Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000384.1 Hibiscus syriacus cultivar Beakdansim tig00000705_pilon, whole genome shotgun sequence
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: 128459
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:3986 original size:6 final size:6
Alignment explanation
Indices: 3971--4024 Score: 56
Period size: 6 Copynumber: 9.0 Consensus size: 6
3961 ATCCACGAAT
* * * *
3971 AATAAA AATAAG AATAAA GATAAA AATAAA GATAAA GATAAA AGA-AAA
1 AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA A-ATAAA
4019 AATAAA
1 AATAAA
4025 TTTGTTATTT
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
5 1 0.03
6 38 0.95
7 1 0.03
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.15
Consensus pattern (6 bp):
AATAAA
Found at i:3988 original size:12 final size:12
Alignment explanation
Indices: 3971--4024 Score: 65
Period size: 12 Copynumber: 4.5 Consensus size: 12
3961 ATCCACGAAT
* *
3971 AATAAAAATAAG
1 AATAAAGATAAA
3983 AATAAAGATAAA
1 AATAAAGATAAA
3995 AATAAAGATAAA
1 AATAAAGATAAA
*
4007 GATAAAAGA-AAA
1 AAT-AAAGATAAA
4019 AATAAA
1 AATAAA
4025 TTTGTTATTT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
11 3 0.08
12 29 0.78
13 5 0.14
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.15
Consensus pattern (12 bp):
AATAAAGATAAA
Found at i:4023 original size:18 final size:18
Alignment explanation
Indices: 3972--4024 Score: 72
Period size: 18 Copynumber: 2.9 Consensus size: 18
3962 TCCACGAATA
*
3972 ATAAAAATAAGAATAAAG
1 ATAAAAATAAAAATAAAG
*
3990 ATAAAAATAAAGATAAAG
1 ATAAAAATAAAAATAAAG
4008 ATAAAAGA-AAAAATAAA
1 ATAAAA-ATAAAAATAAA
4025 TTTGTTATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
18 30 0.97
19 1 0.03
ACGTcount: A:0.75, C:0.00, G:0.09, T:0.15
Consensus pattern (18 bp):
ATAAAAATAAAAATAAAG
Found at i:9651 original size:15 final size:15
Alignment explanation
Indices: 9633--9666 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
9623 CAAATATGAC
9633 TAAAAAAGAATAAAG
1 TAAAAAAGAATAAAG
* *
9648 TAAAATATAATAAAG
1 TAAAAAAGAATAAAG
9663 TAAA
1 TAAA
9667 CTATATAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.71, C:0.00, G:0.09, T:0.21
Consensus pattern (15 bp):
TAAAAAAGAATAAAG
Found at i:9671 original size:15 final size:15
Alignment explanation
Indices: 9641--9675 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
9631 ACTAAAAAAG
9641 AATAAAGTAAAATAT
1 AATAAAGTAAAATAT
*
9656 AATAAAGTAAACTAT
1 AATAAAGTAAAATAT
9671 -ATAAA
1 AATAAA
9676 AATAAATAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.66, C:0.03, G:0.06, T:0.26
Consensus pattern (15 bp):
AATAAAGTAAAATAT
Found at i:11036 original size:19 final size:19
Alignment explanation
Indices: 11012--11049 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
11002 TATTCTTGGG
11012 ATTTTGCACTCAAAATACC
1 ATTTTGCACTCAAAATACC
11031 ATTTTGCACTCAAAATACC
1 ATTTTGCACTCAAAATACC
11050 CATCATACCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.26, G:0.05, T:0.32
Consensus pattern (19 bp):
ATTTTGCACTCAAAATACC
Found at i:15875 original size:19 final size:17
Alignment explanation
Indices: 15842--15876 Score: 52
Period size: 19 Copynumber: 1.9 Consensus size: 17
15832 GTGTTTCCAG
15842 ACTTATCCTAGTCATTC
1 ACTTATCCTAGTCATTC
15859 ACTTAGTCCTAAGTCATT
1 ACTTA-TCCT-AGTCATT
15877 GAGGTTACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 4 0.25
19 7 0.44
ACGTcount: A:0.26, C:0.26, G:0.09, T:0.40
Consensus pattern (17 bp):
ACTTATCCTAGTCATTC
Found at i:17008 original size:14 final size:15
Alignment explanation
Indices: 16989--17025 Score: 67
Period size: 14 Copynumber: 2.5 Consensus size: 15
16979 AAGTCAACGG
16989 GTTGACTCAGA-CGA
1 GTTGACTCAGACCGA
17003 GTTGACTCAGACCGA
1 GTTGACTCAGACCGA
17018 GTTGACTC
1 GTTGACTC
17026 GGTGACTGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 11 0.50
15 11 0.50
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.24
Consensus pattern (15 bp):
GTTGACTCAGACCGA
Found at i:27757 original size:32 final size:31
Alignment explanation
Indices: 27721--27796 Score: 89
Period size: 31 Copynumber: 2.4 Consensus size: 31
27711 CGGGGCCGTG
*
27721 GGGCCTACCTAAGAACACATCTTAGGGCCGCA
1 GGGCCTACCTAAGAA-ACATCTCAGGGCCGCA
** **
27753 GGGCCTACCCGAGAATGATCTCAGGGCCGCA
1 GGGCCTACCTAAGAAACATCTCAGGGCCGCA
*
27784 GAGCCTACCTAAG
1 GGGCCTACCTAAG
27797 TGTCACATTA
Statistics
Matches: 36, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
31 23 0.64
32 13 0.36
ACGTcount: A:0.26, C:0.32, G:0.28, T:0.14
Consensus pattern (31 bp):
GGGCCTACCTAAGAAACATCTCAGGGCCGCA
Found at i:27780 original size:63 final size:63
Alignment explanation
Indices: 27674--27796 Score: 151
Period size: 63 Copynumber: 2.0 Consensus size: 63
27664 ACCTAAGGGA
* * ** *
27674 ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATTTCGGGGCCGTGGGGCCTACCTAAGAAC
1 ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATCTCAGGGCCGCAGAGCCTACCTAAGAAC
* *
27737 ACATCTTAGGGCC-GCAGGGCCTACCCGAGA-ATGATCTCAGGGCCGCAGAGCCTACCTAAG
1 ACATCTTAGGGCCTG-AGAGCCTACCCAAGATA-GATCTCAGGGCCGCAGAGCCTACCTAAG
27797 TGTCACATTA
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
62 2 0.04
63 49 0.96
ACGTcount: A:0.25, C:0.29, G:0.28, T:0.17
Consensus pattern (63 bp):
ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATCTCAGGGCCGCAGAGCCTACCTAAGAAC
Found at i:32982 original size:32 final size:31
Alignment explanation
Indices: 32946--33021 Score: 89
Period size: 31 Copynumber: 2.4 Consensus size: 31
32936 CGGGGCCGTG
*
32946 GGGCCTACCTAAGAACACATCTTAGGGCCGCA
1 GGGCCTACCTAAGAA-ACATCTCAGGGCCGCA
