
33017549 TGTCACATTC
* * * * * * *
33017559 GGTACATATATTTTTATAAAATGTCCAATGTGGTATTTGTACTTT-AAAAAAGTCTAATGTGATA
1 GGTACCTATACTTTCATAAAATGTCCAATGTGGTACTTGTACTTTGAAAATA-TCCAATGTGGTA
*
33017623 TTTGAACTATCAAATTGTGTATTATTT
65 CTTGAACTATCAAATTGTGTATTATTT
* *
33017650 GGTACCTATACTTTCATAAAATGTCTAATGTGGTACTTGTAGTTTGAAAATATCCAATGTGGTAC
1 GGTACCTATACTTTCATAAAATGTCCAATGTGGTACTTGTACTTTGAAAATATCCAATGTGGTAC
* *
33017715 TTGAACTATCAATTTGTGTATTGTTT
66 TTGAACTATCAAATTGTGTATTATTT
* * * * *
33017741 GGTACCTATACTTTCATAAGATGTCCAATGTGATACTTATACTTTGAAAATGTTCAATGT-GTCA
1 GGTACCTATACTTTCATAAAATGTCCAATGTGGTACTTGTACTTTGAAAATATCCAATGTGGT-A
* *
33017805 CCTG-ACTATCAAGA-TGTATATTATTAT
65 CTTGAACTATCAA-ATTGTGTATTATT-T
33017832 GGTA
1 GGTA
33017836 TCTGAAGTTA
Statistics
Matches: 159, Mismatches: 23, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
90 19 0.12
91 135 0.85
92 5 0.03
ACGTcount: A:0.31, C:0.12, G:0.16, T:0.41
Consensus pattern (91 bp):
GGTACCTATACTTTCATAAAATGTCCAATGTGGTACTTGTACTTTGAAAATATCCAATGTGGTAC
TTGAACTATCAAATTGTGTATTATTT
Found at i:33024095 original size:12 final size:13
Alignment explanation
Indices: 33024070--33024098 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
33024060 TGTGACATGC
33024070 ATATATGTATTGA
1 ATATATGTATTGA
33024083 ATATATG-ATTGA
1 ATATATGTATTGA
33024095 ATAT
1 ATAT
33024099 TCCTTATGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.41, C:0.00, G:0.14, T:0.45
Consensus pattern (13 bp):
ATATATGTATTGA
Found at i:33025176 original size:20 final size:20
Alignment explanation
Indices: 33025113--33025179 Score: 70
Period size: 20 Copynumber: 3.5 Consensus size: 20
33025103 CTCACACTCG
*
33025113 TATAGGCTCGCTTGCATGTA
1 TATAGGCTCGCATGCATGTA
*
33025133 TATAAGG-TTGCATAG-ATG--
1 TAT-AGGCTCGCAT-GCATGTA
33025151 TATAGGCTCGCATGCATGTA
1 TATAGGCTCGCATGCATGTA
33025171 TATAGGCTC
1 TATAGGCTC
33025180 CCATACATAT
Statistics
Matches: 38, Mismatches: 3, Indels: 12
0.72 0.06 0.23
Matches are distributed among these distances:
17 4 0.11
18 11 0.29
20 19 0.50
21 4 0.11
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.33
Consensus pattern (20 bp):
TATAGGCTCGCATGCATGTA
Found at i:33026781 original size:86 final size:87
Alignment explanation
Indices: 33026665--33026838 Score: 341
Period size: 86 Copynumber: 2.0 Consensus size: 87
33026655 TTGAATTTCT
33026665 ACAGAAAAACCAATTTATATACATATTTTTTCCATTAAAAGAGAAAAACCTGGGGTTTTACAAGA
1 ACAGAAAAACCAATTTATATACATATTTTTTCCATTAAAAGAGAAAAACCTGGGGTTTTACAAGA
33026730 AATTACCTAAGTTTTTATAGAA
66 AATTACCTAAGTTTTTATAGAA
33026752 ACAGAAAAACC-ATTTATATACATATTTTTTCCATTAAAAGAGAAAAACCTGGGGTTTTACAAGA
1 ACAGAAAAACCAATTTATATACATATTTTTTCCATTAAAAGAGAAAAACCTGGGGTTTTACAAGA
33026816 AATTACCTAAGTTTTTATAGAA
66 AATTACCTAAGTTTTTATAGAA
33026838 A
1 A
33026839 AAATTTGGGT
Statistics
Matches: 87, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
86 76 0.87
87 11 0.13
ACGTcount: A:0.44, C:0.13, G:0.11, T:0.32
Consensus pattern (87 bp):
ACAGAAAAACCAATTTATATACATATTTTTTCCATTAAAAGAGAAAAACCTGGGGTTTTACAAGA
AATTACCTAAGTTTTTATAGAA
Found at i:33026978 original size:21 final size:22
Alignment explanation
Indices: 33026954--33026994 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
33026944 AGGAATTACC
*
33026954 TGGGT-TTTATAAGAAAAAACT
1 TGGGTATTTACAAGAAAAAACT
*
33026975 TGGGTATTTACAGGAAAAAA
1 TGGGTATTTACAAGAAAAAA
33026995 ACATATTATC
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:0.44, C:0.05, G:0.22, T:0.29
Consensus pattern (22 bp):
TGGGTATTTACAAGAAAAAACT
Found at i:33028396 original size:29 final size:28
Alignment explanation
Indices: 33028338--33028398 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 28
33028328 GATTTCGCGG
*
33028338 AAAATGGCCCATTCCGGTAAATAATCAA
1 AAAATGGCCCATTCCGGTAAATAATAAA
* * **
