Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 7 of 444
Found at i:2128424 original size:12 final size:12
Alignment explanation
Indices: 2128407--2128446 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
2128397 TTTTTTTACA
2128407 TATTATTAATAT
1 TATTATTAATAT
*
2128419 TATTATTAGTAT
1 TATTATTAATAT
*
2128431 TTTTATTAATA-
1 TATTATTAATAT
2128442 TATTA
1 TATTA
2128447 ATTATTTTCA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
11 4 0.17
12 20 0.83
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.60
Consensus pattern (12 bp):
TATTATTAATAT
Found at i:2128532 original size:13 final size:14
Alignment explanation
Indices: 2128508--2128538 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
2128498 ATCATTATTA
2128508 ATATTAATATATGT
1 ATATTAATATATGT
2128522 ATATT-ATATATGT
1 ATATTAATATATGT
2128535 ATAT
1 ATAT
2128539 ATTCGTACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (14 bp):
ATATTAATATATGT
Found at i:2128758 original size:12 final size:12
Alignment explanation
Indices: 2128737--2128819 Score: 56
Period size: 10 Copynumber: 7.4 Consensus size: 12
2128727 TTCTTAATAT
2128737 TATATT-TTATA
1 TATATTATTATA
2128748 TATATTATTATA
1 TATATTATTATA
2128760 TATATT-TTA-A
1 TATATTATTATA
*
2128770 TATCATTAGTCATA
1 TAT-ATTA-TTATA
* *
2128784 T-TCTTCTT-T-
1 TATATTATTATA
*
2128793 TATACTATTATA
1 TATATTATTATA
2128805 TATA-TA-TATA
1 TATATTATTATA
2128815 TATAT
1 TATAT
2128820 CTAATATTAT
Statistics
Matches: 56, Mismatches: 7, Indels: 18
0.69 0.09 0.22
Matches are distributed among these distances:
9 1 0.02
10 17 0.30
11 16 0.29
12 17 0.30
13 3 0.05
14 2 0.04
ACGTcount: A:0.36, C:0.06, G:0.01, T:0.57
Consensus pattern (12 bp):
TATATTATTATA
Found at i:2141619 original size:33 final size:33
Alignment explanation
Indices: 2141580--2141644 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
2141570 TTGACTATTG
*
2141580 GGGAGAGTGATGCTGAAAGAGTAGAAA-CTGATT
1 GGGAGAGTGATACTGAAAGAGT-GAAACCTGATT
*
2141613 GGGAGAGTGATATTGAAAGAGTGAAACCTGAT
1 GGGAGAGTGATACTGAAAGAGTGAAACCTGAT
2141645 AAAGATGGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 4 0.14
33 25 0.86
ACGTcount: A:0.37, C:0.06, G:0.35, T:0.22
Consensus pattern (33 bp):
GGGAGAGTGATACTGAAAGAGTGAAACCTGATT
Found at i:2146073 original size:189 final size:189
Alignment explanation
Indices: 2145824--2146342 Score: 833
Period size: 189 Copynumber: 2.7 Consensus size: 189
2145814 CTCTGAGAGT
* * * * *
2145824 AATTCGACCTTTGGGCAACCACTAAGATCCAG-ATAGTGAAGAGATTCCAACTTGATCGATACAT
1 AATTCGACCATTGGGCAACCACTAAGATTCAGTTTA-CGAAGGGATTCCAACTTGATCGATACAT
* * * *
2145888 TTTTGACCACTGAGCCACTCATATTTAAGTGTTGAAGATTACATAGAGCGTCAAAAGGCAACGAC
65 TTTTGACCGCTGAGCCACTCATATTTAAGTGCTGAAGATTACATAGAGAGTCGAAAGGCAACGAC
*
2145953 ACTTCTTCAATTTGAGTGCCAGATAAGTTTAATTCCATTAAACTTTCTGGGATTTCTGGA
130 ACTTCTTCAATTTGAGTGCCAGATAAGTTTAATTCCATTAAACTTCCTGGGATTTCTGGA
2146013 AATTCGACCATTGGGCAACCACTAAGATTCAGTTTACGAAGGGATTCCAACTTGATCGATACATT
1 AATTCGACCATTGGGCAACCACTAAGATTCAGTTTACGAAGGGATTCCAACTTGATCGATACATT
* **
2146078 TTTGACTGCTGAGCCACTCATATTTAAAAGCTGAAGATTACATAGAGAGTCGAAAGGCAACGACA
66 TTTGACCGCTGAGCCACTCATATTTAAGTGCTGAAGATTACATAGAGAGTCGAAAGGCAACGACA
* ** *
2146143 CTTTTTCAATTTGAGTGCCAGATAAGTTTAATTTTATTAAGCTTCCTGGGATTTCTGGA
131 CTTCTTCAATTTGAGTGCCAGATAAGTTTAATTCCATTAAACTTCCTGGGATTTCTGGA
*
2146202 AATTTGACCATTGGGCAACCACTAAGATTCAGTTTACGAAGGGATTCCAACTTGATCGATACATT
1 AATTCGACCATTGGGCAACCACTAAGATTCAGTTTACGAAGGGATTCCAACTTGATCGATACATT
* * *
2146267 TTTGACCGCTGAGCCACTCATTTTTAAGTGCTGAAGATTACATAGGGGGTCGAAAGGCAACGACA
66 TTTGACCGCTGAGCCACTCATATTTAAGTGCTGAAGATTACATAGAGAGTCGAAAGGCAACGACA
2146332 CTTCTTCAATT
131 CTTCTTCAATT
2146343 GGGCAACCGC
Statistics
Matches: 304, Mismatches: 25, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
189 302 0.99
190 2 0.01
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.30
Consensus pattern (189 bp):
AATTCGACCATTGGGCAACCACTAAGATTCAGTTTACGAAGGGATTCCAACTTGATCGATACATT
TTTGACCGCTGAGCCACTCATATTTAAGTGCTGAAGATTACATAGAGAGTCGAAAGGCAACGACA
CTTCTTCAATTTGAGTGCCAGATAAGTTTAATTCCATTAAACTTCCTGGGATTTCTGGA
Found at i:2159501 original size:27 final size:26
Alignment explanation
Indices: 2159445--2159501 Score: 62
Period size: 27 Copynumber: 2.2 Consensus size: 26
2159435 TAATATCATC
*
2159445 AATTAATCCAAGTAAATATTACTATT
1 AATTAATCCAAGTAAATATTACTATG
* *
2159471 AATTATTCCAATTGAAATATTGAC-ATG
1 AATTAATCCAAGT-AAATATT-ACTATG
2159498 AATT
1 AATT
2159502 TTTTTTAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
26 11 0.42
27 13 0.50
28 2 0.08
ACGTcount: A:0.44, C:0.11, G:0.07, T:0.39
Consensus pattern (26 bp):
AATTAATCCAAGTAAATATTACTATG
Found at i:2162556 original size:43 final size:43
Alignment explanation
Indices: 2162483--2162678 Score: 257
Period size: 43 Copynumber: 4.5 Consensus size: 43
2162473 AAAAATTTGT
* *
2162483 GGCGTTTATTGGAAAAAACGCCGCTAAAGGTCAAGGCTTTTAGC
1 GGCGTTTA-TGGGAAAAGCGCCGCTAAAGGTCAAGGCTTTTAGC
*
2162527 GGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCAAGGCTTTTAGC
1 GGCGTTTATGGGAAAAGCGCCGCTAAAGGTCAAGGCTTTTAGC
* * * ** * *
2162570 GGCGTTTATGGGAAAAGCACCGCTAAAAGCCTTGACCTTTAGC
1 GGCGTTTATGGGAAAAGCGCCGCTAAAGGTCAAGGCTTTTAGC
*
2162613 GGCGTTTATGGGAAAAGCGCCTCTAAAGGTCAAGGCTTTTAGC
1 GGCGTTTATGGGAAAAGCGCCGCTAAAGGTCAAGGCTTTTAGC
* * *
2162656 GGCGCTTGTGGGATAAGCGCCGC
1 GGCGTTTATGGGAAAAGCGCCGC
2162679 GGCGTTTATG
Statistics
Matches: 129, Mismatches: 23, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
43 122 0.95
44 7 0.05
ACGTcount: A:0.25, C:0.20, G:0.31, T:0.23
Consensus pattern (43 bp):
GGCGTTTATGGGAAAAGCGCCGCTAAAGGTCAAGGCTTTTAGC
Found at i:2162680 original size:23 final size:23
Alignment explanation
Indices: 2162654--2162701 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
2162644 AAGGCTTTTA
* *
2162654 GCGGCGCTTGTGGGATAAGCGCC
1 GCGGCGCTTATGGGAAAAGCGCC
*
2162677 GCGGCGTTTATGGGAAAAGCGCC
1 GCGGCGCTTATGGGAAAAGCGCC
2162700 GC
1 GC
2162702 TAACGGTCAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.17, C:0.25, G:0.42, T:0.17
Consensus pattern (23 bp):
GCGGCGCTTATGGGAAAAGCGCC
Found at i:2162717 original size:66 final size:66
Alignment explanation
Indices: 2162611--2162734 Score: 212
Period size: 66 Copynumber: 1.9 Consensus size: 66
2162601 TTGACCTTTA
* *
2162611 GCGGCGTTTATGGGAAAAGCGCCTCTAAAGGTCAAGGCTTTTAGCGGCGCTTGTGGGATAAGCGC
1 GCGGCGTTTATGGGAAAAGCGCCGCTAAAGGTCAAGGCTTTTAACGGCGCTTGTGGGATAAGCGC
2162676 C
66 C
* *
2162677 GCGGCGTTTATGGGAAAAGCGCCGCTAACGGTCAAGGCTTTTAACGGCGTTTGTGGGA
1 GCGGCGTTTATGGGAAAAGCGCCGCTAAAGGTCAAGGCTTTTAACGGCGCTTGTGGGA
2162735 AAAGTACCGC
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
66 54 1.00
ACGTcount: A:0.21, C:0.20, G:0.35, T:0.23
Consensus pattern (66 bp):
GCGGCGTTTATGGGAAAAGCGCCGCTAAAGGTCAAGGCTTTTAACGGCGCTTGTGGGATAAGCGC
C
Found at i:2162745 original size:43 final size:43
Alignment explanation
Indices: 2162678--2162811 Score: 189
Period size: 43 Copynumber: 3.1 Consensus size: 43
2162668 ATAAGCGCCG
* *
2162678 CGGCGTTTATGGGAAAAGCGCCGCTAACGGTCAAGGCTTTTAA
1 CGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCAAGGCTTTTAA
** *
2162721 CGGCGTTTGTGGGAAAAGTACCGCTAAAGGTCAAGGCTTTTAG
1 CGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCAAGGCTTTTAA
* *
2162764 CGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTTC-AGGCATTTAG
1 CGGCGTTTGTGGGAAAAGCGCCGCTAAAGG-TCAAGGCTTTTAA
2162807 CGGCG
1 CGGCG
2162812 CTTTTTTTAC
Statistics
Matches: 82, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
43 80 0.98
44 2 0.02
ACGTcount: A:0.24, C:0.19, G:0.34, T:0.23
Consensus pattern (43 bp):
CGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCAAGGCTTTTAA
Found at i:2162759 original size:109 final size:109
Alignment explanation
Indices: 2162568--2162787 Score: 305
Period size: 109 Copynumber: 2.0 Consensus size: 109
2162558 AAGGCTTTTA
** * *
2162568 GCGGCGTTTATGGGAAAAGCACCGCTAAAAGCCTTGACCTTTAGCGGCGTTTATGGGAAAAGCGC
1 GCGGCGTTTATGGGAAAAGCACCGCTAAAAGCCAAGACCTTTAACGGCGTTTATGGGAAAAGCAC
* *
2162633 CTCTAAAGGTCAAGGCTTTTAGCGGCGCTTGTGGGATAAGCGCC
66 CGCTAAAGGTCAAGGCTTTTAGCGGCGCTTGTGGGAAAAGCGCC
* ** * * * * *
2162677 GCGGCGTTTATGGGAAAAGCGCCGCTAACGGTCAAGGCTTTTAACGGCGTTTGTGGGAAAAGTAC
1 GCGGCGTTTATGGGAAAAGCACCGCTAAAAGCCAAGACCTTTAACGGCGTTTATGGGAAAAGCAC
*
2162742 CGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAAAAGCGCC
66 CGCTAAAGGTCAAGGCTTTTAGCGGCGCTTGTGGGAAAAGCGCC
2162786 GC
1 GC
2162788 TAAAGGTTCA
Statistics
Matches: 96, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
109 96 1.00
ACGTcount: A:0.24, C:0.21, G:0.33, T:0.23
Consensus pattern (109 bp):
GCGGCGTTTATGGGAAAAGCACCGCTAAAAGCCAAGACCTTTAACGGCGTTTATGGGAAAAGCAC
CGCTAAAGGTCAAGGCTTTTAGCGGCGCTTGTGGGAAAAGCGCC
Found at i:2162806 original size:152 final size:152
Alignment explanation
Indices: 2162525--2162814 Score: 438
Period size: 152 Copynumber: 1.9 Consensus size: 152
2162515 AAGGCTTTTA
* *
2162525 GCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTATGGGAAAAGCAC
1 GCGGCGTTTATGGGAAAAGCGCCGCTAAAGGTCAAGGCTTTTAACGGCGTTTATGGGAAAAGCAC
** * *
2162590 CGCTAAAAGCCTTGACCTTTAGCGGCGTTTATGGGAAAAGCGCCTCTAAAGGTCAAGGCTTTTAG
66 CGCTAAAAGCCAAGACCTTTAGCGGCGTTTATGGGAAAAGCGCCGCTAAAGGTCAAGGCATTTAG
2162655 CGGCGCTTGTGGGATAAGCGCC
131 CGGCGCTTGTGGGATAAGCGCC
* * *
2162677 GCGGCGTTTATGGGAAAAGCGCCGCTAACGGTCAAGGCTTTTAACGGCGTTTGTGGGAAAAGTAC
1 GCGGCGTTTATGGGAAAAGCGCCGCTAAAGGTCAAGGCTTTTAACGGCGTTTATGGGAAAAGCAC
* * * * *
2162742 CGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTTC-AGGCATTTA
66 CGCTAAAAGCCAAGACCTTTAGCGGCGTTTATGGGAAAAGCGCCGCTAAAGG-TCAAGGCATTTA
2162806 GCGGCGCTT
130 GCGGCGCTT
2162815 TTTTTACAAA
Statistics
Matches: 123, Mismatches: 14, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
152 121 0.98
153 2 0.02
ACGTcount: A:0.23, C:0.20, G:0.33, T:0.23
Consensus pattern (152 bp):
GCGGCGTTTATGGGAAAAGCGCCGCTAAAGGTCAAGGCTTTTAACGGCGTTTATGGGAAAAGCAC
CGCTAAAAGCCAAGACCTTTAGCGGCGTTTATGGGAAAAGCGCCGCTAAAGGTCAAGGCATTTAG
CGGCGCTTGTGGGATAAGCGCC
Found at i:2162921 original size:31 final size:31
Alignment explanation
Indices: 2162886--2162966 Score: 81
Period size: 31 Copynumber: 2.5 Consensus size: 31
2162876 CTTCCTGCAT
* *
2162886 TAAAATCCAACCAAATACAACAAATATAATA
1 TAAAATCCAACCAAAAACAACAAATATAACA
* * * *
2162917 TAAAATGCAGCCAAAAACAGCAAATTTAACA
1 TAAAATCCAACCAAAAACAACAAATATAACA
*
2162948 TAAAAAATACAACCAAAAA
1 T--AAAATCCAACCAAAAA
2162967 TATTAATTCT
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
31 26 0.65
33 14 0.35
ACGTcount: A:0.62, C:0.19, G:0.04, T:0.16
Consensus pattern (31 bp):
TAAAATCCAACCAAAAACAACAAATATAACA
Found at i:2168367 original size:46 final size:46
Alignment explanation
Indices: 2168300--2168474 Score: 212
Period size: 46 Copynumber: 3.8 Consensus size: 46
2168290 TGTAACCCGC
* *
2168300 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTTGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCATTTGCAT
* * *
2168346 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG--G-C-ATTTGCAT
* * *
2168396 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCATTTGCAT
*
2168439 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG
