Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 387 of 427
Found at i:112499593 original size:27 final size:27
Alignment explanation
Indices: 112499237--112499582 Score: 401
Period size: 27 Copynumber: 12.8 Consensus size: 27
112499227 GGGTATTTTA
* * *
112499237 GTAATTTTGTAAATCGAGGGTAAAACA
1 GTAATTCTATAAATCGAGGGTAAAACG
* * * *
112499264 GTAATTTTGTAAATCAAGGGTAAAACA
1 GTAATTCTATAAATCGAGGGTAAAACG
* * * *
112499291 GTAATTTTGTAAATCAAGGGTAAAACA
1 GTAATTCTATAAATCGAGGGTAAAACG
* *
112499318 ATAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAACG
*
112499345 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
*
112499372 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
* * * *
112499399 ATAATTATGTAAATCTG-GGGTAAAATG
1 GTAATTCTATAAATC-GAGGGTAAAACG
* * *
112499426 GTAATTATGTAAAT-TAGGGGTAAAACG
1 GTAATTCTATAAATCGA-GGGTAAAACG
**
112499453 GTAATTCTATAAATCGAGGGTAAAATA
1 GTAATTCTATAAATCGAGGGTAAAACG
*
112499480 GTAATTCTGTAAA-CTGAGGGTAAAACG
1 GTAATTCTATAAATC-GAGGGTAAAACG
112499507 GTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
* *
112499534 GTAATTTTACAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
112499561 GTAATTCTATAAATCGAGGGTA
1 GTAATTCTATAAATCGAGGGTA
112499583 CTTTGGTAAT
Statistics
Matches: 284, Mismatches: 29, Indels: 12
0.87 0.09 0.04
Matches are distributed among these distances:
26 1 0.00
27 280 0.99
28 3 0.01
ACGTcount: A:0.41, C:0.08, G:0.22, T:0.29
Consensus pattern (27 bp):
GTAATTCTATAAATCGAGGGTAAAACG
Found at i:112499604 original size:27 final size:27
Alignment explanation
Indices: 112499506--112499810 Score: 251
Period size: 27 Copynumber: 11.3 Consensus size: 27
112499496 AGGGTAAAAC
* * ****
112499506 GGTAATTCTATAAATCGAGGGTAAAAC
1 GGTAATTTTACAAATCGAGGGTATTTT
****
112499533 GGTAATTTTACAAATCGAGGGTAAAAC
1 GGTAATTTTACAAATCGAGGGTATTTT
* * *
112499560 GGTAATTCTATAAATCGAGGGTACTTT
1 GGTAATTTTACAAATCGAGGGTATTTT
* *
112499587 GGTAATTTTACAAGTCGAGGGTATTTC
1 GGTAATTTTACAAATCGAGGGTATTTT
** ** *
112499614 AATAATTTTACAGGTCGAGGGTATTTC
1 GGTAATTTTACAAATCGAGGGTATTTT
* * *
112499641 AGTAATTTCACAAAT-TAGGGGTATTTT
1 GGTAATTTTACAAATCGA-GGGTATTTT
*
112499668 GGTAATTTTACAAA-CTAGGGGTATTTT
1 GGTAATTTTACAAATCGA-GGGTATTTT
* *
112499695 GATAATTTTACAAA-CTAGGGGTATTTT
1 GGTAATTTTACAAATCGA-GGGTATTTT
*
112499722 GGTAATTTTACAAA-CTAGGGGTATTTT
1 GGTAATTTTACAAATCGA-GGGTATTTT
* * *
112499749 GGTAATTTTATAAACCAAGGGTATTTT
1 GGTAATTTTACAAATCGAGGGTATTTT
* *
112499776 AGTAATTTTACAAAGC-AGGGTATTTT
1 GGTAATTTTACAAATCGAGGGTATTTT
112499802 GGTAATTTT
1 GGTAATTTT
112499811 GTAAACCAAA
Statistics
Matches: 243, Mismatches: 32, Indels: 7
0.86 0.11 0.02
Matches are distributed among these distances:
26 19 0.08
27 222 0.91
28 2 0.01
ACGTcount: A:0.32, C:0.09, G:0.21, T:0.37
Consensus pattern (27 bp):
GGTAATTTTACAAATCGAGGGTATTTT
Found at i:112499824 original size:26 final size:26
Alignment explanation
Indices: 112499660--112499827 Score: 174
Period size: 27 Copynumber: 6.3 Consensus size: 26
112499650 ACAAATTAGG
* *
112499660 GGTATTTTGGTAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTACAAACCA-A
* * *
112499687 GGTATTTTGATAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTACAAACCA-A
* *
112499714 GGTATTTTGGTAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTACAAACCA-A
*
112499741 GGTATTTTGGTAATTTTATAAACCAA
1 GGTATTTTGGTAATTTTACAAACCAA
* * *
112499767 GGGTATTTTAGTAATTTTACAAAGCAG
1 -GGTATTTTGGTAATTTTACAAACCAA
**
112499794 GGTATTTTGGTAATTTTGTAAACCAA
1 GGTATTTTGGTAATTTTACAAACCAA
*
112499820 AGTATTTT
1 GGTATTTT
112499828 AAACATGGAT
Statistics
Matches: 125, Mismatches: 15, Indels: 3
0.87 0.10 0.02
Matches are distributed among these distances:
26 28 0.22
27 97 0.78
ACGTcount: A:0.32, C:0.07, G:0.20, T:0.42
Consensus pattern (26 bp):
GGTATTTTGGTAATTTTACAAACCAA
Found at i:112502646 original size:31 final size:31
Alignment explanation
Indices: 112502608--112502671 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
112502598 CCTTTTCATA
112502608 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
*
112502639 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
112502670 TT
1 TT
112502672 ACTGTAAACG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATAATACTGGGCCGAAGCCT
Found at i:112502914 original size:24 final size:24
Alignment explanation
Indices: 112502863--112503005 Score: 209
Period size: 24 Copynumber: 6.0 Consensus size: 24
112502853 GCTTTATCAT
*
112502863 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
112502888 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
112502912 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
112502935 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
112502959 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
112502983 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
112503006 TCACTTCCTC
Statistics
Matches: 111, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
23 23 0.21
24 76 0.68
25 12 0.11
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:112502942 original size:47 final size:48
Alignment explanation
Indices: 112502863--112503004 Score: 207
Period size: 47 Copynumber: 3.0 Consensus size: 48
112502853 GCTTTATCAT
* *
112502863 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTCA
**
112502912 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
*
112502959 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTT
112503005 TTCACTTCCT
Statistics
Matches: 87, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
47 44 0.51
48 31 0.36
49 12 0.14
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.28
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
Found at i:112502963 original size:71 final size:72
Alignment explanation
Indices: 112502862--112503005 Score: 220
Period size: 71 Copynumber: 2.0 Consensus size: 72
112502852 TGCTTTATCA
*
112502862 TATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
1 TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
112502927 GCCCTTT
66 GCCCTTT
* * **
112502934 TATAACTGG-GGCATAAGCC-CTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATA
1 TATAACTGGAGGCAT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATA
112502997 AGCCCTTT
65 AGCCCTTT
112503005 T
1 T
112503006 TCACTTCCTC
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
71 53 0.80
72 13 0.20
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.29
Consensus pattern (72 bp):
TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
GCCCTTT
Found at i:112503081 original size:20 final size:20
Alignment explanation
Indices: 112503056--112503115 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
112503046 TATGATTACC
112503056 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
* *
112503076 TCATGTGCATAGCATACATT
1 TCATGTGCATATCATACATA
112503096 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
112503116 CCATATTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.35
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:112503190 original size:25 final size:25
Alignment explanation
Indices: 112503158--112503205 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
112503148 ATACATAAAC
* * *
112503158 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
112503183 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
112503206 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:112504462 original size:27 final size:27
Alignment explanation
Indices: 112504442--112504732 Score: 331
Period size: 27 Copynumber: 10.9 Consensus size: 27
112504432 AGGGTATTTT
*
112504442 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
112504469 AGTAATTTTGTAAATC-AAGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
112504495 AGTAATTTTGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
112504522 AATAATTCTATAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
112504549 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
112504576 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
112504603 -GATAATTATGTAAATCTG-GGGTAAAAT
1 AG-TAATTCTGTAAATC-GAGGGTAAAAC
* * *
112504630 GGTAATTATGTAAAT-TAGGGGTAAAAC
1 AGTAATTCTGTAAATCGA-GGGTAAAAC
*
112504657 -GTAATTCTATAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* **
112504683 AGTAATTTTACAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
112504710 GGTAATTCTATAAATCGAGGGTA
1 AGTAATTCTGTAAATCGAGGGTA
112504733 CTTTGGTAAT
Statistics
Matches: 233, Mismatches: 23, Indels: 16
0.86 0.08 0.06
Matches are distributed among these distances:
26 47 0.20
27 184 0.79
28 2 0.01
ACGTcount: A:0.42, C:0.08, G:0.21, T:0.29
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:112504590 original size:134 final size:134
Alignment explanation
Indices: 112504443--112504732 Score: 404
Period size: 134 Copynumber: 2.2 Consensus size: 134
112504433 GGGTATTTTA
* * *
112504443 GTAATTTTGTAAATCGAGGGTAAAAC-AGTAATTTTGTAAATC-AAGGTAAAACAGTAATTTTGT
1 GTAATTCTGTAAATCGAGGGTAAAACGA-TAATTATGTAAATCTAAGGTAAAACAGTAATTATGT
** **
112504506 AAATCAAGGGTAAAACAATAATTCTATAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGT
65 AAATCAAGGGTAAAAC-ATAATTCTATAAATCGAGGGTAAAACAGTAATTCTACAAATCGAGGGT
112504571 AAAACG
129 AAAACG
** **
112504577 GTAATTCTGTAAATCGAGGGTAAAACGATAATTATGTAAATCTGGGGTAAAATGGTAATTATGTA
1 GTAATTCTGTAAATCGAGGGTAAAACGATAATTATGTAAATCTAAGGTAAAACAGTAATTATGTA
* * * *
112504642 AATTAGGGGTAAAACGTAATTCTATAAATCGAGGGTAAAACAGTAATTTTACAAATCGAGGGTAA
66 AATCAAGGGTAAAACATAATTCTATAAATCGAGGGTAAAACAGTAATTCTACAAATCGAGGGTAA
112504707 AACG
131 AACG
*
112504711 GTAATTCTATAAATCGAGGGTA
1 GTAATTCTGTAAATCGAGGGTA
112504733 CTTTGGTAAT
Statistics
Matches: 138, Mismatches: 16, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
134 107 0.78
135 31 0.22
ACGTcount: A:0.41, C:0.08, G:0.21, T:0.29
Consensus pattern (134 bp):
GTAATTCTGTAAATCGAGGGTAAAACGATAATTATGTAAATCTAAGGTAAAACAGTAATTATGTA
AATCAAGGGTAAAACATAATTCTATAAATCGAGGGTAAAACAGTAATTCTACAAATCGAGGGTAA
AACG
Found at i:112504743 original size:107 final size:108
Alignment explanation
Indices: 112504443--112504732 Score: 354
Period size: 107 Copynumber: 2.7 Consensus size: 108
112504433 GGGTATTTTA
* * * *
112504443 GTAATTTTGTAAATCGAGGGTAAAACAGTAATTTTGTAAATC-AAGGTAAAACAGTAATTTTGTA
1 GTAATTCTGTAAATCGAGGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAACGGTAATTATGTA
* *** * * *
112504507 AATCAAGGGTAAAACAATAATTCTATAAATCGAGGGTAAAATG
66 AATCGAGGGTAAAATGGTAATTATATAAATAGAGGGTAAAATC
* * *
112504550 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGATAATTATGTA
1 GTAATTCTGTAAATCGAGGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAACGGTAATTATGTA
*
112504615 AATCTG-GGGTAAAATGGTAATTATGTAAATTAG-GGGTAAAA-C
66 AATC-GAGGGTAAAATGGTAATTATATAAA-TAGAGGGTAAAATC
* ** * *
112504657 GTAATTCTATAAATCGAGGGTAAAACAGTAATTTTACAAATCGAGGGTAAAACGGTAATTCTATA
1 GTAATTCTGTAAATCGAGGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAACGGTAATTATGTA
112504722 AATCGAGGGTA
66 AATCGAGGGTA
112504733 CTTTGGTAAT
Statistics
Matches: 156, Mismatches: 23, Indels: 8
0.83 0.12 0.04
Matches are distributed among these distances:
106 1 0.01
107 105 0.67