** **
32978 GGGCCTACCCGAGAATGATCTCAGGGCCGCA
1 GGGCCTACCTAAGAAACATCTCAGGGCCGCA
*
33009 GAGCCTACCTAAG
1 GGGCCTACCTAAG
33022 TGTCACATTA
Statistics
Matches: 36, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
31 23 0.64
32 13 0.36
ACGTcount: A:0.26, C:0.32, G:0.28, T:0.14
Consensus pattern (31 bp):
GGGCCTACCTAAGAAACATCTCAGGGCCGCA
Found at i:33005 original size:63 final size:63
Alignment explanation
Indices: 32899--33021 Score: 151
Period size: 63 Copynumber: 2.0 Consensus size: 63
32889 ACCTAAGGGA
* * ** *
32899 ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATTTCGGGGCCGTGGGGCCTACCTAAGAAC
1 ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATCTCAGGGCCGCAGAGCCTACCTAAGAAC
* *
32962 ACATCTTAGGGCC-GCAGGGCCTACCCGAGA-ATGATCTCAGGGCCGCAGAGCCTACCTAAG
1 ACATCTTAGGGCCTG-AGAGCCTACCCAAGATA-GATCTCAGGGCCGCAGAGCCTACCTAAG
33022 TGTCACATTA
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
62 2 0.04
63 49 0.96
ACGTcount: A:0.25, C:0.29, G:0.28, T:0.17
Consensus pattern (63 bp):
ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATCTCAGGGCCGCAGAGCCTACCTAAGAAC
Found at i:39746 original size:15 final size:15
Alignment explanation
Indices: 39726--39761 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
39716 AATCTGTCTA
*
39726 TTGGTTTTTCTGTAG
1 TTGGTTTTTCTATAG
39741 TTGGTTTTTCTATAG
1 TTGGTTTTTCTATAG
39756 TTGGTT
1 TTGGTT
39762 CTCTTCAGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.08, C:0.06, G:0.25, T:0.61
Consensus pattern (15 bp):
TTGGTTTTTCTATAG
Found at i:41415 original size:21 final size:21
Alignment explanation
Indices: 41389--41463 Score: 87
Period size: 21 Copynumber: 3.6 Consensus size: 21
41379 TATTAATATA
41389 AATTTCAAGTTTCTTGTTATG
1 AATTTCAAGTTTCTTGTTATG
* * *
41410 AATTTCAAGTTTTTTGATCTG
1 AATTTCAAGTTTCTTGTTATG
**
41431 AATTTCAAGTTTGATGTTATG
1 AATTTCAAGTTTCTTGTTATG
* *
41452 GATGTCAAGTTT
1 AATTTCAAGTTT
41464 ATTGAATAAT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 45 1.00
ACGTcount: A:0.25, C:0.08, G:0.17, T:0.49
Consensus pattern (21 bp):
AATTTCAAGTTTCTTGTTATG
Found at i:41449 original size:42 final size:42
Alignment explanation
Indices: 41389--41468 Score: 115
Period size: 42 Copynumber: 1.9 Consensus size: 42
41379 TATTAATATA
* * *
41389 AATTTCAAGTTTCTTGTTATGAATTTCAAGTTTTTTGATCTG
1 AATTTCAAGTTTCATGTTATGAATGTCAAGTTTATTGATCTG
* *
41431 AATTTCAAGTTTGATGTTATGGATGTCAAGTTTATTGA
1 AATTTCAAGTTTCATGTTATGAATGTCAAGTTTATTGA
41469 ATAATGCTAT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 33 1.00
ACGTcount: A:0.26, C:0.07, G:0.17, T:0.49
Consensus pattern (42 bp):
AATTTCAAGTTTCATGTTATGAATGTCAAGTTTATTGATCTG
Found at i:41662 original size:85 final size:84
Alignment explanation
Indices: 41551--41707 Score: 260
Period size: 85 Copynumber: 1.9 Consensus size: 84
41541 TAATTCGCGG
* *
41551 CGTTTGTATAAAAAACGCCGCTATAGATATGACATTTTGCGGCGTTTGTTCCTAAAACGCCGCTA
1 CGTTTGTATAAAAAACGCCGCTATAGATATGACATTTTGCGGCGTTTGTTCCAAAAACGCCGCGA
41616 TAGATCTAGCTTTTTGCGA
66 TAGATCTAGCTTTTTGCGA
* * *
41635 CGTTTGTATCCAAAAATGCCGCTATAGATCTGACATTTTGCGGCGTTTGTTCCAAAAACGCCGCG
1 CGTTTGTAT-AAAAAACGCCGCTATAGATATGACATTTTGCGGCGTTTGTTCCAAAAACGCCGCG
41700 ATAGATCT
65 ATAGATCT
41708 TGACCTATTT
Statistics
Matches: 67, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
84 9 0.13
85 58 0.87
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.32
Consensus pattern (84 bp):
CGTTTGTATAAAAAACGCCGCTATAGATATGACATTTTGCGGCGTTTGTTCCAAAAACGCCGCGA
TAGATCTAGCTTTTTGCGA
Found at i:41665 original size:43 final size:42
Alignment explanation
Indices: 41547--41707 Score: 218
Period size: 42 Copynumber: 3.8 Consensus size: 42
41537 GTTTTAATTC
* *
41547 GCGGCGTTTGTAT-AAAAAACGCCGCTATAGATATGACATTTT
1 GCGGCGTTTGT-TCCAAAAACGCCGCTATAGATCTGACATTTT
* *
41589 GCGGCGTTTGTTCCTAAAACGCCGCTATAGATCT-AGCTTTTT
1 GCGGCGTTTGTTCCAAAAACGCCGCTATAGATCTGA-CATTTT
* *
41631 GCGACGTTTGTATCCAAAAATGCCGCTATAGATCTGACATTTT
1 GCGGCGTTTGT-TCCAAAAACGCCGCTATAGATCTGACATTTT
*
41674 GCGGCGTTTGTTCCAAAAACGCCGCGATAGATCT
1 GCGGCGTTTGTTCCAAAAACGCCGCTATAGATCT
41708 TGACCTATTT
Statistics
Matches: 104, Mismatches: 11, Indels: 8
0.85 0.09 0.07
Matches are distributed among these distances:
41 2 0.02
42 65 0.62
43 36 0.35
44 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.31
Consensus pattern (42 bp):
GCGGCGTTTGTTCCAAAAACGCCGCTATAGATCTGACATTTT
Found at i:41725 original size:43 final size:42
Alignment explanation
Indices: 41561--41725 Score: 178
Period size: 42 Copynumber: 3.9 Consensus size: 42
41551 CGTTTGTATA
* *
41561 AAAAACGCCGCTATAGATATGAC-ATTTTGCGGCGTTTGTTCC
1 AAAAACGCCGCTATAGATCTGACTATTTT-CGACGTTTGTTCC
*
41603 TAAAACGCCGCTATAGATCT-AGCT-TTTTGCGACGTTTGTATCC
1 AAAAACGCCGCTATAGATCTGA-CTATTTT-CGACGTTTGT-TCC
* *
41646 AAAAATGCCGCTATAGATCTGAC-ATTTTGCGGCGTTTGTTCC
1 AAAAACGCCGCTATAGATCTGACTATTTT-CGACGTTTGTTCC
*
41688 AAAAACGCCGCGATAGATCTTGACCTATTTT-GACGTTT
1 AAAAACGCCGCTATAGATC-TGA-CTATTTTCGACGTTT
41726 TTTGTTCTCA
Statistics
Matches: 106, Mismatches: 9, Indels: 15
0.82 0.07 0.12
Matches are distributed among these distances:
41 1 0.01
42 53 0.50
43 45 0.42
44 2 0.02
45 5 0.05
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.33
Consensus pattern (42 bp):
AAAAACGCCGCTATAGATCTGACTATTTTCGACGTTTGTTCC
Found at i:43034 original size:39 final size:38
Alignment explanation
Indices: 42959--43040 Score: 112
Period size: 39 Copynumber: 2.1 Consensus size: 38
42949 AACCATACCT
*
42959 AAAATTTAGTTTTTGTTTCATTTTAGCACCCGTTGTTA
1 AAAATTTAGTTTTTGTTTCATTTTAGCAACCGTTGTTA
* *
42997 AAAACTTTAGTTTTTGTTTCATTTTAGTATACC-TTGTTC