2168475 ATGCTCAACC
Statistics
Matches: 109, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 5 0.05
44 2 0.02
45 2 0.02
46 62 0.57
47 28 0.26
48 3 0.03
49 2 0.02
50 5 0.05
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCATTTGCAT
Found at i:2168415 original size:93 final size:93
Alignment explanation
Indices: 2168307--2168478 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
2168297 CGCCCATAAG
* * *
2168307 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTTGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
2168372 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
2168400 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
2168465 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
2168479 TCAACCATCC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:2171674 original size:9 final size:9
Alignment explanation
Indices: 2171660--2171885 Score: 134
Period size: 9 Copynumber: 24.6 Consensus size: 9
2171650 TATTTAAGTA
2171660 TTATGTAAG
1 TTATGTAAG
*
2171669 TTATGTAAT
1 TTATGTAAG
*
2171678 TTATGATATG
1 TTATG-TAAG
* * *
2171688 ATATAT-AT
1 TTATGTAAG
*
2171696 TTATGTAAA
1 TTATGTAAG
* *
2171705 TTATAT-AT
1 TTATGTAAG
*
2171713 TTATCTAAG
1 TTATGTAAG
*
2171722 TTATATAAG
1 TTATGTAAG
2171731 TTATGTAAG
1 TTATGTAAG
*
2171740 TTATGTAAA
1 TTATGTAAG
*
2171749 TTATGATATAAAA
1 TTATG---T-AAG
*
2171762 TATATTTAAG
1 T-TATGTAAG
2171772 TATTATGTAAG
1 --TTATGTAAG
2171783 TTATGTAAG
1 TTATGTAAG
* *
2171792 TTATAT-AT
1 TTATGTAAG
*
2171800 TTATCTAAG
1 TTATGTAAG
*
2171809 TTATATAAG
1 TTATGTAAG
*
2171818 TTATATAAG
1 TTATGTAAG
*
2171827 TTATGTAGG
1 TTATGTAAG
*
2171836 TTATATAAG
1 TTATGTAAG
2171845 TTATGTAAG
1 TTATGTAAG
* *
2171854 TTATATATG
1 TTATGTAAG
**
2171863 TTACATAAG
1 TTATGTAAG
*
2171872 TTATGTAAA
1 TTATGTAAG
2171881 TTATG
1 TTATG
2171886 ATATCAAATA
Statistics
Matches: 169, Mismatches: 37, Indels: 22
0.74 0.16 0.10
Matches are distributed among these distances:
8 16 0.09
9 129 0.76
10 7 0.04
11 8 0.05
12 2 0.01
13 4 0.02
14 3 0.02
ACGTcount: A:0.38, C:0.01, G:0.13, T:0.47
Consensus pattern (9 bp):
TTATGTAAG
Found at i:2171738 original size:71 final size:69
Alignment explanation
Indices: 2171660--2171916 Score: 242
Period size: 71 Copynumber: 3.8 Consensus size: 69
2171650 TATTTAAGTA
* * * * *
2171660 TTATGTAAGTTATGTAATTTATGATATGATATATATTTATGTAAATTATAT-ATTTATCTAAGTT
1 TTATGTAAGTTATGTAAATTATGATATAAAATATATTTAAGT--ATTATATAAGTTATCTAAGTT
2171724 ATATAAG
64 ATAT-AG
* *
2171731 TTATGTAAGTTATGTAAATTATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTAT
1 TTATGTAAGTTATGTAAATTATGATATAAAATATATTTAAGTATTATATAAGTTATCTAAGTTAT
*
2171796 ATAT
66 ATAG
* * * * * * *
2171800 TTATCTAAGTTATAT-AAGT-T-ATAT-AAGT-TATGT-AG-GTTATATAAGTTATGTAAGTTAT
1 TTATGTAAGTTATGTAAATTATGATATAAAATATATTTAAGTATTATATAAGTTATCTAAGTTAT
2171858 ATATG
66 ATA-G
** * * *
2171863 TTACATAAGTTATGTAAATTATGATATCAAATATATTTATGTATTATGTAAGTT
1 TTATGTAAGTTATGTAAATTATGATATAAAATATATTTAAGTATTATATAAGTT
2171917 TTTTATTTCA
Statistics
Matches: 152, Mismatches: 25, Indels: 19
0.78 0.13 0.10
Matches are distributed among these distances:
62 24 0.16
63 14 0.09
64 7 0.05
65 4 0.03
66 8 0.05
67 4 0.03
68 7 0.05
69 21 0.14
70 25 0.16
71 38 0.25
ACGTcount: A:0.39, C:0.02, G:0.13, T:0.47
Consensus pattern (69 bp):
TTATGTAAGTTATGTAAATTATGATATAAAATATATTTAAGTATTATATAAGTTATCTAAGTTAT
ATAG
Found at i:2171739 original size:18 final size:18
Alignment explanation
Indices: 2171660--2171885 Score: 152
Period size: 18 Copynumber: 12.3 Consensus size: 18
2171650 TATTTAAGTA
* *
2171660 TTATGTAAGTTATGTAAT
1 TTATGTAAGTTATATAAG
* * *
2171678 TTATGATATGATATAT-AT
1 TTATG-TAAGTTATATAAG
* *
2171696 TTATGTAAATTATAT-AT
1 TTATGTAAGTTATATAAG
*
2171713 TTATCTAAGTTATATAAG
1 TTATGTAAGTTATATAAG
* *
2171731 TTATGTAAGTTATGTAAA
1 TTATGTAAGTTATATAAG
* *
2171749 TTATGATATAAAATATATTTAAG
1 TTATG---T-AAGT-TATATAAG
*
2171772 TATTATGTAAGTTATGTAAG
1 --TTATGTAAGTTATATAAG
* * *
2171792 TTATAT-ATTTATCTAAG
1 TTATGTAAGTTATATAAG
*
2171809 TTATATAAGTTATATAAG
1 TTATGTAAGTTATATAAG
*
2171827 TTATGTAGGTTATATAAG
1 TTATGTAAGTTATATAAG
*
2171845 TTATGTAAGTTATATATG
1 TTATGTAAGTTATATAAG
** * *
2171863 TTACATAAGTTATGTAAA
1 TTATGTAAGTTATATAAG
2171881 TTATG
1 TTATG
2171886 ATATCAAATA
Statistics
Matches: 165, Mismatches: 33, Indels: 20
0.76 0.15 0.09
Matches are distributed among these distances:
17 37 0.22
18 95 0.58
19 7 0.04
20 7 0.04
21 4 0.02
22 4 0.02
23 6 0.04
25 5 0.03
ACGTcount: A:0.38, C:0.01, G:0.13, T:0.47
Consensus pattern (18 bp):
TTATGTAAGTTATATAAG
Found at i:2171752 original size:27 final size:27
Alignment explanation
Indices: 2171713--2171885 Score: 150
Period size: 27 Copynumber: 6.2 Consensus size: 27
2171703 AATTATATAT
*
2171713 TTATCTAAGTTATATAAGTTATGTAAG
1 TTATGTAAGTTATATAAGTTATGTAAG
* * *
2171740 TTATGTAAATTATGATATAAAATATATTTAAG
1 TTATGT-AAGT-T-ATAT-AAGT-TATGTAAG
* * *
2171772 TATTATGTAAGTTATGTAAGTTATAT-AT
1 --TTATGTAAGTTATATAAGTTATGTAAG
* *
2171800 TTATCTAAGTTATATAAGTTATATAAG
1 TTATGTAAGTTATATAAGTTATGTAAG
*
2171827 TTATGTAGGTTATATAAGTTATGTAAG
1 TTATGTAAGTTATATAAGTTATGTAAG
* * * *
2171854 TTATATATGTTACATAAGTTATGTAAA
1 TTATGTAAGTTATATAAGTTATGTAAG
2171881 TTATG
1 TTATG
2171886 ATATCAAATA
Statistics
Matches: 118, Mismatches: 20, Indels: 16
0.77 0.13 0.10
Matches are distributed among these distances:
26 22 0.19
27 57 0.48
28 4 0.03
29 5 0.04
30 7 0.06
31 6 0.05
32 8 0.07
33 3 0.03
34 6 0.05
ACGTcount: A:0.39, C:0.02, G:0.14, T:0.46
Consensus pattern (27 bp):
TTATGTAAGTTATATAAGTTATGTAAG
Found at i:2171770 original size:114 final size:114
Alignment explanation
Indices: 2171636--2171857 Score: 313
Period size: 114 Copynumber: 1.9 Consensus size: 114
2171626 ACTAGTTATG
* * * *
2171636 TATGATATGATATATATTTAAGTATTATGTAAGTTATGTAATTTATGATATGATATAT-ATTTAT
1 TATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTAT-ATAT-ATATATAAGTTAT
* *
2171700 GTAAATTATAT-ATTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAAT
64 ATAAATTATATAAGTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAAT
* *
2171750 TATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTATATATTTATCTAAGTTATAT
1 TATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTATATATATATATAAGTTATAT
* * *
2171815 AAGTTATATAAGTTATGTAGGTTATATAAGTTATGTAAGTTAT
66 AAATTATATAAGTTATCTAAGTTATATAAGTTATGTAAGTTAT
2171858 ATATGTTACA
Statistics
Matches: 95, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
112 4 0.04
113 18 0.19
114 73 0.77
ACGTcount: A:0.39, C:0.01, G:0.13, T:0.47
Consensus pattern (114 bp):
TATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTATATATATATATAAGTTATAT
AAATTATATAAGTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAAT
Found at i:2172009 original size:15 final size:15
Alignment explanation
Indices: 2171989--2172018 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
2171979 AAGTAGCGGG
2171989 ATTAAATAATATTTA
1 ATTAAATAATATTTA
2172004 ATTAAATAATATTTA
1 ATTAAATAATATTTA
2172019 TAAAAACTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
ATTAAATAATATTTA
Found at i:2173681 original size:21 final size:21
Alignment explanation
Indices: 2173655--2173694 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
2173645 ACACTAATTC
*
2173655 ATACTTAAGTTGAATCAAATA
1 ATACTTAAGTTGAACCAAATA
2173676 ATACTTAAGTTGAACCAAA
1 ATACTTAAGTTGAACCAAA
2173695 ATATAAAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.47, C:0.12, G:0.10, T:0.30
Consensus pattern (21 bp):
ATACTTAAGTTGAACCAAATA
Found at i:2176011 original size:134 final size:134
Alignment explanation
Indices: 2175744--2176018 Score: 471
Period size: 134 Copynumber: 2.1 Consensus size: 134
2175734 GAATTCAACA
2175744 ATATAAAACGTGAGCAACAAGACAGCAATAAACTCTTAAATCAATCTAAGTCCACACTAAACACA
1 ATATAAAACGTGAGCAACAAGACAGCAATAAACTCTTAAATCAATCTAAGTCCACACTAAACACA
* **
2175809 TAAGTTGGATAGAAACATGAAAAACAGACCAAAAGAACATCTAAATAACCAAAATATAACAATTT
66 TAAGTTGGATAGAAACATGAAAAACAGACCAAAAGAACATCTAAATAACCAAAATAGAACAACAT
2175874 TATT
131 TATT
2175878 ATATAAAACGTGAGCAACAAGACAGCAATAAACTCTTAAATCAATCTAAGTCCACACTAAACACA
1 ATATAAAACGTGAGCAACAAGACAGCAATAAACTCTTAAATCAATCTAAGTCCACACTAAACACA
* * *
2175943 TAAGTTGGATAGAAACATG-AAAACAGACCAAAATAACATCTAAATAACCAAAATGGAATCACCA
66 TAAGTTGGATAGAAACATGAAAAACAGACCAAAAGAACATCTAAATAACCAAAATAGAA-CAACA
2176007 TTATT
130 TTATT
*
2176012 ATGTAAA
1 ATATAAA
2176019 CATGAAAATG
Statistics
Matches: 133, Mismatches: 7, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
133 36 0.27
134 97 0.73
ACGTcount: A:0.51, C:0.18, G:0.10, T:0.21
Consensus pattern (134 bp):
ATATAAAACGTGAGCAACAAGACAGCAATAAACTCTTAAATCAATCTAAGTCCACACTAAACACA
TAAGTTGGATAGAAACATGAAAAACAGACCAAAAGAACATCTAAATAACCAAAATAGAACAACAT
TATT
Found at i:2180010 original size:41 final size:41
Alignment explanation
Indices: 2179965--2180224 Score: 326
Period size: 41 Copynumber: 6.4 Consensus size: 41
2179955 GTTCTATGAC
2179965 TTTTAGCGGCGTTTTACCCAAAGCGCCGCTAATGCTCTAGT
1 TTTTAGCGGCGTTTTACCCAAAGCGCCGCTAATGCTCTAGT
*
2180006 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTAGT
1 TTTTAGCGGCGTTTTACCCAAAGCGCCGCTAATGCTCTAGT
* * *
2180047 TTTTAGCGGCGTTTTAGCCGAAGCGCCGCTAATGCTCTTGT
1 TTTTAGCGGCGTTTTACCCAAAGCGCCGCTAATGCTCTAGT
* * *
2180088 TTTTAGCGGCGTTTTACCCGAAGCGCCGCTAATGATCTGGT
1 TTTTAGCGGCGTTTTACCCAAAGCGCCGCTAATGCTCTAGT
*** * *
2180129 TTTTAGCGGCGTTTTACTTGAAGCGCCGCTAATGATC-CGT
1 TTTTAGCGGCGTTTTACCCAAAGCGCCGCTAATGCTCTAGT
* *** * **
2180169 TTTTAGAGGCGTTTTAGTAAAAAACGCCGCTGTTGCTCTA-T
1 TTTTAGCGGCGTTTTA-CCCAAAGCGCCGCTAATGCTCTAGT
2180210 TTTTAGCGGCGTTTT
1 TTTTAGCGGCGTTTT
2180225 TCTTGAAACG
Statistics
Matches: 195, Mismatches: 22, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
40 17 0.09
41 178 0.91
ACGTcount: A:0.18, C:0.23, G:0.25, T:0.35
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTACCCAAAGCGCCGCTAATGCTCTAGT
Found at i:2187479 original size:31 final size:31
Alignment explanation
Indices: 2187441--2187500 Score: 120
Period size: 31 Copynumber: 1.9 Consensus size: 31
2187431 CTAGTGACAA
2187441 AAGAGAGTAAAACTCTGGAATTTTAATCATT
1 AAGAGAGTAAAACTCTGGAATTTTAATCATT
2187472 AAGAGAGTAAAACTCTGGAATTTTAATCA
1 AAGAGAGTAAAACTCTGGAATTTTAATCA
2187501 CAAAAATCAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.43, C:0.10, G:0.17, T:0.30
Consensus pattern (31 bp):
AAGAGAGTAAAACTCTGGAATTTTAATCATT
Found at i:2189825 original size:13 final size:13
Alignment explanation
Indices: 2189807--2189832 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2189797 CTTCATTTTC
2189807 TATCATAGGCAAT
1 TATCATAGGCAAT
2189820 TATCATAGGCAAT
1 TATCATAGGCAAT
2189833 ATAAAATAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TATCATAGGCAAT
Found at i:2191636 original size:12 final size:12
Alignment explanation
Indices: 2191619--2191643 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2191609 TAGAATAAAG
2191619 ACGTGATCACCC
1 ACGTGATCACCC
2191631 ACGTGATCACCC
1 ACGTGATCACCC
2191643 A
1 A
2191644 TGTAATGCCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.28, C:0.40, G:0.16, T:0.16
Consensus pattern (12 bp):
ACGTGATCACCC