108 48 0.31
109 2 0.01
ACGTcount: A:0.41, C:0.08, G:0.21, T:0.29
Consensus pattern (108 bp):
GTAATTCTGTAAATCGAGGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAACGGTAATTATGTA
AATCGAGGGTAAAATGGTAATTATATAAATAGAGGGTAAAATC
Found at i:112504769 original size:27 final size:27
Alignment explanation
Indices: 112504739--112504803 Score: 103
Period size: 27 Copynumber: 2.4 Consensus size: 27
112504729 GGTACTTTGG
112504739 TAATTTTACAAGTCGAGGGTATTTCAA
1 TAATTTTACAAGTCGAGGGTATTTCAA
* *
112504766 TAATTTTACAGGTCGAGGGTATTTCAG
1 TAATTTTACAAGTCGAGGGTATTTCAA
*
112504793 TAATTTCACAA
1 TAATTTTACAA
112504804 ATTAGGGGTA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.32, C:0.12, G:0.18, T:0.37
Consensus pattern (27 bp):
TAATTTTACAAGTCGAGGGTATTTCAA
Found at i:112504812 original size:27 final size:27
Alignment explanation
Indices: 112504782--112504959 Score: 245
Period size: 27 Copynumber: 6.7 Consensus size: 27
112504772 TACAGGTCGA
** * *
112504782 GGGTATTTCAGTAATTTCACAAATTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
112504809 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
*
112504836 GGGTATTTTGATAATTTTACAAACTA-
1 GGGTATTTTGGTAATTTTACAAACTAG
112504862 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
* * *
112504889 GGGTATTTTGGTAATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAACTAG
*
112504916 GGGTATTTTAGTAATTTTACAAAGC--G
1 GGGTATTTTGGTAATTTTACAAA-CTAG
112504942 GGGTATTTTGGTAATTTT
1 GGGTATTTTGGTAATTTT
112504960 GTAAACCAAA
Statistics
Matches: 136, Mismatches: 13, Indels: 5
0.88 0.08 0.03
Matches are distributed among these distances:
26 42 0.31
27 93 0.68
28 1 0.01
ACGTcount: A:0.30, C:0.07, G:0.21, T:0.42
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACTAG
Found at i:112504824 original size:54 final size:53
Alignment explanation
Indices: 112504782--112504958 Score: 187
Period size: 53 Copynumber: 3.3 Consensus size: 53
112504772 TACAGGTCGA
* *
112504782 GGGTATTTCAG-TAATTTCACAAATTAGGGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTT-AGATAATTTCACAAACTA-GGGTATTTTGGTAATTTTACAAACGAG
* * *
112504836 GGGTATTTTGATAATTTTACAAACTAGGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTAGATAATTTCACAAACTAGGGTATTTTGGTAATTTTACAAACGAG
* * * * * * *
112504889 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAA-GCG
1 GGGTATTTAGATAATTTCACAAA-CTAGGGTATTTTGGTAATTTTACAAACGAG
* *
112504942 GGGTATTTTGGTAATTT
1 GGGTATTTAGATAATTT
112504959 TGTAAACCAA
Statistics
Matches: 112, Mismatches: 9, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
53 67 0.60
54 45 0.40
ACGTcount: A:0.31, C:0.07, G:0.21, T:0.41
Consensus pattern (53 bp):
GGGTATTTAGATAATTTCACAAACTAGGGTATTTTGGTAATTTTACAAACGAG
Found at i:112504885 original size:53 final size:53
Alignment explanation
Indices: 112504728--112504959 Score: 245
Period size: 54 Copynumber: 4.3 Consensus size: 53
112504718 TATAAATCGA
* * * *** ** *
112504728 GGGTACTTTGGTAATTTTACAAGTCGAGGGTATTTCAATAATTTTAC-AGGTCG
1 GGGTATTTTGGTAATTTTACAA-ACTAGGGTATTTTGGTAATTTTACAAACTAG
** * *
112504781 AGGGTATTTCAGTAATTTCACAAATTAGGGGTATTTTGGTAATTTTACAAACTAG
1 -GGGTATTTTGGTAATTTTACAAACTA-GGGTATTTTGGTAATTTTACAAACTAG
*
112504836 GGGTATTTTGATAATTTTACAAACTAGGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAGGGTATTTTGGTAATTTTACAAACTAG
* * *
112504889 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAAGC--G
1 GGGTATTTTGGTAATTTTACAAA-CTAGGGTATTTTGGTAATTTTACAAA-CTAG
112504942 GGGTATTTTGGTAATTTT
1 GGGTATTTTGGTAATTTT
112504960 GTAAACCAAA
Statistics
Matches: 152, Mismatches: 22, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
53 68 0.45
54 80 0.53
55 4 0.03
ACGTcount: A:0.30, C:0.08, G:0.22, T:0.41
Consensus pattern (53 bp):
GGGTATTTTGGTAATTTTACAAACTAGGGTATTTTGGTAATTTTACAAACTAG
Found at i:112504899 original size:80 final size:78
Alignment explanation
Indices: 112504728--112504959 Score: 259
Period size: 80 Copynumber: 2.9 Consensus size: 78
112504718 TATAAATCGA
* * * * ** **
112504728 GGGTACTTTGGTAATTTTAC-AAGTCGAGGGTATTTCAATAATTTTACAGGTCGAGGGTATTTCA
1 GGGTATTTTGGTAATTTTACAAACTAG-GGGTATTT-TATAATTTTACA-AAC-AGGGTATTTTG
* *
112504792 GTAATTTCACAAATTAG
62 GTAATTTTACAAACTAG
112504809 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGATAATTTTACAAACTAGGGTATTTTGGT
1 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTT-ATAATTTTACAAAC-AGGGTATTTTGGT
112504874 AATTTTACAAACTAG
64 AATTTTACAAACTAG
* * * *
112504889 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAAGCGGGGTATTTTGGT
1 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTA-TAATTTTACAAA-CAGGGTATTTTGGT
112504954 AATTTT
64 AATTTT
112504960 GTAAACCAAA
Statistics
Matches: 132, Mismatches: 15, Indels: 9
0.85 0.10 0.06
Matches are distributed among these distances:
79 1 0.01
80 88 0.67
81 39 0.30
82 4 0.03
ACGTcount: A:0.30, C:0.08, G:0.22, T:0.41
Consensus pattern (78 bp):
GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTATAATTTTACAAACAGGGTATTTTGGTAA
TTTTACAAACTAG
Found at i:112504965 original size:53 final size:53
Alignment explanation
Indices: 112504809--112504977 Score: 227
Period size: 53 Copynumber: 3.2 Consensus size: 53
112504799 CACAAATTAG
* * * *
112504809 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGATAATTTTACAAA-CTA
1 GGGTATTTTAGTAATTTTACAAAC-AGGGGTATTTTGGTAATTTTATAAACCAA
*
112504862 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTATAAACCAA
1 GGGTATTTTAGTAATTTTACAAAC-AGGGGTATTTTGGTAATTTTATAAACCAA
*
112504916 GGGTATTTTAGTAATTTTACAAAGC-GGGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTAGTAATTTTACAAA-CAGGGGTATTTTGGTAATTTTATAAACCAA
*
112504969 -AGTATTTTA
1 GGGTATTTTA
112504978 AACATGGATA
Statistics
Matches: 108, Mismatches: 6, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
52 8 0.07
53 75 0.69
54 24 0.22
55 1 0.01
ACGTcount: A:0.31, C:0.07, G:0.20, T:0.41
Consensus pattern (53 bp):
GGGTATTTTAGTAATTTTACAAACAGGGGTATTTTGGTAATTTTATAAACCAA
Found at i:112504973 original size:26 final size:26
Alignment explanation
Indices: 112504810--112504976 Score: 172
Period size: 27 Copynumber: 6.3 Consensus size: 26
112504800 ACAAATTAGG
* *
112504810 GGTATTTTGGTAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTACAAACCA-A
* * *
112504837 GGTATTTTGATAATTTTACAAACTAG
1 GGTATTTTGGTAATTTTACAAACCAA
* *
112504863 GGTATTTTGGTAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTACAAACCA-A
*
112504890 GGTATTTTGGTAATTTTATAAACCAA
1 GGTATTTTGGTAATTTTACAAACCAA
* * **
112504916 GGGTATTTTAGTAATTTTACAAAGCGG
1 -GGTATTTTGGTAATTTTACAAACCAA
**
112504943 GGTATTTTGGTAATTTTGTAAACCAA
1 GGTATTTTGGTAATTTTACAAACCAA
*
112504969 AGTATTTT
1 GGTATTTT
112504977 AAACATGGAT
Statistics
Matches: 121, Mismatches: 17, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
26 52 0.43
27 69 0.57
ACGTcount: A:0.31, C:0.07, G:0.20, T:0.42
Consensus pattern (26 bp):
GGTATTTTGGTAATTTTACAAACCAA
Found at i:112506351 original size:31 final size:31
Alignment explanation
Indices: 112506315--112506377 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
112506305 AGCTAATGTG
*
112506315 ACACAAAATCAAGTGTAATTTAGCAAGGACT
1 ACACAAAATCAAGTGTAATTTAGCAAAGACT
112506346 ACACAAAATCAAGTGTAATTTAGCAAAGACT
1 ACACAAAATCAAGTGTAATTTAGCAAAGACT
112506377 A
1 A
112506378 AGTCACCAAC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.48, C:0.16, G:0.14, T:0.22
Consensus pattern (31 bp):
ACACAAAATCAAGTGTAATTTAGCAAAGACT
Found at i:112507189 original size:16 final size:17
Alignment explanation
Indices: 112507156--112507188 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
112507146 GTTCTGGCAA
112507156 ATTAAGCTTTTTTTTTT
1 ATTAAGCTTTTTTTTTT
112507173 ATTAAGCTTTTTTTTT
1 ATTAAGCTTTTTTTTT
112507189 AACACTTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.18, C:0.06, G:0.06, T:0.70
Consensus pattern (17 bp):
ATTAAGCTTTTTTTTTT
Found at i:112511850 original size:9 final size:9
Alignment explanation
Indices: 112511837--112511904 Score: 84
Period size: 9 Copynumber: 7.6 Consensus size: 9
112511827 ATAAGTATAA
*
112511837 AATTAACCA
1 AATTAACCG
*
112511846 AATTAATCG
1 AATTAACCG
112511855 AATTAACCG
1 AATTAACCG
*
112511864 AATTACCCG
1 AATTAACCG
*
112511873 AATT-ACGCA
1 AATTAAC-CG
112511882 AATTAACCG
1 AATTAACCG
112511891 AATTAACCG
1 AATTAACCG
112511900 AATTA
1 AATTA
112511905 TTTGTATAAA
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
8 1 0.02
9 47 0.94
10 2 0.04
ACGTcount: A:0.46, C:0.21, G:0.09, T:0.25
Consensus pattern (9 bp):
AATTAACCG
Found at i:112530050 original size:27 final size:27
Alignment explanation
Indices: 112530020--112530624 Score: 443
Period size: 27 Copynumber: 22.7 Consensus size: 27
112530010 TGTAGGATAG
*
112530020 AATTACCAAAATACCCTTGGTTTACAA
1 AATTACCAAAATACCCTTGGTTTATAA
* *
112530047 AATTACCAAAATACCCCTGGTTTGTAA
1 AATTACCAAAATACCCTTGGTTTATAA
**
112530074 AATTATTAAAATACCCTTGGTTTATAA
1 AATTACCAAAATACCCTTGGTTTATAA
* * *
112530101 AATCACCAAAATACCCCTGGTTTGTAA
1 AATTACCAAAATACCCTTGGTTTATAA
* *
112530128 AATTACCAAAATACCATTGGTTTACAA
1 AATTACCAAAATACCCTTGGTTTATAA
* *
112530155 AATTACCAAAATACCCCTGGTTTGTAA
1 AATTACCAAAATACCCTTGGTTTATAA
*
112530182 AATTACTAAAATACCCTTGGTTTATAA
1 AATTACCAAAATACCCTTGGTTTATAA
* * *
112530209 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCTTGGTTTATAA
* *
112530236 AATTACCAAAATACCCCTGGTTTGTAA
1 AATTACCAAAATACCCTTGGTTTATAA
* * *
112530263 AATTATCAAAATACCCTTAGTTTGTAA
1 AATTACCAAAATACCCTTGGTTTATAA
* * * *
112530290 AATTACCAAAATACCCCTGATTTGTGA
1 AATTACCAAAATACCCTTGGTTTATAA
** * * *
112530317 AATTACTGAAATACCCTCGGCTTGTAA
1 AATTACCAAAATACCCTTGGTTTATAA
* ** *
112530344 AATTACCAAAGTACCCCCGATTTATAA
1 AATTACCAAAATACCCTTGGTTTATAA
* * * * *
112530371 AATTACCTAAATATCCTCGATTTGTAA
1 AATTACCAAAATACCCTTGGTTTATAA
* * * *
112530398 AATTATCGAAATA-----AG---ATAG
1 AATTACCAAAATACCCTTGGTTTATAA
* *** * * *
112530417 AATTATCATTTTACCCTCGATTTACAA
1 AATTACCAAAATACCCTTGGTTTATAA
* *** * ** * *
112530444 AATTACTATTTTACCTTTAATTTACAG
1 AATTACCAAAATACCCTTGGTTTATAA
*** * *
112530471 AATTACCATTTTACCCTCGATTTATAA
1 AATTACCAAAATACCCTTGGTTTATAA
* *
112530498 AATTACTAAAATACCCTTGGTTTACAA
1 AATTACCAAAATACCCTTGGTTTATAA
* * * **
112530525 AATTTCCAAAATACCCTCGATCAATAA
1 AATTACCAAAATACCCTTGGTTTATAA
* *
112530552 AATTACCAAAATACCCTTAGTTTGTAA
1 AATTACCAAAATACCCTTGGTTTATAA
* * * *
112530579 AATTACCAAAATACCCCTGATTTGTGA
1 AATTACCAAAATACCCTTGGTTTATAA
* *
112530606 AATTATCGAAATACCCTTG
1 AATTACCAAAATACCCTTG
112530625 TAGGGTAGAA
Statistics
Matches: 460, Mismatches: 110, Indels: 16
0.78 0.19 0.03
Matches are distributed among these distances:
19 11 0.02
27 449 0.98
ACGTcount: A:0.39, C:0.20, G:0.08, T:0.33
Consensus pattern (27 bp):
AATTACCAAAATACCCTTGGTTTATAA
Found at i:112530078 original size:54 final size:54
Alignment explanation
Indices: 112530020--112530402 Score: 491
Period size: 54 Copynumber: 7.1 Consensus size: 54
112530010 TGTAGGATAG
*
112530020 AATTACCAAAATACCCTTGGTTTACAAAATTACCAAAATACCCCTGGTTTGTAA
1 AATTACCAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTGGTTTGTAA
** *
112530074 AATTATTAAAATACCCTTGGTTTATAAAATCACCAAAATACCCCTGGTTTGTAA