33028366 AAAATCGGCCCATTTCGTTAAATTTTAAA
1 AAAAT-GGCCCATTCCGGTAAATAATAAA
33028395 AAAA
1 AAAA
33028399 AACGGCTTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
28 5 0.19
29 22 0.81
ACGTcount: A:0.44, C:0.18, G:0.11, T:0.26
Consensus pattern (28 bp):
AAAATGGCCCATTCCGGTAAATAATAAA
Found at i:33035408 original size:10 final size:9
Alignment explanation
Indices: 33035377--33035408 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
33035367 GATGGATGCT
33035377 TTTTTTTTG
1 TTTTTTTTG
33035386 TTTTTTTTG
1 TTTTTTTTG
33035395 TTTTTTTTG
1 TTTTTTTTG
*
33035404 CTTTT
1 TTTTT
33035409 GTTTACTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.00, C:0.03, G:0.09, T:0.88
Consensus pattern (9 bp):
TTTTTTTTG
Found at i:33037534 original size:107 final size:108
Alignment explanation
Indices: 33037397--33037614 Score: 429
Period size: 107 Copynumber: 2.0 Consensus size: 108
33037387 TGTGTACGTA
33037397 AATCAAATTGATAATAAAATTATAAATATTTTTAAAAAATAAATAAAATTTATTTCCAATTGGAA
1 AATCAAATTGATAATAAAATTATAAATATTTTTAAAAAATAAATAAAATTTATTTCCAATTGGAA
33037462 TCGACTTACAAAAATACTTTTTGATAGAAAAACTTTTTAGACT
66 TCGACTTACAAAAATACTTTTTGATAGAAAAACTTTTTAGACT
33037505 AATCAAATTGAT-ATAAAATTATAAATATTTTTAAAAAATAAATAAAATTTATTTCCAATTGGAA
1 AATCAAATTGATAATAAAATTATAAATATTTTTAAAAAATAAATAAAATTTATTTCCAATTGGAA
33037569 TCGACTTACAAAAATACTTTTTGATAGAAAAACTTTTTAGACT
66 TCGACTTACAAAAATACTTTTTGATAGAAAAACTTTTTAGACT
33037612 AAT
1 AAT
33037615 TGATAAGAGG
Statistics
Matches: 110, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
107 98 0.89
108 12 0.11
ACGTcount: A:0.48, C:0.08, G:0.06, T:0.37
Consensus pattern (108 bp):
AATCAAATTGATAATAAAATTATAAATATTTTTAAAAAATAAATAAAATTTATTTCCAATTGGAA
TCGACTTACAAAAATACTTTTTGATAGAAAAACTTTTTAGACT
Found at i:33044537 original size:15 final size:15
Alignment explanation
Indices: 33044517--33044550 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
33044507 ACCTTTAACA
33044517 AATCAAATTGAATCG
1 AATCAAATTGAATCG
33044532 AATCAAATTGAATCG
1 AATCAAATTGAATCG
33044547 AATC
1 AATC
33044551 TGAATATTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.47, C:0.15, G:0.12, T:0.26
Consensus pattern (15 bp):
AATCAAATTGAATCG
Found at i:33051476 original size:14 final size:14
Alignment explanation
Indices: 33051459--33051491 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
33051449 CCAAAAAAAG
33051459 AAGAAGAAAAAGAA
1 AAGAAGAAAAAGAA
*
33051473 AAGAAGAAGAAGAA
1 AAGAAGAAAAAGAA
33051487 AAGAA
1 AAGAA
33051492 ATGGAAAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (14 bp):
AAGAAGAAAAAGAA
Found at i:33051479 original size:20 final size:19
Alignment explanation
Indices: 33051451--33051492 Score: 66
Period size: 20 Copynumber: 2.2 Consensus size: 19
33051441 TCCTTTAACC
33051451 AAAAAAAGAAGAAGAAAAAG
1 AAAAAAAGAAGAAG-AAAAG
*
33051471 AAAAGAAGAAGAAGAAAAG
1 AAAAAAAGAAGAAGAAAAG
33051490 AAA
1 AAA
33051493 TGGAAAAGCA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 8 0.38
20 13 0.62
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (19 bp):
AAAAAAAGAAGAAGAAAAG
Found at i:33054940 original size:16 final size:17
Alignment explanation
Indices: 33054916--33054955 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
33054906 AAATATATAT
*
33054916 ATAAATATA-TGTTTGA
1 ATAAATATAGTGTTGGA
*
33054932 ATAATTATAGTGTTGGA
1 ATAAATATAGTGTTGGA
33054949 ATAAATA
1 ATAAATA
33054956 ATTAAGTTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
16 8 0.40
17 12 0.60
ACGTcount: A:0.45, C:0.00, G:0.15, T:0.40
Consensus pattern (17 bp):
ATAAATATAGTGTTGGA
Found at i:33056148 original size:3 final size:3
Alignment explanation
Indices: 33056140--33056174 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
33056130 GTGCACATGC
33056140 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
