Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 262 of 320
Found at i:85272608 original size:19 final size:19
Alignment explanation
Indices: 85272584--85272623 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
85272574 TTTAAAACAA
* * *
85272584 ATTAAATTATCAATCATTT
1 ATTAAAATATAAATAATTT
85272603 ATTAAAATATAAATAATTT
1 ATTAAAATATAAATAATTT
85272622 AT
1 AT
85272624 CTTTTTCAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (19 bp):
ATTAAAATATAAATAATTT
Found at i:85272889 original size:38 final size:37
Alignment explanation
Indices: 85272846--85272918 Score: 94
Period size: 39 Copynumber: 1.9 Consensus size: 37
85272836 TTTAACTTTT
*
85272846 TTAAAATTA-AAAATTATTATAAAATTAATTTTAAATAA
1 TTAAAATTATAAAAATATTATAAAA-T-ATTTTAAATAA
* *
85272884 TTAAAATTATAAAAATATTTTTAAATATTTTAAAT
1 TTAAAATTATAAAAATATTATAAAATATTTTAAAT
85272919 TTTGAAAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
37 9 0.29
38 10 0.32
39 12 0.39
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (37 bp):
TTAAAATTATAAAAATATTATAAAATATTTTAAATAA
Found at i:85272896 original size:28 final size:28
Alignment explanation
Indices: 85272861--85272919 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 28
85272851 ATTAAAAATT
*
85272861 ATTATAAAATTAATTTTAAATAATTAAA
1 ATTATAAAAATAATTTTAAATAATTAAA
* * *
85272889 ATTATAAAAATATTTTTAAATATTTTAA
1 ATTATAAAAATAATTTTAAATAATTAAA
85272917 ATT
1 ATT
85272920 TTGAAAAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (28 bp):
ATTATAAAAATAATTTTAAATAATTAAA
Found at i:85275034 original size:103 final size:102
Alignment explanation
Indices: 85274887--85275120 Score: 247
Period size: 103 Copynumber: 2.3 Consensus size: 102
85274877 GTCTTACACG
* ** * * * *
85274887 TATATTGCCATGGCCCTGCCATGGTCTTACATTCGTAGTGCCATAACCCCGTTATGGTCTTACCA
1 TATATTGCCATGGTCCAACCATGGTCTTATATTCGAAGTGCCATAACCCAGTTATAGTCTTACCA
** * **
85274952 TCAGGATGCCATAGCCTAGCTATGGTCTTACACATAAA
66 TCAAAATGCCATAGCCCAGCTATAATCTTACA-ATAAA
* * **
85274990 TATATTGCCATGGTCCAACCATGGTCTTATGTTC-AAGATGCCATAACCCAGTTATAGTTTTTTC
1 TATATTGCCATGGTCCAACCATGGTCTTATATTCGAAG-TGCCATAACCCAGTTATAGTCTTACC
* * * *
85275054 ATTAAAATGTCATAGCCCAGCTATAATCTTACATTTAA
65 ATCAAAATGCCATAGCCCAGCTATAATCTTACAATAAA
*
85275092 -ATATTGGCATGGTCCAACCATGGTCTTAT
1 TATATTGCCATGGTCCAACCATGGTCTTAT
85275121 CCGTTAATTC
Statistics
Matches: 109, Mismatches: 21, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
101 28 0.26
102 5 0.05
103 76 0.70
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.33
Consensus pattern (102 bp):
TATATTGCCATGGTCCAACCATGGTCTTATATTCGAAGTGCCATAACCCAGTTATAGTCTTACCA
TCAAAATGCCATAGCCCAGCTATAATCTTACAATAAA
Found at i:85284308 original size:126 final size:125
Alignment explanation
Indices: 85284154--85284482 Score: 446
Period size: 127 Copynumber: 2.6 Consensus size: 125
85284144 TTTATTGGTC
* ** * *
85284154 CAAATAAAA-ATCGAAACCCAATACGTTAGGGCACGATTTCTCGAATCTCCAAACATAGAACATT
1 CAAACAAAAGATCGAAACCCAGCACGTTAGGGCACGATTTC-CGAATTTCCAAACATA-AACATC
* *
85284218 GCC-TTGTTTTGAAGTTTAGAAAACGCGGACGAAATTTTAAAGGGATATTTGATTATTTGGA
64 GCCTTTGTTTTAAAGTTTAGAAAACGCAGACGAAATTTTAAAGGGATATTTGATTATTTGGA
* * * *
85284279 CAAACAAAAGATTGAAACCCAGCACGTTAGGGCACGATTTCCCGAATTTTCGAACAGCAAACATC
1 CAAACAAAAGATCGAAACCCAGCACGTTAGGGCACGATTT-CCGAATTTCCAAACA-TAAACATC
*
85284344 ACCTTTGTTTTAAAGTTTAGAAAACGCAGACGAAATTTTAAAGGGATATTTGATTATTTGGA
64 GCCTTTGTTTTAAAGTTTAGAAAACGCAGACGAAATTTTAAAGGGATATTTGATTATTTGGA
** * *
85284406 CAAACGGAATATCGAAACCCAGCACGTTAGGGCACGACTTTCCGAATTTCCAAGCATCAAACATC
1 CAAACAAAAGATCGAAACCCAGCACGTTAGGGCACGA-TTTCCGAATTTCCAAACAT-AAACATC
85284471 GCCTTTGTTTTA
64 GCCTTTGTTTTA
85284483 TAGAGTCGGC
Statistics
Matches: 177, Mismatches: 21, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
125 8 0.05
126 45 0.25
127 121 0.68
128 3 0.02
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.27
Consensus pattern (125 bp):
CAAACAAAAGATCGAAACCCAGCACGTTAGGGCACGATTTCCGAATTTCCAAACATAAACATCGC
CTTTGTTTTAAAGTTTAGAAAACGCAGACGAAATTTTAAAGGGATATTTGATTATTTGGA
Found at i:85286531 original size:23 final size:23
Alignment explanation
Indices: 85286481--85286533 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
85286471 ATTACAATTG
* *
85286481 TTTCTTT-TTTCATTTTATGTTA
1 TTTCTTTGTTGCATTTTATGTCA
85286503 TTTCTTTGTTGCACTTTT-TGTCA
1 TTTCTTTGTTGCA-TTTTATGTCA
85286526 TTTCTTTG
1 TTTCTTTG
85286534 GCTTCTTCTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
22 7 0.26
23 16 0.59
24 4 0.15
ACGTcount: A:0.09, C:0.13, G:0.09, T:0.68
Consensus pattern (23 bp):
TTTCTTTGTTGCATTTTATGTCA
Found at i:85287623 original size:141 final size:141
Alignment explanation
Indices: 85287451--85287753 Score: 480
Period size: 141 Copynumber: 2.1 Consensus size: 141
85287441 GATTTACTCT
* * * *
85287451 ACTGCAACTTTAGAGAGATAAGATCTATTTATTTATAGCTTCAATCTGTTCAACTGCAACTTCAG
1 ACTGCAACTTCAGGGAGATAAGATCTATTTATTTATAGATTCAATCTGTTCAACTACAACTTCAG
* *
85287516 GGAAATAAGATTCGCTATCTTCAGTCTGCTCCACTACAACTTCAGGGAGATAAGACCTGTCACTT
66 GGAAATAAGATTCACTATCTTCAGTCTGCTCCACTACAACTTCAAGGAGATAAGACCTGTCACTT
85287581 CAACCTGCCCC
131 CAACCTGCCCC
* * * *
85287592 GCTGCAACTTCAGGGAGATAAGATCTGTTTATTTATAGATTCAATCTGTTCCACTACAACTTTAG
1 ACTGCAACTTCAGGGAGATAAGATCTATTTATTTATAGATTCAATCTGTTCAACTACAACTTCAG
* *
85287657 GGAAATAAGATTCACTATCTTCAGTCTGCTCTACTGCAACTTCAAGGAGATAAGACCTGTCACTT
66 GGAAATAAGATTCACTATCTTCAGTCTGCTCCACTACAACTTCAAGGAGATAAGACCTGTCACTT
* *
85287722 CAACTTGCTCC
131 CAACCTGCCCC
85287733 ACTGCAACTTCAGGGAGATAA
1 ACTGCAACTTCAGGGAGATAA
85287754 TGTTTGCTAT
Statistics
Matches: 147, Mismatches: 15, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
141 147 1.00
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (141 bp):
ACTGCAACTTCAGGGAGATAAGATCTATTTATTTATAGATTCAATCTGTTCAACTACAACTTCAG
GGAAATAAGATTCACTATCTTCAGTCTGCTCCACTACAACTTCAAGGAGATAAGACCTGTCACTT
CAACCTGCCCC
Found at i:85287710 original size:97 final size:97
Alignment explanation
Indices: 85287535--85288080 Score: 423
Period size: 97 Copynumber: 5.9 Consensus size: 97
85287525 ATTCGCTATC
* * * ** ** * **
85287535 TTCAGTCTGCTCCACTACAACTTCAGGGAGATAAGACCTG-TCA-CTTCAACCTGCCCCGCTGCA
1 TTCAATCTGTTCCACTACAACTTCAGGGAAATAAGATTTGCT-ATCTTCAGTCTGCTCTACTGCA
* *
85287598 ACTTCAGGGAGATAAGATCTGTTTATTTATAGA
65 ACTTCAAGGAGATAAGACCTGTTTATTTATAGA
* **
85287631 TTCAATCTGTTCCACTACAACTTTAGGGAAATAAGATTCACTATCTTCAGTCTGCTCTACTGCAA
1 TTCAATCTGTTCCACTACAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCTACTGCAA
* * *
85287696 CTTCAAGGAGATAAGACCTG-TCACTT-CA-A
66 CTTCAAGGAGATAAGACCTGTTTATTTATAGA
* * * *
85287725 --C--T-TGCTCCACTGCAACTTCAGGGAGATAATG-TTTGCTA---TGA-TCTGCTCTACTGCA
1 TTCAATCTGTTCCACTACAACTTCAGGGAAATAA-GATTTGCTATCTTCAGTCTGCTCTACTGCA
* * * *
85287780 ACTTC-AGAGAGATAATATCTATTTATTTATAGC
65 ACTTCAAG-GAGATAAGACCTGTTTATTTATAGA
* * *
85287813 TTCAATCTGTTCCACTATAACTTTATGGAAATAAGATTTGCTATCTTCAGTCTGCTCTACTGCAA
1 TTCAATCTGTTCCACTACAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCTACTGCAA
* * * *
85287878 CTTCAGGGAGATAAGACCTG-TCACTT-CA-A
66 CTTCAAGGAGATAAGACCTGTTTATTTATAGA
* * * * *
85287907 --C--T-TGCTCCGCTATAACTTCAGGGAGATAATG-TTTGCTA---TGA-TCTGCTCTACTGCA
1 TTCAATCTGTTCCACTACAACTTCAGGGAAATAA-GATTTGCTATCTTCAGTCTGCTCTACTGCA
* *
85287962 ACTTC-AGAGAGATAAGATCTGTTTATTTATAGC
65 ACTTCAAG-GAGATAAGACCTGTTTATTTATAGA
* ** * *
85287995 TTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCACTATCTTTAGTCTGCTCCACTGCAA
1 TTCAATCTGTTCCACTACAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCTACTGCAA
*
85288060 CTTCAGGGAGATAAGACCTGT
66 CTTCAAGGAGATAAGACCTGT
85288081 CACTTCAACC
Statistics
Matches: 346, Mismatches: 70, Indels: 67
0.72 0.14 0.14
Matches are distributed among these distances:
84 3 0.01
85 60 0.17
86 12 0.03
87 2 0.01
89 57 0.16
90 6 0.02
92 6 0.02
93 55 0.16
94 1 0.00
95 2 0.01
96 45 0.13
97 95 0.27
98 2 0.01
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.32
Consensus pattern (97 bp):
TTCAATCTGTTCCACTACAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCTACTGCAA
CTTCAAGGAGATAAGACCTGTTTATTTATAGA
Found at i:85287781 original size:182 final size:182
Alignment explanation
Indices: 85287593--85288117 Score: 888
Period size: 182 Copynumber: 2.9 Consensus size: 182
85287583 ACCTGCCCCG
* *
85287593 CTGCAACTTCAGGGAGATAAGATCTGTTTATTTATAGATTCAATCTGTTCCACTACAACTTTAGG
1 CTGCAACTTCAGAGAGATAAGATCTGTTTATTTATAGCTTCAATCTGTTCCACTACAACTTTAGG
*
85287658 GAAATAAGATTCACTATCTTCAGTCTGCTCTACTGCAACTTCAAGGAGATAAGACCTGTCACTTC
66 GAAATAAGATTCACTATCTTCAGTCTGCTCTACTGCAACTTCAGGGAGATAAGACCTGTCACTTC
85287723 AACTTGCTCCACTGCAACTTCAGGGAGATAATGTTTGCTATGATCTGCTCTA
131 AACTTGCTCCACTGCAACTTCAGGGAGATAATGTTTGCTATGATCTGCTCTA
* * * *
85287775 CTGCAACTTCAGAGAGATAATATCTATTTATTTATAGCTTCAATCTGTTCCACTATAACTTTATG
1 CTGCAACTTCAGAGAGATAAGATCTGTTTATTTATAGCTTCAATCTGTTCCACTACAACTTTAGG
**
85287840 GAAATAAGATTTGCTATCTTCAGTCTGCTCTACTGCAACTTCAGGGAGATAAGACCTGTCACTTC
66 GAAATAAGATTCACTATCTTCAGTCTGCTCTACTGCAACTTCAGGGAGATAAGACCTGTCACTTC
* **
85287905 AACTTGCTCCGCTATAACTTCAGGGAGATAATGTTTGCTATGATCTGCTCTA
131 AACTTGCTCCACTGCAACTTCAGGGAGATAATGTTTGCTATGATCTGCTCTA
* *
85287957 CTGCAACTTCAGAGAGATAAGATCTGTTTATTTATAGCTTCAATCTGTTCCACTGCAACTTCAGG
1 CTGCAACTTCAGAGAGATAAGATCTGTTTATTTATAGCTTCAATCTGTTCCACTACAACTTTAGG
* *
85288022 GAAATAAGATTCACTATCTTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACCTGTCACTTC
66 GAAATAAGATTCACTATCTTCAGTCTGCTCTACTGCAACTTCAGGGAGATAAGACCTGTCACTTC
* *
85288087 AACCTGCTCCACTGCAATTTCAGGGAGATAA
131 AACTTGCTCCACTGCAACTTCAGGGAGATAA
85288118 GGTTGTGAAT
Statistics
Matches: 316, Mismatches: 27, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
182 316 1.00
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.33
Consensus pattern (182 bp):
CTGCAACTTCAGAGAGATAAGATCTGTTTATTTATAGCTTCAATCTGTTCCACTACAACTTTAGG
GAAATAAGATTCACTATCTTCAGTCTGCTCTACTGCAACTTCAGGGAGATAAGACCTGTCACTTC
AACTTGCTCCACTGCAACTTCAGGGAGATAATGTTTGCTATGATCTGCTCTA
Found at i:85288103 original size:323 final size:317
Alignment explanation
Indices: 85287362--85288118 Score: 760
Period size: 323 Copynumber: 2.3 Consensus size: 317
85287352 ATTTAGTCTA
* * * * * * *
85287362 CTCCACTGCAACTTTAAGGAGATAAAACCTATCACTTTAACGTGTTCCACTGCAACTTCAGGGAG
1 CTCCACTGCAACTTCAAGGAAATAAGA-CTGTCACTTCAACTTGCTCCACTGCAACTTCAGGGAG
* ** * ** * * *
85287427 ATAAGGTTTGCTATGATTTACTCTACTGCAACTTTAGAGAGATAAGATCTATTTATTTATAGCTT
65 ATAATGTTCACTATAACCTGCTCCACTGCAACTTCAGAGAGATAAGATCTATTTATTTATAGCTT
*
85287492 CAATCTGTTCAACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAGTCTGCTCCACTACAACT
130 CAATCTGTTCAACTACAACTTCAGGGAAATAAGATTCGCTATCTTCAGTCTGCTCCACTACAACT
*
85287557 TCAGGGAGATAAGACCTGTCACTTCAACCTGCCCCGCTGCAACTTCAGGGAGATAAGATCTGTTT
195 TCAGGGAGATAAGACCTGTCACTTCAACCTGCCCCGCTACAACTTCAGGGAGATAAGA-CTGTTT
** * * * *
85287622 ATTTATAGATTCAATCTGTTCCACTACAACTTTAGGGAAATAAGATTCACTATCTTCAGTCTG
259 AGCTATAG----AATCTGCTCCACTACAACTTCAGAGAAATAAGATTCACTATCTTCAATCTG
* *
85287685 CTCTACTGCAACTTCAAGGAGATAAGACCTGTCACTTCAACTTGCTCCACTGCAACTTCAGGGAG
1 CTCCACTGCAACTTCAAGGAAATAAGA-CTGTCACTTCAACTTGCTCCACTGCAACTTCAGGGAG
** * * * *
85287750 ATAATGTTTGCTATGATCTGCTCTACTGCAACTTCAGAGAGATAATATCTATTTATTTATAGCTT
65 ATAATGTTCACTATAACCTGCTCCACTGCAACTTCAGAGAGATAAGATCTATTTATTTATAGCTT
* * * * * * *
85287815 CAATCTGTTCCACTATAACTTTATGGAAATAAGATTTGCTATCTTCAGTCTGCTCTACTGCAACT
130 CAATCTGTTCAACTACAACTTCAGGGAAATAAGATTCGCTATCTTCAGTCTGCTCCACTACAACT
* * *
85287880 TCAGGGAGATAAGACCTGTCACTTCAACTTGCTCCGCTATAACTTCAGGGAGAT-A-A-TGTTT-
195 TCAGGGAGATAAGACCTGTCACTTCAACCTGCCCCGCTACAACTTCAGGGAGATAAGACTGTTTA
* * * * *
85287941 GCTAT-G-ATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTTTATTTATAGCTTCAATCTG
260 GCTATAGAATCTGCTCCACTACAACTTCAGAGAAATAAGA----TTCA-CTAT--CTTCAATCTG
* * * *
85288004 TTCCACTGCAACTTCAGGGAAATAAGA-T-TCACTATCTTTAGTCTGCTCCACTGCAACTTCAGG
1 CTCCACTGCAACTTCAAGGAAATAAGACTGTCACT-TC--AACT-TGCTCCACTGCAACTTCAGG
* *
85288067 GAGATAA-GACCTGTCACT-TCAACCTGCTCCACTGCAATTTCAGGGAGATAAG
62 GAGATAATG---T-TCACTAT-AACCTGCTCCACTGCAACTTCAGAGAGATAAG
85288119 GTTGTGAATT
Statistics
Matches: 369, Mismatches: 49, Indels: 32
0.82 0.11 0.07
Matches are distributed among these distances:
312 26 0.07
316 8 0.02
317 7 0.02
318 3 0.01
319 40 0.11
320 27 0.07
321 1 0.00
322 3 0.01
323 254 0.69