Found at i:2192026 original size:39 final size:39
Alignment explanation
Indices: 2191971--2192050 Score: 133
Period size: 39 Copynumber: 2.1 Consensus size: 39
2191961 TCATGCCGGT
* *
2191971 ATTTCCTAGCAGATGTCGCTGCCCATTCCTTAGCTCGGG
1 ATTTCCCAGCAGATGTCGCTGCCCATTCCTTAGCTAGGG
*
2192010 ATTTCCCAGCATATGTCGCTGCCCATTCCTTAGCTAGGG
1 ATTTCCCAGCAGATGTCGCTGCCCATTCCTTAGCTAGGG
2192049 AT
1 AT
2192051 CCAATTTTGA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.17, C:0.30, G:0.21, T:0.31
Consensus pattern (39 bp):
ATTTCCCAGCAGATGTCGCTGCCCATTCCTTAGCTAGGG
Found at i:2195812 original size:15 final size:16
Alignment explanation
Indices: 2195782--2195816 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
2195772 ACTTTATTAA
2195782 AATATTTATTATATAT
1 AATATTTATTATATAT
*
2195798 AATATTTTTTA-ATAT
1 AATATTTATTATATAT
2195813 AATA
1 AATA
2195817 AAATATATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (16 bp):
AATATTTATTATATAT
Found at i:2197594 original size:8 final size:8
Alignment explanation
Indices: 2197583--2197607 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
2197573 ACCATGAAAC
2197583 CCTAGCCA
1 CCTAGCCA
2197591 CCTAGCCA
1 CCTAGCCA
2197599 CCTAGCCA
1 CCTAGCCA
2197607 C
1 C
2197608 TTTCCCACTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.52, G:0.12, T:0.12
Consensus pattern (8 bp):
CCTAGCCA
Found at i:2207275 original size:73 final size:71
Alignment explanation
Indices: 2207086--2207275 Score: 245
Period size: 72 Copynumber: 2.6 Consensus size: 71
2207076 AAGCCTTTGT
* * * *
2207086 ATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTCGAGCCTCAGGTCACGCTGAGGT
1 ATTTTTG-TTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGT
*
2207151 ATTTTCA
65 AATTTCA
* **
2207158 ATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGT
1 ATTTTTGT-TTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGT
2207223 AATTTCA
65 AATTTCA
* * *
2207230 ATTTCTGTTTGTCAAGAATCAACTCATATTTCGAGAGGTGGGTTGA
1 ATTTTTGTTT-TCAA-AATCAACTCATATTGCGAGAGGTGAGTTGA
2207276 ACCTTTTAAT
Statistics
Matches: 101, Mismatches: 14, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
71 3 0.03
72 72 0.71
73 26 0.26
ACGTcount: A:0.26, C:0.15, G:0.23, T:0.36
Consensus pattern (71 bp):
ATTTTTGTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGTA
ATTTCA
Found at i:2207318 original size:127 final size:123
Alignment explanation
Indices: 2207175--2207521 Score: 388
Period size: 116 Copynumber: 2.8 Consensus size: 123
2207165 TGTTTTAATT
*
2207175 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGTAATTTCAATTTCTGTTT
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTT-TGTTT
* *
2207240 GTCAAGAATCAACTCATATTTCGAGAGGTGGGTTGAA-CCTTTTAATTTCTACTTTTTCAAAA
65 -T-AA-AATCAACTCATATTGCGAGAGGTGAGTTGAAGCCTTTTAATTT-TACTTTTTCAAAA
* * * *
2207302 TCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGT-A-TT---TTTAGTTTT
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTTGTTTT
** * * **
2207362 -AAATTGACTCATATTGCGAGAAGTGAGTT-AAGCCTTTTTATTTTTGTTTTTCAAAA
66 AAAATCAACTCATATTGCGAGAGGTGAGTTGAAGCCTTTTAATTTTACTTTTTCAAAA
* * * *
2207418 TCAACTCATATTGCTAGAGGTGAGTCGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTTTGTGT
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAA--TTT-TGT
**
2207483 TTTAATTTCAACTCATATTGCGAGAGGTGAGTTG-AGCCT
63 TTTAAAATCAACTCATATTGCGAGAGGTGAGTTGAAGCCT
2207522 CAGGACACGA
Statistics
Matches: 184, Mismatches: 25, Indels: 24
0.79 0.11 0.10
Matches are distributed among these distances:
116 56 0.30
117 33 0.18
118 3 0.02
120 1 0.01
121 4 0.02
122 3 0.02
123 3 0.02
124 5 0.03
125 31 0.17
126 1 0.01
127 44 0.24
ACGTcount: A:0.26, C:0.16, G:0.22, T:0.36
Consensus pattern (123 bp):
TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTTGTTTT
AAAATCAACTCATATTGCGAGAGGTGAGTTGAAGCCTTTTAATTTTACTTTTTCAAAA
Found at i:2207550 original size:315 final size:315
Alignment explanation
Indices: 2206978--2207983 Score: 1843
Period size: 315 Copynumber: 3.2 Consensus size: 315
2206968 TTAATTGTTG
2206978 TTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTAG
1 TTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTAG
* *
2207043 TTTTAAATTGACTCATATTGTGAGAGGTGAGTTAAGCCTTTGTATTTTTGTTTTTCAAAATCAAC
66 TTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTTATTTTTGTTTTTCAAAATCAAC
2207108 TCATATTGCTAGAGGTGAGTCGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTTTGTGTTTTAA
131 TCATATTGCTAGAGGTGAGTCGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTTTGTGTTTTAA
2207173 TTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGTAATTTCAATTTCTGT
196 TTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGTAATTTCAATTTCTGT
*
2207238 TTGTCAAGAATCAACTCATATTTCGAGAGGTGGGTTGAACCTTTTAATTTCTACT
261 TTGTCAAGAATCAACTCATATTACGAGAGGTGGGTTGAACCTTTTAATTTCTACT
2207293 TTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTAG
1 TTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTAG
*
2207358 TTTTAAATTGACTCATATTGCGAGAAGTGAGTTAAGCCTTTTTATTTTTGTTTTTCAAAATCAAC
66 TTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTTATTTTTGTTTTTCAAAATCAAC
2207423 TCATATTGCTAGAGGTGAGTCGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTTTGTGTTTTAA
131 TCATATTGCTAGAGGTGAGTCGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTTTGTGTTTTAA
2207488 TTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGTAATTTCAATTTCTGT
196 TTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGTAATTTCAATTTCTGT
*
2207553 TTGTCAAGAATCAACTCATATTACGAGAGGTGGGTTGAACCTTTTAATTTCTAGT
261 TTGTCAAGAATCAACTCATATTACGAGAGGTGGGTTGAACCTTTTAATTTCTACT
*
2207608 TTTTTAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTAG
1 TTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTAG
* *
2207673 TTTTAAATTGACTCATATTACGAGAGGTGAGTTAAGCCTTATTATTTTTGTTTTTCAAAATCAAC
66 TTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTTATTTTTGTTTTTCAAAATCAAC
*
2207738 TCATATTGCTAGAGGTAAGTCGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTTTGTGTTTTAA
131 TCATATTGCTAGAGGTGAGTCGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTTTGTGTTTTAA
2207803 TTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGTAATTTCAATTTCTGT
196 TTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGTAATTTCAATTTCTGT
* * *
2207868 TTGTCAAGAATTAACTCATATTGCGAGAGGT-GGTTGAACCTTTCAATTTCTACT
261 TTGTCAAGAATCAACTCATATTACGAGAGGTGGGTTGAACCTTTTAATTTCTACT
* * ** * *
2207922 TTTTCAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTTAGGTCACGCCGAGGTATTTT
1 TTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTT
2207984 CAATTTCTGT
Statistics
Matches: 670, Mismatches: 21, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
314 76 0.11
315 594 0.89
ACGTcount: A:0.26, C:0.15, G:0.22, T:0.36
Consensus pattern (315 bp):
TTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTAG
TTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTTATTTTTGTTTTTCAAAATCAAC
TCATATTGCTAGAGGTGAGTCGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTTTGTGTTTTAA
TTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGTAATTTCAATTTCTGT
TTGTCAAGAATCAACTCATATTACGAGAGGTGGGTTGAACCTTTTAATTTCTACT
Found at i:2207590 original size:73 final size:71
Alignment explanation
Indices: 2207401--2207590 Score: 245
Period size: 72 Copynumber: 2.6 Consensus size: 71
2207391 AAGCCTTTTT
* * * *
2207401 ATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTCGAGCCTCAGGTCACGCTGAGGT
1 ATTTTTG-TTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGT
*
2207466 ATTTTCA
65 AATTTCA
* **
2207473 ATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGT
1 ATTTTTGT-TTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGT
2207538 AATTTCA
65 AATTTCA
* * *
2207545 ATTTCTGTTTGTCAAGAATCAACTCATATTACGAGAGGTGGGTTGA
1 ATTTTTGTTT-TCAA-AATCAACTCATATTGCGAGAGGTGAGTTGA
2207591 ACCTTTTAAT
Statistics
Matches: 101, Mismatches: 14, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
71 3 0.03
72 72 0.71
73 26 0.26
ACGTcount: A:0.26, C:0.15, G:0.23, T:0.36
Consensus pattern (71 bp):
ATTTTTGTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGTA
ATTTCA
Found at i:2207632 original size:127 final size:123
Alignment explanation
Indices: 2207490--2207836 Score: 381
Period size: 116 Copynumber: 2.8 Consensus size: 123
2207480 TGTTTTAATT
*
2207490 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGTAATTTCAATTTCTGTTT
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTT-TGTTT
* *
2207555 GTCAAGAATCAACTCATATTACGAGAGGTGGGTTGAA-CCTT-TTAATTTCTAGTTTTTTAAAA
65 -T-AA-AATCAACTCATATTACGAGAGGTGAGTTGAAGCCTTATT-ATTT-TAGTTTTTCAAAA
* * * *
2207617 TCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGT-A-TT---TTTAGTTTT
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTTGTTTT
** *
2207677 -AAATTGACTCATATTACGAGAGGTGAGTT-AAGCCTTATTATTTTTGTTTTTCAAAA
66 AAAATCAACTCATATTACGAGAGGTGAGTTGAAGCCTTATTATTTTAGTTTTTCAAAA
* * * * *
2207733 TCAACTCATATTGCTAGAGGTAAGTCGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTTTGTGT
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAA--TTT-TGT
** *
2207798 TTTAATTTCAACTCATATTGCGAGAGGTGAGTTG-AGCCT
63 TTTAAAATCAACTCATATTACGAGAGGTGAGTTGAAGCCT
2207837 CAGGACACGA
Statistics
Matches: 185, Mismatches: 23, Indels: 26
0.79 0.10 0.11
Matches are distributed among these distances:
116 55 0.30
117 33 0.18
118 5 0.03
120 1 0.01
121 4 0.02
122 3 0.02
123 3 0.02
124 5 0.03
125 31 0.17
126 1 0.01
127 44 0.24
ACGTcount: A:0.27, C:0.15, G:0.22, T:0.36
Consensus pattern (123 bp):
TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTTGTTTT
AAAATCAACTCATATTACGAGAGGTGAGTTGAAGCCTTATTATTTTAGTTTTTCAAAA
Found at i:2207835 original size:72 final size:71
Alignment explanation
Indices: 2207716--2207904 Score: 229
Period size: 72 Copynumber: 2.6 Consensus size: 71
2207706 AAGCCTTATT
* * * * * *
2207716 ATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTAAGTCGAGCCTCAGGTCACGCTGAGGT
1 ATTTTTGTTTTT-AAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGT
*
2207781 ATTTTCA
65 AATTTCA
*
2207788 ATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGT
1 ATTTTTGT-TTTTAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGT
2207853 AATTTCA
65 AATTTCA
* *
2207860 ATTTCTGTTTGTCAAGAATT-AACTCATATTGCGAGAGGTG-GTTGA
1 ATTTTTGTTT-T-TA-AATTCAACTCATATTGCGAGAGGTGAGTTGA
2207905 ACCTTTCAAT
Statistics
Matches: 102, Mismatches: 11, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
71 2 0.02
72 72 0.71
73 25 0.25
74 3 0.03
ACGTcount: A:0.26, C:0.15, G:0.22, T:0.37
Consensus pattern (71 bp):
ATTTTTGTTTTTAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGTA
ATTTCA
Found at i:2207917 original size:53 final size:54
Alignment explanation
Indices: 2207855--2207963 Score: 150
Period size: 53 Copynumber: 2.0 Consensus size: 54
2207845 GATGAGGTAA
* *
2207855 TTTCAATTTCT-GTTTGTCAAGAATTAACTCATATTGCGAGAGGTG-GTTGAACC
1 TTTCAATTTCTACTTTGTCAA-AATCAACTCATATTGCGAGAGGTGAGTTGAACC
* * *
2207908 TTTCAATTTCTACTTTTTCAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCC
1 TTTCAATTTCTACTTTGTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAACC
2207962 TT
1 TT