1 AATTACCAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTGGTTTGTAA
* *
112530128 AATTACCAAAATACCATTGGTTTACAAAATTACCAAAATACCCCTGGTTTGTAA
1 AATTACCAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTGGTTTGTAA
* *
112530182 AATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTGGTTTGTAA
* * * * *
112530236 AATTACCAAAATACCCCTGGTTTGTAAAATTATCAAAATACCCTTAGTTTGTAA
1 AATTACCAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTGGTTTGTAA
* * * * ** *
112530290 AATTACCAAAATACCCCTGATTTGTGAAATTACTGAAATA-CCCTCGGCTTGTAA
1 AATTACCAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCT-GGTTTGTAA
* ** * * * *
112530344 AATTACCAAAGTACCCCCGATTTATAAAATTACCTAAATA-TCCTCGATTTGTAA
1 AATTACCAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCT-GGTTTGTAA
112530398 AATTA
1 AATTA
112530403 TCGAAATAAG
Statistics
Matches: 293, Mismatches: 35, Indels: 2
0.89 0.11 0.01
Matches are distributed among these distances:
53 3 0.01
54 290 0.99
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (54 bp):
AATTACCAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTGGTTTGTAA
Found at i:112530609 original size:54 final size:53
Alignment explanation
Indices: 112530494--112530651 Score: 149
Period size: 54 Copynumber: 2.9 Consensus size: 53
112530484 CCCTCGATTT
* ** *
112530494 ATAAAATTACTAAAATACCCTTGGTTTACAAAATTTCCAAAATA-CCCTCGATCA
1 ATAAAATTACCAAAATACCCTT-GTTTGTAAAATTACCAAAATACCCCT-GATCA
**
112530548 ATAAAATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAATACCCCTGATTT
1 ATAAAATTACCAAAATACCCTT-GTTTGTAAAATTACCAAAATACCCCTGATCA
* * * * **
112530602 GTGAAATTATCGAAATACCCTTGTAGGGTAGAAA-TACCAAAATACCCCTG
1 ATAAAATTACCAAAATACCCTTGT-TTGTA-AAATTACCAAAATACCCCTG
112530652 TAGGGTAGAA
Statistics
Matches: 88, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
53 2 0.02
54 79 0.90
55 7 0.08
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.28
Consensus pattern (53 bp):
ATAAAATTACCAAAATACCCTTGTTTGTAAAATTACCAAAATACCCCTGATCA
Found at i:112530644 original size:27 final size:27
Alignment explanation
Indices: 112530614--112530721 Score: 119
Period size: 27 Copynumber: 4.0 Consensus size: 27
112530604 GAAATTATCG
112530614 AAATACCCTTGTAGGGTAGAAATACCA
1 AAATACCCTTGTAGGGTAGAAATACCA
* * *
112530641 AAATACCCCTGTAGGGTAGAATTACTA
1 AAATACCCTTGTAGGGTAGAAATACCA
* * * *
112530668 AAATACTCTTGTAAGGTAGAATTACCG
1 AAATACCCTTGTAGGGTAGAAATACCA
* *
112530695 AGATACCCTTGTGGGGTA-AAATTACCA
1 AAATACCCTTGTAGGGTAGAAA-TACCA
112530722 TTTTGCCCTT
Statistics
Matches: 66, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
26 2 0.03
27 64 0.97
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.26
Consensus pattern (27 bp):
AAATACCCTTGTAGGGTAGAAATACCA
Found at i:112530664 original size:54 final size:54
Alignment explanation
Indices: 112530549--112530719 Score: 143
Period size: 54 Copynumber: 3.2 Consensus size: 54
112530539 CCTCGATCAA
* ** **
112530549 TAAAATTACCAAAATACCCTTAGT-TTGTA-AAATTACCAAAATACCCCTG-ATTTG
1 TAAAATTACTAAAATACCCTT-GTAAGGTAGAAA-TACCAAAATACCCCTGTA-GGG
* * *
112530603 TGAAATTA-TCGAAATACCCTTGTAGGGTAGAAATACCAAAATACCCCTGTAGGG
1 TAAAATTACT-AAAATACCCTTGTAAGGTAGAAATACCAAAATACCCCTGTAGGG
* * * * * * *
112530657 TAGAATTACTAAAATACTCTTGTAAGGTAGAATTACCGAGATACCCTTGTGGGG
1 TAAAATTACTAAAATACCCTTGTAAGGTAGAAATACCAAAATACCCCTGTAGGG
112530711 TAAAATTAC
1 TAAAATTAC
112530720 CATTTTGCCC
Statistics
Matches: 94, Mismatches: 18, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
53 2 0.02
54 87 0.93
55 5 0.05
ACGTcount: A:0.38, C:0.18, G:0.16, T:0.29
Consensus pattern (54 bp):
TAAAATTACTAAAATACCCTTGTAAGGTAGAAATACCAAAATACCCCTGTAGGG
Found at i:112530730 original size:27 final size:27
Alignment explanation
Indices: 112530700--112530763 Score: 67
Period size: 27 Copynumber: 2.4 Consensus size: 27
112530690 TACCGAGATA
*
112530700 CCCTTGTGGGGTAAAATTACCATTTTG
1 CCCTTGTGGGGTAAAATGACCATTTTG
* * **
112530727 CCCTTAG-GGTGTTAAATGACTGTTTTG
1 CCCTT-GTGGGGTAAAATGACCATTTTG
112530754 CCCTTGTGGG
1 CCCTTGTGGG
112530764 CAAGTGACTA
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
26 1 0.03
27 27 0.93
28 1 0.03
ACGTcount: A:0.17, C:0.19, G:0.27, T:0.38
Consensus pattern (27 bp):
CCCTTGTGGGGTAAAATGACCATTTTG
Found at i:112531150 original size:31 final size:31
Alignment explanation
Indices: 112531115--112531193 Score: 122
Period size: 31 Copynumber: 2.5 Consensus size: 31
112531105 TTGCATTCAC
* *
112531115 ATTCTGATTTTGATTCTGTTACCTGATACTA
1 ATTCTGATTCTGATTCTGTCACCTGATACTA
* *
112531146 ATTCTGATTCTGATTCTGTCACCTGATTCTG
1 ATTCTGATTCTGATTCTGTCACCTGATACTA
112531177 ATTCTGATTCTGATTCT
1 ATTCTGATTCTGATTCT
112531194 AATTCTAGTT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.19, C:0.19, G:0.14, T:0.48
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTCACCTGATACTA
Found at i:112531157 original size:6 final size:6
Alignment explanation
Indices: 112531115--112531208 Score: 77
Period size: 6 Copynumber: 15.3 Consensus size: 6
112531105 TTGCATTCAC
* * *
112531115 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTA ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* *
112531164 -TCACCTG ATTCTG ATTCTG ATTCTG ATTCTA ATTCT- AGTTCTG AT
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
112531209 AATGTTTCTT
Statistics
Matches: 71, Mismatches: 9, Indels: 16
0.74 0.09 0.17
Matches are distributed among these distances:
5 4 0.06
6 58 0.82
7 7 0.10
8 2 0.03
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:112535149 original size:23 final size:25
Alignment explanation
Indices: 112535123--112535169 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
112535113 TATCATTCAT
*
112535123 TTCATTATAT-CA-ATATTTTATGC
1 TTCATCATATCCATATATTTTATGC
*
112535146 TTCATCATTTCCATATATTTTATG
1 TTCATCATATCCATATATTTTATG
112535170 TATATTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 2 0.10
25 10 0.50
ACGTcount: A:0.28, C:0.15, G:0.04, T:0.53
Consensus pattern (25 bp):
TTCATCATATCCATATATTTTATGC
Found at i:112535488 original size:46 final size:46
Alignment explanation
Indices: 112535428--112535694 Score: 354
Period size: 46 Copynumber: 6.0 Consensus size: 46
112535418 TTTGACGTGA
* * * * * *
112535428 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
** * * *
112535474 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
112535520 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
112535566 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
112535612 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--A-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
112535650 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGG
112535695 AGCACACTCC
Statistics
Matches: 199, Mismatches: 13, Indels: 18
0.87 0.06 0.08
Matches are distributed among these distances:
38 33 0.17
39 1 0.01
40 3 0.02
41 1 0.01
43 1 0.01
44 3 0.02
45 5 0.03
46 152 0.76
ACGTcount: A:0.22, C:0.24, G:0.16, T:0.38
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:112535658 original size:38 final size:38
Alignment explanation
Indices: 112535607--112535682 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
112535597 CATTTCATAT
112535607 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
112535645 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
112535683 TTTCATATCA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (38 bp):
CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
Found at i:112535792 original size:54 final size:54
Alignment explanation
Indices: 112535726--112535862 Score: 274
Period size: 54 Copynumber: 2.5 Consensus size: 54
112535716 TCCTTACAGT
112535726 GGGATTACCAGTCCAGGCTAAATCCCCTGTAACATAAACTCATAGAGTATTGTC
1 GGGATTACCAGTCCAGGCTAAATCCCCTGTAACATAAACTCATAGAGTATTGTC
112535780 GGGATTACCAGTCCAGGCTAAATCCCCTGTAACATAAACTCATAGAGTATTGTC
1 GGGATTACCAGTCCAGGCTAAATCCCCTGTAACATAAACTCATAGAGTATTGTC
112535834 GGGATTACCAGTCCAGGCTAAATCCCCTG
1 GGGATTACCAGTCCAGGCTAAATCCCCTG
112535863 CAACGACAAT
Statistics
Matches: 83, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 83 1.00
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.25
Consensus pattern (54 bp):
GGGATTACCAGTCCAGGCTAAATCCCCTGTAACATAAACTCATAGAGTATTGTC
Found at i:112539498 original size:25 final size:25
Alignment explanation
Indices: 112539461--112539511 Score: 68
Period size: 24 Copynumber: 2.0 Consensus size: 25
112539451 TCAAACATGC
112539461 ATTTAGGTCAATTTAACCCTAGGGGT
1 ATTTAGGTCAATTT-ACCCTAGGGGT
* *
112539487 ATTTCGGT-AATTTATCCTAGGGGT
1 ATTTAGGTCAATTTACCCTAGGGGT
112539511 A
1 A
112539512 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 11 0.48
25 5 0.22
26 7 0.30
ACGTcount: A:0.25, C:0.14, G:0.24, T:0.37
Consensus pattern (25 bp):
ATTTAGGTCAATTTACCCTAGGGGT
Found at i:112541085 original size:25 final size:26
Alignment explanation
Indices: 112540991--112541099 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
112540981 CATGAAATTC
112540991 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
112541017 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
112541043 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
*
112541069 TTATCATG-AACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
112541094 TTATCA
1 TTATCA
112541100 ATTTGTATCA
Statistics
Matches: 81, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
25 23 0.28
26 58 0.72
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:112543362 original size:26 final size:26
Alignment explanation
Indices: 112543258--112543359 Score: 177
Period size: 26 Copynumber: 3.9 Consensus size: 26
112543248 CATGAAATTC
112543258 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
112543284 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
112543310 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
*
112543336 TTATCATGGAACATTTACCTAACC
1 TTATCATGAAACATTTACCTAACC
112543360 TATGATATCA
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 74 1.00
ACGTcount: A:0.36, C:0.25, G:0.06, T:0.32
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:112547218 original size:64 final size:64
Alignment explanation
Indices: 112547145--112547355 Score: 151
Period size: 64 Copynumber: 3.2 Consensus size: 64
112547135 CTGGGCCAGA
*
112547145 GCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
* * * *** * ** *
112547209 GCCCATTTCAAAATAC-ATGCAACATCAGTAAACATATGCAAGCCC--ATTTGGGTAACAGTGGT
1 GCCCATTTCAGATTACAAT--AA-A-CTG-GGCCTTA-GC---CCCTTATTCAGATAACA---GT
* *
112547271 ACTGGGCCAGA-
54 A-TGGCCCATAG
*
112547282 GCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
112547346 GCCCATTTCA
1 GCCCATTTCA
112547356 AAATACATGC
Statistics
Matches: 103, Mismatches: 27, Indels: 34
0.63 0.16 0.21
Matches are distributed among these distances:
63 9 0.09
64 25 0.24
65 5 0.05
66 1 0.01
67 11 0.11
68 5 0.05
69 5 0.05
70 11 0.11
71 1 0.01
72 5 0.05
73 16 0.16
74 9 0.09
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (64 bp):
GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
Found at i:112547357 original size:137 final size:137
Alignment explanation
Indices: 112547111--112547397 Score: 556
Period size: 137 Copynumber: 2.1 Consensus size: 137