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.32
Consensus pattern (317 bp):
CTCCACTGCAACTTCAAGGAAATAAGACTGTCACTTCAACTTGCTCCACTGCAACTTCAGGGAGA
TAATGTTCACTATAACCTGCTCCACTGCAACTTCAGAGAGATAAGATCTATTTATTTATAGCTTC
AATCTGTTCAACTACAACTTCAGGGAAATAAGATTCGCTATCTTCAGTCTGCTCCACTACAACTT
CAGGGAGATAAGACCTGTCACTTCAACCTGCCCCGCTACAACTTCAGGGAGATAAGACTGTTTAG
CTATAGAATCTGCTCCACTACAACTTCAGAGAAATAAGATTCACTATCTTCAATCTG
Found at i:85288110 original size:89 final size:89
Alignment explanation
Indices: 85287631--85288118 Score: 402
Period size: 89 Copynumber: 5.4 Consensus size: 89
85287621 TATTTATAGA
* * * * **
85287631 TTCAATCTGTTCCACTACAACTTTAGGGAAATAAGATTCACTATCTTCAGTCTGCTCTACTGCAA
1 TTCAACCTGCTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCTACTGCAA
*
85287696 CTTCAAGGAGATAAGACCTGTCAC
66 CTTCAGGGAGATAAGACCTGTCAC
* * *
85287720 TTCAACTTGCTCCACTGCAACTTCAGGGAGATAATG-TTTGCTA---TGA-TCTGCTCTACTGCA
1 TTCAACCTGCTCCACTGCAACTTCAGGGAAATAA-GATTTGCTATCTTCAGTCTGCTCTACTGCA
* * * * *
85287780 ACTTCAGAGAGATAATATCTATTTATTTATAGC
65 ACTTCAGGGAGATAAGA-C-----CTGT-CA-C
* * ** * *
85287813 TTCAATCTGTTCCACTATAACTTTATGGAAATAAGATTTGCTATCTTCAGTCTGCTCTACTGCAA
1 TTCAACCTGCTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCTACTGCAA
85287878 CTTCAGGGAGATAAGACCTGTCAC
66 CTTCAGGGAGATAAGACCTGTCAC
* * ** * *
85287902 TTCAACTTGCTCCGCTATAACTTCAGGGAGATAATG-TTTGCTA---TGA-TCTGCTCTACTGCA
1 TTCAACCTGCTCCACTGCAACTTCAGGGAAATAA-GATTTGCTATCTTCAGTCTGCTCTACTGCA
* * *
85287962 ACTTCAGAGAGATAAGATCTGTTTATTTATAGC
65 ACTTCAGGGAGATAAGACCTG------T-CA-C
* * ** * *
85287995 TTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCACTATCTTTAGTCTGCTCCACTGCAA
1 TTCAACCTGCTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCTACTGCAA
85288060 CTTCAGGGAGATAAGACCTGTCAC
66 CTTCAGGGAGATAAGACCTGTCAC
* *
85288084 TTCAACCTGCTCCACTGCAATTTCAGGGAGATAAG
1 TTCAACCTGCTCCACTGCAACTTCAGGGAAATAAG
85288119 GTTGTGAATT
Statistics
Matches: 313, Mismatches: 58, Indels: 56
0.73 0.14 0.13
Matches are distributed among these distances:
85 61 0.19
86 5 0.02
89 100 0.32
90 4 0.01
91 6 0.02
92 4 0.01
93 67 0.21
96 5 0.02
97 61 0.19
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.32
Consensus pattern (89 bp):
TTCAACCTGCTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCTACTGCAA
CTTCAGGGAGATAAGACCTGTCAC
Found at i:85289442 original size:63 final size:63
Alignment explanation
Indices: 85289303--85289528 Score: 244
Period size: 63 Copynumber: 3.6 Consensus size: 63
85289293 AATACCCTTT
* * * * *
85289303 GGTCTTAAGGCGCCTTTTGCGGGTTTTTACCTTG-GCC-TCTTTTTT-TTTCATTTTTTTATTG
1 GGTCTCAAAGCGCCCTTTGCGGGTTTTCACCTTGACCCAT-TTTTTTATTTCATTTTTTTATTG
* * *
85289364 GATCTCAAAGTGCCCTTTGCGGATTTTCACCTTGACCCGATTTTTTTATTTCA-TTTTTTATTG
1 GGTCTCAAAGCGCCCTTTGCGGGTTTTCACCTTGACCC-ATTTTTTTATTTCATTTTTTTATTG
* * *
85289427 GGTCTTAAAGCGCCCTTTACGGGTTTTCACCTTGACCCAATTTTTTTTTATTTTATTTTTTTATT
1 GGTCTCAAAGCGCCCTTTGCGGGTTTTCACCTTGACCC-A--TTTTTTTATTTCATTTTTTTATT
85289492 G
63 G
* * * *
85289493 GGTCTCAAAGCGCTCTTTGCAGGTTTTTACTTTGAC
1 GGTCTCAAAGCGCCCTTTGCGGGTTTTCACCTTGAC
85289529 TTCTTCCCCT
Statistics
Matches: 137, Mismatches: 21, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
61 27 0.20
62 2 0.01
63 50 0.36
64 6 0.04
65 12 0.09
66 40 0.29
ACGTcount: A:0.15, C:0.19, G:0.17, T:0.49
Consensus pattern (63 bp):
GGTCTCAAAGCGCCCTTTGCGGGTTTTCACCTTGACCCATTTTTTTATTTCATTTTTTTATTG
Found at i:85294308 original size:28 final size:28
Alignment explanation
Indices: 85294224--85294313 Score: 101
Period size: 29 Copynumber: 3.1 Consensus size: 28
85294214 TGAGCATGAC
* *
85294224 TATAAATGTGAATTGGGCCT-GATGGACTA
1 TATAAATGTG-ATTGGGCCTAG-TGGGCCA
* *
85294253 TATAAAAGTGATTTGGGCCTAATGGGCCA
1 TATAAATGTGA-TTGGGCCTAGTGGGCCA
*
85294282 TATAAATGTGATTAGGCCTAGTGGGCCA
1 TATAAATGTGATTGGGCCTAGTGGGCCA
85294310 TATA
1 TATA
85294314 CAGGTATGTG
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
28 20 0.38
29 32 0.62
ACGTcount: A:0.31, C:0.12, G:0.27, T:0.30
Consensus pattern (28 bp):
TATAAATGTGATTGGGCCTAGTGGGCCA
Found at i:85298796 original size:13 final size:13
Alignment explanation
Indices: 85298778--85298802 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
85298768 TTCCCTATTT
85298778 TCACACGGCCGTA
1 TCACACGGCCGTA
85298791 TCACACGGCCGT
1 TCACACGGCCGT
85298803 GTTGCATCCC
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:0.20, C:0.40, G:0.24, T:0.16
Consensus pattern (13 bp):
TCACACGGCCGTA
Found at i:85301170 original size:127 final size:127
Alignment explanation
Indices: 85300923--85301245 Score: 425
Period size: 127 Copynumber: 2.6 Consensus size: 127
85300913 TTATTGGTCC
* * ** * * * *
85300923 AACAAAAAATCGAAACCTAATACGTTAGGGCACGATTTCTCAAATTTCTAAACATA-TAACATTG
1 AACAGAAAATCGAAACCCAGCACGTTAGGGCACGATTTCCCGAATTTCTAAACA-ACAAACATCG
* * * *
85300987 CC-TTGTTTTGAAGTTTAGAAAACGCGGACGAAATTTTAAAGGGATATTTGATTATTTGGACA
65 CCTTTGATCTAAAGTTTAGAAAACGCGGACGAAATTTTAAAGGGATATTTGATTATTTGAACA
* *
85301049 AACAGAAAATTGAAACCCAGCACGTTAGGGCACGATTTCCCGAATTTCTGAACAACAAACATCGC
1 AACAGAAAATCGAAACCCAGCACGTTAGGGCACGATTTCCCGAATTTCTAAACAACAAACATCGC
*
85301114 CTTTGATCTAAAGTTTAGAAAACGCTGACGAAATTTTAAAGGGATATTTGATTATTTGAACA
66 CTTTGATCTAAAGTTTAGAAAACGCGGACGAAATTTTAAAGGGATATTTGATTATTTGAACA
** * * * * *
85301176 AATGGAAGATCGAAACCCAGCACGTTAGGGCACGACTTCCCGAATTTCCAAGCATCAAACATCGC
1 AACAGAAAATCGAAACCCAGCACGTTAGGGCACGATTTCCCGAATTTCTAAACAACAAACATCGC
85301241 CTTTG
66 CTTTG
85301246 TTTTATAAAG
Statistics
Matches: 171, Mismatches: 24, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
125 1 0.01
126 54 0.32
127 116 0.68
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.27
Consensus pattern (127 bp):
AACAGAAAATCGAAACCCAGCACGTTAGGGCACGATTTCCCGAATTTCTAAACAACAAACATCGC
CTTTGATCTAAAGTTTAGAAAACGCGGACGAAATTTTAAAGGGATATTTGATTATTTGAACA
Found at i:85301999 original size:37 final size:37
Alignment explanation
Indices: 85301955--85302030 Score: 152
Period size: 37 Copynumber: 2.1 Consensus size: 37
85301945 AAATATATAC
85301955 ATAATAGATTTGAAAAGTAATATATATACCTAAATAG
1 ATAATAGATTTGAAAAGTAATATATATACCTAAATAG
85301992 ATAATAGATTTGAAAAGTAATATATATACCTAAATAG
1 ATAATAGATTTGAAAAGTAATATATATACCTAAATAG
85302029 AT
1 AT
85302031 TTTTTTAAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.51, C:0.05, G:0.11, T:0.33
Consensus pattern (37 bp):
ATAATAGATTTGAAAAGTAATATATATACCTAAATAG
Found at i:85302136 original size:9 final size:9
Alignment explanation
Indices: 85302124--85302156 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
85302114 GAATTATTCG
85302124 AATCGAGTT
1 AATCGAGTT
85302133 AATCGAGTT
1 AATCGAGTT
*
85302142 AATCGAATT
1 AATCGAGTT
85302151 AATCGA
1 AATCGA
85302157 ATCAACTCGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.39, C:0.12, G:0.18, T:0.30
Consensus pattern (9 bp):
AATCGAGTT
Found at i:85302157 original size:9 final size:9
Alignment explanation
Indices: 85302124--85302169 Score: 56
Period size: 9 Copynumber: 5.0 Consensus size: 9
85302114 GAATTATTCG
*
85302124 AATCGAGTT
1 AATCGAATT
*
85302133 AATCGAGTT
1 AATCGAATT
85302142 AATCGAATT
1 AATCGAATT
*
85302151 AATCGAATC
1 AATCGAATT
85302160 AACTCGAATT
1 AA-TCGAATT
85302170 TTTTTCGAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
9 27 0.82
10 6 0.18
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.30
Consensus pattern (9 bp):
AATCGAATT
Found at i:85305042 original size:19 final size:19
Alignment explanation
Indices: 85305006--85305044 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
85304996 TTTTCATCAT
* *
85305006 AGTAAAATAAAATAATAAA
1 AGTAAAACAAAACAATAAA
*
85305025 AGTAAAACAAAACCATAAA
1 AGTAAAACAAAACAATAAA
85305044 A
1 A
85305045 ATAATTAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.72, C:0.08, G:0.05, T:0.15
Consensus pattern (19 bp):
AGTAAAACAAAACAATAAA
Found at i:85305548 original size:55 final size:56
Alignment explanation
Indices: 85305483--85305597 Score: 148
Period size: 55 Copynumber: 2.1 Consensus size: 56
85305473 AGCATGGCTG
* *
85305483 CCAGATACAGA-AAATGT-GACAGAGTCACCAGATACAGATATTTTGTGGCAGT-GCCA
1 CCAGATACAGATAAATGTGGA-AGAGCCACCAGA-ACAGATAATTTGTGGCA-TAGCCA
*
85305539 CCAGA-ACAGATATATGTGGAAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAAATGTGGAAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
85305594 CCAG
1 CCAG
85305598 GACGCTTCCT
Statistics
Matches: 53, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
54 1 0.02
55 29 0.55
56 21 0.40
57 2 0.04
ACGTcount: A:0.37, C:0.21, G:0.23, T:0.19
Consensus pattern (56 bp):
CCAGATACAGATAAATGTGGAAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
Found at i:85305565 original size:27 final size:27
Alignment explanation
Indices: 85305497--85305597 Score: 121
Period size: 28 Copynumber: 3.6 Consensus size: 27
85305487 ATACAGAAAA
* *
85305497 TGTGACAGAGTCACCAGATACAGATATTT
1 TGTGGCAGAGCCACCAGA-ACAGATA-TT
* *
85305526 TGTGGCAGTGCCACCAGAACAGATATA
1 TGTGGCAGAGCCACCAGAACAGATATT
*
85305553 TGTGGAAGAGCCACCAGAACAGATAATT
1 TGTGGCAGAGCCACCAGAACAGAT-ATT
*
85305581 TGTGGCATAGCCACCAG
1 TGTGGCAGAGCCACCAG
85305598 GACGCTTCCT
Statistics
Matches: 62, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
27 23 0.37
28 24 0.39
29 15 0.24
ACGTcount: A:0.34, C:0.21, G:0.25, T:0.21
Consensus pattern (27 bp):
TGTGGCAGAGCCACCAGAACAGATATT
Found at i:85305750 original size:28 final size:28
Alignment explanation
Indices: 85305703--85305763 Score: 97
Period size: 28 Copynumber: 2.2 Consensus size: 28
85305693 AAATTAACCC
*
85305703 TAGGGGTATAGAGGTCATTTTGCATACA
1 TAGGGGTATAGAGGTAATTTTGCATACA
85305731 TAGGGGTATA-ATGGTAATTTTGCATACA
1 TAGGGGTATAGA-GGTAATTTTGCATACA
85305759 TAGGG
1 TAGGG
85305764 TATTCTAGTA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
27 1 0.03
28 30 0.97
ACGTcount: A:0.30, C:0.08, G:0.30, T:0.33
Consensus pattern (28 bp):
TAGGGGTATAGAGGTAATTTTGCATACA
Found at i:85309699 original size:46 final size:46
Alignment explanation
Indices: 85309608--85309732 Score: 144
Period size: 46 Copynumber: 2.7 Consensus size: 46
85309598 AATCTCACCT
* * * * *
85309608 ATAATGAACTCGGAACGCAACTCAATGAGCTCGGGTGTTCGCATCC
1 ATAATGAACTCGGAACGCAACTCAATGAGTTCAGATCTTCACATCC
*
85309654 ATAATGAACTCGGAACACAACTCAATGAGTTCAGATACTT-ACATCC
1 ATAATGAACTCGGAACGCAACTCAATGAGTTCAGAT-CTTCACATCC
* * *
85309700 ATAGGTGAACTCGAAACGCAACTCAACGAGTTC
1 ATA-ATGAACTCGGAACGCAACTCAATGAGTTC
85309733 GGATGCCTCA
Statistics
Matches: 67, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
46 40 0.60
47 27 0.40
ACGTcount: A:0.34, C:0.25, G:0.19, T:0.22
Consensus pattern (46 bp):
ATAATGAACTCGGAACGCAACTCAATGAGTTCAGATCTTCACATCC
Found at i:85312217 original size:30 final size:30
Alignment explanation
Indices: 85312182--85312241 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
85312172 CAAGAACACC
* *
85312182 GAATAAAGAAATTCAAG-ATAGAGAAACCCA
1 GAATAAA-AAAATCAAGAATAAAGAAACCCA
*
85312212 GAATAAAAAAATCTAGAATAAAGAAACCCA
1 GAATAAAAAAATCAAGAATAAAGAAACCCA
85312242 AGATATGATA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 7 0.27
30 19 0.73
ACGTcount: A:0.60, C:0.13, G:0.13, T:0.13
Consensus pattern (30 bp):
GAATAAAAAAATCAAGAATAAAGAAACCCA
Found at i:85315952 original size:47 final size:46
Alignment explanation
Indices: 85315834--85315966 Score: 167
Period size: 46 Copynumber: 2.9 Consensus size: 46
85315824 ATAATCTCAC
* * ** *
85315834 CCATAATGAACTCGGAACGCAACTCAACGAGCTCGGGCGTTTGCAT
1 CCATAATGAACTCGGAACGCAACTCAATGAGTTCGGATGCTTGCAT
*
85315880 CCATAATGAACTCGGAACACAACTCAATGAGTTCGGATGCTTGCAT
1 CCATAATGAACTCGGAACGCAACTCAATGAGTTCGGATGCTTGCAT
* * * *
85315926 TCATAGGTGAACTCAGAATGCAACTCAATGAGTTCGGATGC
1 CCATA-ATGAACTCGGAACGCAACTCAATGAGTTCGGATGC
85315967 CTCATAATTC
Statistics
Matches: 75, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
46 44 0.59
47 31 0.41
ACGTcount: A:0.31, C:0.24, G:0.23, T:0.23
Consensus pattern (46 bp):
CCATAATGAACTCGGAACGCAACTCAATGAGTTCGGATGCTTGCAT
Found at i:85320404 original size:35 final size:35
Alignment explanation
Indices: 85320358--85320430 Score: 137
Period size: 35 Copynumber: 2.1 Consensus size: 35
85320348 AGTTAGTTGA
85320358 GGAGAAGGAGGCAAGGAAACCTTTCTCCATATGAT
1 GGAGAAGGAGGCAAGGAAACCTTTCTCCATATGAT
*
85320393 GGAGAAGGAGGCAAGGAAGCCTTTCTCCATATGAT
1 GGAGAAGGAGGCAAGGAAACCTTTCTCCATATGAT
85320428 GGA
1 GGA