2207964 AGGTCACGCC
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
53 33 0.67
54 16 0.33
ACGTcount: A:0.26, C:0.17, G:0.19, T:0.39
Consensus pattern (54 bp):
TTTCAATTTCTACTTTGTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAACC
Found at i:2207970 original size:198 final size:188
Alignment explanation
Indices: 2207617--2207989 Score: 464
Period size: 198 Copynumber: 1.9 Consensus size: 188
2207607 TTTTTTAAAA
* * *
2207617 TCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTAGTTTTAAATT
1 TCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGATGAGGTATTTTTAGTTTTAAATT
* * **
2207682 GACTCATATTACGAGAGGTGAGTTAAGCCTTATTATTTTTGTTTTTCAAAATCAACTCATATTGC
66 AACTCATATTACGAGAGGTGAGTTAAGCCTTATAATTTTACTTTTTCAAAATCAACTCATATTGC
* *
2207747 TAGAGGTAAGTCGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTTTGTGTTTTAATT
131 GAGAGGTAAGTCGAGCCTCAGGTCACGCCGAGGTATTTTCAATTTTTGTGTTTTAATT
* *
2207805 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGTAATTTCAATTTCTGTTT
1 TCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGATGAGGT-A-TT---TTT-AGTTT
*
2207870 GTCAAGAATTAACTCATATTGCGAGAGGTG-GTTGAA-CCTT-TCAATTTCTACTTTTTCAAAAT
60 -T--A-AATTAACTCATATTACGAGAGGTGAGTT-AAGCCTTAT-AATTT-TACTTTTTCAAAAT
* * * *
2207932 CAGCTCATATTGCGAGAGGTGAGTTGAGCCTTAGGTCACGCCGAGGTATTTTCAATTT
118 CAACTCATATTGCGAGAGGTAAGTCGAGCCTCAGGTCACGCCGAGGTATTTTCAATTT
2207990 CTGTTTTCAT
Statistics
Matches: 156, Mismatches: 16, Indels: 16
0.83 0.09 0.09
Matches are distributed among these distances:
188 44 0.28
189 1 0.01
190 2 0.01
193 3 0.02
194 4 0.03
195 1 0.01
196 1 0.01
197 12 0.08
198 88 0.56
ACGTcount: A:0.26, C:0.16, G:0.22, T:0.36
Consensus pattern (188 bp):
TCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGATGAGGTATTTTTAGTTTTAAATT
AACTCATATTACGAGAGGTGAGTTAAGCCTTATAATTTTACTTTTTCAAAATCAACTCATATTGC
GAGAGGTAAGTCGAGCCTCAGGTCACGCCGAGGTATTTTCAATTTTTGTGTTTTAATT
Found at i:2208201 original size:55 final size:55
Alignment explanation
Indices: 2208081--2208200 Score: 224
Period size: 55 Copynumber: 2.2 Consensus size: 55
2208071 TTTTAGTTTA
*
2208081 TGTTTCAAAAATCAACTCATGTTGCGAGAGGTGCGTTAAGCCTTTTAATTTCTGT
1 TGTTTCAAAAATCAACTCATGTTGCGAGAGGTGAGTTAAGCCTTTTAATTTCTGT
2208136 TGTTTCAAAAATCAACTCATGTTGCGAGAGGTGAGTTAAGCCTTTTAATTTCTGT
1 TGTTTCAAAAATCAACTCATGTTGCGAGAGGTGAGTTAAGCCTTTTAATTTCTGT
2208191 T-TTTCAAAAA
1 TGTTTCAAAAA
2208201 AAAAAATCAA
Statistics
Matches: 64, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
54 9 0.14
55 55 0.86
ACGTcount: A:0.28, C:0.15, G:0.18, T:0.38
Consensus pattern (55 bp):
TGTTTCAAAAATCAACTCATGTTGCGAGAGGTGAGTTAAGCCTTTTAATTTCTGT
Found at i:2208937 original size:31 final size:33
Alignment explanation
Indices: 2208868--2208938 Score: 94
Period size: 32 Copynumber: 2.2 Consensus size: 33
2208858 ATTAAGCCCC
2208868 CCAA-AAAAACCTAACCCCCAAAAAAAAAAGAA
1 CCAAGAAAAACCTAACCCCCAAAAAAAAAAGAA
** *
2208900 AAAAGAAAAACCT-ACCCCCCAAAAAAAAA-AA
1 CCAAGAAAAACCTAACCCCCAAAAAAAAAAGAA
2208931 CCAAGAAA
1 CCAAGAAA
2208939 CCCTAGCCAC
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
31 8 0.24
32 17 0.52
33 8 0.24
ACGTcount: A:0.66, C:0.27, G:0.04, T:0.03
Consensus pattern (33 bp):
CCAAGAAAAACCTAACCCCCAAAAAAAAAAGAA
Found at i:2208951 original size:8 final size:8
Alignment explanation
Indices: 2208940--2208964 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
2208930 ACCAAGAAAC
2208940 CCTAGCCA
1 CCTAGCCA
2208948 CCTAGCCA
1 CCTAGCCA
2208956 CCTAGCCA
1 CCTAGCCA
2208964 C
1 C
2208965 TTTCCCACTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.52, G:0.12, T:0.12
Consensus pattern (8 bp):
CCTAGCCA
Found at i:2209476 original size:2 final size:2
Alignment explanation
Indices: 2209471--2209529 Score: 61
Period size: 2 Copynumber: 30.5 Consensus size: 2
2209461 ATATATTTCT
* * *
2209471 TA TA TA TA TA TA T- TC T- TA AA TA CTA T- TA TA TA CA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA
2209511 TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA T
2209530 TTTAAATACC
Statistics
Matches: 49, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
1 3 0.06
2 44 0.90
3 2 0.04
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:2210710 original size:5 final size:5
Alignment explanation
Indices: 2210702--2210736 Score: 70
Period size: 5 Copynumber: 7.0 Consensus size: 5
2210692 TTTAATTATC
2210702 TATTT TATTT TATTT TATTT TATTT TATTT TATTT
1 TATTT TATTT TATTT TATTT TATTT TATTT TATTT
2210737 ATTAAGCTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TATTT
Found at i:2221619 original size:15 final size:15
Alignment explanation
Indices: 2221599--2221631 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
2221589 ATTTCGGTTT
2221599 CCGGGAAACAGCAAA
1 CCGGGAAACAGCAAA
2221614 CCGGGAAACAGCAAA
1 CCGGGAAACAGCAAA
2221629 CCG
1 CCG
2221632 ATGCTCCTCT
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:0.42, C:0.30, G:0.27, T:0.00
Consensus pattern (15 bp):
CCGGGAAACAGCAAA
Found at i:2238194 original size:40 final size:39
Alignment explanation
Indices: 2238149--2238226 Score: 93
Period size: 39 Copynumber: 2.0 Consensus size: 39
2238139 TATTTCAATT
* *
2238149 TTGGTCACCATTTCATTAAATTGTTAACGGAAATGATGAC
1 TTGGTCACCA-TCCATTAAATTGTTAACGAAAATGATGAC
** * *
2238189 TTGGTCGTCATCCGTTAAATTGTTAATGAAAATGATGA
1 TTGGTCACCATCCATTAAATTGTTAACGAAAATGATGA
2238227 TGTAACCTAT
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
39 24 0.75
40 8 0.25
ACGTcount: A:0.32, C:0.13, G:0.19, T:0.36
Consensus pattern (39 bp):
TTGGTCACCATCCATTAAATTGTTAACGAAAATGATGAC
Found at i:2239387 original size:26 final size:26
Alignment explanation
Indices: 2239350--2239459 Score: 193
Period size: 26 Copynumber: 4.2 Consensus size: 26
2239340 TGATACAAAT
*
2239350 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
2239376 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
2239402 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
2239428 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
2239454 TGATAA
1 TGATAA
2239460 GAATTTCATG
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:0.33, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:2244861 original size:23 final size:22
Alignment explanation
Indices: 2244826--2244876 Score: 59
Period size: 24 Copynumber: 2.3 Consensus size: 22
2244816 TTGTTTGAAG
2244826 TATATATAAAGTAG-GTAAAAA
1 TATATATAAAGTAGTGTAAAAA
* *
2244847 TATATATAACTAGTAGTGTTAAAG
1 TATATATAA--AGTAGTGTAAAAA
2244871 TATATA
1 TATATA
2244877 CATAATAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 9 0.36
23 5 0.20
24 11 0.44
ACGTcount: A:0.49, C:0.02, G:0.14, T:0.35
Consensus pattern (22 bp):
TATATATAAAGTAGTGTAAAAA
Found at i:2244892 original size:16 final size:16
Alignment explanation
Indices: 2244871--2244922 Score: 63
Period size: 16 Copynumber: 3.4 Consensus size: 16
2244861 AGTGTTAAAG
*
2244871 TATATACATAATAATA
1 TATATACATAAAAATA
*
2244887 TATATA-A-AAAAATG
1 TATATACATAAAAATA
*
2244901 TATGTACATAAAAATA
1 TATATACATAAAAATA
2244917 TATATA
1 TATATA
2244923 TGCATATACA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
14 10 0.34
15 2 0.07
16 17 0.59
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.35
Consensus pattern (16 bp):
TATATACATAAAAATA
Found at i:2245441 original size:3 final size:3
Alignment explanation
Indices: 2245433--2245530 Score: 92
Period size: 3 Copynumber: 32.0 Consensus size: 3
2245423 AATAGTAAAT
* * *
2245433 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA TTA ATA TTA AGA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
2245481 GT- ATAA ATA ATA TATA CATA ATA ATA AGTG ACA ATA AT- ATA ATA ATA
1 ATA AT-A ATA ATA -ATA -ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA
2245528 ATA
1 ATA
2245531 GCAAAATTAA
Statistics
Matches: 77, Mismatches: 13, Indels: 10
0.77 0.13 0.10
Matches are distributed among these distances:
2 3 0.04
3 64 0.83
4 10 0.13
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:2245817 original size:31 final size:31
Alignment explanation
Indices: 2245782--2245845 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
2245772 AAACTAAATT
2245782 GTAGAACGCTTAAAAAGCGGAAGGGTCATTC
1 GTAGAACGCTTAAAAAGCGGAAGGGTCATTC
2245813 GTAGAACGCTTAAAAAGCGGAAGGGTCATTC
1 GTAGAACGCTTAAAAAGCGGAAGGGTCATTC
2245844 GT
1 GT
2245846 GCAATTAGAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.34, C:0.16, G:0.30, T:0.20
Consensus pattern (31 bp):
GTAGAACGCTTAAAAAGCGGAAGGGTCATTC
Found at i:2248969 original size:26 final size:26
Alignment explanation
Indices: 2248938--2248991 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
2248928 AACTCTTTGG
*
2248938 CTTAAAGAAAATTAGGCCAAGAAAAT
1 CTTAAAGAAAATCAGGCCAAGAAAAT
2248964 CTTAAAGAAAATCAGGCCAAGAAAAT
1 CTTAAAGAAAATCAGGCCAAGAAAAT
2248990 CT
1 CT
2248992 ACCTTAGTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.52, C:0.15, G:0.15, T:0.19
Consensus pattern (26 bp):
CTTAAAGAAAATCAGGCCAAGAAAAT
Found at i:2253876 original size:22 final size:22
Alignment explanation
Indices: 2253827--2253876 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 22
2253817 ACGAGCCCTG
* *
2253827 AAATTAAATTGGATGGTAGAGT
1 AAATTAAATTGGATGGCAAAGT
** *
2253849 CGATTAAATTGGATGGCAAATT
1 AAATTAAATTGGATGGCAAAGT
2253871 AAATTA
1 AAATTA
2253877 CACCTACAAA
Statistics
Matches: 21, Mismatches: 7, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.42, C:0.04, G:0.22, T:0.32
Consensus pattern (22 bp):
AAATTAAATTGGATGGCAAAGT
Found at i:2254037 original size:43 final size:43
Alignment explanation
Indices: 2253928--2254045 Score: 165
Period size: 38 Copynumber: 2.9 Consensus size: 43
2253918 TAAGGATAAA
*
2253928 CAAGAATTAAATAAGTTAAAAACATGATCCACTAATGTATTTT
1 CAAGAATTAAATAAGTTAAAAACATGATCCATTAATGTATTTT
* **
2253971 CAAGAA-TAAACAA--T-ATTA-ATGATCCATTAATGTATTTT
1 CAAGAATTAAATAAGTTAAAAACATGATCCATTAATGTATTTT
2254009 CAAGAATTAAATAAGTTAAAAACATGATCCATTAATG
1 CAAGAATTAAATAAGTTAAAAACATGATCCATTAATG
2254046 ATCTATTAAA
Statistics
Matches: 63, Mismatches: 7, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
38 25 0.40
39 8 0.13
40 1 0.02
41 1 0.02
42 8 0.13
43 20 0.32
ACGTcount: A:0.47, C:0.11, G:0.09, T:0.32
Consensus pattern (43 bp):
CAAGAATTAAATAAGTTAAAAACATGATCCATTAATGTATTTT
Found at i:2255010 original size:17 final size:18
Alignment explanation
Indices: 2254969--2255014 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 18
2254959 CGACAGCGGT
2254969 AGAGAGAAGAGGCTATGAC
1 AGAGAGAAGAGGC-ATGAC
2254988 AGAGAGAAGAGG-ATGCAGC
1 AGAGAGAAGAGGCATG-A-C
2255007 AGAGAGAA
1 AGAGAGAA
2255015 AAGGGATTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
17 3 0.12
18 1 0.04
19 21 0.84
ACGTcount: A:0.46, C:0.09, G:0.39, T:0.07
Consensus pattern (18 bp):
AGAGAGAAGAGGCATGAC
Found at i:2255179 original size:62 final size:62
Alignment explanation
Indices: 2255102--2255241 Score: 185
Period size: 62 Copynumber: 2.3 Consensus size: 62
2255092 GACGCCGTTG
* * * * *
2255102 GGGAAAATAGGAGAAAAGAAATTGGGAAACTGGGGGAATGGAATCGGGGTAATCTGATTTGA
1 GGGAAAATAGGAGAAAAGAAATTGAGAAACTGGGGGAATGAAATCAGAGTAATCTAATTTGA
* *
2255164 GGGAAAAT-GAGAGAAAAGAAATTGAGAAATTGGGGGAATGAAATCAGAGTAATTTAATTTGA