1 AAAA-TTTAGTTTTTGTTTCATTTTAGCA-ACCGTTGTTA
43036 AAAAT
1 AAAAT
43041 GTAATGTTAA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
38 5 0.13
39 32 0.82
40 2 0.05
ACGTcount: A:0.27, C:0.12, G:0.11, T:0.50
Consensus pattern (38 bp):
AAAATTTAGTTTTTGTTTCATTTTAGCAACCGTTGTTA
Found at i:43762 original size:28 final size:28
Alignment explanation
Indices: 43722--43777 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
43712 TCCAATTTAA
*
43722 AAGGCAAATTATAATTAATCATAAAAAT
1 AAGGCAAAGTATAATTAATCATAAAAAT
* *
43750 AAGGTAAAGTATAATTGATCATAAAAAT
1 AAGGCAAAGTATAATTAATCATAAAAAT
43778 GAGGGGATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.55, C:0.05, G:0.11, T:0.29
Consensus pattern (28 bp):
AAGGCAAAGTATAATTAATCATAAAAAT
Found at i:44531 original size:2 final size:2
Alignment explanation
Indices: 44526--44564 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
44516 TAAAAATTTG
44526 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
44565 AAATCAATAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:45716 original size:18 final size:21
Alignment explanation
Indices: 45693--45737 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
45683 ATTATGTAAA
45693 TATTTT-AAAAT-AT-TTATT
1 TATTTTCAAAATCATATTATT
45711 TATTTTTCAAAATCATATTATT
1 TA-TTTTCAAAATCATATTATT
45733 TATTT
1 TATTT
45738 ATTTGAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
18 2 0.09
19 4 0.17
20 5 0.22
21 5 0.22
22 7 0.30
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (21 bp):
TATTTTCAAAATCATATTATT
Found at i:45746 original size:23 final size:22
Alignment explanation
Indices: 45701--45756 Score: 58
Period size: 23 Copynumber: 2.5 Consensus size: 22
45691 AATATTTTAA
45701 AATATTTATTTATTTTTCAAAAT
1 AATA-TTATTTATTTTTCAAAAT
* **
45724 CATATTATTTATTTATTTGAAAT
1 AATATTATTTATTT-TTCAAAAT
*
45747 AATGTTATTT
1 AATATTATTT
45757 TAAATTATCT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
22 10 0.37
23 17 0.63
ACGTcount: A:0.36, C:0.04, G:0.04, T:0.57
Consensus pattern (22 bp):
AATATTATTTATTTTTCAAAAT
Found at i:45951 original size:23 final size:21
Alignment explanation
Indices: 45912--45958 Score: 60
Period size: 24 Copynumber: 2.1 Consensus size: 21
45902 GATTTTAAAA
45912 AATAAATAAATATC-TTTTAT
1 AATAAATAAATATCTTTTTAT
45932 AATAATATAAATATACCTTTTTAT
1 AATAA-ATAAATAT--CTTTTTAT
45956 AAT
1 AAT
45959 TATTTCATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 5 0.22
21 8 0.35
23 1 0.04
24 9 0.39
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.45
Consensus pattern (21 bp):
AATAAATAAATATCTTTTTAT
Found at i:46595 original size:3 final size:3
Alignment explanation
Indices: 46583--46615 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
46573 TTATATTTAA
46583 ATT A-T ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
46616 ATGTTACATA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 27 0.93
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:47260 original size:146 final size:146
Alignment explanation
Indices: 46996--47514 Score: 851
Period size: 146 Copynumber: 3.6 Consensus size: 146
46986 TCAGGACTCC
*
46996 GATCAATATTCCGAACGGTCAAAAGTTGCGGACGGCCATCACGAACAACATATTGAAAAATCAGG
1 GATCAATATTCCGAACGGTCAAAAGTTGCGGAAGGCCATCACGAACAACATATTGAAAAATCAGG
47061 ACGATCAGACGGTGGACGGTGACGGATCGGAGAAAACAAATCCGGGTGGTTTTTAGCCTCTTGCC
66 ACGATCAGACGGTGGACGGTGACGGATCGGAGAAAACAAATCCGGGTGGTTTTTAGCCTCTTGCC
47126 GGTGATCGGAATATTT
131 GGTGATCGGAATATTT
47142 GATCAATATTCCGAACGGTCAAAAGTTGCGGAAGGCCATCACGAACAACATATTGAAAAATCAGG
1 GATCAATATTCCGAACGGTCAAAAGTTGCGGAAGGCCATCACGAACAACATATTGAAAAATCAGG
*
47207 ACGATCAGACGGTGGACGGTGACGGATCGGAGAAAACAAATTCGGGTGGTTTTTAGCCTCTTGCC
66 ACGATCAGACGGTGGACGGTGACGGATCGGAGAAAACAAATCCGGGTGGTTTTTAGCCTCTTGCC
47272 GGTGATCGGAATATTT
131 GGTGATCGGAATATTT
47288 GATCAATATTCCGAACGGTCAAAAGTTGCGGAAGGCCATCACGAACAACATATTGAAAAATCAGG
1 GATCAATATTCCGAACGGTCAAAAGTTGCGGAAGGCCATCACGAACAACATATTGAAAAATCAGG
* * ** *
47353 ACGATCGGACGGTGGACGGTGACGGATCGGAGAAAATAAATCCGGACGATTTTTAGCCTCTTGCC
66 ACGATCAGACGGTGGACGGTGACGGATCGGAGAAAACAAATCCGGGTGGTTTTTAGCCTCTTGCC
* * **
47418 GGTGATCAGAATCTGC
131 GGTGATCGGAATATTT
* * * ** *
47434 GATCAATATTCCGAACGGTGAAAAGTTGCGCG-ATGCCAACAAAAACAACCTATTGAAAAATCAG
1 GATCAATATTCCGAACGGTCAAAAGTTGCG-GAAGGCCATCACGAACAACATATTGAAAAATCAG
* *
47498 GACAATCGGACGGTGGA
65 GACGATCAGACGGTGGA
47515 TGACGGCAGA
Statistics
Matches: 353, Mismatches: 19, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
146 352 1.00
147 1 0.00
ACGTcount: A:0.33, C:0.20, G:0.27, T:0.21
Consensus pattern (146 bp):
GATCAATATTCCGAACGGTCAAAAGTTGCGGAAGGCCATCACGAACAACATATTGAAAAATCAGG
ACGATCAGACGGTGGACGGTGACGGATCGGAGAAAACAAATCCGGGTGGTTTTTAGCCTCTTGCC
GGTGATCGGAATATTT
Found at i:54551 original size:124 final size:125
Alignment explanation
Indices: 54324--54700 Score: 487
Period size: 124 Copynumber: 3.0 Consensus size: 125
54314 TTAGGATATG
*
54324 TTGGGGCACGACTGAACCCACATCAGGTTGAGATGACAAGATTCAGACCAATG-AGGCATGAAGA
1 TTGGGGCACGACTGAACCCACATCATGTTGAGATGACAAGATTCAGACCAA-GAAGGCATGAAGA
* *
54388 ATGAGCCTTAGAATTTGAGGTGATGGGGCATTTTAAAGGCCCGTACCAGTATAAGACAATA
65 ATGAGCCTTACAATTTGAGGTGATGGGGCATTTTGAAGGCCCGTACCAGTATAAGACAATA
* * * *
54449 TTGGGGCACGACTGAACCCACGTCATGTTGAGATAACAAGATTTAAACCAA-AAGGCATGAAGAA
1 TTGGGGCACGACTGAACCCACATCATGTTGAGATGACAAGATTCAGACCAAGAAGGCATGAAGAA
** * * *
54513 TGAGCCTTACAATTTGAGGTGATGGGGTTTTTTGAAGGCCCATACCGGTATAAGACACTGA
66 TGAGCCTTACAATTTGAGGTGATGGGGCATTTTGAAGGCCCGTACCAGTATAAGACAAT-A
* *
54574 -TGGGGCATGACTGAACCCACATCGTG-TGAAGATGACAAGATTCAGACCAAGAAGGCATTGAGA