33056175 AAGGATATGG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TCT
Found at i:33056897 original size:39 final size:39
Alignment explanation
Indices: 33056854--33056957 Score: 111
Period size: 42 Copynumber: 2.6 Consensus size: 39
33056844 GGCGAGGAAA
* * *
33056854 AGATCAATTTCAATTTTTTTCATCAACATGGCGAA-GTGG
1 AGATCAATTTCATTTTTTTTCACCAACATGAC-AAGGTGG
*
33056893 AGATCAATTCCATTTTTTTTTACCACCAACATGACAAGGTGG
1 AGATCAATTTCA-TTTTTTTT--CACCAACATGACAAGGTGG
*
33056935 AGATCAATATTGATTTTTTTTCA
1 AGATCAAT-TTCATTTTTTTTCA
33056958 ACATCAACAC
Statistics
Matches: 54, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
39 11 0.20
40 9 0.17
41 2 0.04
42 30 0.56
43 2 0.04
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.38
Consensus pattern (39 bp):
AGATCAATTTCATTTTTTTTCACCAACATGACAAGGTGG
Found at i:33056966 original size:43 final size:42
Alignment explanation
Indices: 33056854--33057079 Score: 131
Period size: 43 Copynumber: 5.4 Consensus size: 42
33056844 GGCGAGGAAA
* * *
33056854 AGATCAATTTCAATTTTTTT---CATCAACATGGCGAA-GTGG
1 AGATCAATTCCATTTTTTTTCAACATCAACATGAC-AAGGTGG
* * *
33056893 AGATCAATTCCATTTTTTTTTACCACCAACATGACAAGGTGG
1 AGATCAATTCCATTTTTTTTCAACATCAACATGACAAGGTGG
** ** *
33056935 AGATCAATATTGATTTTTTTTCAACATCAACACAACAAGGCGG
1 AGATCAAT-TCCATTTTTTTTCAACATCAACATGACAAGGTGG
* * *** * ***
33056978 AGATTAGTTCTGGGTTTTTTTCAACA-CTAACATGGCAAGGCAA
1 AGATCAATTC-CATTTTTTTTCAACATC-AACATGACAAGGTGG
* * * * * *
33057021 AGATCAGTTCCAATTTTTTT-AACACCAATATGGCAAGATGG
1 AGATCAATTCCATTTTTTTTCAACATCAACATGACAAGGTGG
*
33057062 AGATCAATTCCAATTTTT
1 AGATCAATTCCATTTTTT
33057080 GCCTCTCTTT
Statistics
Matches: 147, Mismatches: 32, Indels: 14
0.76 0.17 0.07
Matches are distributed among these distances:
39 18 0.12
41 33 0.22
42 32 0.22
43 64 0.44
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.34
Consensus pattern (42 bp):
AGATCAATTCCATTTTTTTTCAACATCAACATGACAAGGTGG
Found at i:33059886 original size:5 final size:6
Alignment explanation
Indices: 33059872--33059901 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
33059862 AGTTTATTTG
*
33059872 TTTTAT TTTTAT TTTTAT TTTTAT GTTTAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
33059902 ACTTATTTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.00, G:0.03, T:0.80
Consensus pattern (6 bp):
TTTTAT
Found at i:33059907 original size:18 final size:18
Alignment explanation
Indices: 33059872--33059910 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
33059862 AGTTTATTTG
* **
33059872 TTTTATTTTTATTTTTAT
1 TTTTATGTTTATACTTAT
33059890 TTTTATGTTTATACTTAT
1 TTTTATGTTTATACTTAT
33059908 TTT
1 TTT
33059911 CTTAGACTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.18, C:0.03, G:0.03, T:0.77
Consensus pattern (18 bp):
TTTTATGTTTATACTTAT
Found at i:33066502 original size:83 final size:84
Alignment explanation
Indices: 33066362--33066528 Score: 327
Period size: 83 Copynumber: 2.0 Consensus size: 84
33066352 GACTGAAATG
33066362 CGAGACATACTCCACAAAAATAAAATAATAATTTAATATTATCACTTAATTATTTTATTTTTAAT
1 CGAGACATACTCCACAAAAATAAAATAATAATTTAATATTATCACTTAATTATTTTATTTTTAAT
33066427 TAATGATAATGTAAAATTT
66 TAATGATAATGTAAAATTT
33066446 CGAGACATAC-CCACAAAAATAAAATAATAATTTAATATTATCACTTAATTATTTTATTTTTAAT
1 CGAGACATACTCCACAAAAATAAAATAATAATTTAATATTATCACTTAATTATTTTATTTTTAAT
33066510 TAATGATAATGTAAAATTT
66 TAATGATAATGTAAAATTT
33066529 TAATATTTAT
Statistics
Matches: 83, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
83 73 0.88
84 10 0.12
ACGTcount: A:0.46, C:0.10, G:0.05, T:0.40
Consensus pattern (84 bp):
CGAGACATACTCCACAAAAATAAAATAATAATTTAATATTATCACTTAATTATTTTATTTTTAAT
TAATGATAATGTAAAATTT
Found at i:33076419 original size:11 final size:10
Alignment explanation
Indices: 33076308--33076430 Score: 51