1 GGGAAAATAG-GAGAAAAGAAATTGAGAAACTGGGGGAATGAAATCAGAGTAATCTAATTTGA
2255226 GGGAAAACTAGG-GAAA
1 GGGAAAA-TAGGAGAAA
2255242 TTCGGGGCTA
Statistics
Matches: 68, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
61 1 0.01
62 64 0.94
63 2 0.03
64 1 0.01
ACGTcount: A:0.44, C:0.04, G:0.34, T:0.19
Consensus pattern (62 bp):
GGGAAAATAGGAGAAAAGAAATTGAGAAACTGGGGGAATGAAATCAGAGTAATCTAATTTGA
Found at i:2255568 original size:115 final size:115
Alignment explanation
Indices: 2255366--2255659 Score: 383
Period size: 115 Copynumber: 2.6 Consensus size: 115
2255356 ATTTATGGCG
* * * *
2255366 TTTTAGTAAAAAGGCCACTAAAAAGTAGATAAAAACGATAGCGTTTTGCATAGTCTTAAAACATT
1 TTTTAGTAAAAACGCCACTAAAAAGCAGATAAAAACGACAGCGTTTTGCACAGTCTTAAAACATT
* * * *
2255431 TTTGCGGCGTTTTATGATAAAATGCCACTAAAGGATATCTTTTTGTGGAA
66 TTTGCAGCGTTTTATGAGAAAATGCCACTAAAGGATATCCTTTTGCGGAA
* * *
2255481 TTTTAGTAAAAACGCCATTAAAAAGCCA-ATAAAAGCGGCAGCGTTTTGCACAGTCTTAAAACAT
1 TTTTAGTAAAAACGCCACTAAAAAG-CAGATAAAAACGACAGCGTTTTGCACAGTCTTAAAACAT
*
2255545 TTTTGCAGCGTTTTATGAGAAAATGCCACTAAAGGATATCCTTTTGCGGCA
65 TTTTGCAGCGTTTTATGAGAAAATGCCACTAAAGGATATCCTTTTGCGGAA
*** * ** * **
2255596 TTTTAGTAAAAACGCCACTAATTGGCAGACAAAAACGGTAGTGTTTTGCACTCTCTTAAAACAT
1 TTTTAGTAAAAACGCCACTAAAAAGCAGATAAAAACGACAGCGTTTTGCACAGTCTTAAAACAT
2255660 AATTGCGGTA
Statistics
Matches: 155, Mismatches: 22, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
114 2 0.01
115 152 0.98
116 1 0.01
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.31
Consensus pattern (115 bp):
TTTTAGTAAAAACGCCACTAAAAAGCAGATAAAAACGACAGCGTTTTGCACAGTCTTAAAACATT
TTTGCAGCGTTTTATGAGAAAATGCCACTAAAGGATATCCTTTTGCGGAA
Found at i:2255682 original size:115 final size:113
Alignment explanation
Indices: 2255366--2255705 Score: 353
Period size: 115 Copynumber: 3.0 Consensus size: 113
2255356 ATTTATGGCG
* * * *
2255366 TTTTAGTAAAAAGGCCACTAAAAAGTAGATAAAAACGATAGCGTTTTGCA-TAGTCTTAAAACAT
1 TTTTAGTAAAAACGCCACTAAAAGGCAGATAAAAACGGTAGCGTTTTGCACT-GTCTTAAAACAT
* * *
2255430 TTTTGCGGCGTTTTATGAT-AAAATGCCACTAAAGGATATCTTTTTGTGGAA
65 TTTTGC-G-GTTTTTTG-TGAAAATGCCACTAAAGGATATCCTTTTGCGGAA
* * * * *
2255481 TTTTAGTAAAAACGCCATTAAAAAGCCA-ATAAAAGCGGCAGCGTTTTGCACAGTCTTAAAACAT
1 TTTTAGTAAAAACGCCACT-AAAAGGCAGATAAAAACGGTAGCGTTTTGCACTGTCTTAAAACAT
* * *
2255545 TTTTGCAGCGTTTTATGAGAAAATGCCACTAAAGGATATCCTTTTGCGGCA
65 TTTTGC-G-GTTTTTTGTGAAAATGCCACTAAAGGATATCCTTTTGCGGAA
** * * * *
2255596 TTTTAGTAAAAACGCCACTAATTGGCAGACAAAAACGGTAGTGTTTTGCACTCTCTTAAAACATA
1 TTTTAGTAAAAACGCCACTAAAAGGCAGATAAAAACGGTAGCGTTTTGCACTGTCTTAAAACATT
* * * *
2255661 ATTGCGGTATTGTTTGTGAAAACGGCACTAAAGGCTATCCTTTTG
66 TTTGCGGT-TT-TTTGTGAAAATGCCACTAAAGGATATCCTTTTG
2255706 TGGCGTTCTA
Statistics
Matches: 188, Mismatches: 31, Indels: 12
0.81 0.13 0.05
Matches are distributed among these distances:
113 2 0.01
114 8 0.04
115 173 0.92
116 5 0.03
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.31
Consensus pattern (113 bp):
TTTTAGTAAAAACGCCACTAAAAGGCAGATAAAAACGGTAGCGTTTTGCACTGTCTTAAAACATT
TTTGCGGTTTTTTGTGAAAATGCCACTAAAGGATATCCTTTTGCGGAA
Found at i:2255884 original size:7 final size:7
Alignment explanation
Indices: 2255874--2255927 Score: 54
Period size: 7 Copynumber: 7.6 Consensus size: 7
2255864 TTTTTTAGAT
2255874 TTTAAGG
1 TTTAAGG
*
2255881 TTTATGG
1 TTTAAGG
*
2255888 TTTAAGAT
1 TTTAAG-G
2255896 TTTAAGG
1 TTTAAGG
*
2255903 TTTAGGG
1 TTTAAGG
*
2255910 TTTAGGG
1 TTTAAGG
*
2255917 TTTAGGG
1 TTTAAGG
2255924 TTTA
1 TTTA
2255928 TGGGTTAGTG
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
7 35 0.85
8 6 0.15
ACGTcount: A:0.22, C:0.00, G:0.30, T:0.48
Consensus pattern (7 bp):
TTTAAGG
Found at i:2255898 original size:22 final size:21
Alignment explanation
Indices: 2255867--2255935 Score: 84
Period size: 21 Copynumber: 3.2 Consensus size: 21
2255857 AAATTTATTT
2255867 TTTAGATTTTAAGGTTTATGG
1 TTTAGATTTTAAGGTTTATGG
*
2255888 TTTAAGATTTTAAGGTTTAGGG
1 TTT-AGATTTTAAGGTTTATGG
** *
2255910 TTTAGGGTTTAGGGTTTATGG
1 TTTAGATTTTAAGGTTTATGG
*
2255931 GTTAG
1 TTTAG
2255936 TGTTAGGAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
21 21 0.51
22 20 0.49
ACGTcount: A:0.22, C:0.00, G:0.30, T:0.48
Consensus pattern (21 bp):
TTTAGATTTTAAGGTTTATGG
Found at i:2255935 original size:14 final size:14
Alignment explanation
Indices: 2255896--2255988 Score: 59
Period size: 14 Copynumber: 6.7 Consensus size: 14
2255886 GGTTTAAGAT
*
2255896 TTTAAGGTTTAGGG
1 TTTAGGGTTTAGGG
2255910 TTTAGGGTTTAGGG
1 TTTAGGGTTTAGGG
*
2255924 TTTATGGG-TTAGTG
1 TTTA-GGGTTTAGGG
** *
2255938 -TTAGGAATTAAGG
1 TTTAGGGTTTAGGG
2255951 TTT-GGAGTTTAGGG
1 TTTAGG-GTTTAGGG
* *
2255965 GTT-GTGGTTTAGTG
1 TTTAG-GGTTTAGGG
*
2255979 TTTAGAGTTT
1 TTTAGGGTTT
2255989 TAAGGGTTTG
Statistics
Matches: 61, Mismatches: 12, Indels: 12
0.72 0.14 0.14
Matches are distributed among these distances:
12 2 0.03
13 9 0.15
14 45 0.74
15 5 0.08
ACGTcount: A:0.18, C:0.00, G:0.37, T:0.45
Consensus pattern (14 bp):
TTTAGGGTTTAGGG
Found at i:2256645 original size:7 final size:7
Alignment explanation
Indices: 2256629--2256708 Score: 63
Period size: 7 Copynumber: 11.3 Consensus size: 7
2256619 GCCATCCCCA
2256629 AAACCTT
1 AAACCTT
*
2256636 AAACCAT
1 AAACCTT
*
2256643 AAA-ATAT
1 AAACCT-T
2256650 AAACCTT
1 AAACCTT
*
2256657 AAACCCT
1 AAACCTT
*
2256664 AAATCCCT
1 AAA-CCTT
*
2256672 AACCCTT
1 AAACCTT
*
2256679 AACCCTT
1 AAACCTT
2256686 AAACCTT
1 AAACCTT
*
2256693 AAACCCT
1 AAACCTT
*
2256700 AACCCTT
1 AAACCTT
2256707 AA
1 AA
2256709 CCCATAATCC
Statistics
Matches: 59, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
7 52 0.88
8 7 0.12
ACGTcount: A:0.44, C:0.33, G:0.00, T:0.24
Consensus pattern (7 bp):
AAACCTT
Found at i:2256666 original size:14 final size:15
Alignment explanation
Indices: 2256656--2256740 Score: 61
Period size: 15 Copynumber: 5.9 Consensus size: 15
2256646 ATATAAACCT
*
2256656 TAAACCCTAAATCCC-
1 TAAACCTTAAA-CCCA
* *
2256671 TAACCCTT-AACCCT
1 TAAACCTTAAACCCA
2256685 TAAACCTTAAACCC-
1 TAAACCTTAAACCCA
*
2256699 TAACCCTT-AACCCA
1 TAAACCTTAAACCCA
* *
2256713 TAATCCCTAAACCCA
1 TAAACCTTAAACCCA
* *
2256728 TAATCCATAAACC
1 TAAACCTTAAACC
2256741 TTATATATAG
Statistics
Matches: 59, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
13 8 0.14
14 22 0.37
15 29 0.49
ACGTcount: A:0.39, C:0.39, G:0.00, T:0.22
Consensus pattern (15 bp):
TAAACCTTAAACCCA
Found at i:2256673 original size:8 final size:7
Alignment explanation
Indices: 2256649--2256740 Score: 71
Period size: 7 Copynumber: 12.9 Consensus size: 7
2256639 CCATAAAATA
*
2256649 TAAACCT
1 TAAACCC
2256656 TAAACCC
1 TAAACCC
2256663 TAAATCCC
1 TAAA-CCC
2256671 T-AACCC
1 TAAACCC
*
2256677 TTAACCC
1 TAAACCC
*
2256684 TTAAACCT
1 -TAAACCC
2256692 TAAACCC
1 TAAACCC
2256699 T-AACCC
1 TAAACCC
*
2256705 TTAACCC
1 TAAACCC
*
2256712 ATAATCCC
1 -TAAACCC
2256720 TAAACCC
1 TAAACCC
* *
2256727 ATAATCCA
1 -TAAACCC
2256735 TAAACC
1 TAAACC
2256741 TTATATATAG
Statistics
Matches: 69, Mismatches: 10, Indels: 12
0.76 0.11 0.13
Matches are distributed among these distances:
6 10 0.14
7 40 0.58
8 19 0.28
ACGTcount: A:0.39, C:0.38, G:0.00, T:0.23
Consensus pattern (7 bp):
TAAACCC
Found at i:2256697 original size:15 final size:14
Alignment explanation
Indices: 2256629--2256740 Score: 68
Period size: 14 Copynumber: 7.9 Consensus size: 14
2256619 GCCATCCCCA
*
2256629 AAACCTTAAACCAT
1 AAACCTTAAACCCT
* *
2256643 AAA-ATATAAACCTT
1 AAACCT-TAAACCCT
*
2256657 AAACCCTAAATCCCT
1 AAACCTTAAA-CCCT
*
2256672 AACCCTT-AACCCTT
1 AAACCTTAAACCC-T
2256686 AAACCTTAAACCCT
1 AAACCTTAAACCCT
*
2256700 AACCCTT-AACCCAT
1 AAACCTTAAACCC-T
* *
2256714 AATCCCTAAACCCAT
1 AAACCTTAAACCC-T
* *
2256729 AATCCATAAACC
1 AAACCTTAAACC
2256741 TTATATATAG
Statistics
Matches: 79, Mismatches: 12, Indels: 13
0.76 0.12 0.12
Matches are distributed among these distances:
13 9 0.11
14 39 0.49
15 31 0.39
ACGTcount: A:0.43, C:0.35, G:0.00, T:0.22
Consensus pattern (14 bp):
AAACCTTAAACCCT
Found at i:2256711 original size:28 final size:28
Alignment explanation
Indices: 2256653--2256726 Score: 112
Period size: 28 Copynumber: 2.6 Consensus size: 28
2256643 AAAATATAAA
2256653 CCTTAAACCCTAAATCCCTAACCCTTAAC
1 CCTTAAACCCTAAA-CCCTAACCCTTAAC
*
2256682 CCTTAAACCTTAAACCCTAACCCTTAAC
1 CCTTAAACCCTAAACCCTAACCCTTAAC
* *
2256710 CCATAATCCCTAAACCC
1 CCTTAAACCCTAAACCC
2256727 ATAATCCATA
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
28 28 0.68
29 13 0.32
ACGTcount: A:0.35, C:0.42, G:0.00, T:0.23
Consensus pattern (28 bp):
CCTTAAACCCTAAACCCTAACCCTTAAC
Found at i:2258971 original size:6 final size:6
Alignment explanation
Indices: 2258960--2258986 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
2258950 TTGATTGAGA
2258960 AAAAAC AAAAAC AAAAAC AAAAAC AAA
1 AAAAAC AAAAAC AAAAAC AAAAAC AAA
2258987 TCAATAGTAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (6 bp):
AAAAAC
Found at i:2272152 original size:19 final size:18
Alignment explanation
Indices: 2272095--2272155 Score: 59
Period size: 19 Copynumber: 3.2 Consensus size: 18
2272085 TGTGGAAAAC
*
2272095 AAAAGTATGACAATATGA
1 AAAAGTATGAAAATATGA
* *
2272113 AAAAGAAATGAAAAAACTGA
1 AAAAG-TATGAAAATA-TGA
*
2272133 AAAATGTATGATAATATGA
1 AAAA-GTATGAAAATATGA
2272152 AAAA
1 AAAA
2272156 AATGAGATTA
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
18 5 0.15
19 14 0.41
20 14 0.41
21 1 0.03
ACGTcount: A:0.62, C:0.03, G:0.15, T:0.20
Consensus pattern (18 bp):
AAAAGTATGAAAATATGA
Found at i:2275228 original size:81 final size:81
Alignment explanation
Indices: 2275093--2275250 Score: 257
Period size: 81 Copynumber: 2.0 Consensus size: 81
2275083 AGATGAGACA
* *
2275093 TTGATCTGGCATTTGTCAACCAATTTGTTTACTTCACACTCTAAACCTTGATAACAACCACTTAG
1 TTGATCAGGCATTTGTCAACCAATTTGTTGACTTCACACTCTAAACCTTGATAACAACCACTTAG
2275158 AATATGTTTTGTCCTC
66 AATATGTTTTGTCCTC
*
2275174 TTGATCAGGCATTTGTCAACCAATTTGTTGA-TTCCACACTCTACACCCTT-ATAACAACCACTT
1 TTGATCAGGCATTTGTCAACCAATTTGTTGACTT-CACACTCTA-AACCTTGATAACAACCACTT
2275237 AGAATATGTTTTGT
64 AGAATATGTTTTGT
2275251 TGTTTCTATG
Statistics
Matches: 72, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
80 2 0.03
81 65 0.90
82 5 0.07
ACGTcount: A:0.28, C:0.23, G:0.11, T:0.37
Consensus pattern (81 bp):
TTGATCAGGCATTTGTCAACCAATTTGTTGACTTCACACTCTAAACCTTGATAACAACCACTTAG
AATATGTTTTGTCCTC
Found at i:2278436 original size:41 final size:39
Alignment explanation
Indices: 2278390--2278468 Score: 104
Period size: 40 Copynumber: 2.0 Consensus size: 39
2278380 GATAGATTTT
2278390 TAAATTAGAAGTGAAAAAAGATTAAATTGTAAAATAAATTG
1 TAAATTAGAAGT-AAAAAAGATTAAATTGTAAAA-AAATTG
** * *
2278431 TAAATTTTAAGTAATAAAGATTAAATTGTGAAAAAATT
1 TAAATTAGAAGTAAAAAAGATTAAATTGTAAAAAAATT
2278469 AAAATTTAAG
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
39 5 0.15
40 19 0.56
41 10 0.29
ACGTcount: A:0.54, C:0.00, G:0.13, T:0.33
Consensus pattern (39 bp):
TAAATTAGAAGTAAAAAAGATTAAATTGTAAAAAAATTG
Found at i:2278455 original size:21 final size:19
Alignment explanation
Indices: 2278406--2278464 Score: 57
Period size: 21 Copynumber: 2.9 Consensus size: 19
2278396 AGAAGTGAAA