112547101 CATTGGGCCT
**
112547111 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
112547176 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
112547241 CATATGC
131 CATATGC
112547248 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
112547313 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
112547378 CATATGC
131 CATATGC
112547385 AAGCCCATTTGGG
1 AAGCCCATTTGGG
112547398 GAGACTACTC
Statistics
Matches: 148, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
137 148 1.00
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.24
Consensus pattern (137 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
CATATGC
Found at i:112547682 original size:25 final size:27
Alignment explanation
Indices: 112547645--112547697 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 27
112547635 TCAAACATGC
112547645 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACACCTAGGGGT
* **
112547671 ATTTCGGT-AATTTTGCACCTAGGGGT
1 ATTTAGGTCAATTTAACACCTAGGGGT
112547697 A
1 A
112547698 AACAGTAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 6 0.26
26 17 0.74
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.36
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACACCTAGGGGT
Found at i:112549215 original size:26 final size:26
Alignment explanation
Indices: 112549179--112549288 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
112549169 CATGATATTC
112549179 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
112549205 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
112549231 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
112549257 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
112549283 TTATCA
1 TTATCA
112549289 ATTTGTATCA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:112549742 original size:213 final size:213
Alignment explanation
Indices: 112549375--112549801 Score: 775
Period size: 213 Copynumber: 2.0 Consensus size: 213
112549365 CCTATTTTGC
112549375 ACTCCTATTTATTTGGCCACTTCAATTTAGCCTATAGCATTTTCAAACATTTTCACATAGGTCCT
1 ACTCCTATTTATTTGGCCACTTCAATTTAGCCTATAGCATTTTCAAACATTTTCACATAGGTCCT
112549440 ATTTCATAATTTCACTCCCTTTTTCTTATGGAACAAAAATTAACTAAAATTACCAGGTTCTATCT
66 ATTTCATAATTTCACTCCCTTTTTCTTATGGAACAAAAATTAACTAAAATTACCAGGTTCTATCT
112549505 TAAGCTTGGGCCTTCTAGAGGCCCACTAACATAATTAAACCTATGCCAACATTCACAGAATTCCC
131 TAAGCTTGGGCCTTCTAGAGGCCCACTAACATAATTAAACCTATGCCAACATTCACAGAATTCCC
112549570 GAAAATTGGGGCGTTACA
196 GAAAATTGGGGCGTTACA
112549588 ACTCCTATTTATTTGGCCACTTCAATTTAGCCTATAGCATTTTCAAACATTTTCACATAGGTCCT
1 ACTCCTATTTATTTGGCCACTTCAATTTAGCCTATAGCATTTTCAAACATTTTCACATAGGTCCT
** *
112549653 ATTTCATAATTTCAC-CCCGTTTTTCTTATGGAACAAAAATTAACTAAAATTGTCGGGTTCTATC
66 ATTTCATAATTTCACTCCC-TTTTTCTTATGGAACAAAAATTAACTAAAATTACCAGGTTCTATC
* * *
112549717 TTAAGTTTGGGCTTTCTAGAGGCCCACTAACATAATTAAACCTATGCCAACATTCACAGGATTCC
130 TTAAGCTTGGGCCTTCTAGAGGCCCACTAACATAATTAAACCTATGCCAACATTCACAGAATTCC
*
112549782 CGAAAATTGGGGTGTTACA
195 CGAAAATTGGGGCGTTACA
112549801 A
1 A
112549802 GGATAATATC
Statistics
Matches: 206, Mismatches: 7, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
212 3 0.01
213 203 0.99
ACGTcount: A:0.30, C:0.22, G:0.13, T:0.34
Consensus pattern (213 bp):
ACTCCTATTTATTTGGCCACTTCAATTTAGCCTATAGCATTTTCAAACATTTTCACATAGGTCCT
ATTTCATAATTTCACTCCCTTTTTCTTATGGAACAAAAATTAACTAAAATTACCAGGTTCTATCT
TAAGCTTGGGCCTTCTAGAGGCCCACTAACATAATTAAACCTATGCCAACATTCACAGAATTCCC
GAAAATTGGGGCGTTACA
Found at i:112552010 original size:23 final size:25
Alignment explanation
Indices: 112551984--112552030 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
112551974 TATCATTCAT
*
112551984 TTCATTATAT-CA-ATATTTTATGC
1 TTCATCATATCCATATATTTTATGC
*
112552007 TTCATCATTTCCATATATTTTATG
1 TTCATCATATCCATATATTTTATG
112552031 TATATTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 2 0.10
25 10 0.50
ACGTcount: A:0.28, C:0.15, G:0.04, T:0.53
Consensus pattern (25 bp):
TTCATCATATCCATATATTTTATGC
Found at i:112552351 original size:46 final size:46
Alignment explanation
Indices: 112552291--112552598 Score: 395
Period size: 46 Copynumber: 6.9 Consensus size: 46
112552281 TTTGACGTGA
* * * * *
112552291 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATATCAGGT
* * * *
112552337 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
*
112552383 TGCCATGGTATCTTTCAACCATGGTCTTA-TACATCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACT-CATTTCATATCAGGT
* *
112552429 TGCCATGGTATCTTTAAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
*
112552475 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
112552521 TGCCATGGTATCTTTCAACCATGGTCTTA--CA---C--A-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
*
112552559 TGCCAT-GTATCTTTCAACCATGGTCTTACACATTTCATAT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATAT
112552599 AGGAAGCACA
Statistics
Matches: 237, Mismatches: 14, Indels: 23
0.86 0.05 0.08
Matches are distributed among these distances:
37 22 0.09
38 11 0.05
39 3 0.01
41 1 0.00
42 1 0.00
44 3 0.01
45 5 0.02
46 191 0.81
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
Found at i:112552576 original size:37 final size:38
Alignment explanation
Indices: 112552516--112552590 Score: 143
Period size: 37 Copynumber: 2.0 Consensus size: 38
112552506 CATTTCATAT
112552516 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
112552554 CAGGTTGCCAT-GTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
112552591 TTTCATATAG
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
37 26 0.70
38 11 0.30
ACGTcount: A:0.24, C:0.27, G:0.17, T:0.32
Consensus pattern (38 bp):
CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
Found at i:112555320 original size:46 final size:46
Alignment explanation
Indices: 112555253--112555709 Score: 625
Period size: 46 Copynumber: 10.0 Consensus size: 46
112555243 ACTTTCTGAA
*
112555253 ATGAAATATGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
112555299 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
112555345 ATGAAATGTGTAAGACCATGGTTGAAAGACT-CCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGA-TACCATGGCAACATGAT
* *
112555391 ATGAAATGTGTAAGACCGTGGTTGAAAGACACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* *
112555437 ATAAAATGTGTAAGACCATGGTTGTAAGATACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*
112555483 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACAGGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*
112555529 ATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACAT-A-
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* * ** * ** * *
112555573 ACGGGAATGAATAAGACCATGGTTGAAAGATACTATGGCAATGTAAC
1 A-TGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*** * *
112555620 ATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAACCTGAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* * * * *
112555666 A-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 ATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATG
112555710 TCAAAGATAA
Statistics
Matches: 371, Mismatches: 34, Indels: 12
0.89 0.08 0.03
Matches are distributed among these distances:
44 1 0.00
45 36 0.10
46 332 0.89
47 2 0.01
ACGTcount: A:0.40, C:0.14, G:0.23, T:0.22
Consensus pattern (46 bp):
ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
Found at i:112556010 original size:16 final size:17
Alignment explanation
Indices: 112555989--112556021 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
112555979 ATGATGGAGC
112555989 ATGAAAT-ATTGATATA
1 ATGAAATAATTGATATA
112556005 ATGAAATAATTGATATA
1 ATGAAATAATTGATATA
112556022 TACTTATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.52, C:0.00, G:0.12, T:0.36
Consensus pattern (17 bp):
ATGAAATAATTGATATA
Found at i:112557943 original size:2 final size:2
Alignment explanation
Indices: 112557921--112557961 Score: 61
Period size: 2 Copynumber: 22.0 Consensus size: 2
112557911 TGAATTGTAA
112557921 AT AT A- AT AT A- AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
112557960 AT
1 AT
112557962 TAGAGAAAGA
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
1 3 0.08
2 33 0.92
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:112562004 original size:25 final size:25
Alignment explanation
Indices: 112561967--112562025 Score: 82
Period size: 25 Copynumber: 2.3 Consensus size: 25
112561957 TACCTACTAA
**
112561967 ATAATCACCAGCTCAAGGTTTGATAG
1 ATAA-CACCAGCTCAAGGCCTGATAG
*
112561993 ATAACACTAGCTCAAGGCCTGATAG
1 ATAACACCAGCTCAAGGCCTGATAG
112562018 ATAACACC
1 ATAACACC
112562026 GACACAAAGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
25 25 0.86
26 4 0.14
ACGTcount: A:0.37, C:0.24, G:0.17, T:0.22
Consensus pattern (25 bp):
ATAACACCAGCTCAAGGCCTGATAG
Found at i:112562037 original size:25 final size:25
Alignment explanation
Indices: 112561987--112562037 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
112561977 GCTCAAGGTT
* * *
112561987 TGATAGATAACACTAGCTCAAGGCC
1 TGATAGATAACACGAGCACAAAGCC
112562012 TGATAGATAACACCGA-CACAAAGCC
1 TGATAGATAACA-CGAGCACAAAGCC
112562037 T
1 T
112562038 ACTAGACACA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 20 0.91
26 2 0.09
ACGTcount: A:0.39, C:0.25, G:0.18, T:0.18
Consensus pattern (25 bp):
TGATAGATAACACGAGCACAAAGCC
Found at i:112562112 original size:40 final size:40
Alignment explanation
Indices: 112562021--112562116 Score: 111
Period size: 40 Copynumber: 2.4 Consensus size: 40
112562011 CTGATAGATA
*
112562021 ACACCGACACAAAGCCTACTAGACACAAAGCCCGATAAAC
1 ACACCGACACAAAGCCCACTAGACACAAAGCCCGATAAAC
* * * * ** *
112562061 ATACTGGCACAAAGCCCGCTAGGTACAAAGCCCGATAAAT
1 ACACCGACACAAAGCCCACTAGACACAAAGCCCGATAAAC
*
112562101 ACACCAACACAAAGCC
1 ACACCGACACAAAGCC
112562117 TGATAGATAA
Statistics
Matches: 44, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
40 44 1.00
ACGTcount: A:0.43, C:0.33, G:0.15, T:0.09
Consensus pattern (40 bp):
ACACCGACACAAAGCCCACTAGACACAAAGCCCGATAAAC
Found at i:112562121 original size:24 final size:25
Alignment explanation
Indices: 112562085--112562142 Score: 73
Period size: 25 Copynumber: 2.4 Consensus size: 25
112562075 CCCGCTAGGT
*
112562085 ACAAAGCCCGATAAAT-ACACCAAC
1 ACAAAGCCTGATAAATAACACCAAC
*
112562109 ACAAAGCCTGATAGATAACACCAAC
1 ACAAAGCCTGATAAATAACACCAAC
* *
112562134 TCAAGGCCT
1 ACAAAGCCT
112562143 ACTATTTAGA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
24 14 0.48
25 15 0.52
ACGTcount: A:0.45, C:0.31, G:0.12, T:0.12
Consensus pattern (25 bp):
ACAAAGCCTGATAAATAACACCAAC
Found at i:112563388 original size:15 final size:15
Alignment explanation
Indices: 112563370--112563419 Score: 55
Period size: 16 Copynumber: 3.2 Consensus size: 15
112563360 GAAGATAAAG
112563370 AAAAATAAAGAAAAA
1 AAAAATAAAGAAAAA
* *
112563385 AAAAAGAAAGTTAAAA
1 AAAAATAAAG-AAAAA
*
112563401 AAATATAAAAGAAAAA
1 AAAAAT-AAAGAAAAA
112563417 AAA
1 AAA
112563420 TTAAATTATT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
15 9 0.32
16 15 0.54
17 4 0.14
ACGTcount: A:0.82, C:0.00, G:0.08, T:0.10
Consensus pattern (15 bp):
AAAAATAAAGAAAAA
Found at i:112563390 original size:21 final size:21
Alignment explanation