85320431 CTACTGGTAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.33, C:0.16, G:0.32, T:0.19
Consensus pattern (35 bp):
GGAGAAGGAGGCAAGGAAACCTTTCTCCATATGAT
Found at i:85326338 original size:46 final size:46
Alignment explanation
Indices: 85326286--85326551 Score: 334
Period size: 46 Copynumber: 6.0 Consensus size: 46
85326276 AGTGTGCTCT
85326286 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
85326332 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
85326378 C-----TG---TGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
85326416 CTGATATGAGATGTGTAAGACCATGGTTCAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * ** *
85326462 GTGACATGAAAAGAATAAGACCACGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
85326508 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
85326552 TCACGTCAAA
Statistics
Matches: 195, Mismatches: 16, Indels: 18
0.85 0.07 0.08
Matches are distributed among these distances:
38 36 0.18
41 2 0.01
43 2 0.01
45 1 0.01
46 154 0.79
ACGTcount: A:0.38, C:0.16, G:0.24, T:0.21
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:85326438 original size:84 final size:85
Alignment explanation
Indices: 85326296--85326551 Score: 327
Period size: 84 Copynumber: 2.9 Consensus size: 85
85326286 CTGATATGAA
85326296 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTG
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTG
85326361 AAAGATACCATGGCAACCTG
66 AAAGATACCATGGCAACCTG
* *
85326381 -TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAGATGTGTAAGACCATGGTTC
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTG
*
85326445 AAAGATACCATGGCAACGTG
66 AAAGATACCATGGCAACCTG
* * * * *
85326465 ACATGAAAAGAATAAGACCACGGTTGAAAGATACCATGGCAACATGACA-GAAAATGAGTAAGAC
1 --ATG---TG--TAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG-AAATGTGTAAGAC
* * *
85326529 CATAGTTGAAAGACACTATGGCA
58 CATGGTTGAAAGATACCATGGCA
85326552 TCACGTCAAA
Statistics
Matches: 149, Mismatches: 13, Indels: 11
0.86 0.08 0.06
Matches are distributed among these distances:
84 81 0.54
87 2 0.01
90 1 0.01
91 1 0.01
92 64 0.43
ACGTcount: A:0.38, C:0.16, G:0.24, T:0.21
Consensus pattern (85 bp):
ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTG
AAAGATACCATGGCAACCTG
Found at i:85328375 original size:14 final size:13
Alignment explanation
Indices: 85328347--85328381 Score: 54
Period size: 14 Copynumber: 2.7 Consensus size: 13
85328337 ATCCTAGAAT
85328347 ATTAA-AACAATA
1 ATTAAGAACAATA
85328359 ATTAAGAACACATA
1 ATTAAGAACA-ATA
85328373 ATTAAGAAC
1 ATTAAGAAC
85328382 TAGTCAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 5 0.24
13 4 0.19
14 12 0.57
ACGTcount: A:0.60, C:0.11, G:0.06, T:0.23
Consensus pattern (13 bp):
ATTAAGAACAATA
Found at i:85328759 original size:13 final size:13
Alignment explanation
Indices: 85328741--85328780 Score: 80
Period size: 13 Copynumber: 3.1 Consensus size: 13
85328731 GCTCGATAGG
85328741 GACACGCCCGTGT
1 GACACGCCCGTGT
85328754 GACACGCCCGTGT
1 GACACGCCCGTGT
85328767 GACACGCCCGTGT
1 GACACGCCCGTGT
85328780 G
1 G
85328781 CGATTTCTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.15, C:0.38, G:0.33, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:85336662 original size:14 final size:13
Alignment explanation
Indices: 85336634--85336668 Score: 54
Period size: 14 Copynumber: 2.7 Consensus size: 13
85336624 ATCCTAGAAT
85336634 ATTAA-AACAATA
1 ATTAAGAACAATA
85336646 ATTAAGAACACATA
1 ATTAAGAACA-ATA
85336660 ATTAAGAAC
1 ATTAAGAAC
85336669 TAGTCAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 5 0.24
13 4 0.19
14 12 0.57
ACGTcount: A:0.60, C:0.11, G:0.06, T:0.23
Consensus pattern (13 bp):
ATTAAGAACAATA
Found at i:85349288 original size:19 final size:19
Alignment explanation
Indices: 85349264--85349303 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
85349254 TGAAAATGTG
*
85349264 TAAGTTATGCTTATAAATT
1 TAAGTTATGCCTATAAATT
*
85349283 TAAGTTATGCCTATGAATT
1 TAAGTTATGCCTATAAATT
85349302 TA
1 TA
85349304 TGATGGCACT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.35, C:0.07, G:0.12, T:0.45
Consensus pattern (19 bp):
TAAGTTATGCCTATAAATT
Found at i:85350127 original size:6 final size:5
Alignment explanation
Indices: 85350113--85350143 Score: 53
Period size: 5 Copynumber: 6.0 Consensus size: 5
85350103 TAGGAAGATA
85350113 TTATT TTATTT TTATT TTATT TTATT TTATT
1 TTATT TTA-TT TTATT TTATT TTATT TTATT
85350144 AAATTAGTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 20 0.80
6 5 0.20
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTATT
Found at i:85356181 original size:39 final size:39
Alignment explanation
Indices: 85356131--85356255 Score: 180
Period size: 39 Copynumber: 3.2 Consensus size: 39
85356121 TATTGGACAA
*
85356131 ATATCCGGACTTGAAGTCCGCAAGCTTTATGCTGGAAAT
1 ATATCCGGACTTGAAGTCCGCAGGCTTTATGCTGGAAAT
* *
85356170 ATATCTGGACTTGAAGTCCGCAGGCTTTATGTTGGAAAT
1 ATATCCGGACTTGAAGTCCGCAGGCTTTATGCTGGAAAT
* * *
85356209 ATATCCGGACTTAAAGTCCGCAGGC-TAAGTGCTGGAAAA
1 ATATCCGGACTTGAAGTCCGCAGGCTTTA-TGCTGGAAAT
85356248 ATATCCGG
1 ATATCCGG
85356256 GCTAAGTCCC
Statistics
Matches: 77, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
38 2 0.03
39 75 0.97
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (39 bp):
ATATCCGGACTTGAAGTCCGCAGGCTTTATGCTGGAAAT
Found at i:85356280 original size:39 final size:39
Alignment explanation
Indices: 85356248--85356502 Score: 447
Period size: 39 Copynumber: 6.5 Consensus size: 39
85356238 TGCTGGAAAA
85356248 ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATT
*
85356287 ATATCCGGGCTAAGTCCTGAAGGCATTCGTGCTGGTATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATT
**
85356326 ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATT
**
85356365 ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGCGTT
1 ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATT
85356404 ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATT
85356443 ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATT
85356482 ATATCCGGGCTTAAAGTCCCG
1 ATATCCGGGC-T-AAGTCCCG
85356503 CATGCTTTGT
Statistics
Matches: 206, Mismatches: 8, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
39 197 0.96
40 1 0.00
41 8 0.04
ACGTcount: A:0.20, C:0.24, G:0.29, T:0.27
Consensus pattern (39 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATT
Found at i:85364911 original size:94 final size:94
Alignment explanation
Indices: 85364639--85365763 Score: 859
Period size: 94 Copynumber: 12.0 Consensus size: 94
85364629 ATTGTATTAT
** * * ** ** * *
85364639 AGCTACAAATCCTATACCTCTGAAGTTATAGTAGGTCGGATTGGATC-ACCTTAGTGAATCTTAT
1 AGCTACAAATCCTATACCTCTGAAGTTGCAGTGGGTCGAATTAAATCTACAATGGCGAATCTTAT
* * * *
85364703 CTCCATGAAGTTGCAGTAGAGCATA-TTGA
66 CTCCCTGAAGTTGCAGTGGAGCA-AGATAA
* * * * * ** *
85364732 AGCTACAAATCCTATACCCCTG-AGTTGTAGTGGATC-AGATTGAATCTACCATAACGAGTCTTA
1 AGCTACAAATCCTATACCTCTGAAGTTGCAGTGGGTCGA-ATTAAATCTACAATGGCGAATCTTA
* * *
85364795 TCTCCCTAAAGTTGTAGTGGAGCATA-TTAA
65 TCTCCCTGAAGTTGCAGTGGAGCA-AGATAA
* * * *
85364825 AGCTACAAATCCTATACCTTTGAAGTTGCAGTAGGTCGAATTAAATCTACCATGGTGAATCTTAT
1 AGCTACAAATCCTATACCTCTGAAGTTGCAGTGGGTCGAATTAAATCTACAATGGCGAATCTTAT
* * ** * *
85364890 CGCCTTGAAGTTATAGCGGAGC-AGATTGA
66 CTCCCTGAAGTTGCAGTGGAGCAAGA-TAA
* * * *
85364919 AGCTATAAATCCTATACCACTGAAGTTGCAGTGGGTC-AGATTAAAAC-A-AATGGTGAATCTTA
1 AGCTACAAATCCTATACCTCTGAAGTTGCAGTGGGTCGA-ATTAAATCTACAATGGCGAATCTTA
*
85364981 TCTCCTTGAAGTTGCAGTGGAGCAAGATAA
65 TCTCCCTGAAGTTGCAGTGGAGCAAGATAA
* * * * * * *
85365011 AGCTACAAGTCATATACCTTTGAAGTTGCAGTGGGTCAAAATAAAACTACAAATGGCGACTCTTA
1 AGCTACAAATCCTATACCTCTGAAGTTGCAGTGGGTCGAATTAAATCTAC-AATGGCGAATCTTA
85365076 TCTCCCTGAAGTTGCAGTGGAGCAAGATAA
65 TCTCCCTGAAGTTGCAGTGGAGCAAGATAA
* * * * *
85365106 AGCAACAAACCCTATA-CTCCTGAAGTTGCAGTAGGTCGGATTGAAAT-TACAATGGCAAATCTT
1 AGCTACAAATCCTATACCT-CTGAAGTTGCAGTGGGTCGAATT-AAATCTACAATGGCGAATCTT
* * *
85365169 ATCTCCCTGAAGTTGCAATGGAGGAAGATGA
64 ATCTCCCTGAAGTTGCAGTGGAGCAAGATAA
* * * *
85365200 AGCTACAAATCCTATACCTTTAAAGTTGTAGTGGGTCAAATTGAAA-CTACAATGGCGAATCTTA
1 AGCTACAAATCCTATACCTCTGAAGTTGCAGTGGGTCGAATT-AAATCTACAATGGCGAATCTTA
* *
85365264 TCTCCTTGAAGTTTCAGTGGAGCAAGATAA
65 TCTCCCTGAAGTTGCAGTGGAGCAAGATAA
* * * * *
85365294 AGTTGCAAGTCCTATACC-CTTGAAGTTGCAGTGGGTCAGAATGAAA-CTACAAATGACGAATCT
1 AGCTACAAATCCTATACCTC-TGAAGTTGCAGTGGGTC-GAATTAAATCTAC-AATGGCGAATCT
* * * *
85365357 TATCTCCCTAAAGTTACAGTGGAGTAAGATGA
63 TATCTCCCTGAAGTTGCAGTGGAGCAAGATAA
* * * * * * *
85365389 AGCTATAAATCCTAAACCTCTAAAGTTGCAGTGGGTCGGA-TAGAAACTACAATGACGAATTTTA
1 AGCTACAAATCCTATACCTCTGAAGTTGCAGTGGGTCGAATTA-AATCTACAATGGCGAATCTTA
** * *
85365453 TCTCCCCAAAGTTGTAGTGGAGCAAGATGA
65 TCTCCCTGAAGTTGCAGTGGAGCAAGATAA
* * * * * ** *
85365483 AGCTACAAATCATATACCCCTGAAGTTGCAGTGGGTCAAATTAAAGCTACCACAGCAAATCTTAT
1 AGCTACAAATCCTATACCTCTGAAGTTGCAGTGGGTCGAATTAAATCTACAATGGCGAATCTTAT
** * * * **
85365548 CTTTCTAAAGTTGCAATGAAGCAAGACGA
66 CTCCCTGAAGTTGCAGTGGAGCAAGATAA
* * * * * * * ** *
85365577 AGCTATAAATCCTATAACCT-TGAAGTTACAGTAGATCAAATTGAAGAT-AAC-ATAGAAAATAT
1 AGCTACAAATCCTAT-ACCTCTGAAGTTGCAGTGGGTCGAATT-AA-ATCTACAATGGCGAATCT
* * * *
85365639 TGTAC-CCCTAAAGTTGTAGTGGAGCAAGATGA
63 TAT-CTCCCTGAAGTTGCAGTGGAGCAAGATAA
* * * *** *
85365671 AGCTACAAATCCTATACCTCTGAAGTTGCCAGTGGTTTGGAATGAAA-CTACAACAACAAATCTT
1 AGCTACAAATCCTATACCTCTGAAGTTG-CAGTGG-GTCGAATTAAATCTACAATGGCGAATCTT
** *
85365735 ATCTCTTTGAAGTTGCAATGGAGCAAGAT
64 ATCTCCCTGAAGTTGCAGTGGAGCAAGAT
85365764 GAAGTTTCGA
Statistics
Matches: 834, Mismatches: 165, Indels: 64
0.78 0.16 0.06
Matches are distributed among these distances:
92 92 0.11
93 90 0.11
94 446 0.53
95 197 0.24
96 9 0.01
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.27
Consensus pattern (94 bp):
AGCTACAAATCCTATACCTCTGAAGTTGCAGTGGGTCGAATTAAATCTACAATGGCGAATCTTAT
CTCCCTGAAGTTGCAGTGGAGCAAGATAA
Found at i:85365218 original size:189 final size:187
Alignment explanation
Indices: 85364694--85365767 Score: 984
Period size: 189 Copynumber: 5.7 Consensus size: 187
85364684 TCACCTTAGT
* * *
85364694 GAATCTTATCTCCATGAAGTTGCAGTAGAGCATA-TTGAAGCTACAAATCCTATACCCCTG-AGT
1 GAATCTTATCTCCCTGAAGTTGCAGTGGAGCA-AGATGAAGCTACAAATCCTATA-CCCTGAAGT
* * * * * * * *
85364757 TGTAGTGGATCAGATTGAATCTACCATAACGAGTCTTATCTCCCTAAAGTTGTAGTGGAGCATA-
64 TGCAGTGGGTCAGATTGAAACTACAATAACAAATCTTATCTCCCTAAAGTTGCAATGGAGCA-AG
* * * * * * *
85364821 TTAAAGCTACAAATCCTATACCTTTGAAGTTGCAGTAGGTCGAATTAAATCTACCATGGT
128 ATGAAGCTACAAATCCTATACCTTTGAAGTTGCAGTGGGTCAAATTAAAACTACAATGGC
* * ** * *
85364881 GAATCTTATCGCCTTGAAGTTATAGCGGAGC-AGATTGAAGCTATAAATCCTATACCACTGAAGT
1 GAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAGA-TGAAGCTACAAATCCTATACC-CTGAAGT
* **** * * *
85364945 TGCAGTGGGTCAGATTAAAAC-A-AATGGTGAATCTTATCTCCTTGAAGTTGCAGTGGAGCAAGA
64 TGCAGTGGGTCAGATTGAAACTACAATAACAAATCTTATCTCCCTAAAGTTGCAATGGAGCAAGA
* * * *
85365008 TAAAGCTACAAGTCATATACCTTTGAAGTTGCAGTGGGTCAAAATAAAACTACAAATGGC
129 TGAAGCTACAAATCCTATACCTTTGAAGTTGCAGTGGGTCAAATTAAAACTAC-AATGGC
* * * *
85365068 GACTCTTATCTCCCTGAAGTTGCAGTGGAGCAAGATAAAGCAACAAACCCTATACTCCTGAAGTT
1 GAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAGATGAAGCTACAAATCCTATAC-CCTGAAGTT
* * * ** * *
85365133 GCAGTAGGTCGGATTGAAATTACAATGGCAAATCTTATCTCCCTGAAGTTGCAATGGAGGAAGAT
65 GCAGTGGGTCAGATTGAAACTACAATAACAAATCTTATCTCCCTAAAGTTGCAATGGAGCAAGAT
* * *
85365198 GAAGCTACAAATCCTATACCTTTAAAGTTGTAGTGGGTCAAATTGAAACTACAATGGC
130 GAAGCTACAAATCCTATACCTTTGAAGTTGCAGTGGGTCAAATTAAAACTACAATGGC
* * * * * *
85365256 GAATCTTATCTCCTTGAAGTTTCAGTGGAGCAAGATAAAGTTGCAAGTCCTATACCCTTGAAGTT
1 GAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAGATGAAGCTACAAATCCTATACCC-TGAAGTT
* * * * * *
85365321 GCAGTGGGTCAGAATGAAACTACAAATGACGAATCTTATCTCCCTAAAGTTACAGTGGAGTAAGA
65 GCAGTGGGTCAGATTGAAACTAC-AATAACAAATCTTATCTCCCTAAAGTTGCAATGGAGCAAGA
* * * * ** *
85365386 TGAAGCTATAAATCCTAAACCTCTAAAGTTGCAGTGGGTCGGA-TAGAAACTACAATGAC
129 TGAAGCTACAAATCCTATACCTTTGAAGTTGCAGTGGGTCAAATTA-AAACTACAATGGC
* ** * *
85365445 GAATTTTATCTCCCCAAAGTTGTAGTGGAGCAAGATGAAGCTACAAATCATATACCCCTGAAGTT
1 GAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAGATGAAGCTACAAATCCTATA-CCCTGAAGTT
* * * * ** *
85365510 GCAGTGGGTCAAATT-AAAGCTACCACAGCAAATCTTATCTTTCTAAAGTTGCAATGAAGCAAGA