2278406 AAAGATTAAATTGTAAAAT
1 AAAGATTAAATTGTAAAAT
* *
2278425 AAA-TTGTAAATTTTAAGTAAT
1 AAAGAT-TAAATTGTAA--AAT
2278446 AAAGATTAAATTGTGAAAA
1 AAAGATTAAATTGT-AAAA
2278465 AATTAAAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 9
0.70 0.09 0.20
Matches are distributed among these distances:
18 1 0.03
19 12 0.39
20 2 0.06
21 13 0.42
22 3 0.10
ACGTcount: A:0.54, C:0.00, G:0.12, T:0.34
Consensus pattern (19 bp):
AAAGATTAAATTGTAAAAT
Found at i:2279468 original size:15 final size:15
Alignment explanation
Indices: 2279448--2279480 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
2279438 GAAGTAAAGC
2279448 GCAATATACATATGT
1 GCAATATACATATGT
2279463 GCAATATACATATGT
1 GCAATATACATATGT
2279478 GCA
1 GCA
2279481 TTTTTGGTGT
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:0.39, C:0.15, G:0.15, T:0.30
Consensus pattern (15 bp):
GCAATATACATATGT
Found at i:2280143 original size:40 final size:40
Alignment explanation
Indices: 2280094--2280170 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 40
2280084 AGATCAAGAT
* * *
2280094 AAAAGCACAGATTATAACACAAACCAATCTCACACATGAG
1 AAAAGCACAGACTACAACAAAAACCAATCTCACACATGAG
* *
2280134 AAAATCACAGACTACAACAAAAAGCAATCTCACACAT
1 AAAAGCACAGACTACAACAAAAACCAATCTCACACAT
2280171 AAGCAGACTT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.52, C:0.26, G:0.08, T:0.14
Consensus pattern (40 bp):
AAAAGCACAGACTACAACAAAAACCAATCTCACACATGAG
Found at i:2283154 original size:18 final size:18
Alignment explanation
Indices: 2283133--2283168 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
2283123 TTTTCTTTTT
2283133 TTTTTAAATTTTACTTTA
1 TTTTTAAATTTTACTTTA
*
2283151 TTTTTAGATTTTACTTTA
1 TTTTTAAATTTTACTTTA
2283169 AAAAGTTACG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.25, C:0.06, G:0.03, T:0.67
Consensus pattern (18 bp):
TTTTTAAATTTTACTTTA
Found at i:2284155 original size:3 final size:3
Alignment explanation
Indices: 2284147--2284177 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
2284137 ACGATTTCCT
2284147 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
2284178 CATCATCAAT
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:2289084 original size:7 final size:6
Alignment explanation
Indices: 2289043--2289083 Score: 55
Period size: 6 Copynumber: 6.5 Consensus size: 6
2289033 ATAATTTAAT
*
2289043 AAATAA AAATAA AAATCTAA AACTAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAA--TAA AAATAA AAATAA AAATAA AAA
2289084 ACATATAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 26 0.84
8 5 0.16
ACGTcount: A:0.78, C:0.05, G:0.00, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:2289084 original size:20 final size:20
Alignment explanation
Indices: 2289046--2289085 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
2289036 ATTTAATAAA
**
2289046 TAAAAATAAAAATCTAAAAC
1 TAAAAATAAAAATAAAAAAC
2289066 TAAAAATAAAAATAAAAAAC
1 TAAAAATAAAAATAAAAAAC
2289086 ATATAATTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.75, C:0.07, G:0.00, T:0.17
Consensus pattern (20 bp):
TAAAAATAAAAATAAAAAAC
Found at i:2289123 original size:9 final size:9
Alignment explanation
Indices: 2289110--2289188 Score: 88
Period size: 9 Copynumber: 8.8 Consensus size: 9
2289100 AAATAATTTC
2289110 GTTAATTCG
1 GTTAATTCG
*
2289119 ATTAATTCG
1 GTTAATTCG
*
2289128 GTTAATTTG
1 GTTAATTCG
2289137 AG-TAATTCG
1 -GTTAATTCG
*
2289146 GGTAATTCG
1 GTTAATTCG
* *
2289155 GGTAATTCT
1 GTTAATTCG
2289164 GTTAATTCG
1 GTTAATTCG
*
2289173 ATTAATTCG
1 GTTAATTCG
2289182 GTTAATT
1 GTTAATT
2289189 TTATACTTAT
Statistics
Matches: 59, Mismatches: 9, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
8 1 0.02
9 57 0.97
10 1 0.02
ACGTcount: A:0.27, C:0.09, G:0.20, T:0.44
Consensus pattern (9 bp):
GTTAATTCG
Found at i:2289131 original size:18 final size:18
Alignment explanation
Indices: 2289110--2289188 Score: 104
Period size: 18 Copynumber: 4.4 Consensus size: 18
2289100 AAATAATTTC
*
2289110 GTTAATTCGATTAATTCG
1 GTTAATTCGAGTAATTCG
*
2289128 GTTAATTTGAGTAATTCG
1 GTTAATTCGAGTAATTCG
* * *
2289146 GGTAATTCGGGTAATTCT
1 GTTAATTCGAGTAATTCG
*
2289164 GTTAATTCGATTAATTCG
1 GTTAATTCGAGTAATTCG
2289182 GTTAATT
1 GTTAATT
2289189 TTATACTTAT
Statistics
Matches: 51, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 51 1.00
ACGTcount: A:0.27, C:0.09, G:0.20, T:0.44
Consensus pattern (18 bp):
GTTAATTCGAGTAATTCG
Found at i:2289133 original size:27 final size:27
Alignment explanation
Indices: 2289103--2289189 Score: 106
Period size: 27 Copynumber: 3.2 Consensus size: 27
2289093 TATATACAAA
2289103 TAATTTCGTTAATTCGATTAATTCGGT
1 TAATTTCGTTAATTCGATTAATTCGGT
* ** *
2289130 TAATTT-GAGTAATTCGGGTAATTCGGG
1 TAATTTCG-TTAATTCGATTAATTCGGT
2289157 TAA-TTCTGTTAATTCGATTAATTCGGT
1 TAATTTC-GTTAATTCGATTAATTCGGT
2289184 TAATTT
1 TAATTT
2289190 TATACTTATT
Statistics
Matches: 48, Mismatches: 8, Indels: 7
0.76 0.13 0.11
Matches are distributed among these distances:
26 3 0.06
27 42 0.88
28 3 0.06
ACGTcount: A:0.26, C:0.09, G:0.18, T:0.46
Consensus pattern (27 bp):
TAATTTCGTTAATTCGATTAATTCGGT
Found at i:2294320 original size:14 final size:14
Alignment explanation
Indices: 2294301--2294330 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
2294291 TGTCAAACTG
2294301 CAGGTTTCACATGC
1 CAGGTTTCACATGC
2294315 CAGGTTTCACATGC
1 CAGGTTTCACATGC
2294329 CA
1 CA
2294331 TTGGTTGCCA
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:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (14 bp):
CAGGTTTCACATGC
Found at i:2298209 original size:21 final size:23
Alignment explanation
Indices: 2298178--2298236 Score: 109
Period size: 23 Copynumber: 2.6 Consensus size: 23
2298168 ATATTTCTCT
2298178 CTTTCTCTCTCTAAAAATCTTCC
1 CTTTCTCTCTCTAAAAATCTTCC
2298201 CTTTCTCTCTCTAAAAATCTTCC
1 CTTTCTCTCTCTAAAAATCTTCC
*
2298224 TTTTCTCTCTCTA
1 CTTTCTCTCTCTA
2298237 GAATCGCTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.19, C:0.34, G:0.00, T:0.47
Consensus pattern (23 bp):
CTTTCTCTCTCTAAAAATCTTCC
Found at i:2300822 original size:64 final size:60
Alignment explanation
Indices: 2300722--2300893 Score: 245
Period size: 64 Copynumber: 2.8 Consensus size: 60
2300712 GTAGTCTTAA
2300722 TTTTGTTGCAATTTTGTTTTTTGAACTGTATGTTTACCCTGCCATTCTCTATTATCTCTAAG
1 TTTTGTTGCAATTTTG-TTTTTGAACTGTATGTTTACCCTGCCATTCTCTATTATCTC-AAG
* * *
2300784 TATTTTTGTTGCAATTTTGTTTTTGAACTGTATGTTTACCCTGCCATTCTTTATTATGTCCAG
1 ---TTTTGTTGCAATTTTGTTTTTGAACTGTATGTTTACCCTGCCATTCTCTATTATCTCAAG
* *
2300847 TTTTGTTGCAATTTTGTTTTTGAACTTGTATGTCTACCTTGCCATTC
1 TTTTGTTGCAATTTTGTTTTTGAAC-TGTATGTTTACCCTGCCATTC
2300894 ATTTTCTTAT
Statistics
Matches: 101, Mismatches: 5, Indels: 6
0.90 0.04 0.05
Matches are distributed among these distances:
60 25 0.25
61 19 0.19
63 2 0.02
64 39 0.39
65 16 0.16
ACGTcount: A:0.17, C:0.17, G:0.14, T:0.52
Consensus pattern (60 bp):
TTTTGTTGCAATTTTGTTTTTGAACTGTATGTTTACCCTGCCATTCTCTATTATCTCAAG
Found at i:2304958 original size:58 final size:58
Alignment explanation
Indices: 2304841--2304957 Score: 171
Period size: 59 Copynumber: 2.0 Consensus size: 58
2304831 TTAAAAAAAG
*
2304841 TATAGGTAGTAATGTTAAAGGCCTTGGCACTAGAAAGGCAGACCAAGTTCAAGATTTT
1 TATAGGTAGTAATGTTAAAGGCCTTGGCACTAGAAAGGCAGACAAAGTTCAAGATTTT
* * * * *
2304899 TATAGGTAGTGATGTTGATAGGCTTTGGCACTAGAAAGGTAGACAAAGTTCGAGATTTT
1 TATAGGTAGTAATGTT-AAAGGCCTTGGCACTAGAAAGGCAGACAAAGTTCAAGATTTT
2304958 ACTATGTGTA
Statistics
Matches: 52, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
58 15 0.29
59 37 0.71
ACGTcount: A:0.32, C:0.11, G:0.26, T:0.30
Consensus pattern (58 bp):
TATAGGTAGTAATGTTAAAGGCCTTGGCACTAGAAAGGCAGACAAAGTTCAAGATTTT
Found at i:2305236 original size:22 final size:22
Alignment explanation
Indices: 2305197--2305238 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
2305187 TAAGAGTAAT
*
2305197 TTTGAATTGATTCTAATTTAAA
1 TTTGAATTGATTCAAATTTAAA
2305219 TTTGAATT-ATTCCAAATTTA
1 TTTGAATTGATT-CAAATTTA
2305239 TTTGATTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 3 0.17
22 15 0.83
ACGTcount: A:0.36, C:0.07, G:0.07, T:0.50
Consensus pattern (22 bp):
TTTGAATTGATTCAAATTTAAA
Found at i:2308928 original size:49 final size:50
Alignment explanation
Indices: 2308874--2308974 Score: 143
Period size: 49 Copynumber: 2.0 Consensus size: 50
2308864 TTTTGAGTTT
*
2308874 AATTTTTAATCAATTCAATCGGTTTT-AATACTTAAAA-GATTAATTTTTA
1 AATTTTTAATCAATTCAATCGGTTTTCAACAC-TAAAATGATTAATTTTTA
* * *
2308923 AATTTTTAATCAATTCAGTTGGTTTTCAACACTAAAATGATTATTTTTTA
1 AATTTTTAATCAATTCAATCGGTTTTCAACACTAAAATGATTAATTTTTA
2308973 AA
1 AA
2308975 GAAAAGTGAC
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
49 29 0.63
50 17 0.37
ACGTcount: A:0.38, C:0.09, G:0.07, T:0.47
Consensus pattern (50 bp):
AATTTTTAATCAATTCAATCGGTTTTCAACACTAAAATGATTAATTTTTA
Found at i:2312844 original size:16 final size:17
Alignment explanation
Indices: 2312819--2312858 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
2312809 ATTTGTTTAG
2312819 ATTAATATTTATTTAAA
1 ATTAATATTTATTTAAA
*
2312836 ATTAA-ATTTTTTTAAA
1 ATTAATATTTATTTAAA
2312852 ATATAAT
1 AT-TAAT
2312859 GCACTAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 12 0.60
17 8 0.40
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
ATTAATATTTATTTAAA
Found at i:2317764 original size:35 final size:35
Alignment explanation
Indices: 2317718--2317883 Score: 190
Period size: 35 Copynumber: 4.6 Consensus size: 35
2317708 ATGTGTAAAG
2317718 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
* *
2317753 TGTGAAATGTAGGTATGGTATTATCCATACTGAGC
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
2317788 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGT
1 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGT
** * * *
2317828 TAAGAAATGTAGGTATGGCAT-TTCCCATACCGAGT
1 TGTGAAATGTAGGTATGGTATCAT-CCATACTGAGT
**
2317863 TGAAAAATGTAGGTATGGTAT
1 TGTGAAATGTAGGTATGGTAT
2317884 TTCAATGAGG
Statistics
Matches: 113, Mismatches: 12, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
34 1 0.01
35 79 0.70
37 2 0.02
38 3 0.03
40 28 0.25
ACGTcount: A:0.31, C:0.11, G:0.25, T:0.33
Consensus pattern (35 bp):
TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
Found at i:2317836 original size:75 final size:75
Alignment explanation
Indices: 2317718--2317888 Score: 221
Period size: 75 Copynumber: 2.4 Consensus size: 75
2317708 ATGTGTAAAG
** *
2317718 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGTTGTGAAATGTAGGTATGGTATTAT-
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATT-TC
*
2317777 CCATACTGAGC
65 CCATACCGAGC
2317788 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
*
2317853 CATACCGAGT
66 CATACCGAGC
**
2317863 TGAAAAATGTAGGTATGGTATT-TCAA
1 TGTGAAATGTAGGTATGGTATTATCAA
2317889 TGAGGAAAAC
Statistics
Matches: 88, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
70 18 0.20
73 4 0.05
74 5 0.06
75 61 0.69
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.33
Consensus pattern (75 bp):
TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
CATACCGAGC
Found at i:2319115 original size:27 final size:29
Alignment explanation
Indices: 2319085--2319140 Score: 80