Indices: 112563366--112563416 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
112563356 AACAGAAGAT
112563366 AAAGAAAAATAAAGAAAA-AAA
1 AAAGAAAAATAAA-AAAATAAA
** *
112563387 AAAGAAAGTTAAAAAAATATA
1 AAAGAAAAATAAAAAAATAAA
112563408 AAAGAAAAA
1 AAAGAAAAA
112563417 AAATTAAATT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
20 4 0.17
21 20 0.83
ACGTcount: A:0.80, C:0.00, G:0.10, T:0.10
Consensus pattern (21 bp):
AAAGAAAAATAAAAAAATAAA
Found at i:112563762 original size:15 final size:17
Alignment explanation
Indices: 112563742--112563778 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 17
112563732 TTGCTCAAAT
*
112563742 AATAAATAAAG-GAA-A
1 AATAAAAAAAGTGAATA
112563757 AATAAAAAAAGTGAATA
1 AATAAAAAAAGTGAATA
112563774 AATAA
1 AATAA
112563779 GGAGACAGAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 10 0.53
16 3 0.16
17 6 0.32
ACGTcount: A:0.73, C:0.00, G:0.11, T:0.16
Consensus pattern (17 bp):
AATAAAAAAAGTGAATA
Found at i:112564323 original size:18 final size:18
Alignment explanation
Indices: 112564297--112564360 Score: 67
Period size: 18 Copynumber: 3.6 Consensus size: 18
112564287 ATTGTTGGCC
* *
112564297 AAATAAAAAATTGTAAAA
1 AAATTAAAAATAGTAAAA
112564315 AAATTAAAAATAGTAAAA
1 AAATTAAAAATAGTAAAA
* * *
112564333 TATTTAAAAATA-TATAA
1 AAATTAAAAATAGTAAAA
112564350 AAATTATAAAA
1 AAATTA-AAAA
112564361 AATAAATATG
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
17 8 0.21
18 30 0.79
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (18 bp):
AAATTAAAAATAGTAAAA
Found at i:112564350 original size:28 final size:28
Alignment explanation
Indices: 112564300--112564363 Score: 78
Period size: 28 Copynumber: 2.3 Consensus size: 28
112564290 GTTGGCCAAA
112564300 TAAAAAATTGTAAAAAAATTAAAAATAG
1 TAAAAAATTGTAAAAAAATTAAAAATAG
* *
112564328 TAAAATATT-TAAAAATATATAAAAATTA-
1 TAAAAAATTGTAAAAAAAT-TAAAAA-TAG
112564356 TAAAAAAT
1 TAAAAAAT
112564364 AAATATGTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
27 8 0.26
28 21 0.68
29 2 0.06
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (28 bp):
TAAAAAATTGTAAAAAAATTAAAAATAG
Found at i:112564772 original size:10 final size:10
Alignment explanation
Indices: 112564759--112564915 Score: 64
Period size: 10 Copynumber: 16.1 Consensus size: 10
112564749 TTTCACAACA
112564759 TTTAATAATT
1 TTTAATAATT
112564769 TTTACA-AATT
1 TTTA-ATAATT
*
112564779 TTAAATAATCT
1 TTTAATAAT-T
*
112564790 TTT-ATGATT
1 TTTAATAATT
112564799 TTTAATAA-T
1 TTTAATAATT
*
112564808 TTCAA-AATAT
1 TTTAATAAT-T
*
112564818 TTTAATAATA
1 TTTAATAATT
*
112564828 TTTAATAACTA
1 TTTAATAA-TT
* **
112564839 TTT-ACAACA
1 TTTAATAATT
112564848 TTTAAT--TT
1 TTTAATAATT
*
112564856 TTAAATAA-T
1 TTTAATAATT
*
112564865 TTAAAT-ATT
1 TTTAATAATT
*
112564874 TTT-TTACATT
1 TTTAATA-ATT
112564884 TTTATATAATT
1 TTTA-ATAATT
**
112564895 TAAAATAATT
1 TTTAATAATT
*
112564905 TTTTATAATT
1 TTTAATAATT
112564915 T
1 T
112564916 CTCAATAATC
Statistics
Matches: 110, Mismatches: 21, Indels: 32
0.67 0.13 0.20
Matches are distributed among these distances:
8 9 0.08
9 24 0.22
10 58 0.53
11 17 0.15
12 2 0.02
ACGTcount: A:0.41, C:0.04, G:0.01, T:0.54
Consensus pattern (10 bp):
TTTAATAATT
Found at i:112564892 original size:29 final size:29
Alignment explanation
Indices: 112564848--112564909 Score: 90
Period size: 29 Copynumber: 2.1 Consensus size: 29
112564838 ATTTACAACA
*
112564848 TTTAATTTTTAAATAATTT-AAATATTTT
1 TTTAATTTTTAAATAATTTAAAATAATTT
*
112564876 TTTACATTTTTATATAATTTAAAATAATTT
1 TTTA-ATTTTTAAATAATTTAAAATAATTT
112564906 TTTA
1 TTTA
112564910 TAATTTCTCA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 4 0.13
29 14 0.47
30 12 0.40
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.60
Consensus pattern (29 bp):
TTTAATTTTTAAATAATTTAAAATAATTT
Found at i:112573306 original size:17 final size:17
Alignment explanation
Indices: 112573281--112573319 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
112573271 ACAATGAATG
* *
112573281 TTTAAATTTAAAATTAA
1 TTTATATTTAAAATAAA
*
112573298 TTTATATTTTAAATAAA
1 TTTATATTTAAAATAAA
112573315 TTTAT
1 TTTAT
112573320 TTTTTTAACT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
TTTATATTTAAAATAAA
Found at i:112573310 original size:18 final size:18
Alignment explanation
Indices: 112573287--112573345 Score: 75
Period size: 18 Copynumber: 3.3 Consensus size: 18
112573277 AATGTTTAAA
* *
112573287 TTTAAAATTAATTTATAT
1 TTTAAAATAAATTTATTT
112573305 TTT-AAATAAATTTATTT
1 TTTAAAATAAATTTATTT
* *
112573322 TTTTAACTAAATTTATTT
1 TTTAAAATAAATTTATTT
112573340 TTTAAA
1 TTTAAA
112573346 TTTAATATTT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
17 15 0.42
18 21 0.58
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.58
Consensus pattern (18 bp):
TTTAAAATAAATTTATTT
Found at i:112573324 original size:17 final size:17
Alignment explanation
Indices: 112573291--112573346 Score: 76
Period size: 17 Copynumber: 3.2 Consensus size: 17
112573281 TTTAAATTTA
* *
112573291 AAATTAATTTATATTTT
1 AAATAAATTTATTTTTT
112573308 AAATAAATTTATTTTTTT
1 AAATAAATTTA-TTTTTT
*
112573326 AACTAAATTTATTTTTT
1 AAATAAATTTATTTTTT
112573343 AAAT
1 AAAT
112573347 TTAATATTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
17 19 0.56
18 15 0.44
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (17 bp):
AAATAAATTTATTTTTT
Found at i:112573548 original size:2 final size:2
Alignment explanation
Indices: 112573541--112573572 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
112573531 AATACTTGAA
112573541 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
112573573 TCTTTTTTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:112573751 original size:14 final size:15
Alignment explanation
Indices: 112573726--112573758 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
112573716 AATTTTTTTA
112573726 TTTAATTATTAAATG
1 TTTAATTATTAAATG
*
112573741 TTTAA-TATTAAATT
1 TTTAATTATTAAATG
112573755 TTTA
1 TTTA
112573759 GTCACCTTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (15 bp):
TTTAATTATTAAATG
Found at i:112575246 original size:55 final size:53
Alignment explanation
Indices: 112575028--112575251 Score: 139
Period size: 51 Copynumber: 4.1 Consensus size: 53
112575018 TAATAGTTGA
* * * *
112575028 TACCCTTGTACTAAAATTTAAAAAAAAAATGGGTACTGGGACACTGATGGTCGG
1 TACCCTTGTAC-CAGATTTAAAAAAAAAATGGGTGCTGGGACACTGATGGCCGG
* * * * * * * **
112575082 CACCCCTGTACCATA-TT-AAAAAAAAATAGGTGTTGGGACAATGATGGTCAA
1 TACCCTTGTACCAGATTTAAAAAAAAAATGGGTGCTGGGACACTGATGGCCGG
* * * * *
112575133 TA-CCTCAGTACCAGATTTTTTCAAAAAAAAAAATGGGATGCTGGAACATTAATAGCCGG
1 TACCCT-TGTACCAGA---TTT--AAAAAAAAAATGGG-TGCTGGGACACTGATGGCCGG
* * *
112575192 TACCCTTGTACTAGATTTCAAAAAAAAATTGGGGTGTTGGGACACTGATGGCCGG
1 TACCCTTGTACCAGATTT-AAAAAAAAAAT-GGGTGCTGGGACACTGATGGCCGG
*
112575247 CACCC
1 TACCC
112575252 CTTTAATATA
Statistics
Matches: 126, Mismatches: 33, Indels: 21
0.70 0.18 0.12
Matches are distributed among these distances:
50 2 0.02
51 36 0.29
52 2 0.02
53 2 0.02
54 9 0.07
55 32 0.25
56 6 0.05
58 12 0.10
59 22 0.17
60 3 0.02
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.25
Consensus pattern (53 bp):
TACCCTTGTACCAGATTTAAAAAAAAAATGGGTGCTGGGACACTGATGGCCGG
Found at i:112577515 original size:11 final size:11
Alignment explanation
Indices: 112577501--112577555 Score: 74
Period size: 11 Copynumber: 4.9 Consensus size: 11
112577491 AGATAAATAT
112577501 TATTTTATTAA
1 TATTTTATTAA
*
112577512 TATTTTAATAA
1 TATTTTATTAA
*
112577523 TATATTTATTAT
1 TAT-TTTATTAA
*
112577535 TATTTTATTAT
1 TATTTTATTAA
112577546 TATTTTATTA
1 TATTTTATTA
112577556 GTATATAAAG
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
11 31 0.77
12 9 0.22
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:112579736 original size:46 final size:46
Alignment explanation
Indices: 112579684--112579993 Score: 433
Period size: 46 Copynumber: 6.7 Consensus size: 46
112579674 AGTGTGTTCT
*
112579684 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
112579730 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
112579776 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
112579822 GTGATATGAAATAAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * *
112579868 GTGATATGAAATAAATAAGACCATGGTTGAAAGATACCATGGCTAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * *
112579914 GTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * **
112579960 ATGACA-GAAAATGAGTAAGACCATAATTGAAAGA
1 CTGATATG-AAATGAGTAAGACCATGGTTGAAAGA
112579994 CACTATTGCA
Statistics
Matches: 247, Mismatches: 16, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
45 1 0.00
46 246 1.00
ACGTcount: A:0.42, C:0.14, G:0.23, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:112580207 original size:31 final size:31
Alignment explanation
Indices: 112580172--112580237 Score: 132
Period size: 31 Copynumber: 2.1 Consensus size: 31
112580162 GTTGTATGAA
112580172 ATAATTATGAAGATAGATAAACGAAATAAGT
1 ATAATTATGAAGATAGATAAACGAAATAAGT
112580203 ATAATTATGAAGATAGATAAACGAAATAAGT
1 ATAATTATGAAGATAGATAAACGAAATAAGT
112580234 ATAA
1 ATAA
112580238 GTACATGGAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.56, C:0.03, G:0.15, T:0.26
Consensus pattern (31 bp):
ATAATTATGAAGATAGATAAACGAAATAAGT
Found at i:112581647 original size:18 final size:18
Alignment explanation
Indices: 112581624--112581659 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
112581614 GTCATCCAGA
112581624 GAGAAAGATCACAAGGAG
1 GAGAAAGATCACAAGGAG
112581642 GAGAAAGATCACAAGGAG
1 GAGAAAGATCACAAGGAG
112581660 ACTATGGGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.50, C:0.11, G:0.33, T:0.06
Consensus pattern (18 bp):
GAGAAAGATCACAAGGAG
Found at i:112583853 original size:25 final size:25
Alignment explanation
Indices: 112583816--112583897 Score: 103
Period size: 25 Copynumber: 3.3 Consensus size: 25
112583806 TAAGCTCTCT
**
112583816 TTTGAGCCATATAAC-GAGAAGCTCA
1 TTTGAGCTGTATAACAG-GAAGCTCA
*
112583841 TTTGAGTTGTATAACAGGAAGCTCA
1 TTTGAGCTGTATAACAGGAAGCTCA
*
112583866 TTTGAGCTGTATAATAGGAAGCTCA
1 TTTGAGCTGTATAACAGGAAGCTCA
*
112583891 TGTGAGC
1 TTTGAGC
112583898 CAATATCGGG
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
25 49 0.98
26 1 0.02
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.29
Consensus pattern (25 bp):
TTTGAGCTGTATAACAGGAAGCTCA
Found at i:112583945 original size:25 final size:25
Alignment explanation
Indices: 112583850--112583945 Score: 65
Period size: 25 Copynumber: 3.9 Consensus size: 25
112583840 ATTTGAGTTG
* ** **
112583850 TATAACAGGAAGCTCATTTGAGCTG
1 TATATCAGGAAGCTCATTAAAGCCA
*
112583875 TATAAT-AGGAAGCTCATGT-GAGCCA
1 TAT-ATCAGGAAGCTCAT-TAAAGCCA
* *
112583900 -ATATCGGGAAGCTCCA-GAAAGCCA
1 TATATCAGGAAGCT-CATTAAAGCCA
112583924 TATATCAGGAAGCTCATTAAAG
1 TATATCAGGAAGCTCATTAAAG
112583946 AGCTTTTAAT
Statistics
Matches: 56, Mismatches: 8, Indels: 14
0.72 0.10 0.18
Matches are distributed among these distances:
23 2 0.04
24 16 0.29
25 36 0.64
26 2 0.04
ACGTcount: A:0.36, C:0.18, G:0.23, T:0.23
Consensus pattern (25 bp):
TATATCAGGAAGCTCATTAAAGCCA
Found at i:112583991 original size:52 final size:50