65 GCAGTGGGTCAGATTGAAA-CTACAATAACAAATCTTATCTCCCTAAAGTTGCAATGGAGCAAGA
* * * * * * * *
85365574 CGAAGCTATAAATCCTATAACC-TTGAAGTTACAGTAGATCAAATTGAAGA-TA-ACATAGA
129 TGAAGCTACAAATCCTAT-ACCTTTGAAGTTGCAGTGGGTCAAATT-AAAACTACA-ATGGC
* * * * *
85365633 AAATATTGTAC-CCCTAAAGTTGTAGTGGAGCAAGATGAAGCTACAAATCCTATACCTCTGAAGT
1 GAATCTTAT-CTCCCTGAAGTTGCAGTGGAGCAAGATGAAGCTACAAATCCTATACC-CTGAAGT
* ** * * ** *
85365697 TGCCAGTGGTTTGGAATGAAACTACAACAACAAATCTTATCTCTTTGAAGTTGCAATGGAGCAAG
64 TG-CAGTGGGTCAGATTGAAACTACAATAACAAATCTTATCTCCCTAAAGTTGCAATGGAGCAAG
85365762 ATGAAG
128 ATGAAG
85365768 TTTCGACACT
Statistics
Matches: 729, Mismatches: 135, Indels: 44
0.80 0.15 0.05
Matches are distributed among these distances:
185 2 0.00
186 79 0.11
187 121 0.17
188 228 0.31
189 292 0.40
190 7 0.01
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (187 bp):
GAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAGATGAAGCTACAAATCCTATACCCTGAAGTTG
CAGTGGGTCAGATTGAAACTACAATAACAAATCTTATCTCCCTAAAGTTGCAATGGAGCAAGATG
AAGCTACAAATCCTATACCTTTGAAGTTGCAGTGGGTCAAATTAAAACTACAATGGC
Found at i:85365363 original size:283 final size:282
Alignment explanation
Indices: 85364694--85365767 Score: 1064
Period size: 283 Copynumber: 3.8 Consensus size: 282
85364684 TCACCTTAGT
* * * * *
85364694 GAATCTTATCTCCATGAAGTTGCAGTAGAGCATA-TTGAAGCTACAAATCCTATACCCCTG-AGT
1 GAATCTTATCTCCTTGAAGTTGCAGTGGAGCA-AGATAAAGCTACAAATCCTATACCCTTGAAGT
* * * * * * *
85364757 TGTAGTGGATCAGATTGAATCTAC-CATAACGAGTCTTATCTCCCTAAAGTTGTAGTGGAGCATA
65 TGCAGTGGATCAGAATGAAACTACAAATGACGAATCTTATCTCCCTAAAGTTGCAGTGGAGCA-A
* * * * ***
85364821 -TTAAAGCTACAAATCCTATACCTTTGAAGTTGCAGTAGGTCGAATT-AAATCTACCATGGTGAA
129 GATAAAGCTACAAATCCTATACCTCTGAAGTTGCAGTAGGTCGGATTGAAA-CTACAATGACAAA
* * ** ** *
85364884 TCTTATCGCCTTGAAGTTATAGCGGAGC-AGATTGAAGCTATAAATCCTATACCACTGAAGTTGC
193 TCTTATCTCCCTGAAGTTGCAATGGAGCAAGA-TGAAGCTACAAATCCTATACCACTGAAGTTGC
* *
85364948 AGTGGGTCAGATTAAA--ACAAATGGT
257 AGTGGGTCAAATTAAACTAC-AATGGC
* * *
85364973 GAATCTTATCTCCTTGAAGTTGCAGTGGAGCAAGATAAAGCTACAAGTCATATACCTTTGAAGTT
1 GAATCTTATCTCCTTGAAGTTGCAGTGGAGCAAGATAAAGCTACAAATCCTATACCCTTGAAGTT
* * * * * *
85365038 GCAGTGGGTCAAAATAAAACTACAAATGGCGACTCTTATCTCCCTGAAGTTGCAGTGGAGCAAGA
66 GCAGTGGATCAGAATGAAACTACAAATGACGAATCTTATCTCCCTAAAGTTGCAGTGGAGCAAGA
* * * *
85365103 TAAAGCAACAAACCCTATA-CTCCTGAAGTTGCAGTAGGTCGGATTGAAATTACAATGGCAAATC
131 TAAAGCTACAAATCCTATACCT-CTGAAGTTGCAGTAGGTCGGATTGAAACTACAATGACAAATC
* ** * *
85365167 TTATCTCCCTGAAGTTGCAATGGAGGAAGATGAAGCTACAAATCCTATACCTTTAAAGTTGTAGT
195 TTATCTCCCTGAAGTTGCAATGGAGCAAGATGAAGCTACAAATCCTATACCACTGAAGTTGCAGT
85365232 GGGTCAAATTGAAACTACAATGGC
260 GGGTCAAATT-AAACTACAATGGC
* * * *
85365256 GAATCTTATCTCCTTGAAGTTTCAGTGGAGCAAGATAAAGTTGCAAGTCCTATACCCTTGAAGTT
1 GAATCTTATCTCCTTGAAGTTGCAGTGGAGCAAGATAAAGCTACAAATCCTATACCCTTGAAGTT
* * *
85365321 GCAGTGGGTCAGAATGAAACTACAAATGACGAATCTTATCTCCCTAAAGTTACAGTGGAGTAAGA
66 GCAGTGGATCAGAATGAAACTACAAATGACGAATCTTATCTCCCTAAAGTTGCAGTGGAGCAAGA
* * * * * * * *
85365386 TGAAGCTATAAATCCTAAACCTCTAAAGTTGCAGTGGGTCGGATAGAAACTACAATGACGAATTT
131 TAAAGCTACAAATCCTATACCTCTGAAGTTGCAGTAGGTCGGATTGAAACTACAATGACAAATCT
** * * * *
85365451 TATCTCCCCAAAGTTGTAGTGGAGCAAGATGAAGCTACAAATCATATACCCCTGAAGTTGCAGTG
196 TATCTCCCTGAAGTTGCAATGGAGCAAGATGAAGCTACAAATCCTATACCACTGAAGTTGCAGTG
* **
85365516 GGTCAAATTAAAGCTACCACAGC
261 GGTCAAATTAAA-CTACAATGGC
* * * * * ** * *
85365539 AAATCTTATCT-TTCTAAAGTTGCAATGAAGCAAGACGAAGCTATAAATCCTATAACCTTGAAGT
1 GAATCTTATCTCCT-TGAAGTTGCAGTGGAGCAAGATAAAGCTACAAATCCTATACCCTTGAAGT
* * * * * * *
85365603 TACAGTAGATCA-AATTGAAGA-TA-ACATAGA-AAATATTGTAC-CCCTAAAGTTGTAGTGGAG
65 TGCAGTGGATCAGAA-TGAA-ACTACAAAT-GACGAATCTTAT-CTCCCTAAAGTTGCAGTGGAG
* * * **
85365663 CAAGATGAAGCTACAAATCCTATACCTCTGAAGTTGCCAGT-GGTTTGGAATGAAACTACAACAA
126 CAAGATAAAGCTACAAATCCTATACCTCTGAAGTTG-CAGTAGG-TCGGATTGAAACTACAATGA
**
85365727 CAAATCTTATCTCTTTGAAGTTGCAATGGAGCAAGATGAAG
189 CAAATCTTATCTCCCTGAAGTTGCAATGGAGCAAGATGAAG
85365768 TTTCGACACT
Statistics
Matches: 657, Mismatches: 119, Indels: 34
0.81 0.15 0.04
Matches are distributed among these distances:
278 1 0.00
279 50 0.08
280 24 0.04
281 139 0.21
282 75 0.11
283 363 0.55
284 5 0.01
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (282 bp):
GAATCTTATCTCCTTGAAGTTGCAGTGGAGCAAGATAAAGCTACAAATCCTATACCCTTGAAGTT
GCAGTGGATCAGAATGAAACTACAAATGACGAATCTTATCTCCCTAAAGTTGCAGTGGAGCAAGA
TAAAGCTACAAATCCTATACCTCTGAAGTTGCAGTAGGTCGGATTGAAACTACAATGACAAATCT
TATCTCCCTGAAGTTGCAATGGAGCAAGATGAAGCTACAAATCCTATACCACTGAAGTTGCAGTG
GGTCAAATTAAACTACAATGGC
Found at i:85366008 original size:4 final size:4
Alignment explanation
Indices: 85365999--85366024 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
85365989 CGACCCAAAT
85365999 AACA AACA AACA AACA AACA AACA AA
1 AACA AACA AACA AACA AACA AACA AA
85366025 TAATAAAAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.23, G:0.00, T:0.00
Consensus pattern (4 bp):
AACA
Found at i:85366798 original size:5 final size:6
Alignment explanation
Indices: 85366782--85366806 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
85366772 GGGGAAATGA
85366782 ATTTTT ATTTTT ATTTTT ATTTTT A
1 ATTTTT ATTTTT ATTTTT ATTTTT A
85366807 AACTTATAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (6 bp):
ATTTTT
Found at i:85376887 original size:2 final size:2
Alignment explanation
Indices: 85376882--85376925 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
85376872 ATATATATAT
*
85376882 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AA AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
85376924 AG
1 AG
85376926 CAAGAAGTAA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:85381601 original size:53 final size:53
Alignment explanation
Indices: 85381445--85381610 Score: 221
Period size: 53 Copynumber: 3.1 Consensus size: 53
85381435 GACGAAAAAT
* **
85381445 ATGTGATAAGTGTG-C-CCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCA
1 ATGTGATAA-TGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
85381497 ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
1 ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
* * *
85381550 ATGTGATAATGTGATTCCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTATGA
1 ATGTGATAATGTGACTCCGTATAAGACCATAG-CTGGGCTATGGCATCGGTAT-A
85381604 TATGTGA
1 -ATGTGA
85381611 ACCGTGTAAG
Statistics
Matches: 103, Mismatches: 6, Indels: 7
0.89 0.05 0.06
Matches are distributed among these distances:
51 4 0.04
52 11 0.11
53 81 0.79
54 1 0.01
55 6 0.06
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (53 bp):
ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
Found at i:85388710 original size:53 final size:53
Alignment explanation
Indices: 85388554--85388719 Score: 221
Period size: 53 Copynumber: 3.1 Consensus size: 53
85388544 GACGAAAAAT
* **
85388554 ATGTGATAAGTGTG-C-CCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCA
1 ATGTGATAA-TGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
85388606 ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
1 ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
* * *
85388659 ATGTGATAATGTGATTCCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTATGA
1 ATGTGATAATGTGACTCCGTATAAGACCATAG-CTGGGCTATGGCATCGGTAT-A
85388713 TATGTGA
1 -ATGTGA
85388720 ACCGTGTAAG
Statistics
Matches: 103, Mismatches: 6, Indels: 7
0.89 0.05 0.06
Matches are distributed among these distances:
51 4 0.04
52 11 0.11
53 81 0.79
54 1 0.01
55 6 0.06
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (53 bp):
ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
Found at i:85391575 original size:20 final size:20
Alignment explanation
Indices: 85391529--85391575 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
85391519 AACTTTTCTT
* *
85391529 TATTTTTCATAATATTTGAA
1 TATTTTTAATAAAATTTGAA
*
85391549 TAATTTTAATAAAATTT-ATA
1 TATTTTTAATAAAATTTGA-A
85391569 TATTTTT
1 TATTTTT
85391576 CTAAAAAAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
19 1 0.05
20 21 0.95
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.57
Consensus pattern (20 bp):
TATTTTTAATAAAATTTGAA
Found at i:85396338 original size:19 final size:20
Alignment explanation
Indices: 85396310--85396348 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
85396300 TCCCATTATT
85396310 TATTTATTTTT-TGTTTTAA
1 TATTTATTTTTATGTTTTAA
*
85396329 TATTTGTTTTTATGTTTTAA
1 TATTTATTTTTATGTTTTAA
85396349 ATGTATTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.21, C:0.00, G:0.08, T:0.72
Consensus pattern (20 bp):
TATTTATTTTTATGTTTTAA
Found at i:85397652 original size:29 final size:30
Alignment explanation
Indices: 85397620--85397694 Score: 75
Period size: 31 Copynumber: 2.5 Consensus size: 30
85397610 ATTTGAATGC
*
85397620 TTAATTAAAATTTTTAA-ATTTT-TGTGAAA
1 TTAATTAAAATTTTTAATATTTTAAGTG-AA
*
85397649 TTAA-TAAGAATTTTTTAATATTTTAAGTGAG
1 TTAATTAA-AA-TTTTTAATATTTTAAGTGAA
85397680 TATAATTAAAATTTT
1 T-TAATTAAAATTTT
85397695 AAAAAAAAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
28 3 0.08
29 6 0.16
30 7 0.18
31 11 0.29
32 8 0.21
33 3 0.08
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (30 bp):
TTAATTAAAATTTTTAATATTTTAAGTGAA
Found at i:85397840 original size:41 final size:41
Alignment explanation
Indices: 85397788--85398034 Score: 212
Period size: 41 Copynumber: 6.0 Consensus size: 41
85397778 GCAACAAAAT
* *
85397788 GCCACAAAAAACTGAGCAATAGCGGCGTTTTTGTTCCAAAC
1 GCCACTAAAAACTGAGCAATAGCGGCGTTTTTGGTCCAAAC
* * *
85397829 GCAACTAAAAACTGAGCAATAGCGACGTTTCTGGTCCAAAC
1 GCCACTAAAAACTGAGCAATAGCGGCGTTTTTGGTCCAAAC
* ** * *
85397870 ACCACTAAAAACTGAGTTATATCGGCCTTTTTGGTCCAAAC
1 GCCACTAAAAACTGAGCAATAGCGGCGTTTTTGGTCCAAAC
** * * * * *
85397911 GCTGCTTAAAACTTAGAAATGGCGACGTTTTT-GTCCAAAC
1 GCCACTAAAAACTGAGCAATAGCGGCGTTTTTGGTCCAAAC
* * *
85397951 GCCACTAAAAACT-AGGCAATAGCGGTGTTTTTGTTACAAAC
1 GCCACTAAAAACTGA-GCAATAGCGGCGTTTTTGGTCCAAAC
* * * * * * *
85397992 GCCGC-AAAAATTTGATCTATAGCAGTGTTTTTTGTCCAAAC
1 GCCACTAAAAA-CTGAGCAATAGCGGCGTTTTTGGTCCAAAC
85398033 GC
1 GC
85398035 TGCAAAAAGT
Statistics
Matches: 161, Mismatches: 41, Indels: 8
0.77 0.20 0.04
Matches are distributed among these distances:
39 1 0.01
40 36 0.22
41 123 0.76
42 1 0.01
ACGTcount: A:0.32, C:0.22, G:0.19, T:0.27
Consensus pattern (41 bp):
GCCACTAAAAACTGAGCAATAGCGGCGTTTTTGGTCCAAAC
Found at i:85397991 original size:81 final size:82
Alignment explanation
Indices: 85397788--85397993 Score: 245
Period size: 82 Copynumber: 2.5 Consensus size: 82
85397778 GCAACAAAAT
* *
85397788 GCCACAAAAAACTGAGCAATAGCGGCGTTTTTGTTCCAAACGCAACTAAAAACTGAGCAATAGCG
1 GCCACTAAAAACTGAGCAATAGCGGCGTTTTTGTTCCAAACGCAACTAAAAACTGAGAAATAGCG
85397853 ACGTTTCTGGTCCAAAC
66 ACGTTTCTGGTCCAAAC
* ** * * * ** * * *
85397870 ACCACTAAAAACTGAGTTATATCGGCCTTTTTGGTCCAAACGCTGCTTAAAACTTAGAAATGGCG
1 GCCACTAAAAACTGAGCAATAGCGGCGTTTTTGTTCCAAACGCAACTAAAAACTGAGAAATAGCG
*
85397935 ACGTTT-TTGTCCAAAC
66 ACGTTTCTGGTCCAAAC
* *
85397951 GCCACTAAAAACT-AGGCAATAGCGGTGTTTTTGTTACAAACGC
1 GCCACTAAAAACTGA-GCAATAGCGGCGTTTTTGTTCCAAACGC
85397994 CGCAAAAATT
Statistics
Matches: 101, Mismatches: 22, Indels: 3
0.80 0.17 0.02
Matches are distributed among these distances:
80 1 0.01
81 42 0.42
82 58 0.57
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.25
Consensus pattern (82 bp):
GCCACTAAAAACTGAGCAATAGCGGCGTTTTTGTTCCAAACGCAACTAAAAACTGAGAAATAGCG
ACGTTTCTGGTCCAAAC
Found at i:85398040 original size:41 final size:41
Alignment explanation
Indices: 85397969--85398047 Score: 106
Period size: 41 Copynumber: 1.9 Consensus size: 41
85397959 AAACTAGGCA
* *
85397969 ATAGCGGTGTTTTTGTTACAAACGCCGCAAAAATTTGATCT
1 ATAGCAGTGTTTTTGTTACAAACGCCGCAAAAAGTTGATCT
* *
85398010 ATAGCAGTGTTTTT-TGTCCAAACGCTGCAAAAAGTTGA
1 ATAGCAGTGTTTTTGT-TACAAACGCCGCAAAAAGTTGA
85398048 GTAGCCATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
40 1 0.03
41 32 0.97
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.33
Consensus pattern (41 bp):
ATAGCAGTGTTTTTGTTACAAACGCCGCAAAAAGTTGATCT
Found at i:85398351 original size:21 final size:22
Alignment explanation
Indices: 85398326--85398381 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 22
85398316 TCTAAACCCT
**
85398326 TAAACCTTAAACATTAAACTC-
1 TAAACCTTAAACATTAAAAACA
* **