Period size: 31 Copynumber: 1.9 Consensus size: 29
2319075 GTTTTTAGGA
2319085 TTAGGG-TT-TTGTTAAAATAATTTAGAT
1 TTAGGGTTTGTTGTTAAAATAATTTAGAT
2319112 TTAGGGTTTAGGTTGTTAAAATAATTTAG
1 TTAGGGTTT--GTTGTTAAAATAATTTAG
2319141 GGTTTAAGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
27 6 0.24
28 2 0.08
31 17 0.68
ACGTcount: A:0.32, C:0.00, G:0.21, T:0.46
Consensus pattern (29 bp):
TTAGGGTTTGTTGTTAAAATAATTTAGAT
Found at i:2319501 original size:126 final size:126
Alignment explanation
Indices: 2319271--2319516 Score: 359
Period size: 126 Copynumber: 2.0 Consensus size: 126
2319261 CTATTTTTAC
* * * * * *
2319271 CCTGCAAAAATAATTTTTAGAAGACGTTTCTGAATAGATAGTGTCAAAAACGCTTCAAGTATAAT
1 CCTGAAAAAATAATTTTCAAAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCATAAT
* * * *
2319336 GCACTGTCAGCAAAATTATTGAAAAAAGCTCCCACGTGGATGCTCTTTTTCTACAGTAATT
66 GCAATGTCAGAAAAATTACTGAAAAAAGCTCCCACGTGGACGCTCTTTTTCTACAGTAATT
* * *
2319397 CCTGAAAAAATAATTTTCAAAAGATGTTTTTGAACAAATAGTGTCAAAAACGCTTCAAGCATGAT
1 CCTGAAAAAATAATTTTCAAAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCATAAT
2319462 GCAATGTCAGTAAAAATT-CTGAAAAAAGCTCCCACGTGGACGCTCTTTTTCTACA
66 GCAATGTCAG-AAAAATTACTGAAAAAAGCTCCCACGTGGACGCTCTTTTTCTACA
2319517 ATAGTGAAAT
Statistics
Matches: 106, Mismatches: 13, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
126 100 0.94
127 6 0.06
ACGTcount: A:0.37, C:0.18, G:0.15, T:0.30
Consensus pattern (126 bp):
CCTGAAAAAATAATTTTCAAAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCATAAT
GCAATGTCAGAAAAATTACTGAAAAAAGCTCCCACGTGGACGCTCTTTTTCTACAGTAATT
Found at i:2325371 original size:13 final size:13
Alignment explanation
Indices: 2325355--2325384 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
2325345 CATAGAAATA
*
2325355 ATTTTTAAAACAT
1 ATTTTTAAAACAC
2325368 ATTTTTAAAACAC
1 ATTTTTAAAACAC
2325381 ATTT
1 ATTT
2325385 ATAATAATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.43, C:0.10, G:0.00, T:0.47
Consensus pattern (13 bp):
ATTTTTAAAACAC
Found at i:2326740 original size:18 final size:18
Alignment explanation
Indices: 2326689--2326745 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 18
2326679 GGTTAAAAAT
2326689 ATAAACTTAATTTTTTAAA
1 ATAAA-TTAATTTTTTAAA
* *
2326708 ATAAATTTATATTTTAAA
1 ATAAATTAATTTTTTAAA
* *
2326726 TTCAATTAATTTTTTTAAA
1 ATAAATTAA-TTTTTTAAA
2326745 A
1 A
2326746 AAAACCTAAA
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
18 17 0.57
19 13 0.43
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.51
Consensus pattern (18 bp):
ATAAATTAATTTTTTAAA
Found at i:2328876 original size:3 final size:3
Alignment explanation
Indices: 2328870--2329108 Score: 75
Period size: 3 Copynumber: 80.3 Consensus size: 3
2328860 AAAATACAAC
* * * *
2328870 AAT AAT AAT AGT AA- AAG ATAT AAT AA- CAT AAT AAT -AT AAT AGT
1 AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * * * *
2328913 AAT AGT AAC AAT -AT GAC GAT AAT AGT AAA AAT AAT -AT ATT AAAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT
* * ** *
2328957 AAT AGT AAT AA- AAGT AGT GCT AAT AAT AAT AAT AAT AAC AAT AAT
1 AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * *
2329002 AAT AAT AAT AAT GAT GAT -CT ATT AAGT TAT AAT GAA- AAT AAT GAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT -AAT AAT AAT AAT
* * * * *
2329047 AAT GAT GAT -AT ATT AGAT AAT AAT AGT AA- AAT AAT AAGT AAC AAT
1 AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AA-T AAT AAT
*
2329092 AAT AAAT TAT AAT AAT A
1 AAT -AAT AAT AAT AAT A
2329109 GTGATGAGAA
Statistics
Matches: 172, Mismatches: 46, Indels: 36
0.68 0.18 0.14
Matches are distributed among these distances:
2 18 0.10
3 137 0.80
4 17 0.10
ACGTcount: A:0.57, C:0.03, G:0.09, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:2328876 original size:22 final size:22
Alignment explanation
Indices: 2328825--2328885 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 22
2328815 ATAAGTAAAT
* *
2328825 ACAAAAATAA-AGGAAAATATA
1 ACAAAAATAATAGAAAAATACA
* *
2328846 ATAACAATAATAGAAAAATACA
1 ACAAAAATAATAGAAAAATACA
* *
2328868 ACAATAATAATAGTAAAA
1 ACAAAAATAATAGAAAAA
2328886 GATATAATAA
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 8 0.25
22 24 0.75
ACGTcount: A:0.69, C:0.07, G:0.07, T:0.18
Consensus pattern (22 bp):
ACAAAAATAATAGAAAAATACA
Found at i:2329070 original size:36 final size:38
Alignment explanation
Indices: 2329002--2329083 Score: 107
Period size: 36 Copynumber: 2.2 Consensus size: 38
2328992 TAACAATAAT
* *
2329002 AATAATAATAATGATGATCTATTAAGTTATAAT-G-AA
1 AATAATAATAATGATGATATATTAAGTAATAATAGTAA
*
2329038 AATAATGATAATGATGATATATT-AGATAATAATAGTAA
1 AATAATAATAATGATGATATATTAAG-TAATAATAGTAA
2329076 AATAATAA
1 AATAATAA
2329084 GTAACAATAA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
35 2 0.05
36 27 0.69
37 1 0.03
38 9 0.23
ACGTcount: A:0.54, C:0.01, G:0.11, T:0.34
Consensus pattern (38 bp):
AATAATAATAATGATGATATATTAAGTAATAATAGTAA
Found at i:2329127 original size:16 final size:16
Alignment explanation
Indices: 2329108--2329139 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
2329098 TTATAATAAT
2329108 AGTGATGAGAATAACA
1 AGTGATGAGAATAACA
*
2329124 AGTGATGATAATAACA
1 AGTGATGAGAATAACA
2329140 GTAACAATAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.50, C:0.06, G:0.22, T:0.22
Consensus pattern (16 bp):
AGTGATGAGAATAACA
Found at i:2329272 original size:16 final size:15
Alignment explanation
Indices: 2329243--2329285 Score: 59
Period size: 16 Copynumber: 2.8 Consensus size: 15
2329233 TATACGTATG
*
2329243 AAAAATAATGATAGT
1 AAAAATAATAATAGT
2329258 AAAATATAATAATAGT
1 AAAA-ATAATAATAGT
*
2329274 AATAATAATAAT
1 AAAAATAATAAT
2329286 GGAATGAAGG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 12 0.48
16 13 0.52
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (15 bp):
AAAAATAATAATAGT
Found at i:2329388 original size:3 final size:3
Alignment explanation
Indices: 2329380--2329415 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
2329370 ACACTACCAT
2329380 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
2329416 TAGAAATACA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:2329517 original size:3 final size:3
Alignment explanation
Indices: 2329509--2329543 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
2329499 AAATATACAC
2329509 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
2329544 TTAAAATGCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:2330061 original size:24 final size:24
Alignment explanation
Indices: 2330019--2330074 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
2330009 ATCTCAAAAA
2330019 AAAAGAAAAATCCCCTCTTGAATCT
1 AAAA-AAAAATCCCCTCTTGAATCT
* *
2330044 AAAAAAAAATCTCTTCTTGAATCT
1 AAAAAAAAATCCCCTCTTGAATCT
*
2330068 CAAAAAA
1 AAAAAAA
2330075 TTTCTTCTCT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
24 24 0.86
25 4 0.14
ACGTcount: A:0.50, C:0.20, G:0.05, T:0.25
Consensus pattern (24 bp):
AAAAAAAAATCCCCTCTTGAATCT
Found at i:2331012 original size:205 final size:205
Alignment explanation
Indices: 2330661--2331857 Score: 1965
Period size: 205 Copynumber: 5.8 Consensus size: 205
2330651 AGATTTATTT
* * * * * * * * *
2330661 CTTCGATTTGATCCCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTTAACGTAAGCAC
1 CTTCGATTCGTTCTCTGACGATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCAC
** * * * * *
2330726 GCGAAAGCCAAATCAACTATG-ATTCGATTTGTTCCTTGTAAGCATAAGGATGCCAATCCATCTT
66 ATGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTT
*
2330790 GGATCCGCTTCAGCATAAACATCCGAAGGTGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGA
131 GGATCCGCTTCAGCATAAACATCTGAAGGTGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGA
2330855 AGATGCCAAA
196 AGATGCCAAA
*
2330865 CTTCGATTCGTTCACTGACGATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCAC
1 CTTCGATTCGTTCTCTGACGATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCAC
*
2330930 ATGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAATCATCTT
66 ATGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTT
2330995 GGATCCGCTTCAGCATAAACATCTGAAGGTGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGA
131 GGATCCGCTTCAGCATAAACATCTGAAGGTGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGA
2331060 AGATGCCAAA
196 AGATGCCAAA
*
2331070 CTTCGATTCGTTCTCTGACGATACAGAGACGATAAATCATCTTAGATTTGCTTCATCGTAATCAC
1 CTTCGATTCGTTCTCTGACGATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCAC
*
2331135 ATGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAATCATCTT
66 ATGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTT
2331200 GGATCCGCTTCAGCATAAACATCTGAAGGTGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGA
131 GGATCCGCTTCAGCATAAACATCTGAAGGTGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGA
2331265 AGATGCCAAA
196 AGATGCCAAA
*
2331275 CTTCGATTCGTTCTCTGATGATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCAC
1 CTTCGATTCGTTCTCTGACGATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCAC
2331340 ATGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTT
66 ATGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTT
* *
2331405 GGATCTGCTTCAGCGA-AATCATCTGAAGGTGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTG
131 GGATCCGCTTCAGC-ATAAACATCTGAAGGTGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTG
2331469 AAGATGCCAAA
195 AAGATGCCAAA
* * *
2331480 CTTTGATTCGTTCTCTGACAATATAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCAC
1 CTTCGATTCGTTCTCTGACGATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCAC
* *
2331545 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 ATGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTT
*
2331610 GGATCTGCTTCAG--TGAAATCATCTGAAGGTGAGATCTGCTATGTGTCTGCTCTCCATCAAAGT
131 GGATCCGCTTCAGCAT-AAA-CATCTGAAGGTGAGATCTGCTATGTGTCTGCTCTCCATCAAAGT
2331673 GAAGATGCCAAA
194 GAAGATGCCAAA
** * *
2331685 CTTTAATTCGTTCTCTGACGATACAGAAACGACAAATTATCTTAGATTTGCTTCATCGTAATCAC
1 CTTCGATTCGTTCTCTGACGATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCAC
*
2331750 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTT
66 ATGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTT
* * *
2331815 GGATCTGCTTCAG--TGAAATCATCTGAAGGCGAGATCTGTTATG
131 GGATCCGCTTCAGCAT-AAA-CATCTGAAGGTGAGATCTGCTATG
2331858 CTACGGCCTA
Statistics
Matches: 948, Mismatches: 40, Indels: 9
0.95 0.04 0.01
Matches are distributed among these distances:
204 76 0.08
205 871 0.92
206 1 0.00
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (205 bp):
CTTCGATTCGTTCTCTGACGATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCAC
ATGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTT
GGATCCGCTTCAGCATAAACATCTGAAGGTGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGA
AGATGCCAAA
Found at i:2336677 original size:12 final size:12
Alignment explanation
Indices: 2336660--2336684 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2336650 CCCTATTCTC
2336660 TCTTTCTCTTTT
1 TCTTTCTCTTTT
2336672 TCTTTCTCTTTT
1 TCTTTCTCTTTT
2336684 T
1 T
2336685 AGCCTTAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (12 bp):
TCTTTCTCTTTT