1 TTGGGGCACGACTGAACCCACATCATGTTG-AGATGACAAGATTCAGACCAAGAAGGCA-TGA-A
* * * * * *
54637 GCA--AGCCTTACAATTTGAGATGTTGGGGCATTTTGAAGGCCCGTACCCGTGTAAGATAATA
63 GAATGAGCCTTACAATTTGAGGTGATGGGGCATTTTGAAGGCCCGTACCAGTATAAGACAATA
54698 TTG
1 TTG
54701 TGACACTAGG
Statistics
Matches: 217, Mismatches: 28, Indels: 14
0.84 0.11 0.05
Matches are distributed among these distances:
123 2 0.01
124 106 0.49
125 103 0.47
126 3 0.01
127 3 0.01
ACGTcount: A:0.32, C:0.18, G:0.27, T:0.23
Consensus pattern (125 bp):
TTGGGGCACGACTGAACCCACATCATGTTGAGATGACAAGATTCAGACCAAGAAGGCATGAAGAA
TGAGCCTTACAATTTGAGGTGATGGGGCATTTTGAAGGCCCGTACCAGTATAAGACAATA
Found at i:55596 original size:55 final size:55
Alignment explanation
Indices: 55512--55791 Score: 474
Period size: 55 Copynumber: 5.1 Consensus size: 55
55502 TGAAGCAAAA
55512 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTT
1 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTT
* * * *
55567 GAAGATTATTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAAACGCGATTGAT
1 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTT
*
55622 GAAGATTG-TGGA-TCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTT
1 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTT
* *
55675 GAAGATTGTTCGAGTCTTATACTCTCTGAATAAATAGGGGGCAGACGCGATTGTT
1 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTT
55730 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTT
1 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTT
*
55785 GGAGATT
1 GAAGATT
55792 ATTGTTCGAG
Statistics
Matches: 208, Mismatches: 15, Indels: 4
0.92 0.07 0.02
Matches are distributed among these distances:
53 46 0.22
54 6 0.03
55 156 0.75
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.28
Consensus pattern (55 bp):
GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTT
Found at i:55715 original size:108 final size:110
Alignment explanation
Indices: 55512--55794 Score: 498
Period size: 108 Copynumber: 2.6 Consensus size: 110
55502 TGAAGCAAAA
55512 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTTGAAGATTATT
1 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTTGAAGATTATT
55577 CGAGTCTTATACTCTCTGAAGAAATAGGGGGCAAACGCGATTGAT
66 CGAGTCTTATACTCTCTGAAGAAATAGGGGGCAAACGCGATTGAT
* *
55622 GAAGATTG-TGGA-TCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTTGAAGATTGTT
1 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTTGAAGATTATT
* * *
55685 CGAGTCTTATACTCTCTGAATAAATAGGGGGCAGACGCGATTGTT
66 CGAGTCTTATACTCTCTGAAGAAATAGGGGGCAAACGCGATTGAT
*
55730 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTTGGAGATTATT
1 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTTGAAGATTATT
55795 GTTCGAGTTC
Statistics
Matches: 163, Mismatches: 8, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
108 100 0.61
109 6 0.04
110 57 0.35
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.28
Consensus pattern (110 bp):
GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTTGAAGATTATT
CGAGTCTTATACTCTCTGAAGAAATAGGGGGCAAACGCGATTGAT
Found at i:55847 original size:52 final size:52
Alignment explanation
Indices: 55787--56443 Score: 1134
Period size: 52 Copynumber: 12.6 Consensus size: 52
55777 CGATCGTTGG
55787 AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGACCCGTAGGA
1 AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGACCCGTAGGA
* *
55839 AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGTCTCGTAGGA
1 AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGACCCGTAGGA
55891 AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGACCCGTAGGA
1 AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGACCCGTAGGA
* *
55943 AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGTCTCGTAGGA
1 AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGACCCGTAGGA
55995 AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGACCCGTAGGA
1 AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGACCCGTAGGA
* *
56047 AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGTCTCGTAGGA
1 AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGACCCGTAGGA
*
56099 AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGAACCGTAGGA
1 AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGACCCGTAGGA
* *
56151 AGATTATTGTTCGAGTTCTAGTCCTTGAAGAAAATTGGGCAGACCCGTATGA
1 AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGACCCGTAGGA
* * * *
56203 AGATTATTTTTCGAGTTCTAGTCCCTGAAGAAAATTGGACAGTCTCGTAGGA
1 AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGACCCGTAGGA
* *
56255 AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGTCTCGTAGGA
1 AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGACCCGTAGGA
*
56307 AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGACAGACCCGTAGGA
1 AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGACCCGTAGGA
* *
56359 AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGTCTCGTAGGA
1 AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGACCCGTAGGA
* *
56411 AGATTATCGTTCGAGTTCTACTCCCTGAAGAAA
1 AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAA
56444 TAGAGAGCGA
Statistics
Matches: 573, Mismatches: 32, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 573 1.00
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.29
Consensus pattern (52 bp):
AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGACCCGTAGGA
Found at i:56708 original size:3 final size:3
Alignment explanation
Indices: 56700--56731 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
56690 GGATACTATC
56700 ATT ATT ATT ATT ATT A-T ATT ATT -TT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