85398347 TAAACCCTAAATTTTAAAAACA
1 TAAACCTTAAACATTAAAAACA
85398369 TAAACCTTAAACA
1 TAAACCTTAAACA
85398382 CTGATACATA
Statistics
Matches: 26, Mismatches: 8, Indels: 1
0.74 0.23 0.03
Matches are distributed among these distances:
21 16 0.62
22 10 0.38
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.27
Consensus pattern (22 bp):
TAAACCTTAAACATTAAAAACA
Found at i:85398573 original size:15 final size:16
Alignment explanation
Indices: 85398544--85398584 Score: 61
Period size: 15 Copynumber: 2.8 Consensus size: 16
85398534 TAATATGTAA
85398544 GGTTTAAGG--TTTAT
1 GGTTTAAGGTTTTTAT
85398558 GGTTT-AGGTTTTTAT
1 GGTTTAAGGTTTTTAT
85398573 GGTTTAAGGTTT
1 GGTTTAAGGTTT
85398585 AATGGTCATC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 3 0.12
14 5 0.21
15 10 0.42
16 6 0.25
ACGTcount: A:0.17, C:0.00, G:0.29, T:0.54
Consensus pattern (16 bp):
GGTTTAAGGTTTTTAT
Found at i:85398589 original size:15 final size:14
Alignment explanation
Indices: 85398544--85398590 Score: 60
Period size: 15 Copynumber: 3.2 Consensus size: 14
85398534 TAATATGTAA
85398544 GGTTTAAGGTTTAT
1 GGTTTAAGGTTTAT
85398558 GGTTT-AGGTTTTTAT
1 GGTTTAAGG--TTTAT
85398573 GGTTTAAGGTTTAAT
1 GGTTTAAGGTTT-AT
85398588 GGT
1 GGT
85398591 CATCATGTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
13 3 0.10
14 8 0.28
15 15 0.52
16 3 0.10
ACGTcount: A:0.19, C:0.00, G:0.30, T:0.51
Consensus pattern (14 bp):
GGTTTAAGGTTTAT
Found at i:85398921 original size:21 final size:20
Alignment explanation
Indices: 85398859--85398924 Score: 62
Period size: 21 Copynumber: 3.1 Consensus size: 20
85398849 TAGGTTTAAA
*
85398859 GTTTAGTCTATATGGTTGAGG
1 GTTTAGTCTAT-TGGTTTAGG
*
85398880 GTTTA-TGGTATTTGGGTTTAGG
1 GTTTAGT-CTA-TT-GGTTTAGG
85398902 GTTTAGTCTATTGAGTTTAGG
1 GTTTAGTCTATTG-GTTTAGG
85398923 GT
1 GT
85398925 CTATAAAAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
20 2 0.05
21 19 0.51
22 15 0.41
23 1 0.03
ACGTcount: A:0.17, C:0.03, G:0.33, T:0.47
Consensus pattern (20 bp):
GTTTAGTCTATTGGTTTAGG
Found at i:85399094 original size:61 final size:61
Alignment explanation
Indices: 85399029--85399144 Score: 146
Period size: 61 Copynumber: 1.9 Consensus size: 61
85399019 TAGTTTTGCA
* * *
85399029 TTAGCGACGCATT-GTAAAAAACGCCGCT-AAAAATATGGGAAATTGAATAAAAACGCCGTCG
1 TTAGCGACGC-TTAGTAAAAAACGCAG-TAAAAAATATGAGAAATTAAATAAAAACGCCGTCG
* * *
85399090 TTAGCGGCGCTTAGTAAAAAATGCAGTAAAAAATATGAGAAATTAAATGAAAACG
1 TTAGCGACGCTTAGTAAAAAACGCAGTAAAAAATATGAGAAATTAAATAAAAACG
85399145 ACATCGTTTT
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
60 3 0.06
61 44 0.94
ACGTcount: A:0.45, C:0.14, G:0.21, T:0.21
Consensus pattern (61 bp):
TTAGCGACGCTTAGTAAAAAACGCAGTAAAAAATATGAGAAATTAAATAAAAACGCCGTCG
Found at i:85399349 original size:123 final size:124
Alignment explanation
Indices: 85399118--85399361 Score: 337
Period size: 123 Copynumber: 2.0 Consensus size: 124
85399108 AAATGCAGTA
*
85399118 AAAAATATGAGAAATTAAATGAAAACGACATCGTTTTGAGTGGCGGGGTAGTGGAATTAGCGGCG
1 AAAAATATGAGAAATTAAATGAAAACGACATCGTTTTAAGTGGCGGGGTAGTGGAATTAGCGGCG
* * *
85399183 CTAGGTCATAAACGCCGCAATAGATCAGTATTAGTAGCAC-TTTTTAAAAAACGCCGCT
66 CTAGGTCATAAACGCCGCAATAGATAAGAATTAGCAGCACTTTTTTAAAAAACGCCGCT
* * ** **
85399241 AAAAATATGAGAAATTGAATGAAAACGACGTCGTTTTAAGTGGTTGGGTTTTGGAATTAGCGGCG
1 AAAAATATGAGAAATTAAATGAAAACGACATCGTTTTAAGTGGCGGGGTAGTGGAATTAGCGGCG
* * * ** *
85399306 CTAGGTTATAAATGCTGCAATAGATAAGAATTAGCAGTGCTTTTTTAAAAGACGCC
66 CTAGGTCATAAACGCCGCAATAGATAAGAATTAGCAGCACTTTTTTAAAAAACGCC
85399362 ACAAAAAAAA
Statistics
Matches: 104, Mismatches: 16, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
123 90 0.87
124 14 0.13
ACGTcount: A:0.35, C:0.13, G:0.25, T:0.27
Consensus pattern (124 bp):
AAAAATATGAGAAATTAAATGAAAACGACATCGTTTTAAGTGGCGGGGTAGTGGAATTAGCGGCG
CTAGGTCATAAACGCCGCAATAGATAAGAATTAGCAGCACTTTTTTAAAAAACGCCGCT
Found at i:85401669 original size:26 final size:26
Alignment explanation
Indices: 85401621--85401696 Score: 66
Period size: 27 Copynumber: 2.8 Consensus size: 26
85401611 CTTCTAGAAT
** *
85401621 TTTTTTCAA-TTTTCCAAAGTTAA-A
1 TTTTTTCAATTTTTTAAAATTTAACA
85401645 TCTTTTTCAATTTTTTAAAATTTAACTA
1 T-TTTTTCAATTTTTTAAAATTTAAC-A
*
85401673 TTTTTTCTATTTTTATAAATATTT
1 TTTTTTCAATTTTT-TAAA-ATTT
85401697 GAAGTTTTTA
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
24 1 0.02
25 8 0.19
26 11 0.26
27 12 0.29
28 6 0.14
29 4 0.10
ACGTcount: A:0.30, C:0.09, G:0.01, T:0.59
Consensus pattern (26 bp):
TTTTTTCAATTTTTTAAAATTTAACA
Found at i:85402045 original size:20 final size:20
Alignment explanation
Indices: 85402008--85402046 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
85401998 AAATAAATTT
*
85402008 AATTCATAAATATATATATA
1 AATTCATAAACATATATATA
85402028 AATTC-TAAACATAT-TATA
1 AATTCATAAACATATATATA
85402046 A
1 A
85402047 CCAAAACACA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 5 0.28
19 8 0.44
20 5 0.28
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (20 bp):
AATTCATAAACATATATATA
Found at i:85402176 original size:8 final size:9
Alignment explanation
Indices: 85402074--85402240 Score: 137
Period size: 9 Copynumber: 18.6 Consensus size: 9
85402064 ATCTAAATTT
85402074 CATAACTTA
1 CATAACTTA
85402083 CATAACTTA
1 CATAACTTA
*
85402092 CATAATTTA
1 CATAACTTA
85402101 CATAACTTA
1 CATAACTTA
85402110 CATAA--TA
1 CATAACTTA
*
85402117 CATAA-ATA
1 CATAACTTA
* * *
85402125 TATATCATA
1 CATAACTTA
*
85402134 TCATAATTTA
1 -CATAACTTA
**
85402144 CATAACTCG
1 CATAACTTA
*
85402153 CACAACTTA
1 CATAACTTA
85402162 CATAACTTA
1 CATAACTTA
85402171 -ATAACTTA
1 CATAACTTA
* *
85402179 TATATATCATA
1 CATA-A-CTTA
85402190 TCATAACTTA
1 -CATAACTTA
*
85402200 CATAACTCA
1 CATAACTTA
*
85402209 CATAACTCA
1 CATAACTTA
85402218 CATAACTTA
1 CATAACTTA
85402227 CA-AGACTTA
1 CATA-ACTTA
85402236 CATAA
1 CATAA
85402241 TACATAAATA
Statistics
Matches: 129, Mismatches: 20, Indels: 18
0.77 0.12 0.11
Matches are distributed among these distances:
7 7 0.05
8 14 0.11
9 91 0.71
10 10 0.08
11 4 0.03
12 3 0.02
ACGTcount: A:0.46, C:0.20, G:0.01, T:0.33
Consensus pattern (9 bp):
CATAACTTA
Found at i:85402221 original size:56 final size:54
Alignment explanation
Indices: 85402083--85402228 Score: 190
Period size: 56 Copynumber: 2.7 Consensus size: 54
85402073 TCATAACTTA
* *
85402083 CATAACTTACATAATTTACATAACTTACATAA--TACATAAATATATATCATAT
1 CATAACTTACATAACTCACATAACTTACATAACTTACATAAATATATATCATAT
* * *
85402135 CATAATTTACATAACTCGCACAACTTACATAACTTA-ATAACTTATATATATCATAT
1 CATAACTTACATAACTCACATAACTTACATAACTTACATAA---ATATATATCATAT
*
85402191 CATAACTTACATAACTCACATAACTCACATAACTTACA
1 CATAACTTACATAACTCACATAACTTACATAACTTACA
85402229 AGACTTACAT
Statistics
Matches: 79, Mismatches: 9, Indels: 7
0.83 0.09 0.07
Matches are distributed among these distances:
52 27 0.34
53 4 0.05
54 2 0.03
56 45 0.57
57 1 0.01
ACGTcount: A:0.45, C:0.21, G:0.01, T:0.34
Consensus pattern (54 bp):
CATAACTTACATAACTCACATAACTTACATAACTTACATAAATATATATCATAT
Found at i:85402238 original size:27 final size:25
Alignment explanation
Indices: 85402191--85402247 Score: 71
Period size: 27 Copynumber: 2.2 Consensus size: 25
85402181 TATATCATAT
85402191 CATAACTTACATAACTCACATAACTCA
1 CATAACTTACATAACTCACATAA-T-A
*
85402218 CATAACTTACA-AGACTTACATAATA
1 CATAACTTACATA-ACTCACATAATA
85402243 CATAA
1 CATAA
85402248 ATAGATATCA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
25 6 0.21
26 2 0.07
27 20 0.71
ACGTcount: A:0.47, C:0.25, G:0.02, T:0.26
Consensus pattern (25 bp):
CATAACTTACATAACTCACATAATA
Found at i:85402262 original size:5 final size:5
Alignment explanation
Indices: 85402252--85402294 Score: 86
Period size: 5 Copynumber: 8.6 Consensus size: 5
85402242 ACATAAATAG
85402252 ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATA
1 ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATA
85402295 ATTTACATAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 38 1.00
ACGTcount: A:0.42, C:0.19, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATC
Found at i:85410955 original size:28 final size:28
Alignment explanation
Indices: 85410915--85410972 Score: 98
Period size: 28 Copynumber: 2.1 Consensus size: 28
85410905 TTGATAGTGA
85410915 TAGTGATCCCGATATAGACGAGGTCCCC
1 TAGTGATCCCGATATAGACGAGGTCCCC
* *
85410943 TAGTGATCTCGATATGGACGAGGTCCCC
1 TAGTGATCCCGATATAGACGAGGTCCCC
85410971 TA
1 TA
85410973 CGATATTGAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.24, C:0.26, G:0.26, T:0.24
Consensus pattern (28 bp):
TAGTGATCCCGATATAGACGAGGTCCCC
Found at i:85412888 original size:29 final size:31
Alignment explanation
Indices: 85412841--85412907 Score: 75
Period size: 30 Copynumber: 2.2 Consensus size: 31
85412831 TTGCACAAGA
* * * *
85412841 GTAAATACTTAAAATTTGAGGGGCTAA-AGT
1 GTAAATACTGAAAAGTTGAAGGACTAATAGT
*
85412871 GTAAATAC-GAAAAGTTGAAGGATTAATAGT
1 GTAAATACTGAAAAGTTGAAGGACTAATAGT
85412901 GTAAATA
1 GTAAATA
85412908 TTTTAAGGGT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 13 0.42
30 18 0.58
ACGTcount: A:0.45, C:0.04, G:0.22, T:0.28
Consensus pattern (31 bp):
GTAAATACTGAAAAGTTGAAGGACTAATAGT
Found at i:85413134 original size:26 final size:27
Alignment explanation
Indices: 85413104--85413179 Score: 70
Period size: 26 Copynumber: 2.9 Consensus size: 27
85413094 TGATGTTGAT
85413104 GATATTTTATAATTATTA-ATTAGATAA
1 GATATTTTATAATTATTATATTA-ATAA
* *
85413131 -ATATTATT-TTATTATTATTTTAATAA
1 GATATT-TTATAATTATTATATTAATAA
*
85413157 GATATTTTATTATT-TTATTATTA
1 GATATTTTATAATTATTA-TATTA
85413180 TTTATTAAGT
Statistics
Matches: 41, Mismatches: 3, Indels: 10
0.76 0.06 0.19
Matches are distributed among these distances:
26 22 0.54
27 19 0.46
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (27 bp):
GATATTTTATAATTATTATATTAATAA
Found at i:85413147 original size:29 final size:30
Alignment explanation
Indices: 85413106--85413186 Score: 92
Period size: 32 Copynumber: 2.7 Consensus size: 30
85413096 ATGTTGATGA
*
85413106 TATTTTATAATTATTAATTAGATA-AATAT
1 TATTTTATTATTATTAATTAGATATAATAT
* **
85413135 TATTTTATTATTATTTTAATAAGATATTTTAT
1 TATTTTATTATTA--TTAATTAGATATAATAT
*
85413167 TATTTTATTATTATTTATTA
1 TATTTTATTATTATTAATTA
85413187 AGTATAAAAG
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
29 12 0.28
30 5 0.12
31 10 0.23
32 16 0.37
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.60
Consensus pattern (30 bp):
TATTTTATTATTATTAATTAGATATAATAT
Found at i:85414676 original size:33 final size:34
Alignment explanation
Indices: 85414638--85414780 Score: 107
Period size: 33 Copynumber: 4.3 Consensus size: 34
85414628 AATTGACGGA
*
85414638 TAAGACCATGGCTGGGCCATGGCAATAT-ATGTG
1 TAAGACCATAGCTGGGCCATGGCAATATGATGTG
* * * * *
85414671 TAAGACCATAGCTAGGCTATGTC-ATCCTGATG-A
1 TAAGACCATAGCTGGGCCATGGCAAT-ATGATGTG
* ** **
85414704 TAAGACCATATCTGGGATATGGCACCATGA-GTG
1 TAAGACCATAGCTGGGCCATGGCAATATGATGTG
* * * *
85414737 TAAGACCATGGCTGGGCCATGACAATA-CACGTG
1 TAAGACCATAGCTGGGCCATGGCAATATGATGTG
85414770 TAAGACCATAG
1 TAAGACCATAG
85414781 TTGGACTATG
Statistics
Matches: 82, Mismatches: 23, Indels: 10
0.71 0.20 0.09
Matches are distributed among these distances:
32 4 0.05
33 75 0.91
34 3 0.04
ACGTcount: A:0.31, C:0.20, G:0.26, T:0.23
Consensus pattern (34 bp):
TAAGACCATAGCTGGGCCATGGCAATATGATGTG
Found at i:85414903 original size:45 final size:45
Alignment explanation
Indices: 85414803--85414903 Score: 123
Period size: 45 Copynumber: 2.2 Consensus size: 45
85414793 ATCATACCAA
*
85414803 AAATGAGTAAGACCATTGCTGAAAGACACTATGCAATCACGATTC
1 AAATGAGTAAGACCATAGCTGAAAGACACTATGCAATCACGATTC
* * * * *
85414848 AGACGAGTAAGACCATAGGTGAAAGACGCTATGGC-ATCGCGATTC
1 AAATGAGTAAGACCATAGCTGAAAGACACTAT-GCAATCACGATTC
*
85414893 AAATGTGTAAG
1 AAATGAGTAAG
85414904 GCCACGGTTG
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
45 44 0.96
46 2 0.04
ACGTcount: A:0.38, C:0.18, G:0.24, T:0.21
Consensus pattern (45 bp):
AAATGAGTAAGACCATAGCTGAAAGACACTATGCAATCACGATTC
Found at i:85414963 original size:46 final size:46
Alignment explanation
Indices: 85414900--85415164 Score: 325
Period size: 46 Copynumber: 5.7 Consensus size: 46
85414890 TTCAAATGTG
* *
85414900 TAAGGCCACGGTTGAAAGATACCATGGCAACATGACAGGAAAAGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAAAGAA
*
85414946 TAAGACCATGGTTGAAAGATACCATGGCAACATAAACAGGAAAAGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACAT-GACAGGAAAAGAA