Found at i:2341165 original size:3 final size:3
Alignment explanation
Indices: 2341159--2341396 Score: 75
Period size: 3 Copynumber: 80.3 Consensus size: 3
2341149 AAAATACAAC
* * * *
2341159 AAT AAT AAT AGT AA- AAG ATAT AAT AA- CAT AAT AAT -AT AAT AGT
1 AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * * * *
2341202 AAT AGT AAC AAT -AT GAC GAT AAT AGT AAA AAT AAT -AT ATT AAAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT
* * **
2341246 AAT AGT AAT AA- AAGT AGT GCT AAT AAT AAT AAT AAT AA- AAT AAT
1 AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * *
2341290 AAT AAT AAT AAT GAT GAT -CT ATT AAGT TAT AAT GAA- AAT AAT GAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT -AAT AAT AAT AAT
* * * * *
2341335 AAT GAT GAT -AT ATT AGAT AAT AAT AGT AA- AAT AAT AAGT AAC AAT
1 AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AA-T AAT AAT
*
2341380 AAT AAAT TAT AAT AAT A
1 AAT -AAT AAT AAT AAT A
2341397 GTGATGAGAA
Statistics
Matches: 172, Mismatches: 44, Indels: 38
0.68 0.17 0.15
Matches are distributed among these distances:
2 20 0.12
3 135 0.78
4 17 0.10
ACGTcount: A:0.57, C:0.03, G:0.09, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:2341165 original size:22 final size:22
Alignment explanation
Indices: 2341114--2341174 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 22
2341104 ATAAGTAAAT
* *
2341114 ACAAAAATAA-AGGAAAATATA
1 ACAAAAATAATAGAAAAATACA
* *
2341135 ATAACAATAATAGAAAAATACA
1 ACAAAAATAATAGAAAAATACA
* *
2341157 ACAATAATAATAGTAAAA
1 ACAAAAATAATAGAAAAA
2341175 GATATAATAA
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 8 0.25
22 24 0.75
ACGTcount: A:0.69, C:0.07, G:0.07, T:0.18
Consensus pattern (22 bp):
ACAAAAATAATAGAAAAATACA
Found at i:2341289 original size:17 final size:17
Alignment explanation
Indices: 2341267--2341300 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
2341257 AAGTAGTGCT
2341267 AATAATAATAATAATAA
1 AATAATAATAATAATAA
2341284 AATAATAATAATAATAA
1 AATAATAATAATAATAA
2341301 TGATGATCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
AATAATAATAATAATAA
Found at i:2341358 original size:36 final size:38
Alignment explanation
Indices: 2341290--2341371 Score: 107
Period size: 36 Copynumber: 2.2 Consensus size: 38
2341280 ATAAAATAAT
* *
2341290 AATAATAATAATGATGATCTATTAAGTTATAAT-G-AA
1 AATAATAATAATGATGATATATTAAGTAATAATAGTAA
*
2341326 AATAATGATAATGATGATATATT-AGATAATAATAGTAA
1 AATAATAATAATGATGATATATTAAG-TAATAATAGTAA
2341364 AATAATAA
1 AATAATAA
2341372 GTAACAATAA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
35 2 0.05
36 27 0.69
37 1 0.03
38 9 0.23
ACGTcount: A:0.54, C:0.01, G:0.11, T:0.34
Consensus pattern (38 bp):
AATAATAATAATGATGATATATTAAGTAATAATAGTAA
Found at i:2341415 original size:16 final size:16
Alignment explanation
Indices: 2341396--2341427 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
2341386 TTATAATAAT
2341396 AGTGATGAGAATAACA
1 AGTGATGAGAATAACA
*
2341412 AGTGATGATAATAACA
1 AGTGATGAGAATAACA
2341428 GTAACAATAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.50, C:0.06, G:0.22, T:0.22
Consensus pattern (16 bp):
AGTGATGAGAATAACA
Found at i:2341560 original size:16 final size:15
Alignment explanation
Indices: 2341531--2341573 Score: 59
Period size: 16 Copynumber: 2.8 Consensus size: 15
2341521 TATACGTATG
*
2341531 AAAAATAATGATAGT
1 AAAAATAATAATAGT
2341546 AAAATATAATAATAGT
1 AAAA-ATAATAATAGT
*
2341562 AATAATAATAAT
1 AAAAATAATAAT
2341574 GGAATGAAGG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 12 0.48
16 13 0.52
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (15 bp):
AAAAATAATAATAGT
Found at i:2341678 original size:3 final size:3
Alignment explanation
Indices: 2341670--2341705 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
2341660 ACTACCATAT
2341670 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
2341706 TAGAAATACA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:2341807 original size:3 final size:3
Alignment explanation
Indices: 2341799--2341827 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
2341789 AAATATACAC
2341799 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
2341828 TTAAAATGCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:2342360 original size:22 final size:24
Alignment explanation
Indices: 2342299--2342362 Score: 78
Period size: 24 Copynumber: 2.7 Consensus size: 24
2342289 ATCTCAAAAA
* *
2342299 AAAAGAAAAATCCCCTCTTGAATCT
1 AAAA-AAAAATCTCTTCTTGAATCT
2342324 AAAAAAAAATCTCTTCTTGAATCT
1 AAAAAAAAATCTCTTCTTGAATCT
*
2342348 -CAAAAAAAT-TCTTCT
1 AAAAAAAAATCTCTTCT
2342363 CTCCAAAATA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
22 6 0.17
23 8 0.22
24 18 0.50
25 4 0.11
ACGTcount: A:0.45, C:0.20, G:0.05, T:0.30
Consensus pattern (24 bp):
AAAAAAAAATCTCTTCTTGAATCT
Found at i:2354662 original size:14 final size:14
Alignment explanation
Indices: 2354639--2354670 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
2354629 GGAATAATTC
2354639 AAAT-AAGTTTTCT
1 AAATAAAGTTTTCT
2354652 AAATAAAGTTTTCT
1 AAATAAAGTTTTCT
2354666 AAATA
1 AAATA
2354671 GTCCATTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 4 0.22
14 14 0.78
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.41
Consensus pattern (14 bp):
AAATAAAGTTTTCT
Found at i:2360180 original size:24 final size:25
Alignment explanation
Indices: 2360152--2360207 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 25
2360142 TTAGACGCCC
*
2360152 AAAAAGAT-TAAATG-CCAACTTAAG
1 AAAAA-ATGTAAATGACCAAATTAAG
*
2360176 AAAAAATGTCAATGTACCAAATTAAG
1 AAAAAATGTAAATG-ACCAAATTAAG
2360202 AAAAAA
1 AAAAAA
2360208 GTATCAAGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 2 0.07
24 10 0.37
26 15 0.56
ACGTcount: A:0.59, C:0.11, G:0.11, T:0.20
Consensus pattern (25 bp):
AAAAAATGTAAATGACCAAATTAAG
Found at i:2360262 original size:87 final size:86
Alignment explanation
Indices: 2360107--2360267 Score: 200
Period size: 87 Copynumber: 1.9 Consensus size: 86
2360097 TGATAAGTAT
* * * *
2360107 CAAATTAGGAAAAAGAGTCAAGTTTAAGTACTAAATTAGACGCCCAAAAAGATTAAATGCCAACT
1 CAAATTAGAAAAAAGAGTCAAGTTTAAGTACTAAATTAGACGCACAAAAAGATTAAATACCAAAT
2360172 TAAGAAAAAATGTCAATGTAC
66 TAAGAAAAAATGTCAATGTAC
** * * *
2360193 CAAATTAAGAAAAAAGTA-TCAAGTTTGGGTACTAAATTAGAC-CACAAAAATATTTAGATATCA
1 CAAATT-AGAAAAAAG-AGTCAAGTTTAAGTACTAAATTAGACGCACAAAAAGA-TTAAATACCA
2360256 AATTAAGAAAAA
63 AATTAAGAAAAA
2360268 TATTAAGGTT
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
86 14 0.22
87 48 0.76
88 1 0.02
ACGTcount: A:0.51, C:0.12, G:0.14, T:0.24
Consensus pattern (86 bp):
CAAATTAGAAAAAAGAGTCAAGTTTAAGTACTAAATTAGACGCACAAAAAGATTAAATACCAAAT
TAAGAAAAAATGTCAATGTAC
Found at i:2367614 original size:122 final size:121
Alignment explanation
Indices: 2367249--2367614 Score: 376
Period size: 122 Copynumber: 3.0 Consensus size: 121
2367239 GTCATATATA
* * * *
2367249 TATATATGGTACAATTCACAAATCTTTGATAGAAACAAATCACTGTCACACACACATCAGAACTT
1 TATATATGGTACAATTCACATACCCTTGATAGAAACAAATCACTGTCACACACACATCATAAC-T
* * * * * ** *
2367314 AAATTTACGGCGTGAATTATGAGGGTAGCACCTATGATCAATAGGCTAAATGTTGGA
65 CAATTTACGACGTGAATTATGAGGATAGCACCTATGAACAGTAGGCTAAACATTGGG
* * * * **
2367371 TATATAT-ATATATATGT-ACGTACTCTTGATAGAAACAAATCACTGTCACACACACATCATGGC
1 TATATATGGTACA-AT-TCACATACCCTTGATAGAAACAAATCACTGTCACACACACATCATAAC
* * * * * * *
2367434 TCGAATCTACAACATGGATTATGAGGATAGCACCTATGACCAGTAAGCTAAACTTTGGG
64 TC-AATTTACGACGTGAATTATGAGGATAGCACCTATGAACAGTAGGCTAAACATTGGG
* * * * *
2367493 TATATATGGTACAATTCACATACCCTTAATAGAAATAAATCACTATCACACTCATATCATAACTC
1 TATATATGGTACAATTCACATACCCTTGATAGAAACAAATCACTGTCACACACACATCATAACTC
* * *
2367558 ATATTTACGACGTGAATTACGAGGATAGCACCAATCAACAGTAGGCTAAACATTGGG
66 A-ATTTACGACGTGAATTATGAGGATAGCACCTATGAACAGTAGGCTAAACATTGGG
2367615 ATTCAGCTAC
Statistics
Matches: 194, Mismatches: 44, Indels: 12
0.78 0.18 0.05
Matches are distributed among these distances:
121 6 0.03
122 184 0.95
123 4 0.02
ACGTcount: A:0.38, C:0.19, G:0.16, T:0.28
Consensus pattern (121 bp):
TATATATGGTACAATTCACATACCCTTGATAGAAACAAATCACTGTCACACACACATCATAACTC
AATTTACGACGTGAATTATGAGGATAGCACCTATGAACAGTAGGCTAAACATTGGG
Found at i:2369616 original size:38 final size:37
Alignment explanation
Indices: 2369568--2369640 Score: 101
Period size: 38 Copynumber: 1.9 Consensus size: 37
2369558 TATCCAAATT
**
2369568 CAATTATAATTTATATTTAATACCCAAAAATTAAACC
1 CAATTATAATTTATACATAATACCCAAAAATTAAACC
* *
2369605 CAATTAATAATTTATACATATTATCCAAAAATTAAA
1 CAATT-ATAATTTATACATAATACCCAAAAATTAAA
2369641 TTGAACTAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
37 5 0.16
38 26 0.84
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.36
Consensus pattern (37 bp):
CAATTATAATTTATACATAATACCCAAAAATTAAACC
Found at i:2370759 original size:21 final size:21
Alignment explanation
Indices: 2370731--2370771 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
2370721 AGTTATTTTA
2370731 ATTTATTTTAAAT-ATAAAAT
1 ATTTATTTTAAATCATAAAAT
*
2370751 ATTTAATTTTACATCATAAAA
1 ATTT-ATTTTAAATCATAAAA
2370772 ATTAAAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 8 0.44
22 6 0.33
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (21 bp):
ATTTATTTTAAATCATAAAAT
Found at i:2372492 original size:78 final size:78
Alignment explanation
Indices: 2372402--2372557 Score: 285
Period size: 78 Copynumber: 2.0 Consensus size: 78
2372392 TAATTTTGAG
2372402 TTCTTTTTACTTTATTTTAACAGCATTTTAATGATTTTTTGGACATTTTTGGGTAAAATCTCAAT
1 TTCTTTTTACTTTATTTTAACAGCATTTTAATGATTTTTTGGACATTTTTGGGTAAAATCTCAAT
*
2372467 ATATTTTTAAAAA
66 ATATTTTAAAAAA
* *
2372480 TTCTTTTTACTTTATTTTAGCAGCATTTTAATGATTTTTTTGACATTTTTGGGTAAAATCTCAAT
1 TTCTTTTTACTTTATTTTAACAGCATTTTAATGATTTTTTGGACATTTTTGGGTAAAATCTCAAT
2372545 ATATTTTAAAAAA
66 ATATTTTAAAAAA
2372558 ATTATCTTTA
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
78 75 1.00
ACGTcount: A:0.31, C:0.09, G:0.09, T:0.51
Consensus pattern (78 bp):
TTCTTTTTACTTTATTTTAACAGCATTTTAATGATTTTTTGGACATTTTTGGGTAAAATCTCAAT
ATATTTTAAAAAA
Found at i:2372911 original size:2 final size:2
Alignment explanation
Indices: 2372904--2372942 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
2372894 ACACTCAAAC
* *
2372904 TA TA TA TA TA TA TA TA TA TA TA TA TA AA AA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2372943 CCACCCCACC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
TA
Found at i:2382824 original size:60 final size:60
Alignment explanation
Indices: 2382704--2382825 Score: 149
Period size: 60 Copynumber: 2.0 Consensus size: 60
2382694 ATCCTTGAAT
* * * * * *
2382704 TAATATAATCAGTTTAAATTGATTTCCAAACTTTAAAATGTTTTAAATATATCTCTAAAC
1 TAATATAATCAGTTTAAATTGATCTCCAAACTTCAAAATGTTCTAAATACATCCCCAAAC
*
2382764 TAATATTATCA-TTCTAAATTGATC-CTCAAACTTCAAAATGTTCTAAATACATCCCCAAAC
1 TAATATAATCAGTT-TAAATTGATCTC-CAAACTTCAAAATGTTCTAAATACATCCCCAAAC
2382824 TA
1 TA
2382826 TCAAAGTTAT
Statistics
Matches: 53, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
59 3 0.06
60 50 0.94
ACGTcount: A:0.41, C:0.17, G:0.04, T:0.38
Consensus pattern (60 bp):
TAATATAATCAGTTTAAATTGATCTCCAAACTTCAAAATGTTCTAAATACATCCCCAAAC
Done.