Period size: 10 Copynumber: 12.3 Consensus size: 10
33076298 AATATGATTT
33076308 TTAAATAATTA
1 TTAAA-AATTA
33076319 TTTAAAAATT-
1 -TTAAAAATTA
*
33076329 TATATAAATTTA
1 T-TA-AAAATTA
* **
33076341 TTTAAAATGG
1 TTAAAAATTA
*
33076351 TTAAGAATTA
1 TTAAAAATTA
*
33076361 TAAAAAATTA
1 TTAAAAATTA
* *
33076371 TAAAAAATCA
1 TTAAAAATTA
33076381 TT--AAATTGA
1 TTAAAAATT-A
*
33076390 TTAAGAA--A
1 TTAAAAATTA
*
33076398 TGAAAAA-TA
1 TTAAAAATTA
33076407 TTTAAAAATTA
1 -TTAAAAATTA
*
33076418 TTAAAAATAA
1 TTAAAAATTA
33076428 TTA
1 TTA
33076431 TTGGAATGAA
Statistics
Matches: 83, Mismatches: 19, Indels: 20
0.68 0.16 0.16
Matches are distributed among these distances:
8 10 0.12
9 5 0.06
10 48 0.58
11 14 0.17
12 6 0.07
ACGTcount: A:0.56, C:0.01, G:0.05, T:0.38
Consensus pattern (10 bp):
TTAAAAATTA
Found at i:33077724 original size:13 final size:13
Alignment explanation
Indices: 33077706--33077752 Score: 94
Period size: 13 Copynumber: 3.6 Consensus size: 13
33077696 AGTATCAGGG
33077706 GACACACGGCTGT
1 GACACACGGCTGT
33077719 GACACACGGCTGT
1 GACACACGGCTGT
33077732 GACACACGGCTGT
1 GACACACGGCTGT
33077745 GACACACG
1 GACACACG
33077753 TCCGTGTGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 34 1.00
ACGTcount: A:0.26, C:0.32, G:0.30, T:0.13
Consensus pattern (13 bp):
GACACACGGCTGT
Found at i:33078765 original size:50 final size:49
Alignment explanation
Indices: 33078695--33078791 Score: 117
Period size: 50 Copynumber: 1.9 Consensus size: 49
33078685 TACGAGCCAT
* *
33078695 AATCGGTAAGCTCTTCCGAGCT-AAAATACGGTAAGCTCATACGAGCTGAG
1 AATCGATAAGCTCTTCCGAGCTCAAAAT--GGTAAGCTCATACAAGCTGAG
*
33078745 AATCGATAAGCTC-TCACGAGCTGCAAAGTGGTAAGCTCATACAAGCT
1 AATCGATAAGCTCTTC-CGAGCT-CAAAATGGTAAGCTCATACAAGCT
33078792 ATGGTGAGTC
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
49 2 0.05
50 35 0.85
52 4 0.10
ACGTcount: A:0.33, C:0.23, G:0.23, T:0.22
Consensus pattern (49 bp):
AATCGATAAGCTCTTCCGAGCTCAAAATGGTAAGCTCATACAAGCTGAG
Found at i:33078791 original size:25 final size:25
Alignment explanation
Indices: 33078695--33078791 Score: 85
Period size: 25 Copynumber: 3.9 Consensus size: 25
33078685 TACGAGCCAT
* * *
33078695 AATCGGTAAGCTCTTCCGAGCT-AA
1 AATCGGTAAGCTCATACGAGCTGAG
33078719 AATACGGTAAGCTCATACGAGCTGAG
1 AAT-CGGTAAGCTCATACGAGCTGAG
*
33078745 AATCGATAAGCTC-TCACGAGCTGCA-
1 AATCGGTAAGCTCAT-ACGAGCTG-AG
*
33078770 AAGT-GGTAAGCTCATACAAGCT
1 AA-TCGGTAAGCTCATACGAGCT
33078792 ATGGTGAGTC
Statistics
Matches: 61, Mismatches: 6, Indels: 11
0.78 0.08 0.14
Matches are distributed among these distances:
24 4 0.07
25 50 0.82
26 7 0.11
ACGTcount: A:0.33, C:0.23, G:0.23, T:0.22
Consensus pattern (25 bp):
AATCGGTAAGCTCATACGAGCTGAG
Found at i:33079980 original size:15 final size:14
Alignment explanation
Indices: 33079959--33079994 Score: 63
Period size: 15 Copynumber: 2.5 Consensus size: 14
33079949 ATAATCATTA
33079959 ATAATTATCCTAAT
1 ATAATTATCCTAAT
33079973 ATTAATTATCCTAAT
1 A-TAATTATCCTAAT
33079988 ATAATTA
1 ATAATTA
33079995 AAATAGAGTC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 7 0.33
15 14 0.67
ACGTcount: A:0.44, C:0.11, G:0.00, T:0.44
Consensus pattern (14 bp):
ATAATTATCCTAAT
Found at i:33080224 original size:11 final size:11
Alignment explanation
Indices: 33080208--33080240 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
33080198 TGATCATACT
33080208 CATAATAAATA
1 CATAATAAATA
*
33080219 CATAATTAATA
1 CATAATAAATA
33080230 CATAA-AAATA
1 CATAATAAATA
33080240 C
1 C
33080241 GTTATTCTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
10 5 0.25
11 15 0.75
ACGTcount: A:0.61, C:0.12, G:0.00, T:0.27
Consensus pattern (11 bp):
CATAATAAATA
Found at i:33084426 original size:42 final size:42
Alignment explanation
Indices: 33084374--33084462 Score: 126