* * *
85414993 TAAGACCATGGTTGAAAGATACCATGACAACATAACAGGAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAAAGAA
* ** * * *
85415039 TAAGACCATGGTTGAAAGGTACCATGGCAATGTGAAAAGAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAAAGAA
* * *
85415085 TAAGACCATGGTTGAAAGATACCATAGCCACATGACA-GAAAATGAG
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAAA-GAA
** * * *
85415131 TAAGACCATAATTGAAAGACACTATGGCATCATG
1 TAAGACCATGGTTGAAAGATACCATGGCAACATG
85415165 TCGAAGATAA
Statistics
Matches: 190, Mismatches: 27, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
45 4 0.02
46 142 0.75
47 44 0.23
ACGTcount: A:0.45, C:0.15, G:0.22, T:0.17
Consensus pattern (46 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAAAGAA
Found at i:85415024 original size:93 final size:92
Alignment explanation
Indices: 85414900--85415164 Score: 329
Period size: 93 Copynumber: 2.9 Consensus size: 92
85414890 TTCAAATGTG
* * *
85414900 TAAGGCCACGGTTGAAAGATACCATGGCAACATGACAGGAAAAGAATAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGACAACATGACAGGAAAAGAATAAGACCATGGTTGAAAGA
85414965 TACCATGGCAACAT-AAACAGGAAAAGAA
66 TACCATGGCAACATGAAA-A-GAAAAGAA
* * *
85414993 TAAGACCATGGTTGAAAGATACCATGACAACATAACAGGAAATGAATAAGACCATGGTTGAAAGG
1 TAAGACCATGGTTGAAAGATACCATGACAACATGACAGGAAAAGAATAAGACCATGGTTGAAAGA
** *
85415058 TACCATGGCAATGTGAAAAGAAATGAA
66 TACCATGGCAACATGAAAAGAAAAGAA
* * **
85415085 TAAGACCATGGTTGAAAGATACCAT-AGCCACATGACA-GAAAATGAGTAAGACCATAATTGAAA
1 TAAGACCATGGTTGAAAGATACCATGA-CAACATGACAGGAAAA-GAATAAGACCATGGTTGAAA
* * *
85415148 GACACTATGGCATCATG
64 GATACCATGGCAACATG
85415165 TCGAAGATAA
Statistics
Matches: 148, Mismatches: 21, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
91 5 0.03
92 68 0.46
93 72 0.49
94 3 0.02
ACGTcount: A:0.45, C:0.15, G:0.22, T:0.17
Consensus pattern (92 bp):
TAAGACCATGGTTGAAAGATACCATGACAACATGACAGGAAAAGAATAAGACCATGGTTGAAAGA
TACCATGGCAACATGAAAAGAAAAGAA
Found at i:85415086 original size:139 final size:138
Alignment explanation
Indices: 85414900--85415149 Score: 349
Period size: 139 Copynumber: 1.8 Consensus size: 138
85414890 TTCAAATGTG
* * *
85414900 TAAGGCCACGGTTGAAAGATACCATGGCAACATGACAGGAAAAGAATAAGACCATGGTTGAAAGA
1 TAAGACCACGGTTGAAAGATACCATGGCAACATGAAAAGAAAAGAATAAGACCATGGTTGAAAGA
* **
85414965 TACCATGGCAACATAAACAGGAAAA-GAATAAGACCATGGTTGAAAGATACCATGACAACATAAC
66 TACCATAGCAACAT-AACA-GAAAATGAATAAGACCATAATTGAAAGATACCATGACAACATAAC
85415029 AGGAAATGAA
129 AGGAAATGAA
* * ** *
85415039 TAAGACCATGGTTGAAAGGTACCATGGCAATGTGAAAAGAAATGAATAAGACCATGGTTGAAAGA
1 TAAGACCACGGTTGAAAGATACCATGGCAACATGAAAAGAAAAGAATAAGACCATGGTTGAAAGA
* * *
85415104 TACCATAGCCACATGACAGAAAATGAGTAAGACCATAATTGAAAGA
66 TACCATAGCAACATAACAGAAAATGAATAAGACCATAATTGAAAGA
85415150 CACTATGGCA
Statistics
Matches: 96, Mismatches: 14, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
137 5 0.05
138 22 0.23
139 69 0.72
ACGTcount: A:0.46, C:0.15, G:0.22, T:0.17
Consensus pattern (138 bp):
TAAGACCACGGTTGAAAGATACCATGGCAACATGAAAAGAAAAGAATAAGACCATGGTTGAAAGA
TACCATAGCAACATAACAGAAAATGAATAAGACCATAATTGAAAGATACCATGACAACATAACAG
GAAATGAA
Found at i:85416125 original size:64 final size:64
Alignment explanation
Indices: 85416024--85416181 Score: 273
Period size: 64 Copynumber: 2.5 Consensus size: 64
85416014 TGAGCTTATG
* *
85416024 TAATTTATATAAGAAAATTTATATTAAAAAGTTTGTTTCAATTAGATTAATA-TTGTAATGTATT
1 TAATTTATATAACAAAATTTATATTACAAAGTTTGTTTCAATTAGATTAA-AGTTGTAATGTATT
85416088 TAATTTATATAACAAAATTTATATTACAAAGTTTGTTTCAATTAGATTAAAGTTGTAATGTATT
1 TAATTTATATAACAAAATTTATATTACAAAGTTTGTTTCAATTAGATTAAAGTTGTAATGTATT
*
85416152 TAATTTATATTACAAAATTTATATTACAAA
1 TAATTTATATAACAAAATTTATATTACAAA
85416182 ACTAAGTTTG
Statistics
Matches: 90, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
63 1 0.01
64 89 0.99
ACGTcount: A:0.43, C:0.04, G:0.08, T:0.46
Consensus pattern (64 bp):
TAATTTATATAACAAAATTTATATTACAAAGTTTGTTTCAATTAGATTAAAGTTGTAATGTATT
Found at i:85416172 original size:14 final size:14
Alignment explanation
Indices: 85416153--85416182 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
85416143 TAATGTATTT
85416153 AATTTATATTACAA
1 AATTTATATTACAA
85416167 AATTTATATTACAA
1 AATTTATATTACAA
85416181 AA
1 AA
85416183 CTAAGTTTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (14 bp):
AATTTATATTACAA
Found at i:85417072 original size:43 final size:43
Alignment explanation
Indices: 85417006--85417107 Score: 168
Period size: 43 Copynumber: 2.4 Consensus size: 43
85416996 TTATTTAAAA
**
85417006 AAACGCCGCTAAAGGTCCTGACCTTTAGCGGCACTTTTCCCAC
1 AAACGCCGCTAAAGGTCAAGACCTTTAGCGGCACTTTTCCCAC
* *
85417049 AAACGCCACTAAAGGTCAAGACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGGTCAAGACCTTTAGCGGCACTTTTCCCAC
85417092 AAACGCCGCTAAAGGT
1 AAACGCCGCTAAAGGT
85417108 AATGAAATTT
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 54 1.00
ACGTcount: A:0.27, C:0.32, G:0.20, T:0.21
Consensus pattern (43 bp):
AAACGCCGCTAAAGGTCAAGACCTTTAGCGGCACTTTTCCCAC
Found at i:85418317 original size:138 final size:138
Alignment explanation
Indices: 85418148--85418417 Score: 461
Period size: 138 Copynumber: 2.0 Consensus size: 138
85418138 TTTTAAAATT
85418148 TTAAATCAAATAAGTTGCATAATAACATAACAAAGAGAAATGTTAATATAAAACCTAAAAACAAT
1 TTAAATCAAATAAGTTGCATAATAACATAACAAAGAGAAATGTTAATATAAAACCTAAAAACAAT
* * * *
85418213 TTAATGCCAATTTTTAAGGAAATTACATATGGTTCTAAAATTCAAAACAAGTACTCCTA-AAAGC
66 TTAATGCCAATTTCTAAAGAAATTACATATGATTCTAAAATTCAAAACAAGGACTCC-ACAAAGC
85418277 ATCAAGACG
130 ATCAAGACG
*
85418286 TTAAATCAAATAAGTTGCATAATAACATAACAAAGAGAAATGTTATTATAAAACCTAAAAACAAT
1 TTAAATCAAATAAGTTGCATAATAACATAACAAAGAGAAATGTTAATATAAAACCTAAAAACAAT
* *
85418351 TTAATGCCAATTTCTAAAGAGATTACATATGATTCTAAAATTCAAAACAGGGACTCCACAAAGCA
66 TTAATGCCAATTTCTAAAGAAATTACATATGATTCTAAAATTCAAAACAAGGACTCCACAAAGCA
85418416 TC
131 TC
85418418 CATACATTAT
Statistics
Matches: 124, Mismatches: 7, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
137 1 0.01
138 123 0.99
ACGTcount: A:0.49, C:0.14, G:0.10, T:0.27
Consensus pattern (138 bp):
TTAAATCAAATAAGTTGCATAATAACATAACAAAGAGAAATGTTAATATAAAACCTAAAAACAAT
TTAATGCCAATTTCTAAAGAAATTACATATGATTCTAAAATTCAAAACAAGGACTCCACAAAGCA
TCAAGACG
Found at i:85420713 original size:15 final size:15
Alignment explanation
Indices: 85420680--85420722 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
85420670 TTATCTCTTA
*
85420680 CATAA-CCATAAA-T
1 CATAATCCATAAACC
*
85420693 CATAATCCCTAAACC
1 CATAATCCATAAACC
85420708 CATAATCCATAAACC
1 CATAATCCATAAACC
85420723 TTAAAATAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
13 5 0.20
14 6 0.24
15 14 0.56
ACGTcount: A:0.47, C:0.33, G:0.00, T:0.21
Consensus pattern (15 bp):
CATAATCCATAAACC
Found at i:85420727 original size:22 final size:22
Alignment explanation
Indices: 85420685--85420727 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
85420675 TCTTACATAA
*
85420685 CCATAAATCATAATCCCTAAAC
1 CCATAAATCATAAACCCTAAAC
*
85420707 CCAT-AATCCATAAACCTTAAA
1 CCATAAAT-CATAAACCCTAAA
85420728 ATAATAACTC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 3 0.17
22 15 0.83
ACGTcount: A:0.47, C:0.30, G:0.00, T:0.23
Consensus pattern (22 bp):
CCATAAATCATAAACCCTAAAC
Found at i:85420946 original size:14 final size:14
Alignment explanation
Indices: 85420937--85420972 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
85420927 TGAACCCTTC
*
85420937 ACCCTTAACCCCTA
1 ACCCCTAACCCCTA
85420951 ACCCCTAACCCCTA
1 ACCCCTAACCCCTA
*
85420965 ACACCTAA
1 ACCCCTAA
85420973 ATCTTAAACC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.33, C:0.50, G:0.00, T:0.17
Consensus pattern (14 bp):
ACCCCTAACCCCTA
Found at i:85421258 original size:41 final size:40
Alignment explanation
Indices: 85421181--85421267 Score: 120
Period size: 41 Copynumber: 2.1 Consensus size: 40
85421171 TCAAATACAT
85421181 TTAAAACAAATATTAAAACAATAAACAAATAAAAAATGATA
1 TTAAAACAAATATTAAAACAATAAACAAATAAAAAAT-ATA
* * **
85421222 TTAAAACAATTATTAAAACAATAGACAAATTCAAAATATA
1 TTAAAACAAATATTAAAACAATAAACAAATAAAAAATATA
*
85421262 ATAAAA
1 TTAAAA
85421268 AGTGATTATA
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
40 8 0.20
41 33 0.80
ACGTcount: A:0.66, C:0.08, G:0.02, T:0.24
Consensus pattern (40 bp):
TTAAAACAAATATTAAAACAATAAACAAATAAAAAATATA
Found at i:85421608 original size:40 final size:40
Alignment explanation
Indices: 85421491--85421616 Score: 146
Period size: 41 Copynumber: 3.1 Consensus size: 40
85421481 ATTATATGAC
* *
85421491 TTTTAGCGGCGTTTTATCGAAAGCGCCGCTACTGCTCTGGT
1 TTTTAGCGGCGTTTTATCGAAAACGCCGCTATTGCTCT-GT
* * *
85421532 TTTTAGCGGCGTTTTAACAAAAAATGCCGCTATTGCTCTGT
1 TTTTAGCGGCGTTTTATC-GAAAACGCCGCTATTGCTCTGT
* * *
85421573 TTTTAGCGGCATTTT-TGGTAAAACGCCGCTATTGCTCCGT
1 TTTTAGCGGCGTTTTATCG-AAAACGCCGCTATTGCTCTGT
85421613 TTTT
1 TTTT
85421617 TATAATTTTT
Statistics
Matches: 72, Mismatches: 11, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
40 23 0.32
41 33 0.46
42 16 0.22
ACGTcount: A:0.18, C:0.21, G:0.22, T:0.38
Consensus pattern (40 bp):
TTTTAGCGGCGTTTTATCGAAAACGCCGCTATTGCTCTGT
Found at i:85422276 original size:14 final size:14
Alignment explanation
Indices: 85422257--85422291 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
85422247 CAAATTACAT
85422257 GTTAGAATAGTATC
1 GTTAGAATAGTATC
85422271 GTTAGAATAGTATC
1 GTTAGAATAGTATC
*
85422285 ATTAGAA
1 GTTAGAA
85422292 AAAAAAATGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.40, C:0.06, G:0.20, T:0.34
Consensus pattern (14 bp):
GTTAGAATAGTATC
Found at i:85424209 original size:19 final size:18
Alignment explanation
Indices: 85424165--85424200 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
85424155 TTTTTCCTTC
85424165 TCTTTCTCCTTCCCTTTA
1 TCTTTCTCCTTCCCTTTA
*
85424183 TCTATTCTCCTTCTCTTT
1 TCT-TTCTCCTTCCCTTT
85424201 TTTCTTTCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 3 0.19
19 13 0.81
ACGTcount: A:0.06, C:0.36, G:0.00, T:0.58
Consensus pattern (18 bp):
TCTTTCTCCTTCCCTTTA
Found at i:85424793 original size:19 final size:18
Alignment explanation
Indices: 85424769--85424813 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
85424759 TTGCCTTTTT
85424769 TTTCTTTACCATCTCTTTC
1 TTTCTTTACCATCTC-TTC
* *
85424788 TTTCTTTTCCTTCTCTTC
1 TTTCTTTACCATCTCTTC
85424806 TCTTCTTT
1 T-TTCTTT
85424814 CTTTTTGGGC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 4 0.17
19 19 0.83
ACGTcount: A:0.04, C:0.31, G:0.00, T:0.64
Consensus pattern (18 bp):
TTTCTTTACCATCTCTTC
Found at i:85432149 original size:34 final size:33
Alignment explanation
Indices: 85432107--85432298 Score: 152
Period size: 34 Copynumber: 5.9 Consensus size: 33
85432097 AATTATTTAG
85432107 ATTAGGGTTTATGGTTTCTAAATAAAATAAGTAA
1 ATTAGGGTTTATGGTTT-TAAATAAAATAAGTAA
* *
85432141 ATCAGGGTTT-TAGGATTATAAAT-AAAT---TAA
1 ATTAGGGTTTAT-GG-TTTTAAATAAAATAAGTAA
* * * *
85432171 ATTAGTGTTTACGATTTGTAAATAAATTAAGTAA
1 ATTAGGGTTTATGGTTT-TAAATAAAATAAGTAA
*
85432205 ATTAGGG-TTAGGGTTTTAAAT-AAAT---TAA
1 ATTAGGGTTTATGGTTTTAAATAAAATAAGTAA
* * *
85432233 ATTAGGGTTTATGATTTTTAAATAAATTAATTAA
1 ATTAGGGTTTATG-GTTTTAAATAAAATAAGTAA
* *
85432267 ATTAGGGTTCTAGGGTTTTAAATAAATTAAGT
1 ATTAGGGTT-TATGGTTTTAAATAAAATAAGT
85432299 TAGGGTTTTA
Statistics
Matches: 125, Mismatches: 18, Indels: 30
0.72 0.10 0.17
Matches are distributed among these distances:
28 10 0.08
29 6 0.05
30 25 0.20
31 9 0.07
32 5 0.04
33 12 0.10
34 53 0.42
35 5 0.04
ACGTcount: A:0.40, C:0.02, G:0.17, T:0.41
Consensus pattern (33 bp):
ATTAGGGTTTATGGTTTTAAATAAAATAAGTAA
Found at i:85432172 original size:30 final size:29
Alignment explanation
Indices: 85432138--85432447 Score: 135
Period size: 30 Copynumber: 10.5 Consensus size: 29
85432128 ATAAAATAAG
*
85432138 TAAATCAGGGTTTTAGGATTATAAATAAAT
1 TAAATTAGGG-TTTAGGATTATAAATAAAT
* * *
85432168 TAAATTAGTGTTTACGATTTGTAAATAAATT
1 TAAATTAGGGTTTAGGA-TTATAAATAAA-T
* *
85432199 AAGTAAATTAGGG-TTAGGGTTTTAAATAAAT
1 ---TAAATTAGGGTTTAGGATTATAAATAAAT
* *
85432230 TAAATTAGGGTTTATGATTTTTAAATAAATTAAT
1 TAAATTAGGGTTTAGGA---TT--ATAAATAAAT
* *
85432264 TAAATTAGGGTTCTAGGGTTTTAAATAAAT
1 TAAATTAGGGTT-TAGGATTATAAATAAAT
* *
85432294 TAAGTTAGGG--T----TT-TAAATAAAA
1 TAAATTAGGGTTTAGGATTATAAATAAAT
*
85432316 TAAATTAGGGTTTATGG-TTTTAAATAAAT