56732 ATAATAATGT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
2 4 0.15
3 23 0.85
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:57417 original size:20 final size:20
Alignment explanation
Indices: 57394--57448 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
57384 GCACTAACTC
57394 TATTATACT-GCCACCACTAA
1 TATT-TACTGGCCACCACTAA
*
57414 TATTTGCTGGCCACCACTAA
1 TATTTACTGGCCACCACTAA
*
57434 TATTTGCTGGCCACC
1 TATTTACTGGCCACC
57449 CATGTTTTGT
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
19 3 0.09
20 30 0.91
ACGTcount: A:0.25, C:0.31, G:0.13, T:0.31
Consensus pattern (20 bp):
TATTTACTGGCCACCACTAA
Found at i:64782 original size:125 final size:125
Alignment explanation
Indices: 64554--64931 Score: 485
Period size: 125 Copynumber: 3.0 Consensus size: 125
64544 TTAGGATATG
* **
64554 TTGGGGCACGACTGAACCCACATCAGGTTGAGATGACAAGATTCAGACCAATGAGGCATGAAGAA
1 TTGGGGCACGACTGAACCCACATCATGTTGAGATGACAAGATTCAGACCAAAAAGGCATGAAGAA
* *
64619 TGAGCCTTAGAATTTGAGGTGATGGGGCATTTTAAAGGCCCGTACCAGTATAAGACAATA
66 TGAGCCTTACAATTTGAGGTGATGGGGCATTTTGAAGGCCCGTACCAGTATAAGACAATA
* * * *
64679 TTGGGGCACGACTGAACCCACGTCATGTTGAGATAACAAGATTTAAACCAAAAAGGCATGAAGAA
1 TTGGGGCACGACTGAACCCACATCATGTTGAGATGACAAGATTCAGACCAAAAAGGCATGAAGAA
** * * *
64744 TGAGCCTTACAATTTGAGGTGATGGGGTTTTTTGAAGGCCCATACCGGTATAAGACACTGA
66 TGAGCCTTACAATTTGAGGTGATGGGGCATTTTGAAGGCCCGTACCAGTATAAGACAAT-A
* * *
64805 -TGGGGCATGACTGAACCCACATCGTG-TGAAGATGACAAGATTCAGACCAAGAAGGCATTGAGA
1 TTGGGGCACGACTGAACCCACATCATGTTG-AGATGACAAGATTCAGACCAAAAAGGCA-TGA-A
* * * * * *
64868 GCA--AGCCTTACAATTTGAGATGTTGGGGCATTTTGAAGGCCCGTACCCGTGTAAGATAATA
63 GAATGAGCCTTACAATTTGAGGTGATGGGGCATTTTGAAGGCCCGTACCAGTATAAGACAATA
64929 TTG
1 TTG
64932 TGACACTAGG
Statistics
Matches: 217, Mismatches: 31, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
124 3 0.01
125 207 0.95
126 4 0.02
127 3 0.01
ACGTcount: A:0.33, C:0.18, G:0.27, T:0.23
Consensus pattern (125 bp):
TTGGGGCACGACTGAACCCACATCATGTTGAGATGACAAGATTCAGACCAAAAAGGCATGAAGAA
TGAGCCTTACAATTTGAGGTGATGGGGCATTTTGAAGGCCCGTACCAGTATAAGACAATA
Found at i:66131 original size:35 final size:36
Alignment explanation
Indices: 66031--66171 Score: 104
Period size: 36 Copynumber: 3.9 Consensus size: 36
66021 GGAGCAAAGT
* * * *
66031 CAATCTTAAGCCTTCACCGAAGAGGAGTGAAGTAGAT
1 CAATCTTAAGCCTTCACCAAAGAGTAGTGAAG-CGAG
* * * *
66068 CAATCTGAAGTCTTCACCAAATAATAGTGAAGCG-G
1 CAATCTTAAGCCTTCACCAAAGAGTAGTGAAGCGAG
* * * *
66103 CCATCTTAAGCCTTCACTAAAGAGTAGTGAAGCAAA
1 CAATCTTAAGCCTTCACCAAAGAGTAGTGAAGCGAG
** * * * *
66139 CCGTCTTAAGCATGCACCAAAGAATAATGAAGC
1 CAATCTTAAGCCTTCACCAAAGAGTAGTGAAGC
66172 AAACCATCTT
Statistics
Matches: 81, Mismatches: 22, Indels: 3
0.76 0.21 0.03
Matches are distributed among these distances:
35 27 0.33
36 28 0.35
37 26 0.32
ACGTcount: A:0.38, C:0.21, G:0.20, T:0.21
Consensus pattern (36 bp):
CAATCTTAAGCCTTCACCAAAGAGTAGTGAAGCGAG
Found at i:66161 original size:36 final size:36
Alignment explanation
Indices: 66103--66181 Score: 104
Period size: 36 Copynumber: 2.2 Consensus size: 36
66093 AGTGAAGCGG
* * * * *
66103 CCATCTTAAGCCTTCACTAAAGAGTAGTGAAGCAAA
1 CCATCTTAAGCATGCACCAAAGAATAATGAAGCAAA
*
66139 CCGTCTTAAGCATGCACCAAAGAATAATGAAGCAAA
1 CCATCTTAAGCATGCACCAAAGAATAATGAAGCAAA
66175 CCATCTT
1 CCATCTT
66182 GTGTCTTCAT
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.39, C:0.24, G:0.15, T:0.22
Consensus pattern (36 bp):
CCATCTTAAGCATGCACCAAAGAATAATGAAGCAAA
Found at i:66884 original size:158 final size:158
Alignment explanation
Indices: 66597--67490 Score: 1084
Period size: 158 Copynumber: 5.6 Consensus size: 158
66587 TGAAGCAAAA
* * * *
66597 GAAGATTTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGA-TTGTCCGA
1 GAAGATATTCGAGTTCCATACTCCCTAGAGAAAGAAGGAGCGAACCCGTTTGAAGAGATGTTCGA
* *
66661 GTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATTTCCGAGTTCCATACTT
66 GTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATTTTCGAGTTCCATACTC
*
66726 CCAAGAGAAAGAGGGAGCGAACCCGTGT
131 CCTAGAGAAAGAGGGAGCGAACCCGTGT
* * * *
66754 GAAGATATCCGAGTTCCATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGAGATGTTTGA
1 GAAGATATTCGAGTTCCATACTCCCTAGAGAAAGAAGGAGCGAACCCGTTTGAAGAGATGTTCGA
** * *
66819 GTTCCATACTCCCTAGAGAAAGAGGGATTGAACCCGTTTGAAGAAGATTTTCGAGTTTCATACTT
66 GTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATTTTCGAGTTCCATACTC
66884 CCTAGAGAAAGAGGGAGCGAACCCGTGT
131 CCTAGAGAAAGAGGGAGCGAACCCGTGT
* * * * *
66912 GAAGATATCCGAGTTCCATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGAGATATCCGA
1 GAAGATATTCGAGTTCCATACTCCCTAGAGAAAGAAGGAGCGAACCCGTTTGAAGAGATGTTCGA
* * * *
66977 GTTCCATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAG-AGA-TGTCTGAGTTCCATACT
66 GTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATTTTC-GAGTTCCATACT
* *
67040 CCCTAGAGAAAGAGGGAGTGAACCCCGTAAGAA
130 CCCTAGAGAAAGAGGGAGCGAA-CCCGT--G-T
* * *
67073 GAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTG-A-AGATGTTTGA
1 GAAGATATTCGAGTTCCATACTCCCTAGAGAAAGAAGGAGCGAACCCGTTTGAAGAGATGTTCGA
* * ** *
67136 GTTCTATACTCCCTAGAGAAAGAGGGAGTGAACCCCGTAAGAAGAAGATGTTCGAGTTCCATACT
66 GTTCCATACTCCCTAGAGAAAGAGGGAGCGAA-CCCGTTTGAAGAAGATTTTCGAGTTCCATACT
*
67201 CCCTAGAGAAAGAGGGAGCGAACCCGTTT
130 CCCTAGAGAAAGAGGGAGCGAACCCGTGT
* * * *
67230 GAAGATGTTTGAGTTCTATACTCCCTAGAGAAAG-AGAGAGTGAACCCGTTTGAAGAGATGTTCG
1 GAAGATATTCGAGTTCCATACTCCCTAGAGAAAGAAG-GAGCGAACCCGTTTGAAGAGATGTTCG
* * *
67294 AGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTCCGAGTTCCATACT
65 AGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATTTTCGAGTTCCATACT
* * * *
67359 CCCTAAAGAAATAGGGAGCGAACCCGAAGGCA
130 CCCTAGAGAAAGAGGGAGCGAACCCG--TG-T
* * * * * * * *
67391 GAAGATTGTTTGAGTTTC-TACTCCCTAAAGAAAGAGGGAGCGAACCCATTGGCAGAAGATTGTT
1 GAAGA-TATTCGAGTTCCATACTCCCTAGAGAAAGAAGGAGCGAACCCGTTTGAAG-AGA-TGTT
* * * *
67455 CAAGTTCCATACTCTCT-GAAGCAAGAGGGAGAGAAC
63 CGAGTTCCATACTCCCTAG-AGAAAGAGGGAGCGAAC
67491 TCGTAGGCAG
Statistics
Matches: 644, Mismatches: 73, Indels: 34
0.86 0.10 0.05
Matches are distributed among these distances:
156 4 0.01
157 131 0.20
158 252 0.39
159 74 0.11
160 16 0.02
161 117 0.18
162 17 0.03
163 33 0.05
ACGTcount: A:0.33, C:0.20, G:0.26, T:0.22
Consensus pattern (158 bp):
GAAGATATTCGAGTTCCATACTCCCTAGAGAAAGAAGGAGCGAACCCGTTTGAAGAGATGTTCGA
GTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATTTTCGAGTTCCATACTC
CCTAGAGAAAGAGGGAGCGAACCCGTGT
Found at i:67145 original size:106 final size:105
Alignment explanation
Indices: 66597--67437 Score: 1034
Period size: 106 Copynumber: 8.0 Consensus size: 105
66587 TGAAGCAAAA
* *
66597 GAAGAT-TTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAG-A-TTGTCC
1 GAAGATGTTT-GAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTC
66659 GAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTT
65 GAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTT
* * * * *
66700 GAAGAAGATTTCCGAGTTCCATACTTCCAAGAGAAAGAGGGAGCGAACCCG--TG-TGAAGATAT
1 GAAGATG-TTT--GAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGT
* * * *
66762 CCGAGTTCCATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTT
63 TCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTT
** *
66805 GAAGAGATGTTTGAGTTCCATACTCCCTAGAGAAAGAGGGATTGAACCCGTTTGAAGAAGATTTT
1 G-A-AGATGTTTGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTT
* * *
66870 CGAGTTTCATACTTCCTAGAGAAAGAGGGAGCGAACCCGTGT
64 CGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTT
* ** * * * * *
66912 GAAGATATCCGAGTTCCATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAG-AGATATCCG
1 GAAGATGTTTGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCG
* * *
66976 AGTTCCATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTT
66 AGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTT
* * **
67016 GAAGAGATGTCTGAGTTCCATACTCCCTAGAGAAAGAGGGAGTGAACCCCGTAAGAAGAAGATGT
1 G-A-AGATGTTTGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAA-CCCGTTTGAAGAAGATGT
67081 TCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTT
63 TCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTT
* * **
67124 GAAGATGTTTGAGTTCTATACTCCCTAGAGAAAGAGGGAGTGAACCCCGTAAGAAGAAGATGTTC
1 GAAGATGTTTGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAA-CCCGTTTGAAGAAGATGTTC
67189 GAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTT
65 GAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTT
* * *
67230 GAAGATGTTTGAGTTCTATACTCCCTAGAGAAAGAGAGAGTGAACCCGTTTGAAG-AGATGTTCG
1 GAAGATGTTTGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCG
*
67294 AGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTT
66 AGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTT
** * * *** *
67334 GAAGAAGATGTCCGAGTTCCATACTCCCTAAAGAAATAGGGAGCGAACCCGAAGGCAGAAGATTG
1 ---GAAGATGTTTGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGA-TG
* * *
67399 TTTGAGTTTC-TACTCCCTAAAGAAAGAGGGAGCGAACCC
62 TTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCC
67438 ATTGGCAGAA
Statistics
Matches: 646, Mismatches: 73, Indels: 33
0.86 0.10 0.04
Matches are distributed among these distances:
103 6 0.01
104 127 0.20
105 101 0.16
106 225 0.35
107 102 0.16
108 76 0.12
109 9 0.01
ACGTcount: A:0.32, C:0.20, G:0.26, T:0.22
Consensus pattern (105 bp):
GAAGATGTTTGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCG
AGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTT
Found at i:67500 original size:55 final size:55
Alignment explanation
Indices: 66596--67513 Score: 639
Period size: 54 Copynumber: 17.3 Consensus size: 55
66586 GTGAAGCAAA
* * *
66596 AGAAGATT-TTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGT---T
1 AGAAGATTGTTCAAGTTCCATACTCCCTAAAGAAAGAGGGAGCGAACCCGTAGGC
* * * * ** *
66647 TGAAGATTGTCCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGA
1 AGAAGATTGTTCAAGTTCCATACTCCCTAAAGAAAGAGGGAGCGAACCCGTAGGC
* * *
66702 AGAAGATT-TCCGAGTTCCATACTTCC-AAGAGAAAGAGGGAGCGAACCCGT--G-
1 AGAAGATTGTTCAAGTTCCATACTCCCTAA-AGAAAGAGGGAGCGAACCCGTAGGC
* * * * * * ** *
66753 TGAAGA-TATCCGAGTTCCATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGA
1 AGAAGATTGTTCAAGTTCCATACTCCCTAAAGAAAGAGGGAGCGAACCCGTAGGC
** * ** ** *
66807 AG-AGA-TGTTTGAGTTCCATACTCCCTAGAGAAAGAGGGATTGAACCCGTTTGA
1 AGAAGATTGTTCAAGTTCCATACTCCCTAAAGAAAGAGGGAGCGAACCCGTAGGC
* * * *
66860 AGAAGATT-TTCGAGTTTCATACTTCCTAGAGAAAGAGGGAGCGAACCCGT--G-
1 AGAAGATTGTTCAAGTTCCATACTCCCTAAAGAAAGAGGGAGCGAACCCGTAGGC
* * * * * * ** *
66911 TGAAGA-TATCCGAGTTCCATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGA
1 AGAAGATTGTTCAAGTTCCATACTCCCTAAAGAAAGAGGGAGCGAACCCGTAGGC
* * * * * ** *
66965 AG-AGA-TATCCGAGTTCCATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGA
1 AGAAGATTGTTCAAGTTCCATACTCCCTAAAGAAAGAGGGAGCGAACCCGTAGGC
* * * * *
67018 AG-AGA-TG-TCTGAGTTCCATACTCCCTAGAGAAAGAGGGAGTGAACCCCGTAAGA
1 AGAAGATTGTTC-AAGTTCCATACTCCCTAAAGAAAGAGGGAGCGAA-CCCGTAGGC
* * *
67072 AGAAGA-TGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGT---T
1 AGAAGATTGTTCAAGTTCCATACTCCCTAAAGAAAGAGGGAGCGAACCCGTAGGC
* ** * * * * *
67123 TGAAGA-TGTTTGAGTTCTATACTCCCTAGAGAAAGAGGGAGTGAACCCCGTAAGA