Alignment explanation
Indices: 112583902--112583999 Score: 128
Period size: 52 Copynumber: 1.9 Consensus size: 50
112583892 GTGAGCCAAT
112583902 ATCGGGAAGCTCCAGAAAGCCATATATCAGGAAGCTCATTAAAGAGCTTTTA
1 ATCGGGAAGCTCCAGAAAGCCATATATCAGGAAGCTCA-T-AAGAGCTTTTA
* *
112583954 ATCGGGAAGCTCCA-AAGATCCATATAT-AGGGACGCTCATAAGAGCT
1 ATCGGGAAGCTCCAGAA-AGCCATATATCA-GGAAGCTCATAAGAGCT
112584000 ACGGTGTGTC
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
50 7 0.17
51 4 0.10
52 31 0.74
ACGTcount: A:0.36, C:0.20, G:0.22, T:0.21
Consensus pattern (50 bp):
ATCGGGAAGCTCCAGAAAGCCATATATCAGGAAGCTCATAAGAGCTTTTA
Found at i:112587404 original size:23 final size:23
Alignment explanation
Indices: 112587378--112587422 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
112587368 TGGGTATGTG
*
112587378 ATGACGTTATCTT-ATAAATATGC
1 ATGAAGTTATCTTGA-AAATATGC
*
112587401 ATGAATTTATCTTGAAAATATG
1 ATGAAGTTATCTTGAAAATATG
112587423 TTGAATTGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.38, C:0.09, G:0.13, T:0.40
Consensus pattern (23 bp):
ATGAAGTTATCTTGAAAATATGC
Found at i:112587511 original size:3 final size:3
Alignment explanation
Indices: 112587503--112587540 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
112587493 GGCTATATTG
112587503 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
112587541 ATCGTAAACT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:112595147 original size:23 final size:23
Alignment explanation
Indices: 112595121--112595165 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
112595111 TGGGTATGTG
*
112595121 ATGACGTTATCTT-ATAAATATGC
1 ATGAAGTTATCTTGA-AAATATGC
*
112595144 ATGAATTTATCTTGAAAATATG
1 ATGAAGTTATCTTGAAAATATG
112595166 TTGAATTAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.38, C:0.09, G:0.13, T:0.40
Consensus pattern (23 bp):
ATGAAGTTATCTTGAAAATATGC
Found at i:112598639 original size:53 final size:51
Alignment explanation
Indices: 112598530--112598677 Score: 152
Period size: 53 Copynumber: 2.8 Consensus size: 51
112598520 CATACCGATT
* * * * ** *
112598530 CCATATCCTAGATATGGTCTTACACGAGAGCACTTATCACTTTTCTCCGATG
1 CCATAGCCTAGCTATGGTCTTATACG-GATCACTTATCACTTTAATCCGAAG
*
112598582 CCATAGCCTAGCTATGGTCTTATACGGATCACTTGTATCACTTTAATCTGAAG
1 CCATAGCCTAGCTATGGTCTTATACGGATCAC-T-TATCACTTTAATCCGAAG
* * *
112598635 CCATAGCCCAACTATGGTCTTATACGGATATCGCTTATCACTT
1 CCATAGCCTAGCTATGGTCTTATACGG--ATCACTTATCACTT
112598678 GTTGCCATGG
Statistics
Matches: 81, Mismatches: 11, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
51 5 0.06
52 24 0.30
53 47 0.58
54 1 0.01
55 4 0.05
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.33
Consensus pattern (51 bp):
CCATAGCCTAGCTATGGTCTTATACGGATCACTTATCACTTTAATCCGAAG
Found at i:112600603 original size:14 final size:15
Alignment explanation
Indices: 112600586--112600621 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
112600576 TAATAAAAAT
*
112600586 AATTTAAATGAATA-
1 AATTTAAATGAACAG
112600600 AATTTAAATGAACAG
1 AATTTAAATGAACAG
112600615 AATTTAA
1 AATTTAA
112600622 TTTAAAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 13 0.65
15 7 0.35
ACGTcount: A:0.56, C:0.03, G:0.08, T:0.33
Consensus pattern (15 bp):
AATTTAAATGAACAG
Found at i:112600710 original size:30 final size:33
Alignment explanation
Indices: 112600674--112600737 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
112600664 AAGAAATAAA
*
112600674 AATATAAA-CAATCAATTT-AA-TTAAAAGAAT
1 AATATAAAGCAATAAATTTAAATTTAAAAGAAT
*
112600704 AATATAAAGGAATAAATTTAAATTTAAAAGAAT
1 AATATAAAGCAATAAATTTAAATTTAAAAGAAT
112600737 A
1 A
112600738 TAATTTAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
30 8 0.28
31 8 0.28
32 2 0.07
33 11 0.38
ACGTcount: A:0.61, C:0.03, G:0.06, T:0.30
Consensus pattern (33 bp):
AATATAAAGCAATAAATTTAAATTTAAAAGAAT
Found at i:112600736 original size:20 final size:20
Alignment explanation
Indices: 112600706--112600759 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 20
112600696 AAAAGAATAA
*
112600706 TATAAAGGAATAAATTTAAAT
1 TATAAAAGAATAAATTT-AAT
112600727 T-TAAAAGAATATAATTTAAT
1 TATAAAAGAATA-AATTTAAT
*
112600747 TAAAAAAGAATAA
1 TATAAAAGAATAA
112600760 TTAAAGAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
20 14 0.48
21 15 0.52
ACGTcount: A:0.61, C:0.00, G:0.07, T:0.31
Consensus pattern (20 bp):
TATAAAAGAATAAATTTAAT
Found at i:112600792 original size:29 final size:28
Alignment explanation
Indices: 112600747--112600807 Score: 70
Period size: 29 Copynumber: 2.2 Consensus size: 28
112600737 ATAATTTAAT
* *
112600747 TAAA-AAAGAATAATTAAAGAATTAAAG
1 TAAATAAAGAATAATTAAAGAAATAAAA
* *
112600774 TAAATAAAGAAATATTTAAATAAATAAAA
1 TAAATAAAG-AATAATTAAAGAAATAAAA
112600803 TAAAT
1 TAAAT
112600808 TAAAAATCCC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 4 0.14
28 4 0.14
29 20 0.71
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (28 bp):
TAAATAAAGAATAATTAAAGAAATAAAA
Found at i:112605049 original size:204 final size:206
Alignment explanation
Indices: 112604696--112605589 Score: 1393
Period size: 204 Copynumber: 4.4 Consensus size: 206
112604686 ATCTTAATTT
* * *
112604696 ACGTGAAAGTCAAATTAGCTATG-TCTTTGATTTGTTCCTTGTAAACACAAGGATGCCAAATCAT
1 ACGTGAAAGCCAAATCAGCTATGAT-TTCGATTTGTTCCTTGTAAACACAAGGATGCCAAATCAT
* * *
112604760 CTTAGATCTACTTCAGTAT-AA-A-CTGAAGACCAGATCTGCTATGTATCTGCTCTCTGTCGAAT
65 CTTGGATCTGCTTCAGTATAAACATCTGAAGACCAGATCTGCTATGTATCTACTCTCTGTCGAAT
*
112604822 ATGGAGACGCCAAAC-TCGATTTGTTCTCTGACAATACAGAGATGCCAAATC-TATTAGATTTGC
130 ATGGAGACGCCAAACTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGC
112604885 TTCATCGTAAGC
195 TTCATCGTAAGC
* *
112604897 ACGTGAAAGCCAAATCAGCTATGATTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATC
1 ACGTGAAAGCCAAATCAGCTATGATTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAATCATC
* *
112604962 TTGGTTCTGCTTCAGTATAAACATCTGAAGACCAGATCTGCTATGTATCTGCTCT-TCGTCGAAT
66 TTGGATCTGCTTCAGTATAAACATCTGAAGACCAGATCTGCTATGTATCTACTCTCT-GTCGAAT
*
112605026 ATGGAGACGCC-AACTTCGATTTGTTCTCTGACAATACAAAGATG-CAAATCATCTTAGATTTGC
130 ATGGAGACGCCAAACTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGC
112605089 TTCATCGTAAGC
195 TTCATCGTAAGC
* *
112605101 ACGTGAAAGCCAAATCAGCTATGATTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATC
1 ACGTGAAAGCCAAATCAGCTATGATTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAATCATC
* * *
112605166 TTGGATCTGCTTC-GTATAAACATTTGAAGACCAGATCTGCTATGTATCTACTTTCCGTCGAATA
66 TTGGATCTGCTTCAGTATAAACATCTGAAGACCAGATCTGCTATGTATCTACTCTCTGTCGAATA
112605230 TGGAGACGCCAAACTTCGATTTGTTCTCTGACAATACAGAGATGCC-AATCATCTTAGATTTGCT
131 TGGAGACGCCAAACTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCT
112605294 TCATCGTAAGC
196 TCATCGTAAGC
* *
112605305 ACGTGAAAGCCAAATCAGCTATGATTTCGATTTGTTCCTTGTAAACAGAAGGATGCTAAATCATC
1 ACGTGAAAGCCAAATCAGCTATGATTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAATCATC
* * * * * *
112605370 TTGGATCTACTTCAGTCTAATCATCTGAAGGCCAGATCTACTATGTGTCTACTCTCTGTCGAATA
66 TTGGATCTGCTTCAGTATAAACATCTGAAGACCAGATCTGCTATGTATCTACTCTCTGTCGAATA
* * *
112605435 TAGAGACGCCAAACTTCGATTTGTTCTCTGAC-A-ACAGAGATACCAAATCATCTTAAATTTGCT
131 TGGAGACGCCAAACTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCT
*
112605498 TCATCATAAGC
196 TCATCGTAAGC
112605509 ACGTGAAAGCCAAATCAGCTATG-TCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAATCAT
1 ACGTGAAAGCCAAATCAGCTATGAT-TTCGATTTGTTCCTTGTAAACACAAGGATGCCAAATCAT
112605573 CTTGGATCTTGCTTCAG
65 CTTGGATC-TGCTTCAG
112605590 CTAGATCTAC
Statistics
Matches: 643, Mismatches: 36, Indels: 24
0.91 0.05 0.03
Matches are distributed among these distances:
201 73 0.11
202 3 0.00
203 78 0.12
204 407 0.63
205 82 0.13
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.31
Consensus pattern (206 bp):
ACGTGAAAGCCAAATCAGCTATGATTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAATCATC
TTGGATCTGCTTCAGTATAAACATCTGAAGACCAGATCTGCTATGTATCTACTCTCTGTCGAATA
TGGAGACGCCAAACTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCT
TCATCGTAAGC
Found at i:112615308 original size:47 final size:47
Alignment explanation
Indices: 112615239--112615332 Score: 179
Period size: 47 Copynumber: 2.0 Consensus size: 47
112615229 ATGTGTCTAG
112615239 ATCAAATCTTTCAAAGCTCCCCACGGAACGCACTTACTCTCACCCTT
1 ATCAAATCTTTCAAAGCTCCCCACGGAACGCACTTACTCTCACCCTT
*
112615286 ATCAAATCTTTCAAAGCTCCCCACGGAACGCACTTATTCTCACCCTT
1 ATCAAATCTTTCAAAGCTCCCCACGGAACGCACTTACTCTCACCCTT
112615333 TTCCTTAATT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.28, C:0.37, G:0.09, T:0.27
Consensus pattern (47 bp):
ATCAAATCTTTCAAAGCTCCCCACGGAACGCACTTACTCTCACCCTT
Found at i:112617210 original size:23 final size:23
Alignment explanation
Indices: 112617141--112617211 Score: 63
Period size: 23 Copynumber: 3.1 Consensus size: 23
112617131 TATAATTAGG
* *
112617141 CATATAAATATATACCAAACAAA
1 CATATATATATATAACAAACAAA
** * *
112617164 TGTA-ATAATATATAAAAAATAAA
1 CATATAT-ATATATAACAAACAAA
*
112617187 CATATATATATATATCAAACAAA
1 CATATATATATATAACAAACAAA
112617210 CA
1 CA
112617212 CACTTAACAA
Statistics
Matches: 35, Mismatches: 11, Indels: 4
0.70 0.22 0.08
Matches are distributed among these distances:
22 1 0.03
23 32 0.91
24 2 0.06
ACGTcount: A:0.61, C:0.11, G:0.01, T:0.27
Consensus pattern (23 bp):
CATATATATATATAACAAACAAA
Found at i:112617682 original size:16 final size:17
Alignment explanation
Indices: 112617661--112617694 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
112617651 AATATTTATA
112617661 AATATAACAG-TAACAT
1 AATATAACAGATAACAT
112617677 AATATAACAGATAACAT
1 AATATAACAGATAACAT
112617694 A
1 A
112617695 TAAAAAAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.59, C:0.12, G:0.06, T:0.24
Consensus pattern (17 bp):
AATATAACAGATAACAT
Found at i:112617810 original size:28 final size:27
Alignment explanation
Indices: 112617765--112617822 Score: 66
Period size: 26 Copynumber: 2.1 Consensus size: 27
112617755 TATGCAAAAC
112617765 AAAAAAAATATTTAAAGGAATAAATTTTT
1 AAAAAAAATATTTAAAGG-AT-AATTTTT
*
112617794 AAAAAAAA-ATTCT-AAGGCTAATTTTT
1 AAAAAAAATATT-TAAAGGATAATTTTT
112617820 AAA
1 AAA
112617823 TAAAGAATGA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
26 10 0.37
27 1 0.04
28 7 0.26
29 9 0.33
ACGTcount: A:0.57, C:0.03, G:0.07, T:0.33
Consensus pattern (27 bp):
AAAAAAAATATTTAAAGGATAATTTTT
Found at i:112620710 original size:90 final size:90
Alignment explanation
Indices: 112620503--112620710 Score: 206
Period size: 90 Copynumber: 2.3 Consensus size: 90
112620493 AAATTTTTTT
* * * **
112620503 TACATATACAAGAA-AATACGAACATTTTAGAAAATTAATATACGAAAATATAAAATTTGACCAA
1 TACAAATACAAAAATAATACGAACATTTTAGAAAACTAATATACGAAAATATAAAATTCAACCAA
** *
112620567 CAAATAATATGGACTAAAACATTTT
66 CAAATAATACAGACTAAAACATTTC
* * * * * ** * *
112620592 TACAAATCCTAAAATACTACAAATATTTTATTAAACTGATATTCGAAAATATAAAATTCAACCAA
1 TACAAATACAAAAATAATACGAACATTTTAGAAAACTAATATACGAAAATATAAAATTCAACCAA
112620657 CAAATAATACAGACT-AAA-ATTGATC
66 CAAATAATACAGACTAAAACATT--TC
**
112620682 TACGGATACAAAAATAATACGAACATTTT
1 TACAAATACAAAAATAATACGAACATTTT
112620711 GAATTGTAGT
Statistics
Matches: 92, Mismatches: 24, Indels: 5
0.76 0.20 0.04