1 TAAATTAGGGTTTA-GGATTATAAATAAAT
* *
85432345 T-AA--GGGGTTTATGG-TTTTAAATAAATT
1 TAAATTAGGGTTTA-GGATTATAAATAAA-T
** * * * *
85432372 AAGTAAATTAATGTTCTTGGGTTTTAAATAAAG
1 ---TAAATTAGGGTT-TAGGATTATAAATAAAT
* * *
85432405 TAAATTAAGGTTTAGGGTTA-AAATTAAT
1 TAAATTAGGGTTTAGGATTATAAATAAAT
85432433 TAAATTAGGGTTTAG
1 TAAATTAGGGTTTAG
85432448 TTTTTTAAAA
Statistics
Matches: 220, Mismatches: 32, Indels: 58
0.71 0.10 0.19
Matches are distributed among these distances:
22 17 0.08
23 2 0.01
24 1 0.00
26 21 0.10
27 2 0.01
28 34 0.15
29 25 0.11
30 47 0.21
31 4 0.02
32 14 0.06
33 9 0.04
34 41 0.19
35 3 0.01
ACGTcount: A:0.40, C:0.01, G:0.18, T:0.41
Consensus pattern (29 bp):
TAAATTAGGGTTTAGGATTATAAATAAAT
Found at i:85432193 original size:64 final size:64
Alignment explanation
Indices: 85432107--85432418 Score: 304
Period size: 64 Copynumber: 5.2 Consensus size: 64
85432097 AATTATTTAG
* * * * *
85432107 ATTAGGGTTTATGGTTTCTAAATAAAATAAGTAAATCAGGGTTTTAGGATTATAAATAAATTAA
1 ATTAGGGTTTATGATTTCTAAATAAATTAAGTAAATTAGGGTTTTAGGGTTTTAAATAAATTAA
* * *
85432171 ATTAGTGTTTACGATTTGTAAATAAATTAAGTAAATTAGGG--TTAGGGTTTTAAATAAATTAA
1 ATTAGGGTTTATGATTTCTAAATAAATTAAGTAAATTAGGGTTTTAGGGTTTTAAATAAATTAA
* * *
85432233 ATTAGGGTTTATGATTTTTAAATAAATTAATTAAATTAGGGTTCTAGGGTTTTAAATAAATTAA
1 ATTAGGGTTTATGATTTCTAAATAAATTAAGTAAATTAGGGTTTTAGGGTTTTAAATAAATTAA
* *
85432297 GTTA-GG-----G-TTT-TAAAT-AA--AA-TAAATTAGGG-TTTATGGTTTTAAATAAATT-A
1 ATTAGGGTTTATGATTTCTAAATAAATTAAGTAAATTAGGGTTTTAGGGTTTTAAATAAATTAA
* * ** *
85432347 A--GGGGTTTATGGTTT-TAAATAAATTAAGTAAATTAATGTTCTT-GGGTTTTAAATAAAGTAA
1 ATTAGGGTTTATGATTTCTAAATAAATTAAGTAAATTAGGGTT-TTAGGGTTTTAAATAAATTAA
*
85432408 ATTAAGGTTTA
1 ATTAGGGTTTA
85432419 GGGTTAAAAT
Statistics
Matches: 206, Mismatches: 24, Indels: 37
0.77 0.09 0.14
Matches are distributed among these distances:
49 2 0.01
50 1 0.00
51 18 0.09
52 10 0.05
53 2 0.01
54 1 0.00
55 10 0.05
56 7 0.03
57 3 0.01
58 3 0.01
59 8 0.04
60 15 0.07
61 4 0.02
62 56 0.27
63 8 0.04
64 58 0.28
ACGTcount: A:0.40, C:0.02, G:0.18, T:0.41
Consensus pattern (64 bp):
ATTAGGGTTTATGATTTCTAAATAAATTAAGTAAATTAGGGTTTTAGGGTTTTAAATAAATTAA
Found at i:85432237 original size:126 final size:113
Alignment explanation
Indices: 85432107--85432417 Score: 304
Period size: 126 Copynumber: 2.6 Consensus size: 113
85432097 AATTATTTAG
* *
85432107 ATTAGGGTTTATGGTTTCTAAATAAAATAAGTAAATCAGGGTTTTAGGATTATAAATAAATTAAA
1 ATTAGGGTTTATGGTTT-TAAATAAATTAAGTAAATCAGGGTTCTAGGATTATAAATAAATTAAA
85432172 TTAGTGTTTACGATTTGTAAATAAATTAAGTAAATTAGGG-TTAGGGTTTTAAATAAATTAA
65 TTAG-G-----G-TTT-TAAAT-AA--AA-TAAATTAGGGTTTAGGGTTTTAAATAAATT-A
* * * * * *
85432233 ATTAGGGTTTATGATTTTTAAATAAATTAATTAAATTAGGGTTCTAGGGTTTTAAATAAATTAAG
1 ATTAGGGTTTATG-GTTTTAAATAAATTAAGTAAATCAGGGTTCTAGGATTATAAATAAATTAAA
*
85432298 TTAGGGTTTTAAATAAAATAAATTAGGGTTTATGGTTTTAAATAAATTA
65 TTAGGGTTTTAAATAAAATAAATTAGGGTTTAGGGTTTTAAATAAATTA
* * ** * * * *
85432347 A--GGGGTTTATGGTTTTAAATAAATTAAGTAAATTAATGTTCTTGGGTTTTAAATAAAGTAAAT
1 ATTAGGGTTTATGGTTTTAAATAAATTAAGTAAATCAGGGTTCTAGGATTATAAATAAATTAAAT
*
85432410 TAAGGTTT
66 TAGGGTTT
85432418 AGGGTTAAAA
Statistics
Matches: 165, Mismatches: 18, Indels: 19
0.82 0.09 0.09
Matches are distributed among these distances:
111 52 0.32
112 9 0.05
114 12 0.07
115 20 0.12
117 2 0.01
118 5 0.03
119 3 0.02
120 1 0.01
125 1 0.01
126 57 0.35
127 3 0.02
ACGTcount: A:0.40, C:0.02, G:0.18, T:0.41
Consensus pattern (113 bp):
ATTAGGGTTTATGGTTTTAAATAAATTAAGTAAATCAGGGTTCTAGGATTATAAATAAATTAAAT
TAGGGTTTTAAATAAAATAAATTAGGGTTTAGGGTTTTAAATAAATTA
Found at i:85432305 original size:22 final size:22
Alignment explanation
Indices: 85432277--85432328 Score: 86
Period size: 22 Copynumber: 2.4 Consensus size: 22
85432267 ATTAGGGTTC
* *
85432277 TAGGGTTTTAAATAAATTAAGT
1 TAGGGTTTTAAATAAAATAAAT
85432299 TAGGGTTTTAAATAAAATAAAT
1 TAGGGTTTTAAATAAAATAAAT
85432321 TAGGGTTT
1 TAGGGTTT
85432329 ATGGTTTTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.40, C:0.00, G:0.19, T:0.40
Consensus pattern (22 bp):
TAGGGTTTTAAATAAAATAAAT
Found at i:85432359 original size:26 final size:26
Alignment explanation
Indices: 85432313--85432374 Score: 110
Period size: 26 Copynumber: 2.5 Consensus size: 26
85432303 GTTTTAAATA
85432313 AAATAAATT-A-GGGTTTATGGTTTT
1 AAATAAATTAAGGGGTTTATGGTTTT
85432337 AAATAAATTAAGGGGTTTATGGTTTT
1 AAATAAATTAAGGGGTTTATGGTTTT
85432363 AAATAAATTAAG
1 AAATAAATTAAG
85432375 TAAATTAATG
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
24 9 0.25
25 1 0.03
26 26 0.72
ACGTcount: A:0.40, C:0.00, G:0.19, T:0.40
Consensus pattern (26 bp):
AAATAAATTAAGGGGTTTATGGTTTT
Found at i:85432370 original size:111 final size:113
Alignment explanation
Indices: 85432193--85432417 Score: 303
Period size: 111 Copynumber: 2.0 Consensus size: 113
85432183 GATTTGTAAA
* * *
85432193 TAAATTAAGTAAATTAGGGTTAGGGTTTTAAATAAATTAAATTAGGGTTTATGATTTTTAAATAA
1 TAAATAAAATAAATTAGGGTTAGGGTTTTAAATAAATTAAA-TAGGGTTTATGAGTTTTAAATAA
* * * * *
85432258 ATTAATTAAATTAGGGTTCTAGGGTTTTAAATAAATTAAGTTAGGGTTT
65 ATTAAGTAAATTAAGGTTCTAGGGTTTTAAATAAAGTAAATTAAGGTTT
* *
85432307 TAAATAAAATAAATTAGGGTTTATGGTTTTAAATAAATT-AA-GGGGTTTATG-GTTTTAAATAA
1 TAAATAAAATAAATTAGGG-TTAGGGTTTTAAATAAATTAAATAGGGTTTATGAGTTTTAAATAA
* *
85432369 ATTAAGTAAATTAATGTTCTTGGGTTTTAAATAAAGTAAATTAAGGTTT
65 ATTAAGTAAATTAAGGTTCTAGGGTTTTAAATAAAGTAAATTAAGGTTT
85432418 AGGGTTAAAA
Statistics
Matches: 98, Mismatches: 12, Indels: 5
0.85 0.10 0.04
Matches are distributed among these distances:
111 52 0.53
112 9 0.09
114 19 0.19
115 18 0.18
ACGTcount: A:0.40, C:0.01, G:0.18, T:0.42
Consensus pattern (113 bp):
TAAATAAAATAAATTAGGGTTAGGGTTTTAAATAAATTAAATAGGGTTTATGAGTTTTAAATAAA
TTAAGTAAATTAAGGTTCTAGGGTTTTAAATAAAGTAAATTAAGGTTT
Found at i:85433264 original size:25 final size:25
Alignment explanation
Indices: 85433230--85433279 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
85433220 CGTGTACACC
85433230 TTAATTTACTATTAAAA-ATATAAAA
1 TTAATTTACTATTAAAATAT-TAAAA
85433255 TTAATTTACTATTAAAATATTAAAA
1 TTAATTTACTATTAAAATATTAAAA
85433280 ACAACTTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 22 0.92
26 2 0.08
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (25 bp):
TTAATTTACTATTAAAATATTAAAA
Found at i:85434252 original size:20 final size:21
Alignment explanation
Indices: 85434227--85434265 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
85434217 TTATATACAT
85434227 AATACTAAATAC-AAATATTG
1 AATACTAAATACTAAATATTG
*
85434247 AATACTAAGTACTAAATAT
1 AATACTAAATACTAAATAT
85434266 GAAACGATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.54, C:0.10, G:0.05, T:0.31
Consensus pattern (21 bp):
AATACTAAATACTAAATATTG
Found at i:85435439 original size:20 final size:21
Alignment explanation
Indices: 85435405--85435444 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
85435395 AATTAAAAAA
85435405 TAAAATAAAATAAT-ATAAAG
1 TAAAATAAAATAATAATAAAG
85435425 TAAAATAAAGA-AATAATAAA
1 TAAAATAAA-ATAATAATAAA
85435445 AAGAATAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.72, C:0.00, G:0.05, T:0.23
Consensus pattern (21 bp):
TAAAATAAAATAATAATAAAG
Found at i:85437898 original size:16 final size:15
Alignment explanation
Indices: 85437861--85437914 Score: 54
Period size: 16 Copynumber: 3.5 Consensus size: 15
85437851 TAAAAAATTA
* *
85437861 TAAAATAAAATTAAT
1 TAAAATTAAATAAAT
*
85437876 TAAAATTACATAAAT
1 TAAAATTAAATAAAT
85437891 TAAAAATTAAATAATAT
1 T-AAAATTAAATAA-AT
*
85437908 TCAAATT
1 TAAAATT
85437915 TTAAAATAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
15 13 0.41
16 16 0.50
17 3 0.09
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (15 bp):
TAAAATTAAATAAAT
Found at i:85438100 original size:21 final size:21
Alignment explanation
Indices: 85438076--85438129 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
85438066 TATAAAGAGC
*
85438076 TTTGAGAAATTTAATGAGAAA
1 TTTGAGAAATTTAAGGAGAAA
** *
85438097 TTTGAGAGCTTTAGGGAGAAA
1 TTTGAGAAATTTAAGGAGAAA
85438118 -TTGTAGAAATTT
1 TTTG-AGAAATTT
85438130 TTTGCTAAAT
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
20 3 0.12
21 23 0.88
ACGTcount: A:0.39, C:0.02, G:0.24, T:0.35
Consensus pattern (21 bp):
TTTGAGAAATTTAAGGAGAAA
Found at i:85441916 original size:40 final size:40
Alignment explanation
Indices: 85441861--85442041 Score: 184
Period size: 40 Copynumber: 4.5 Consensus size: 40
85441851 TGACAAATCA
* * * *
85441861 GCTATA-ACTGGCACTTAGTATGCGATTCAACATAGCGTCG
1 GCTATATA-TGGCACTTAGTGTGTGATTCGACATAGCTTCG
* *
85441901 GCTATATGTGGCACTTAGTGTGTGATTCGACACAGCTTCG
1 GCTATATATGGCACTTAGTGTGTGATTCGACATAGCTTCG
* * *
85441941 GCTATATATGGCATTTAGTGTGTGAGATCGAGATAGCTTCG
1 GCTATATATGGCACTTAGTGTGTGA-TTCGACATAGCTTCG
* * * * * *
85441982 GCTATATATGGCACTTCGTGCGCGATTTGAGATAGCATCG
1 GCTATATATGGCACTTAGTGTGTGATTCGACATAGCTTCG
* *
85442022 GCTATGTACGGCACTTAGTG
1 GCTATATATGGCACTTAGTG
85442042 AGCGAGATAT
Statistics
Matches: 118, Mismatches: 21, Indels: 4
0.83 0.15 0.03
Matches are distributed among these distances:
40 85 0.72
41 33 0.28
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.31
Consensus pattern (40 bp):
GCTATATATGGCACTTAGTGTGTGATTCGACATAGCTTCG
Found at i:85442023 original size:81 final size:81
Alignment explanation
Indices: 85441892--85442041 Score: 192
Period size: 81 Copynumber: 1.9 Consensus size: 81
85441882 GCGATTCAAC
* * * * * *
85441892 ATAGCGTCGGCTATATGTGGCACTTAGTGTGTGATTCGACACAGCTTCGGCTATATATGGCATTT
1 ATAGCGTCGGCTATATATGGCACTTAGTGCGCGATTCGACACAGCATCGGCTATATACGGCACTT
85441957 AGTGTGTGAGATCGAG
66 AGTGTGTGAGATCGAG
* * * * * *
85441973 ATAGCTTCGGCTATATATGGCACTTCGTGCGCGATTTGAGATAGCATCGGCTATGTACGGCACTT
1 ATAGCGTCGGCTATATATGGCACTTAGTGCGCGATTCGACACAGCATCGGCTATATACGGCACTT
85442038 AGTG
66 AGTG
85442042 AGCGAGATAT
Statistics
Matches: 57, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
81 57 1.00
ACGTcount: A:0.22, C:0.18, G:0.29, T:0.31
Consensus pattern (81 bp):
ATAGCGTCGGCTATATATGGCACTTAGTGCGCGATTCGACACAGCATCGGCTATATACGGCACTT
AGTGTGTGAGATCGAG
Found at i:85444018 original size:18 final size:17
Alignment explanation
Indices: 85443996--85444044 Score: 64
Period size: 17 Copynumber: 2.8 Consensus size: 17
85443986 CCATTGTTAT
*
85443996 TATTTTTAGAATTTTTA
1 TATTTTTATAATTTTTA
85444013 TGATTTTTATAAGTTTTTA
1 T-ATTTTTATAA-TTTTTA
85444032 -ATTTTTATAATTT
1 TATTTTTATAATTT
85444045 GAACCATATT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
16 3 0.10
17 11 0.38
18 9 0.31
19 6 0.21
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (17 bp):
TATTTTTATAATTTTTA
Found at i:85445225 original size:22 final size:21
Alignment explanation
Indices: 85445191--85445231 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
85445181 CCAATCCCAT
*
85445191 GCATCAGTTAATAACAACATG
1 GCATCAGTAAATAACAACATG
85445212 GCATGCAGTAAATAACAACA
1 GCAT-CAGTAAATAACAACA
85445232 GTCAAACATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.46, C:0.20, G:0.15, T:0.20
Consensus pattern (21 bp):
GCATCAGTAAATAACAACATG
Found at i:85446796 original size:26 final size:26
Alignment explanation
Indices: 85446760--85446869 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
85446750 CATCAAATTC
85446760 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
85446786 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
85446812 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
85446838 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
85446864 TTATCA
1 TTATCA
85446870 ATTTGTATCA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:85453801 original size:26 final size:26
Alignment explanation
Indices: 85453772--85453881 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
85453762 CATGAAATTC
85453772 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
85453798 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
85453824 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
85453850 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
85453876 TTATCA
1 TTATCA
85453882 ATTTGTATCA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:85455849 original size:15 final size:15
Alignment explanation
Indices: 85455831--85455863 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
85455821 TTATAGAACT
85455831 TTAATGTCTACAATG
1 TTAATGTCTACAATG