1 AGAAGATTGTTCAAGTTCCATACTCCCTAAAGAAAGAGGGAGCGAA-CCCGTAGGC
* * *
67178 AGAAGA-TGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGT---T
1 AGAAGATTGTTCAAGTTCCATACTCCCTAAAGAAAGAGGGAGCGAACCCGTAGGC
* ** * * * * ** *
67229 TGAAGA-TGTTTGAGTTCTATACTCCCTAGAGAAAGAGAGAGTGAACCCGTTTGA
1 AGAAGATTGTTCAAGTTCCATACTCCCTAAAGAAAGAGGGAGCGAACCCGTAGGC
* * * ** *
67283 AG-AGA-TGTTCGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGA
1 AGAAGATTGTTCAAGTTCCATACTCCCTAAAGAAAGAGGGAGCGAACCCGTAGGC
* * * *
67336 AGAAGA-TGTCCGAGTTCCATACTCCCTAAAGAAATAGGGAGCGAACCCGAAGGC
1 AGAAGATTGTTCAAGTTCCATACTCCCTAAAGAAAGAGGGAGCGAACCCGTAGGC
** * * *
67390 AGAAGATTGTTTGAGTTTC-TACTCCCTAAAGAAAGAGGGAGCGAACCCATTGGC
1 AGAAGATTGTTCAAGTTCCATACTCCCTAAAGAAAGAGGGAGCGAACCCGTAGGC
* * * * *
67444 AGAAGATTGTTCAAGTTCCATACTCTCTGAAGCAAGAGGGAGAGAACTCGTAGGC
1 AGAAGATTGTTCAAGTTCCATACTCCCTAAAGAAAGAGGGAGCGAACCCGTAGGC
67499 AGAAGATTTGTTCAA
1 AGAAGA-TTGTTCAA
67514 AGAAGAACGA
Statistics
Matches: 749, Mismatches: 87, Indels: 57
0.84 0.10 0.06
Matches are distributed among these distances:
50 2 0.00
51 175 0.23
52 51 0.07
53 185 0.25
54 196 0.26
55 130 0.17
56 10 0.01
ACGTcount: A:0.33, C:0.19, G:0.26, T:0.22
Consensus pattern (55 bp):
AGAAGATTGTTCAAGTTCCATACTCCCTAAAGAAAGAGGGAGCGAACCCGTAGGC
Found at i:67691 original size:3 final size:3
Alignment explanation
Indices: 67679--67709 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
67669 TTATATTTAA
67679 ATT A-T ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
67710 GTTACATATA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:68354 original size:146 final size:146
Alignment explanation
Indices: 68090--68608 Score: 851
Period size: 146 Copynumber: 3.6 Consensus size: 146
68080 TCAGGACTCC
*
68090 GATCAATATTCCGAACGGTCAAAAGTTGCGGACGGCCATCACGAACAACATATTGAAAAATCAGG
1 GATCAATATTCCGAACGGTCAAAAGTTGCGGAAGGCCATCACGAACAACATATTGAAAAATCAGG
68155 ACGATCAGACGGTGGACGGTGACGGATCGGAGAAAACAAATCCGGGTGGTTTTTAGCCTCTTGCC
66 ACGATCAGACGGTGGACGGTGACGGATCGGAGAAAACAAATCCGGGTGGTTTTTAGCCTCTTGCC
68220 GGTGATCGGAATATTT
131 GGTGATCGGAATATTT
68236 GATCAATATTCCGAACGGTCAAAAGTTGCGGAAGGCCATCACGAACAACATATTGAAAAATCAGG
1 GATCAATATTCCGAACGGTCAAAAGTTGCGGAAGGCCATCACGAACAACATATTGAAAAATCAGG
*
68301 ACGATCAGACGGTGGACGGTGACGGATCGGAGAAAACAAATTCGGGTGGTTTTTAGCCTCTTGCC
66 ACGATCAGACGGTGGACGGTGACGGATCGGAGAAAACAAATCCGGGTGGTTTTTAGCCTCTTGCC
68366 GGTGATCGGAATATTT
131 GGTGATCGGAATATTT
68382 GATCAATATTCCGAACGGTCAAAAGTTGCGGAAGGCCATCACGAACAACATATTGAAAAATCAGG
1 GATCAATATTCCGAACGGTCAAAAGTTGCGGAAGGCCATCACGAACAACATATTGAAAAATCAGG
* * ** *
68447 ACGATCGGACGGTGGACGGTGACGGATCGGAGAAAATAAATCCGGACGATTTTTAGCCTCTTGCC
66 ACGATCAGACGGTGGACGGTGACGGATCGGAGAAAACAAATCCGGGTGGTTTTTAGCCTCTTGCC
* * **
68512 GGTGATCAGAATCTGC
131 GGTGATCGGAATATTT
* * * ** *
68528 GATCAATATTCCGAACGGTGAAAAGTTGCGCG-ATGCCAACAAAAACAACCTATTGAAAAATCAG
1 GATCAATATTCCGAACGGTCAAAAGTTGCG-GAAGGCCATCACGAACAACATATTGAAAAATCAG
* *
68592 GACAATCGGACGGTGGA
65 GACGATCAGACGGTGGA
68609 TGACGGCAGA
Statistics
Matches: 353, Mismatches: 19, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
146 352 1.00
147 1 0.00
ACGTcount: A:0.33, C:0.20, G:0.27, T:0.21
Consensus pattern (146 bp):
GATCAATATTCCGAACGGTCAAAAGTTGCGGAAGGCCATCACGAACAACATATTGAAAAATCAGG
ACGATCAGACGGTGGACGGTGACGGATCGGAGAAAACAAATCCGGGTGGTTTTTAGCCTCTTGCC
GGTGATCGGAATATTT
Found at i:68701 original size:26 final size:26
Alignment explanation
Indices: 68662--68714 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
68652 ACCTTTCCTG
*
68662 ATTTTCACACTTTAATTTCTGTTATTT
1 ATTTTAACACTTTAATTTCTGTT-TTT
68689 ATTTTAAC-CTTTAATTTCTGTTTTT
1 ATTTTAACACTTTAATTTCTGTTTTT
68714 A
1 A
68715 CCATTTTAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 4 0.16
26 14 0.56
27 7 0.28
ACGTcount: A:0.23, C:0.13, G:0.04, T:0.60
Consensus pattern (26 bp):
ATTTTAACACTTTAATTTCTGTTTTT
Found at i:75646 original size:23 final size:23
Alignment explanation
Indices: 75618--75662 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
75608 AATCGATAAT
75618 ATAATTTCACACCCTAAAATTTA
1 ATAATTTCACACCCTAAAATTTA
* * *
75641 ATAATTTTACACCTTTAAATTT
1 ATAATTTCACACCCTAAAATTT
75663 TTAATATAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.40, C:0.18, G:0.00, T:0.42
Consensus pattern (23 bp):
ATAATTTCACACCCTAAAATTTA
Found at i:78623 original size:61 final size:61
Alignment explanation
Indices: 78523--78637 Score: 160
Period size: 61 Copynumber: 1.9 Consensus size: 61
78513 GAATGTGGAT
* *
78523 ACGACCTTATGTATCATGTCCAGATTAGCACTATAGCGTATGCTTAGTGTAGGTGGTGGGC
1 ACGACCTTATGTATCATGTCCAGATTAGCACTATAGCGTAAGCTTAGTGCAGGTGGTGGGC
* ** *
78584 ACGACCTTATGTGT-ATTGTCTGGATTAGCACTATGGCGTAAGCTTAGTGCAGGT
1 ACGACCTTATGTATCA-TGTCCAGATTAGCACTATAGCGTAAGCTTAGTGCAGGT
78638 TTAGCACTAC
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
60 1 0.02
61 46 0.98
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.32
Consensus pattern (61 bp):
ACGACCTTATGTATCATGTCCAGATTAGCACTATAGCGTAAGCTTAGTGCAGGTGGTGGGC
Found at i:78842 original size:45 final size:45
Alignment explanation
Indices: 78745--79049 Score: 472
Period size: 45 Copynumber: 6.8 Consensus size: 45
78735 TGATAATCAT
* * *
78745 TAAAATAAGCTTATGAGCTTATGGAAT-AATGGCAAGTATATTGG
1 TAAAATAAGCTTACGAGCTTATGGATTAAATGGTAAGTATATTGG
** *
78789 TAAAATAAGCTTACGAGCTTATGGATTAAATTATAAGTATATTAG
1 TAAAATAAGCTTACGAGCTTATGGATTAAATGGTAAGTATATTGG
*
78834 TAAAATAAGCTTACGAGCTTATGGATTAAATAGTAAGTATATTGG
1 TAAAATAAGCTTACGAGCTTATGGATTAAATGGTAAGTATATTGG
* * *
78879 TAAAATAAGCTTATGAGCTTATGGATTAAATTGTAAGTTTATTGG