Period size: 42 Copynumber: 2.1 Consensus size: 42
33084364 GTCCCCTCCC
* * *
33084374 AAGG-CTAGGTAGTCTTGTTGTGAGTCTTGGGCTTGGGAGGG
1 AAGGACTAGGTAGTCTTGTGGTGAGTCTTGGGCATGGGAAGG
*
33084415 AAGGACTAGGTAGTCTTGTGGTGAGTTTTGGGCATGGGAAGG
1 AAGGACTAGGTAGTCTTGTGGTGAGTCTTGGGCATGGGAAGG
*
33084457 ATGGAC
1 AAGGAC
33084463 CAAGGCTAAG
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
41 4 0.10
42 38 0.90
ACGTcount: A:0.19, C:0.09, G:0.43, T:0.29
Consensus pattern (42 bp):
AAGGACTAGGTAGTCTTGTGGTGAGTCTTGGGCATGGGAAGG
Found at i:33088640 original size:14 final size:14
Alignment explanation
Indices: 33088621--33088647 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
33088611 CTAAATATTT
33088621 TTTGAATAATTATG
1 TTTGAATAATTATG
33088635 TTTGAATAATTAT
1 TTTGAATAATTAT
33088648 TTGATTTTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.52
Consensus pattern (14 bp):
TTTGAATAATTATG
Found at i:33101029 original size:19 final size:20
Alignment explanation
Indices: 33101002--33101046 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
33100992 TGTTAAAATT
* *
33101002 AAATTAATTAA-CTATATGC
1 AAATGAATTAACCTAAATGC
33101021 AAATGAATTAACCTAAATGC
1 AAATGAATTAACCTAAATGC
33101041 -AATGAA
1 AAATGAA
33101047 ATGGTTTAGC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.51, C:0.11, G:0.09, T:0.29
Consensus pattern (20 bp):
AAATGAATTAACCTAAATGC
Found at i:33102702 original size:14 final size:14
Alignment explanation
Indices: 33102685--33102714 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
33102675 TTAGATTGTA
*
33102685 AAGATTAGTACTGT
1 AAGATTAGAACTGT
33102699 AAGATTAGAACTGT
1 AAGATTAGAACTGT
33102713 AA
1 AA
33102715 TGTTTAATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.07, G:0.20, T:0.30
Consensus pattern (14 bp):
AAGATTAGAACTGT
Found at i:33104194 original size:12 final size:12
Alignment explanation
Indices: 33104177--33104205 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
33104167 GGTTTCGTGA
33104177 CCACACGGGTGG
1 CCACACGGGTGG
33104189 CCACACGGGTGG
1 CCACACGGGTGG
33104201 CCACA
1 CCACA
33104206 TGGGCGTGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.21, C:0.38, G:0.34, T:0.07
Consensus pattern (12 bp):
CCACACGGGTGG
Found at i:33110126 original size:15 final size:16
Alignment explanation
Indices: 33110102--33110140 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
33110092 GGTTTAGATA
*
33110102 CTTTTTTTTATATTT-
1 CTTTTCTTTATATTTC
*
33110117 CTTTTCTTTATTTTTC
1 CTTTTCTTTATATTTC
33110133 CTTTTCTT
1 CTTTTCTT
33110141 GTAAACAGTC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 13 0.62
16 8 0.38
ACGTcount: A:0.08, C:0.15, G:0.00, T:0.77
Consensus pattern (16 bp):
CTTTTCTTTATATTTC
Found at i:33116484 original size:13 final size:14
Alignment explanation
Indices: 33116466--33116494 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
33116456 AGTAGTGATA
33116466 GCTTACAT-AGTTC
1 GCTTACATGAGTTC
33116479 GCTTACATGAGTTC
1 GCTTACATGAGTTC
33116493 GC
1 GC
33116495 GTCATCATGC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.21, C:0.24, G:0.21, T:0.34
Consensus pattern (14 bp):
GCTTACATGAGTTC
Found at i:33119296 original size:6 final size:7
Alignment explanation
Indices: 33119280--33119307 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
33119270 TGTGTATTGA
33119280 TTTTAGT
1 TTTTAGT
33119287 TTTTAGT
1 TTTTAGT
33119294 TTTTAGT
1 TTTTAGT
33119301 TTTTAGT
1 TTTTAGT
33119308 ATTGGAATGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.14, C:0.00, G:0.14, T:0.71
Consensus pattern (7 bp):
TTTTAGT
Found at i:33126585 original size:18 final size:17
Alignment explanation
Indices: 33126559--33126594 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
33126549 TTTGGTTATA
33126559 TTTAATTTTCGATATGTT