85455846 TTAATGTCTACAATG
1 TTAATGTCTACAATG
85455861 TTA
1 TTA
85455864 TGGAGCTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.42
Consensus pattern (15 bp):
TTAATGTCTACAATG
Found at i:85457952 original size:65 final size:65
Alignment explanation
Indices: 85457848--85457978 Score: 262
Period size: 65 Copynumber: 2.0 Consensus size: 65
85457838 CTGTCCAAAG
85457848 TGAACAAAGAGTCTTTGGATATTGAATAGTTATTTTTGCATGTGAAGCTTTTCTACCTTCAAGAT
1 TGAACAAAGAGTCTTTGGATATTGAATAGTTATTTTTGCATGTGAAGCTTTTCTACCTTCAAGAT
85457913 TGAACAAAGAGTCTTTGGATATTGAATAGTTATTTTTGCATGTGAAGCTTTTCTACCTTCAAGAT
1 TGAACAAAGAGTCTTTGGATATTGAATAGTTATTTTTGCATGTGAAGCTTTTCTACCTTCAAGAT
85457978 T
1 T
85457979 TAGCTTTAGG
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
65 66 1.00
ACGTcount: A:0.29, C:0.12, G:0.18, T:0.40
Consensus pattern (65 bp):
TGAACAAAGAGTCTTTGGATATTGAATAGTTATTTTTGCATGTGAAGCTTTTCTACCTTCAAGAT
Found at i:85462378 original size:5 final size:5
Alignment explanation
Indices: 85462344--85462400 Score: 66
Period size: 5 Copynumber: 12.0 Consensus size: 5
85462334 TATAAATTTA
* * *
85462344 ATTAT GTTAA ATTAT AATA- ATTAT A-T-T ATTAT ATTAT ATTAT ATTAT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
85462391 ATTAT ATTAT
1 ATTAT ATTAT
85462401 GAAATAAATA
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
3 2 0.05
4 5 0.12
5 36 0.84
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (5 bp):
ATTAT
Found at i:85462760 original size:23 final size:23
Alignment explanation
Indices: 85462734--85462781 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
85462724 GTGATAAAAA
85462734 TATACAAATGTAATA-ATTGTATT
1 TATACAAATGTAATATATT-TATT
**
85462757 TATACATTTGTAATATATTTATT
1 TATACAAATGTAATATATTTATT
85462780 TA
1 TA
85462782 GTTACTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 19 0.86
24 3 0.14
ACGTcount: A:0.40, C:0.04, G:0.06, T:0.50
Consensus pattern (23 bp):
TATACAAATGTAATATATTTATT
Found at i:85464185 original size:21 final size:21
Alignment explanation
Indices: 85464159--85464223 Score: 85
Period size: 21 Copynumber: 3.1 Consensus size: 21
85464149 GGCTTTGCCG
85464159 ATCAGGCACTTTATGTGTCGT
1 ATCAGGCACTTTATGTGTCGT
* ** *
85464180 ATCAGGCACCTCGTGTGTCAT
1 ATCAGGCACTTTATGTGTCGT
*
85464201 TTCAGGCACTTTATGTGTCGT
1 ATCAGGCACTTTATGTGTCGT
85464222 AT
1 AT
85464224 ACTGCTTCTA
Statistics
Matches: 34, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.18, C:0.22, G:0.23, T:0.37
Consensus pattern (21 bp):
ATCAGGCACTTTATGTGTCGT
Found at i:85465658 original size:41 final size:41
Alignment explanation
Indices: 85465571--85465820 Score: 349
Period size: 41 Copynumber: 6.1 Consensus size: 41
85465561 TAAAACACAG
* * * *
85465571 AAAAACTGAGCAATAGCGGCGTTTTTTTGTTAAAACGCCGCT-
1 AAAAACAGAGCATTAGCGGCG--CTTTTGGTAAAACGCCGCTA
*
85465613 AAAAACAGAGCATTAGCGGCGCTTTTTGTAAAACGCCGCTA
1 AAAAACAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTA
* *
85465654 AAAAACAGAACATTAGCGGCGCTTTTGGTAAAACGCCTCTA
1 AAAAACAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTA
*
85465695 AAAAACAAAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTA
1 AAAAACAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTA
* *
85465736 AAAACCAGAGCATTAGCGGTGCTTTTGGTAAAACGCCGCTA
1 AAAAACAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTA
* * * *
85465777 AACACCAGAGCATTAGCGGCGCTTTTAGTAAAACGCCACTA
1 AAAAACAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTA
85465818 AAA
1 AAA
85465821 GTCATATAAC
Statistics
Matches: 188, Mismatches: 19, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
40 16 0.09
41 153 0.81
42 19 0.10
ACGTcount: A:0.35, C:0.22, G:0.21, T:0.22
Consensus pattern (41 bp):
AAAAACAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTA
Found at i:85467066 original size:8 final size:8
Alignment explanation
Indices: 85467027--85467112 Score: 54
Period size: 8 Copynumber: 10.6 Consensus size: 8
85467017 TTTATATGTT
85467027 AATTTAAA
1 AATTTAAA
85467035 AATTATAAA
1 AATT-TAAA
85467044 AATCTTTAAAAA
1 AA--TTT--AAA
85467056 AATTTAAA
1 AATTTAAA
85467064 AATTT-AA
1 AATTTAAA
*
85467071 AA-TAAAA
1 AATTTAAA
*
85467078 AATTTTAA
1 AATTTAAA
85467086 AA--TAAA
1 AATTTAAA
* *
85467092 AAATAAAA
1 AATTTAAA
*
85467100 AACTTAAA
1 AATTTAAA
85467108 AATTT
1 AATTT
85467113 GATATTTAAT
Statistics
Matches: 61, Mismatches: 8, Indels: 18
0.70 0.09 0.21
Matches are distributed among these distances:
6 6 0.10
7 8 0.13
8 30 0.49
9 6 0.10
10 4 0.07
11 2 0.03
12 5 0.08
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (8 bp):
AATTTAAA
Found at i:85467077 original size:20 final size:21
Alignment explanation
Indices: 85467032--85467077 Score: 60
Period size: 20 Copynumber: 2.2 Consensus size: 21
85467022 ATGTTAATTT
*
85467032 AAAAATTATAAAAATCTTTAA
1 AAAAATTATAAAAATCTTAAA
85467053 AAAAATT-TAAAAAT-TTAAA
1 AAAAATTATAAAAATCTTAAA
85467072 ATAAAA
1 A-AAAA
85467078 AATTTTAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 5 0.22
20 11 0.48
21 7 0.30
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.30
Consensus pattern (21 bp):
AAAAATTATAAAAATCTTAAA
Found at i:85467077 original size:22 final size:22
Alignment explanation
Indices: 85467052--85467112 Score: 86
Period size: 22 Copynumber: 2.8 Consensus size: 22
85467042 AAAATCTTTA
85467052 AAAAAATTTAAAAATTTAAAAT
1 AAAAAATTTAAAAATTTAAAAT
* **
85467074 AAAAAATTTTAAAATAAAAAAT
1 AAAAAATTTAAAAATTTAAAAT
*
85467096 AAAAAACTTAAAAATTT
1 AAAAAATTTAAAAATTT
85467113 GATATTTAAT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.30
Consensus pattern (22 bp):
AAAAAATTTAAAAATTTAAAAT
Found at i:85467108 original size:14 final size:15
Alignment explanation
Indices: 85467061--85467095 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
85467051 AAAAAAATTT
85467061 AAAAA-TTTAAAATA
1 AAAAATTTTAAAATA
85467075 AAAAATTTTAAAATA
1 AAAAATTTTAAAATA
85467090 AAAAAT
1 AAAAAT
85467096 AAAAAACTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 5 0.25
15 15 0.75
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (15 bp):
AAAAATTTTAAAATA
Found at i:85467322 original size:41 final size:41
Alignment explanation
Indices: 85467277--85467365 Score: 97
Period size: 41 Copynumber: 2.2 Consensus size: 41
85467267 AATAGTGGCA
** * * *
85467277 TTTTTAGGTAAAATGCCACAAAAAATTGAGCTATAATGAGG
1 TTTTTAGAAAAAATACCACAAAAAATTGAACTATAATGACG
* ** *
85467318 TTTTTATAAAAAATACCGTAAAAAGTTGAACTATAATGACG
1 TTTTTAGAAAAAATACCACAAAAAATTGAACTATAATGACG
85467359 TTTTTAG
1 TTTTTAG
85467366 TGGAAACGCC
Statistics
Matches: 38, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.42, C:0.09, G:0.16, T:0.34
Consensus pattern (41 bp):
TTTTTAGAAAAAATACCACAAAAAATTGAACTATAATGACG
Found at i:85472048 original size:19 final size:19
Alignment explanation
Indices: 85472025--85472071 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
85472015 ATTTAATCTA
*
85472025 ATTTTTATTATTTA-TTTT
1 ATTTTTATTATATATTTTT
* *
85472043 AGTTTTGATTCTATATTTTT
1 A-TTTTTATTATATATTTTT
85472063 ATTTTTATT
1 ATTTTTATT
85472072 TTAATTTGAT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 1 0.04
19 17 0.74
20 5 0.22
ACGTcount: A:0.21, C:0.02, G:0.04, T:0.72
Consensus pattern (19 bp):
ATTTTTATTATATATTTTT
Found at i:85472641 original size:29 final size:30
Alignment explanation
Indices: 85472587--85472647 Score: 79
Period size: 32 Copynumber: 2.0 Consensus size: 30
85472577 AACTTCATTA
85472587 TTCTCATCTTCATCATTTGGTTGTTTCTTCTC
1 TTCTCATCTTCATCA--TGGTTGTTTCTTCTC
* *
85472619 TTCTCATCTTCATCA-GTTTGTTTGTTCTC
1 TTCTCATCTTCATCATGGTTGTTTCTTCTC
85472648 CATTTGTTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
29 12 0.44
32 15 0.56
ACGTcount: A:0.10, C:0.25, G:0.10, T:0.56
Consensus pattern (30 bp):
TTCTCATCTTCATCATGGTTGTTTCTTCTC
Found at i:85472743 original size:31 final size:31
Alignment explanation
Indices: 85472708--85472787 Score: 78
Period size: 31 Copynumber: 2.6 Consensus size: 31
85472698 GATCAAAATT
*
85472708 AAAGTTTCATGTATACATTTGAACCACAATC-
1 AAAGTTTCATGTATAAATTTGAACCA-AATCA
* * *
85472739 AAAGTTTTATGCATATAA-TTGTACCAAATCA
1 AAAGTTTCATGTATA-AATTTGAACCAAATCA
85472770 AAAG--TCATGTATAAATTT
1 AAAGTTTCATGTATAAATTT
85472788 ACATATTAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
28 2 0.05
29 9 0.22
30 4 0.10
31 24 0.60
32 1 0.03
ACGTcount: A:0.41, C:0.14, G:0.10, T:0.35
Consensus pattern (31 bp):
AAAGTTTCATGTATAAATTTGAACCAAATCA
Found at i:85473991 original size:25 final size:25
Alignment explanation
Indices: 85473954--85474012 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
85473944 AAAATATAGA
*
85473954 TTTATAT-TATTTAATAATTAATTAT
1 TTTATATATATTTAATAATTAA-AAT
* *
85473979 TTTATATAT-TTTATTTATTAAAAT
1 TTTATATATATTTAATAATTAAAAT
85474003 TTTATATATA
1 TTTATATATA
85474013 GTCACTTACT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
24 11 0.38
25 17 0.59
26 1 0.03
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (25 bp):
TTTATATATATTTAATAATTAAAAT
Found at i:85474117 original size:18 final size:17
Alignment explanation
Indices: 85474094--85474144 Score: 59
Period size: 18 Copynumber: 3.0 Consensus size: 17
85474084 TATGTTCTAC
85474094 ATTACATAATATATAAAA
1 ATTACATAATATA-AAAA
* *
85474112 ATTACATAACATAAAAC
1 ATTACATAATATAAAAA
*
85474129 ATTAC-TAATTTAAAAA
1 ATTACATAATATAAAAA
85474145 CGAATTAGAT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
16 8 0.29
17 8 0.29
18 12 0.43
ACGTcount: A:0.59, C:0.10, G:0.00, T:0.31
Consensus pattern (17 bp):
ATTACATAATATAAAAA
Found at i:85477847 original size:3 final size:3
Alignment explanation
Indices: 85477839--85477869 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
85477829 TGAAACTTCC
85477839 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
85477870 ATGTTAGGCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:85479965 original size:14 final size:14
Alignment explanation
Indices: 85479946--85479983 Score: 76
Period size: 14 Copynumber: 2.7 Consensus size: 14
85479936 ATACTTGATT
85479946 TGTTCTTAATTATG
1 TGTTCTTAATTATG
85479960 TGTTCTTAATTATG
1 TGTTCTTAATTATG
85479974 TGTTCTTAAT
1 TGTTCTTAAT
85479984 GCTTGAGTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.21, C:0.08, G:0.13, T:0.58
Consensus pattern (14 bp):
TGTTCTTAATTATG
Found at i:85480309 original size:203 final size:203
Alignment explanation
Indices: 85479960--85480358 Score: 780
Period size: 203 Copynumber: 2.0 Consensus size: 203
85479950 CTTAATTATG
* *
85479960 TGTTCTTAATTATGTGTTCTTAATGCTTGAGTTAATATTCCGGCTATTAATTCTTGATTTGATGT
1 TGTTCTTAATTATGTGTTCTTAATGATTGAGTTAATATTCCGGCTATTAATTCATGATTTGATGT
85480025 GCTTATGCAGAGGAGGAATAGACCCTGCCTAAGAGTAGATTTGGCATAATTAAGCGGAGTTGATC
66 GCTTATGCAGAGGAGGAATAGACCCTGCCTAAGAGTAGATTTGGCATAATTAAGCGGAGTTGATC
85480090 GAACGCCTAAAAATAGGGTTACGAGATTTTGCCAGATTAGGGTGAAACCTAATATGGGAGTCCAT
131 GAACGCCTAAAAATAGGGTTACGAGATTTTGCCAGATTAGGGTGAAACCTAATATGGGAGTCCAT
85480155 ACTTGATT
196 ACTTGATT
85480163 TGTTCTTAATTATGTGTTCTTAATGATTGAGTTAATATTCCGGCTATTAATTCATGATTTGATGT
1 TGTTCTTAATTATGTGTTCTTAATGATTGAGTTAATATTCCGGCTATTAATTCATGATTTGATGT
85480228 GCTTATGCAGAGGAGGAATAGACCCTGCCTAAGAGTAGATTTGGCATAATTAAGCGGAGTTGATC
66 GCTTATGCAGAGGAGGAATAGACCCTGCCTAAGAGTAGATTTGGCATAATTAAGCGGAGTTGATC
85480293 GAACGCCTAAAAATAGGGTTACGAGATTTTGCCAGATTAGGGTGAAACCTAATATGGGAGTCCAT
131 GAACGCCTAAAAATAGGGTTACGAGATTTTGCCAGATTAGGGTGAAACCTAATATGGGAGTCCAT
85480358 A
196 A
85480359 GAGTGATTTA
Statistics
Matches: 194, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
203 194 1.00
ACGTcount: A:0.29, C:0.14, G:0.24, T:0.33
Consensus pattern (203 bp):
TGTTCTTAATTATGTGTTCTTAATGATTGAGTTAATATTCCGGCTATTAATTCATGATTTGATGT
GCTTATGCAGAGGAGGAATAGACCCTGCCTAAGAGTAGATTTGGCATAATTAAGCGGAGTTGATC
GAACGCCTAAAAATAGGGTTACGAGATTTTGCCAGATTAGGGTGAAACCTAATATGGGAGTCCAT
ACTTGATT
Found at i:85481839 original size:10 final size:11
Alignment explanation
Indices: 85481820--85481851 Score: 50
Period size: 10 Copynumber: 3.1 Consensus size: 11
85481810 ATATTTTAAT
85481820 TAATATAATAA
1 TAATATAATAA
85481831 TAA-ATAATAA
1 TAATATAATAA
85481841 -AATATAATAA
1 TAATATAATAA
85481851 T
1 T
85481852 TCATATTTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
9 2 0.11
10 14 0.74
11 3 0.16
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (11 bp):
TAATATAATAA
Done.