Matches are distributed among these distances:
88 3 0.03
89 13 0.14
90 76 0.83
ACGTcount: A:0.51, C:0.13, G:0.07, T:0.28
Consensus pattern (90 bp):
TACAAATACAAAAATAATACGAACATTTTAGAAAACTAATATACGAAAATATAAAATTCAACCAA
CAAATAATACAGACTAAAACATTTC
Found at i:112621146 original size:52 final size:51
Alignment explanation
Indices: 112621069--112621183 Score: 149
Period size: 52 Copynumber: 2.2 Consensus size: 51
112621059 TCTCAACATT
* * ** *
112621069 ATTTTTTTAAATCTGGTATTGGGGTGCCGGCCATCAGTGTCCCAACACCCTA
1 ATTTTTTTTAATCTAGTATAAGGGTGCCGGCCATCAATGTCCCAACACCC-A
* *
112621121 ATTTTTTTTAATCTAGTATAAGGGTGTCGGCCATCAATGTCCCAACATCCA
1 ATTTTTTTTAATCTAGTATAAGGGTGCCGGCCATCAATGTCCCAACACCCA
*
112621172 TTTTTTTTTAAT
1 ATTTTTTTTAAT
112621184 TTTAAAAGGG
Statistics
Matches: 55, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
51 12 0.22
52 43 0.78
ACGTcount: A:0.23, C:0.21, G:0.17, T:0.39
Consensus pattern (51 bp):
ATTTTTTTTAATCTAGTATAAGGGTGCCGGCCATCAATGTCCCAACACCCA
Found at i:112622589 original size:18 final size:18
Alignment explanation
Indices: 112622548--112622592 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
112622538 CTTGTTTCGC
* *
112622548 AATACTTTTTATTTTAAA
1 AATATTTTTTATCTTAAA
**
112622566 CGTATTTTTTATCTTAAA
1 AATATTTTTTATCTTAAA
112622584 AATATTTTT
1 AATATTTTT
112622593 AAAAAGTAAT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.33, C:0.07, G:0.02, T:0.58
Consensus pattern (18 bp):
AATATTTTTTATCTTAAA
Found at i:112631165 original size:14 final size:13
Alignment explanation
Indices: 112631146--112631179 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
112631136 ATTTTTTTAT
112631146 CTTAAACTCTAAAC
1 CTTAAACTC-AAAC
*
112631160 CTTAAACTCAAAT
1 CTTAAACTCAAAC
112631173 CTTAAAC
1 CTTAAAC
112631180 ATTAATCTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 10 0.53
14 9 0.47
ACGTcount: A:0.44, C:0.26, G:0.00, T:0.29
Consensus pattern (13 bp):
CTTAAACTCAAAC
Found at i:112637032 original size:2 final size:2
Alignment explanation
Indices: 112637025--112637066 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
112637015 CATATCATAC
112637025 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
112637067 CATTAAACCG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:112637863 original size:43 final size:42
Alignment explanation
Indices: 112637693--112637847 Score: 145
Period size: 43 Copynumber: 3.6 Consensus size: 42
112637683 ATATCGTACA
* *
112637693 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATGTCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACG-AATCACATATCG
*
112637736 ATGCC-ACTGTCCCAGACAG-GGTCTTACACGAATCACA-ATTACA
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACGAATCACATA-T-CG
* * * * * * *
112637779 ATGCCGATGTCACAAACATGGTCTTCCTCGAAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACG-AATCACATATCG
112637822 ATGCCAACGTCCCAGACGTGGTCTTA
1 ATGCCAACGTCCCAGACGTGGTCTTA
112637848 TATGAGAGCA
Statistics
Matches: 88, Mismatches: 16, Indels: 16
0.73 0.13 0.13
Matches are distributed among these distances:
42 10 0.11
43 67 0.76
44 10 0.11
45 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.19, T:0.24
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGAATCACATATCG
Found at i:112644658 original size:2 final size:2
Alignment explanation
Indices: 112644651--112644693 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
112644641 TTTCCTCTAC
112644651 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA 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
112644693 T
1 T
112644694 TACTATTTTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:112650528 original size:19 final size:22
Alignment explanation
Indices: 112650501--112650540 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
112650491 TTATAATGAT
112650501 AAAATAAAAT-GTT-AATTGAG
1 AAAATAAAATAGTTCAATTGAG
112650521 AAAA-AAAATAGTTCAATTGA
1 AAAATAAAATAGTTCAATTGA
112650541 TGGGTGAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 5 0.28
20 7 0.39
21 6 0.33
ACGTcount: A:0.57, C:0.03, G:0.12, T:0.28
Consensus pattern (22 bp):
AAAATAAAATAGTTCAATTGAG
Found at i:112651099 original size:46 final size:45
Alignment explanation
Indices: 112651043--112651214 Score: 159
Period size: 46 Copynumber: 3.7 Consensus size: 45
112651033 TGGGCATCCA
* * *
112651043 AACTCATTGAGTTCAGTCTGAGTTCACTTATGGATGCGAATGTTCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-GTTCG
*** * *
112651089 AACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-TTCG
1 AACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAGTTCG
* **
112651136 AGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-GTTCG
* *
112651182 AGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
112651215 GCGGGTTACA
Statistics
Matches: 102, Mismatches: 17, Indels: 14
0.77 0.13 0.11
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 60 0.59
47 32 0.31
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (45 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAGTTCG
Found at i:112654179 original size:15 final size:15
Alignment explanation
Indices: 112654157--112654225 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
112654147 GTATTTTGGG
112654157 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
112654172 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
112654187 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
112654202 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
112654217 TTTCTTTAT
1 TTTCTTTAT
112654226 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:112654217 original size:45 final size:44
Alignment explanation
Indices: 112654148--112654236 Score: 124
Period size: 45 Copynumber: 2.0 Consensus size: 44
112654138 CATAGTATCG
* *
112654148 TATTTTGGGTTTCTTTATCCTGGATCTCTTTATTCTGGATTTCTT
1 TATTCTGGGTTTCTCTATCCTGGATCTCTTTATTC-GGATTTCTT
* * *
112654193 TATTCTGGGTTTCTCTATCTTGGATTTCTTTATTCGGTTTTCTT
1 TATTCTGGGTTTCTCTATCCTGGATCTCTTTATTCGGATTTCTT
112654237 GTTATCTTTG
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
44 8 0.21
45 31 0.79
ACGTcount: A:0.10, C:0.16, G:0.16, T:0.58
Consensus pattern (44 bp):
TATTCTGGGTTTCTCTATCCTGGATCTCTTTATTCGGATTTCTT
Found at i:112654226 original size:30 final size:29
Alignment explanation
Indices: 112654151--112654235 Score: 91
Period size: 30 Copynumber: 2.9 Consensus size: 29
112654141 AGTATCGTAT
* * * *
112654151 TTTGGGTTTCTTTATCCTGGATCTCTTTA
1 TTTGGATTTCTTTATTCTGGATTTCTCTA
*
112654180 TTCTGGATTTCTTTATTCTGGGTTTCTCTA
1 TT-TGGATTTCTTTATTCTGGATTTCTCTA
*
112654210 TCTTGGATTTCTTTATTC-GGTTTTCT
1 T-TTGGATTTCTTTATTCTGGATTTCT
112654236 TGTTATCTTT
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
29 9 0.19
30 38 0.79
31 1 0.02
ACGTcount: A:0.09, C:0.16, G:0.16, T:0.58
Consensus pattern (29 bp):
TTTGGATTTCTTTATTCTGGATTTCTCTA
Found at i:112656812 original size:46 final size:45
Alignment explanation
Indices: 112656756--112656927 Score: 159
Period size: 46 Copynumber: 3.7 Consensus size: 45
112656746 TGGGCATCCA
* * *
112656756 AACTCATTGAGTTCAGTCTGAGTTCACTTATGGATGCGAATGTTCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-GTTCG
*** * *
112656802 AACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-TTCG
1 AACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAGTTCG
* **
112656849 AGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-GTTCG
* *
112656895 AGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
112656928 GCGGGTTACA
Statistics
Matches: 102, Mismatches: 17, Indels: 14
0.77 0.13 0.11
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 60 0.59
47 32 0.31
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (45 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAGTTCG
Found at i:112659892 original size:15 final size:15
Alignment explanation
Indices: 112659870--112659938 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
112659860 GTATTTTGGG
112659870 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
112659885 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
112659900 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
112659915 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
112659930 TTTCTTTAT
1 TTTCTTTAT
112659939 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:112659930 original size:45 final size:44
Alignment explanation
Indices: 112659861--112659949 Score: 124
Period size: 45 Copynumber: 2.0 Consensus size: 44
112659851 CATAGTATCG
* *
112659861 TATTTTGGGTTTCTTTATCCTGGATCTCTTTATTCTGGATTTCTT
1 TATTCTGGGTTTCTCTATCCTGGATCTCTTTATTC-GGATTTCTT
* * *
112659906 TATTCTGGGTTTCTCTATCTTGGATTTCTTTATTCGGTTTTCTT
1 TATTCTGGGTTTCTCTATCCTGGATCTCTTTATTCGGATTTCTT
112659950 GTTATCTTTG
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
44 8 0.21
45 31 0.79
ACGTcount: A:0.10, C:0.16, G:0.16, T:0.58
Consensus pattern (44 bp):
TATTCTGGGTTTCTCTATCCTGGATCTCTTTATTCGGATTTCTT
Found at i:112659939 original size:30 final size:29
Alignment explanation
Indices: 112659864--112659948 Score: 91
Period size: 30 Copynumber: 2.9 Consensus size: 29
112659854 AGTATCGTAT
* * * *
112659864 TTTGGGTTTCTTTATCCTGGATCTCTTTA
1 TTTGGATTTCTTTATTCTGGATTTCTCTA
*
112659893 TTCTGGATTTCTTTATTCTGGGTTTCTCTA
1 TT-TGGATTTCTTTATTCTGGATTTCTCTA
*
112659923 TCTTGGATTTCTTTATTC-GGTTTTCT
1 T-TTGGATTTCTTTATTCTGGATTTCT
112659949 TGTTATCTTT
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
29 9 0.19
30 38 0.79
31 1 0.02
ACGTcount: A:0.09, C:0.16, G:0.16, T:0.58
Consensus pattern (29 bp):
TTTGGATTTCTTTATTCTGGATTTCTCTA
Found at i:112662585 original size:93 final size:93
Alignment explanation
Indices: 112662463--112662634 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
112662453 TAGGATATTG
* * * * *
112662463 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTTACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAG
112662528 TTGAGTCCGAGTTCAAGAGATGTAACTA
66 TTGAGTCCGAGTTCAAGAGATGTAACTA
* * *
112662556 GGCATTCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAG
112662621 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
112662635 GCTTGTGGGC
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCAAGAGATGTAACTA
Found at i:112662634 original size:46 final size:46
Alignment explanation
Indices: 112662468--112662634 Score: 171
Period size: 46 Copynumber: 3.6 Consensus size: 46
112662458 TATTGGGCAT
* * * *
112662468 CCGAACTCGTTGAGTTGAGTCCGAGTTTACTTATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGC
* *
112662514 CCGAACTCGTTGAGTTGAGTCCGAGTTCA---A-GAGATGTAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCAA--ACGC
* * *
112662559 ATTCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGC
*
112662607 CCGAGCTCGTTGAGTTGAGTCCGAGTTC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTC
112662635 GCTTGTGGGC
Statistics
Matches: 100, Mismatches: 12, Indels: 18
0.77 0.09 0.14
Matches are distributed among these distances:
42 1 0.01
43 6 0.06
45 2 0.02
46 54 0.54
47 26 0.26
48 3 0.03
50 7 0.07
51 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGC
Found at i:112665190 original size:25 final size:25
Alignment explanation