1 TTTAATTTT-GATATGTT
*
33126577 TTTATTTTTGATATGTT
1 TTTAATTTTGATATGTT
33126594 T
1 T
33126595 CATTTAAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.19, C:0.03, G:0.11, T:0.67
Consensus pattern (17 bp):
TTTAATTTTGATATGTT
Found at i:33127191 original size:27 final size:27
Alignment explanation
Indices: 33127159--33127217 Score: 118
Period size: 27 Copynumber: 2.2 Consensus size: 27
33127149 TCATATAATA
33127159 TATGTATATTTCTGTAGAACTAGAAAC
1 TATGTATATTTCTGTAGAACTAGAAAC
33127186 TATGTATATTTCTGTAGAACTAGAAAC
1 TATGTATATTTCTGTAGAACTAGAAAC
33127213 TATGT
1 TATGT
33127218 TTTTTGAATG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.36, C:0.10, G:0.15, T:0.39
Consensus pattern (27 bp):
TATGTATATTTCTGTAGAACTAGAAAC
Found at i:33130692 original size:58 final size:58
Alignment explanation
Indices: 33130630--33130768 Score: 154
Period size: 58 Copynumber: 2.4 Consensus size: 58
33130620 TTAATTCATA
*
33130630 TAATAATAATTTTATTAAGAATTTTATTAAATTATATATCA-TTTTATTAAATTATATT
1 TAATAATAATTTTATTAA-AATTTGATTAAATTATATATCATTTTTATTAAATTATATT
* * * * * * * * *
33130688 TAATAATTATTATGTTAAAATATGGTTAAATTATTTATTATTTTTATTAAATTGTTTT
1 TAATAATAATTTTATTAAAATTTGATTAAATTATATATCATTTTTATTAAATTATATT
* *
33130746 TAACAATAATCTTATTAAAATTT
1 TAATAATAATTTTATTAAAATTT
33130769 AATAACAATA
Statistics
Matches: 64, Mismatches: 16, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
57 17 0.27
58 47 0.73
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.53
Consensus pattern (58 bp):
TAATAATAATTTTATTAAAATTTGATTAAATTATATATCATTTTTATTAAATTATATT
Found at i:33130918 original size:43 final size:46
Alignment explanation
Indices: 33130863--33130950 Score: 114
Period size: 45 Copynumber: 2.0 Consensus size: 46
33130853 AACATCGTTC
33130863 CATTCAACCAAACACA-AGAA-TACT-ATTACAG-TTCTATTTCATTT
1 CATTCAACCAAACA-ATAGAATTACTGATTACAGCTT-TATTTCATTT
*
33130907 CATT-AACCAAACAATTGAATTACTGATTACAGCTTTATTTCATT
1 CATTCAACCAAACAATAGAATTACTGATTACAGCTTTATTTCATT
33130951 ACAGCTCTAT
Statistics
Matches: 39, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
42 1 0.03
43 12 0.31
44 8 0.21
45 16 0.41
46 2 0.05
ACGTcount: A:0.38, C:0.20, G:0.06, T:0.36
Consensus pattern (46 bp):
CATTCAACCAAACAATAGAATTACTGATTACAGCTTTATTTCATTT
Found at i:33130953 original size:16 final size:16
Alignment explanation
Indices: 33130932--33130985 Score: 74
Period size: 16 Copynumber: 3.4 Consensus size: 16
33130922 TGAATTACTG
*
33130932 ATTACAGCTTTATTTC
1 ATTACAGCTCTATTTC
33130948 ATTACAGCTCTA-TTC
1 ATTACAGCTCTATTTC
*
33130963 AATTACAGCTCTATTCC
1 -ATTACAGCTCTATTTC
33130980 ATTACA
1 ATTACA
33130986 ATAAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
15 3 0.09
16 29 0.85
17 2 0.06
ACGTcount: A:0.30, C:0.24, G:0.06, T:0.41
Consensus pattern (16 bp):
ATTACAGCTCTATTTC
Found at i:33139747 original size:11 final size:12
Alignment explanation
Indices: 33139723--33139752 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
33139713 TTAAACTGTC
33139723 AAAATGTATAAA
1 AAAATGTATAAA
33139735 AAAATGTATAAA
1 AAAATGTATAAA
33139747 AAAATG
1 AAAATG
33139753 CCATTTGATC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.67, C:0.00, G:0.10, T:0.23
Consensus pattern (12 bp):
AAAATGTATAAA
Found at i:33143285 original size:9 final size:10
Alignment explanation
Indices: 33143262--33143314 Score: 63
Period size: 10 Copynumber: 5.4 Consensus size: 10
33143252 NNNAAATCAA
33143262 AAAAAATTAT
1 AAAAAATTAT
*
33143272 AAAAAATTGT
1 AAAAAATTAT
**
33143282 AAAATTTTAT
1 AAAAAATTAT
*
33143292 -AAAAATCAT
1 AAAAAATTAT
33143301 AAAAAATTAT
1 AAAAAATTAT
33143311 AAAA
1 AAAA
33143315 TGTATCAAAA
Statistics
Matches: 34, Mismatches: 8, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
9 6 0.18
10 28 0.82