Indices: 112665124--112665183 Score: 84
Period size: 25 Copynumber: 2.4 Consensus size: 25
112665114 TATAGCTCTT
**
112665124 ATGAGCTTCCCGTTATACAGCTCGG
1 ATGAGCTTCCCGTTATACAGCTCAC
* *
112665149 ATAAGCTTCCCGTTATACAGCTTAC
1 ATGAGCTTCCCGTTATACAGCTCAC
112665174 ATGAGCTTCC
1 ATGAGCTTCC
112665184 TATTATATGG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.23, C:0.28, G:0.18, T:0.30
Consensus pattern (25 bp):
ATGAGCTTCCCGTTATACAGCTCAC
Found at i:112665589 original size:113 final size:113
Alignment explanation
Indices: 112665391--112665617 Score: 445
Period size: 113 Copynumber: 2.0 Consensus size: 113
112665381 TATATGAATA
*
112665391 TATGATATGGAATATATATGTATATGAAAACTTTTACATGATGAGCTCATTCTTGTTTCTTGATA
1 TATGATATGGAATATATATGTATATGAAAAATTTTACATGATGAGCTCATTCTTGTTTCTTGATA
112665456 TTCACATGAAGTAAATGACTAACATGTTTCTTAAGGTTATATGTGTTT
66 TTCACATGAAGTAAATGACTAACATGTTTCTTAAGGTTATATGTGTTT
112665504 TATGATATGGAATATATATGTATATGAAAAATTTTACATGATGAGCTCATTCTTGTTTCTTGATA
1 TATGATATGGAATATATATGTATATGAAAAATTTTACATGATGAGCTCATTCTTGTTTCTTGATA
112665569 TTCACATGAAGTAAATGACTAACATGTTTCTTAAGGTTATATGTGTTT
66 TTCACATGAAGTAAATGACTAACATGTTTCTTAAGGTTATATGTGTTT
112665617 T
1 T
112665618 GGCAAATTGC
Statistics
Matches: 113, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
113 113 1.00
ACGTcount: A:0.32, C:0.09, G:0.16, T:0.43
Consensus pattern (113 bp):
TATGATATGGAATATATATGTATATGAAAAATTTTACATGATGAGCTCATTCTTGTTTCTTGATA
TTCACATGAAGTAAATGACTAACATGTTTCTTAAGGTTATATGTGTTT
Found at i:112666917 original size:49 final size:49
Alignment explanation
Indices: 112666813--112666920 Score: 144
Period size: 49 Copynumber: 2.2 Consensus size: 49
112666803 CATGATTTGA
* * *
112666813 CCGTGTGCCCTACACAACCTACCTGATTTACCCATGTAATTGCACATGC
1 CCGTGTGCCTTACACAACCTACCTGATTTACCCATGTAATCGCACACGC
** ** *
112666862 ATGTGTGCCTTACACGGCCTACCTGATTTACTCATGTAATCGCACACGC
1 CCGTGTGCCTTACACAACCTACCTGATTTACCCATGTAATCGCACACGC
112666911 CCGTGTGCCT
1 CCGTGTGCCT
112666921 CCACATGGCC
Statistics
Matches: 49, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.21, C:0.33, G:0.18, T:0.28
Consensus pattern (49 bp):
CCGTGTGCCTTACACAACCTACCTGATTTACCCATGTAATCGCACACGC
Found at i:112668121 original size:18 final size:17
Alignment explanation
Indices: 112668090--112668134 Score: 54
Period size: 18 Copynumber: 2.6 Consensus size: 17
112668080 CGGGCCGCGA
* *
112668090 TGGGCCGAAAGGGCCATG
1 TGGGCCCAATGGGCC-TG
112668108 TGGGCCCAATGGGCCTG
1 TGGGCCCAATGGGCCTG
*
112668125 CGGGCCCAAT
1 TGGGCCCAAT
112668135 TGGATAAGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
17 11 0.46
18 13 0.54
ACGTcount: A:0.18, C:0.29, G:0.40, T:0.13
Consensus pattern (17 bp):
TGGGCCCAATGGGCCTG
Found at i:112668339 original size:27 final size:27
Alignment explanation
Indices: 112668308--112668557 Score: 288
Period size: 27 Copynumber: 9.3 Consensus size: 27
112668298 TTAGTTTACC
*
112668308 AATTACTGTTTTACCCTCGATTTATAG
1 AATTACTGTTTTACCCTCGATTTACAG
* * ** *
112668335 AATTACCGTTTTATCCTCGATTTGTAA
1 AATTACTGTTTTACCCTCGATTTACAG
* *
112668362 AATTACCGTTTTACCCTCGATTTATAG
1 AATTACTGTTTTACCCTCGATTTACAG
112668389 AATTACTGTTTTACCCTC-AGTTTACAG
1 AATTACTGTTTTACCCTCGA-TTTACAG
* *
112668416 AATTACTATTTTACCCTCGATTTATAG
1 AATTACTGTTTTACCCTCGATTTACAG
** * * *
112668443 AATTACCATTTTACCCCCAATTTACAT
1 AATTACTGTTTTACCCTCGATTTACAG
* * *
112668470 AATTACCGTTTTACCCCCGATTTACAT
1 AATTACTGTTTTACCCTCGATTTACAG
*
112668497 AATTA-TCGTTTTACCCTTGATTTACAG
1 AATTACT-GTTTTACCCTCGATTTACAG
*
112668524 AATTACTGTTTTACCCTCGATTTACAA
1 AATTACTGTTTTACCCTCGATTTACAG
112668551 AATTACT
1 AATTACT
112668558 AAAATACCCT
Statistics
Matches: 195, Mismatches: 24, Indels: 8
0.86 0.11 0.04
Matches are distributed among these distances:
26 1 0.01
27 192 0.98
28 2 0.01
ACGTcount: A:0.28, C:0.22, G:0.08, T:0.42
Consensus pattern (27 bp):
AATTACTGTTTTACCCTCGATTTACAG
Found at i:112668565 original size:27 final size:27
Alignment explanation
Indices: 112668508--112668567 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
112668498 ATTATCGTTT
* * ****
112668508 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTAAAA
112668535 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTACAAAATTACTAAAA
112668562 TACCCT
1 TACCCT
112668568 TGGTTTGTGA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.33, C:0.23, G:0.07, T:0.37
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACTAAAA
Found at i:112669825 original size:25 final size:25
Alignment explanation
Indices: 112669796--112669843 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
112669786 TTATAATATG
* * *
112669796 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
112669821 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
112669844 GTTTATATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:112669905 original size:20 final size:20
Alignment explanation
Indices: 112669880--112669942 Score: 108
Period size: 20 Copynumber: 3.1 Consensus size: 20
112669870 ATTTTGATAA
*
112669880 ACATGATATGTATGATATAC
1 ACATGATATGTATGATATGC
*
112669900 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
112669920 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
112669940 ACA
1 ACA
112669943 CGAGATGTTC
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.38, C:0.13, G:0.17, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:112670053 original size:24 final size:24
Alignment explanation
Indices: 112669997--112670186 Score: 269
Period size: 24 Copynumber: 8.0 Consensus size: 24
112669987 GAGGAAGTGA
112669997 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
* *
112670020 TAAAGGGCTTATGCCCCAATTATC
1 AAAAGGGCTTATGCCCCAGTTATC
112670044 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
112670068 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
*
112670092 AAAAGGGCTTACGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
* *
112670115 TAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
* *
112670139 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
112670163 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
112670187 ATGATAAAGC
Statistics
Matches: 152, Mismatches: 11, Indels: 6
0.90 0.07 0.04
Matches are distributed among these distances:
23 42 0.28
24 99 0.65
25 11 0.07
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:112670066 original size:47 final size:47
Alignment explanation
Indices: 112669997--112670165 Score: 284
Period size: 47 Copynumber: 3.6 Consensus size: 47
112669987 GAGGAAGTGA
*
112669997 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAATTATC
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATC
*
112670044 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCCAGTTATC
* *
112670092 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATC
*
112670139 AAAAGGGCTTTTGCCCCAGTTATTAAA
1 AAAAGGGCTTATGCCCCAGTTATTAAA
112670166 AGAGGCTAGG
Statistics
Matches: 114, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
47 70 0.61
48 44 0.39
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATC
Found at i:112670120 original size:71 final size:71
Alignment explanation
Indices: 112669997--112670186 Score: 267
Period size: 71 Copynumber: 2.6 Consensus size: 71
112669987 GAGGAAGTGA
* * *
112669997 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAATTATCAAAAGGGCTTATGCCCCA
1 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTACGCCCCAGTTATCAAAAGGGCTTATGCCCCA
112670062 GTTATC
66 GTTATC
*
112670068 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTACGCCCCAGTTAT-TAAAGGGCTTATGCCCC
1 AAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTACGCCCCAGTTATCAAAAGGGCTTATGCCCC
*
112670132 AGTTATT
65 AGTTATC
* *
112670139 AAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCTTACGCC-CCAGTTAT
112670187 ATGATAAAGC
Statistics
Matches: 108, Mismatches: 7, Indels: 7
0.89 0.06 0.06
Matches are distributed among these distances:
71 76 0.70
72 32 0.30
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (71 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTACGCCCCAGTTATCAAAAGGGCTTATGCCCCA
GTTATC
Found at i:112671781 original size:22 final size:22
Alignment explanation
Indices: 112671756--112671799 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
112671746 TTAAAATACT
112671756 TCATCAGAATCTCTATTTATAG
1 TCATCAGAATCTCTATTTATAG
112671778 TCATCAGAATCTCTATTTATAG
1 TCATCAGAATCTCTATTTATAG
112671800 GCATAAAAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.32, C:0.18, G:0.09, T:0.41
Consensus pattern (22 bp):
TCATCAGAATCTCTATTTATAG
Found at i:112674786 original size:18 final size:18
Alignment explanation
Indices: 112674741--112674804 Score: 78
Period size: 18 Copynumber: 3.6 Consensus size: 18
112674731 ATGAAATAAG
112674741 TTATATGTTGTTGTTC-T
1 TTATATGTTGTTGTTCAT
*
112674758 TTAGGGA-GTTGTTGTTCAT
1 TTA--TATGTTGTTGTTCAT
112674777 TTATATGTTGTTGTTCAT
1 TTATATGTTGTTGTTCAT
*
112674795 TTATAAGTTG
1 TTATATGTTG
112674805 AAGTTTCAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
17 4 0.10
18 31 0.77
19 5 0.12
ACGTcount: A:0.17, C:0.05, G:0.22, T:0.56
Consensus pattern (18 bp):
TTATATGTTGTTGTTCAT
Found at i:112676556 original size:46 final size:44
Alignment explanation
Indices: 112676452--112676559 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
112676442 TGTCTTTGAC
** * * *
112676452 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
112676496 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
112676542 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
112676560 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:112683925 original size:46 final size:44
Alignment explanation
Indices: 112683821--112683928 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
112683811 TGTCTTTGAC
** * * *
112683821 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
112683865 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
112683911 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
112683929 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:112686787 original size:14 final size:15
Alignment explanation
Indices: 112686737--112686788 Score: 65
Period size: 14 Copynumber: 3.7 Consensus size: 15
112686727 CCAGAAAAGT
*
112686737 AAATCATTTTT-CAG
1 AAATCATTTTTCCAA
112686751 AAATCA-TTTTCCAA
1 AAATCATTTTTCCAA
*
112686765 AAATCATTTTTCGAA
1 AAATCATTTTTCCAA
112686780 AAAT-ATTTT
1 AAATCATTTT
112686789 ACCTGCAAAC
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
13 4 0.12
14 19 0.56
15 11 0.32
ACGTcount: A:0.40, C:0.13, G:0.04, T:0.42
Consensus pattern (15 bp):
AAATCATTTTTCCAA
Found at i:112694848 original size:25 final size:22
Alignment explanation
Indices: 112694814--112694866 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 22
112694804 TAAATAAAAG
112694814 AAAAAATACTAAAAGTTTTTTATA
1 AAAAAATACTAAAA--TTTTTATA
*
112694838 AAAAAATTACTTAAATTTTTATA
1 AAAAAA-TACTAAAATTTTTATA
*
112694861 AGAAAA
1 AAAAAA
112694867 GATATAGAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
23 13 0.50
24 6 0.23
25 7 0.27
ACGTcount: A:0.57, C:0.04, G:0.04, T:0.36
Consensus pattern (22 bp):
AAAAAATACTAAAATTTTTATA
Done.