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (10 bp):
AAAAAATTAT
Found at i:33143324 original size:29 final size:29
Alignment explanation
Indices: 33143263--33143325 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 29
33143253 NNAAATCAAA
* * *
33143263 AAAAATTATAAAAAATTGTAAAATTTTAT
1 AAAAATCATAAAAAATTATAAAATTGTAT
33143292 AAAAATCATAAAAAATTATAAAA-TGTAT
1 AAAAATCATAAAAAATTATAAAATTGTAT
33143320 CAAAAA
1 -AAAAA
33143326 GGCCCTTTGA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
28 4 0.13
29 26 0.87
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.30
Consensus pattern (29 bp):
AAAAATCATAAAAAATTATAAAATTGTAT
Found at i:33143672 original size:11 final size:12
Alignment explanation
Indices: 33143648--33143677 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
33143638 TTAAACTGTC
33143648 AAAATGTATAAA
1 AAAATGTATAAA
33143660 AAAATGTATAAA
1 AAAATGTATAAA
33143672 AAAATG
1 AAAATG
33143678 CCATTTGATC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.67, C:0.00, G:0.10, T:0.23
Consensus pattern (12 bp):
AAAATGTATAAA
Found at i:33144580 original size:15 final size:16
Alignment explanation
Indices: 33144560--33144596 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
33144550 ACGTGACAAT
33144560 AATATTATCATT-CTA
1 AATATTATCATTACTA
*
33144575 AATATTATGATTACTA
1 AATATTATCATTACTA
33144591 AA-ATTA
1 AATATTA
33144597 ACTTTACACA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 15 0.75
16 5 0.25
ACGTcount: A:0.46, C:0.08, G:0.03, T:0.43
Consensus pattern (16 bp):
AATATTATCATTACTA
Found at i:33147153 original size:20 final size:20
Alignment explanation
Indices: 33147124--33147161 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
33147114 TGTTATACTT
* *
33147124 TGATTGATTAAGTAAAAATA
1 TGATTAATTAAGGAAAAATA
33147144 TGATTAATTAAGGAAAAA
1 TGATTAATTAAGGAAAAA
33147162 AAACATGATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.16, T:0.32
Consensus pattern (20 bp):
TGATTAATTAAGGAAAAATA
Found at i:33147842 original size:17 final size:18
Alignment explanation
Indices: 33147820--33147853 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
33147810 ATTTGAACCA
*
33147820 TTATAAT-TGTTGCATAT
1 TTATAATATATTGCATAT
33147837 TTATAATATATTGCATA
1 TTATAATATATTGCATA
33147854 GTATGATGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.35, C:0.06, G:0.09, T:0.50
Consensus pattern (18 bp):
TTATAATATATTGCATAT
Found at i:33151927 original size:15 final size:15
Alignment explanation
Indices: 33151909--33151956 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
33151899 AATTAAGTAA
33151909 ATGTTAATTAATATG
1 ATGTTAATTAATATG
*
33151924 ATGTTATATTAATGTG
1 ATGTTA-ATTAATATG
** *
33151940 AAATTAATTAATTTG
1 ATGTTAATTAATATG
33151955 AT
1 AT
33151957 CATATCTTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
15 15 0.56
16 12 0.44
ACGTcount: A:0.40, C:0.00, G:0.12, T:0.48
Consensus pattern (15 bp):
ATGTTAATTAATATG
Found at i:33154246 original size:25 final size:27
Alignment explanation
Indices: 33154193--33154256 Score: 89
Period size: 25 Copynumber: 2.4 Consensus size: 27
33154183 TAAAAAAATA
33154193 ACCAAAATAT-TATAACTTTTTTTAATT
1 ACCAAAATATATATAAC-TTTTTTAATT
*
33154220 ACCAAAATATATAT-A-TTTTTTATTT
1 ACCAAAATATATATAACTTTTTTAATT
33154245 ACCAAAATATAT
1 ACCAAAATATAT
33154257 CAAAAAAACT
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
25 21 0.60
27 11 0.31
28 3 0.09
ACGTcount: A:0.44, C:0.11, G:0.00, T:0.45
Consensus pattern (27 bp):
ACCAAAATATATATAACTTTTTTAATT
Found at i:33154362 original size:27 final size:27
Alignment explanation
Indices: 33154307--33154406 Score: 110
Period size: 27 Copynumber: 3.7 Consensus size: 27
33154297 CCTTGGTCAC
* **
33154307 GCCAAAACGATTGGCGGCACCAAAAGT
1 GCCAAAACCATTGGCGGCACCAATGGT
* *
33154334 GCCAAAACCATTTGCGGCACTAATGGT
1 GCCAAAACCATTGGCGGCACCAATGGT
** *
33154361 GCCAATGCCATTGGTGGCACCAATGGT
1 GCCAAAACCATTGGCGGCACCAATGGT
**
33154388 GCCAATGCCATTGGCGGCA
1 GCCAAAACCATTGGCGGCA
33154407 TTACTCGTGT
Statistics
Matches: 62, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 62 1.00
ACGTcount: A:0.28, C:0.27, G:0.27, T:0.18
Consensus pattern (27 bp):
GCCAAAACCATTGGCGGCACCAATGGT
Found at i:33154507 original size:11 final size:11
Alignment explanation
Indices: 33154491--33154529 Score: 62
Period size: 11 Copynumber: 3.6 Consensus size: 11
33154481 GGTGCTGCGG
33154491 AAAAGAAGAGA
1 AAAAGAAGAGA
33154502 AAAAG-AGAGA
1 AAAAGAAGAGA
*
33154512 AAGAGAAGAGA
1 AAAAGAAGAGA
33154523 AAAAGAA
1 AAAAGAA
33154530 TGTATTTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
10 9 0.36
11 16 0.64
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (11 bp):
AAAAGAAGAGA
Found at i:33154520 original size:21 final size:20
Alignment explanation
Indices: 33154490--33154528 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
33154480 AGGTGCTGCG
33154490 GAAAAGAAGAGAAAAAGAGA
1 GAAAAGAAGAGAAAAAGAGA
33154510 GAAAGAGAAGAGAAAAAGA
1 GAAA-AGAAGAGAAAAAGA
33154529 ATGTATTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (20 bp):
GAAAAGAAGAGAAAAAGAGA
Found at i:33154564 original size:26 final size:26
Alignment explanation
Indices: 33154528--33154579 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
33154518 AGAGAAAAAG
33154528 AATGTATTTTTTTAAAAATAATTGAT
1 AATGTATTTTTTTAAAAATAATTGAT
33154554 AATGTATTTTTTTAAAAATAATTGAT
1 AATGTATTTTTTTAAAAATAATTGAT
33154580 TATATTGTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (26 bp):
AATGTATTTTTTTAAAAATAATTGAT
Found at i:33154688 original size:3 final size:3
Alignment explanation
Indices: 33154682--33155214 Score: 1057
Period size: 3 Copynumber: 177.7 Consensus size: 3
33154672 AGTAATATTA
*
33154682 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTA TTG TTG TTG TTG
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
33154730 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
33154778 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
33154826 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
33154874 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
33154922 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
33154970 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
33155018 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
33155066 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
33155114 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
33155162 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
33155210 TTG TT
1 TTG TT
33155215 AGTATTAAGA
Statistics
Matches: 528, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 528 1.00
ACGTcount: A:0.00, C:0.00, G:0.33, T:0.67
Consensus pattern (3 bp):
TTG
Found at i:33162022 original size:4 final size:4
Alignment explanation
Indices: 33162006--33162144 Score: 65
Period size: 4 Copynumber: 34.0 Consensus size: 4
33161996 TTCCTTTCCT
*
33162006 TTTC TTTC CTTC TTTC TTTC TTT- TTTC TTCTCC TTTCC TTT- TCTTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TT-T-C TTT-C TTTC T-TTC
* * * * * *
33162052 -TTC TGTC ATTC TTTT TTTC TCTTC -TCC TTTCC TTTTC CTTC CTTC -TT-
1 TTTC TTTC TTTC TTTC TTTC T-TTC TTTC TTT-C -TTTC TTTC TTTC TTTC
* * *
33162099 TTTC TTTC TTTCC TCTCC TTCC TGTC TTTC TTTC TTTC TTTC TTTC
1 TTTC TTTC TTT-C T-TTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC
33162145 CCTCTCCTTC
Statistics
Matches: 106, Mismatches: 15, Indels: 28
0.71 0.10 0.19
Matches are distributed among these distances:
3 13 0.12
4 70 0.66
5 16 0.15
6 7 0.07
ACGTcount: A:0.01, C:0.32, G:0.01, T:0.66
Consensus pattern (4 bp):
TTTC
Done.