1 TAAAATAAGCTTACGAGCTTATGGATTAAATGGTAAGTATATTGG
*
78924 TAAAATAAGCTTACGAGCTTATGGATTAAATGGTAAGTGTATTGG
1 TAAAATAAGCTTACGAGCTTATGGATTAAATGGTAAGTATATTGG
*
78969 TAAAATAAGCTTACGAGCTTATGGA-TAAATGGTAATTATATTGG
1 TAAAATAAGCTTACGAGCTTATGGATTAAATGGTAAGTATATTGG
79013 TAAAATAAGCTTACGAGCTTATGGGA-TAAATGGTAAG
1 TAAAATAAGCTTACGAGCTTAT-GGATTAAATGGTAAG
79050 AGATTTTATA
Statistics
Matches: 241, Mismatches: 18, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
44 64 0.27
45 177 0.73
ACGTcount: A:0.39, C:0.07, G:0.21, T:0.34
Consensus pattern (45 bp):
TAAAATAAGCTTACGAGCTTATGGATTAAATGGTAAGTATATTGG
Found at i:85622 original size:36 final size:36
Alignment explanation
Indices: 85575--85666 Score: 105
Period size: 37 Copynumber: 2.5 Consensus size: 36
85565 TTTTATTATT
*
85575 TCGGGTCGGGTCGGGTTTCTAATTCAT-ATATTCGGG
1 TCGGGTCGGGTCGGGTTTCTAAGT-ATGATATTCGGG
* * *
85611 TCGGGTCGGGTCGGTTTTTTTAAGTGTGATATTCGGG
1 TCGGGTCGGGTCGG-GTTTCTAAGTATGATATTCGGG
*
85648 TCGGGTCGAGTTCGGGTTT
1 TCGGGTCG-GGTCGGGTTT
85667 AGGGTGAAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 5
0.81 0.10 0.09
Matches are distributed among these distances:
36 15 0.32
37 27 0.57
38 5 0.11
ACGTcount: A:0.11, C:0.14, G:0.37, T:0.38
Consensus pattern (36 bp):
TCGGGTCGGGTCGGGTTTCTAAGTATGATATTCGGG
Found at i:85915 original size:28 final size:28
Alignment explanation
Indices: 85874--85938 Score: 96
Period size: 28 Copynumber: 2.4 Consensus size: 28
85864 TTGTTCGGGT
*
85874 CGGGTCGGG-TTTTTTAAGTGTGATATA
1 CGGGTCGGGTTTTTTTAAGTGTGAAATA
* *
85901 CGGGTCGGGTTTTTTTAATTGTGAAATT
1 CGGGTCGGGTTTTTTTAAGTGTGAAATA
85929 CGGGTCGGGT
1 CGGGTCGGGT
85939 CGGGTTCGGG
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
27 9 0.26
28 25 0.74
ACGTcount: A:0.15, C:0.09, G:0.35, T:0.40
Consensus pattern (28 bp):
CGGGTCGGGTTTTTTTAAGTGTGAAATA
Found at i:86567 original size:15 final size:15
Alignment explanation
Indices: 86549--86586 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
86539 ATGATTTATA
86549 TGAATATGTTCTATG
1 TGAATATGTTCTATG
* *
86564 TGAAGATATTCTATG
1 TGAATATGTTCTATG
86579 TGAATATG
1 TGAATATG
86587 AACTATGAGT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.32, C:0.05, G:0.21, T:0.42
Consensus pattern (15 bp):
TGAATATGTTCTATG
Found at i:86870 original size:24 final size:24
Alignment explanation
Indices: 86808--86870 Score: 74
Period size: 24 Copynumber: 2.7 Consensus size: 24
86798 TCCTTAAGGA
86808 CAAA-TCTATGTGGCACTTCGATG
1 CAAATTCTATGTGGCACTTCGATG
* * * *
86831 CATATTCTACGTGGCACTTTGGTG
1 CAAATTCTATGTGGCACTTCGATG
*
86855 CAAATTCTATGCGGCA
1 CAAATTCTATGTGGCA
86871 GTTACGACTG
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
23 3 0.09
24 29 0.91
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.32
Consensus pattern (24 bp):
CAAATTCTATGTGGCACTTCGATG
Found at i:88064 original size:25 final size:25
Alignment explanation
Indices: 88034--88095 Score: 79
Period size: 25 Copynumber: 2.5 Consensus size: 25
88024 CAAATAAATA
* *
88034 ATTTTAAATTATGTTGTAATTGATT
1 ATTTTAAATTATGATATAATTGATT
*
88059 ATTTTAAATTATGATATGATTGATT
1 ATTTTAAATTATGATATAATTGATT
* *
88084 GTCTTAAATTAT
1 ATTTTAAATTAT
88096 ATTTTGATTA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.34, C:0.02, G:0.11, T:0.53
Consensus pattern (25 bp):
ATTTTAAATTATGATATAATTGATT
Found at i:88103 original size:25 final size:25
Alignment explanation
Indices: 88037--88104 Score: 66
Period size: 25 Copynumber: 2.7 Consensus size: 25
88027 ATAAATAATT
* * * *
88037 TTAAATTATGTTGTAATTGATTATT
1 TTAAATTATATTATGATTGATTATC
*
88062 TTAAATTATGA-TATGATTGATTGTC
1 TTAAATTAT-ATTATGATTGATTATC
*
88087 TTAAATTATATTTTGATT
1 TTAAATTATATTATGATT
88105 ACTTTTCTTG
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
24 1 0.03
25 34 0.97
ACGTcount: A:0.32, C:0.01, G:0.12, T:0.54
Consensus pattern (25 bp):
TTAAATTATATTATGATTGATTATC
Found at i:90937 original size:15 final size:15
Alignment explanation
Indices: 90917--90948 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
90907 TCTACTATCC
90917 AAGTTAGGAGTTGAA
1 AAGTTAGGAGTTGAA
90932 AAGTTAGGAGTTGAA
1 AAGTTAGGAGTTGAA
90947 AA
1 AA
90949 TGTTTTTCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.44, C:0.00, G:0.31, T:0.25
Consensus pattern (15 bp):
AAGTTAGGAGTTGAA
Found at i:93971 original size:43 final size:43
Alignment explanation
Indices: 93910--93992 Score: 157
Period size: 43 Copynumber: 1.9 Consensus size: 43
93900 GTGTATATCA
*
93910 AAATGGTGATTCACAAACACATTATGAATACCATGATTGCTCG
1 AAATGGTGATTCAAAAACACATTATGAATACCATGATTGCTCG
93953 AAATGGTGATTCAAAAACACATTATGAATACCATGATTGC
1 AAATGGTGATTCAAAAACACATTATGAATACCATGATTGC
93993 ACCTTTAGTT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.40, C:0.17, G:0.16, T:0.28
Consensus pattern (43 bp):
AAATGGTGATTCAAAAACACATTATGAATACCATGATTGCTCG
Found at i:116659 original size:130 final size:130
Alignment explanation
Indices: 116484--116724 Score: 349
Period size: 130 Copynumber: 1.9 Consensus size: 130
116474 TTTTTATAAC
** * *
116484 ATTAAGGACTAAATTATAATTACTTAACAATCAAGAGACCAAACTAAAAATAAAAGATAATTTTA
1 ATTAAGGACTAAACAATAATTACTTAACAATCAAGAGACCAAACTAAAAATAAAAGAAAATTATA
* * *
116549 TGGGATCACATTGACACTTTTATAAATTTAAGGATCTAAGTATAAATAACTATAAAATAACAAAT
66 TGAGACCACATTGAAACTTTTATAAATTTAAGGATCTAAGTATAAATAACTATAAAATAACAAAT
* * * *
116614 ATTAAGGACTAAACAATAATTATTTCACAATCAA-AGGACCAAACTACAAATAGAAGAAAATTAT
1 ATTAAGGACTAAACAATAATTACTTAACAATCAAGA-GACCAAACTAAAAATAAAAGAAAATTAT
* *
116678 ATGAGACCACATTGAAACTTTTATAAATTTAAGGATTTAAGTGTAAA
65 ATGAGACCACATTGAAACTTTTATAAATTTAAGGATCTAAGTATAAA
116725 AAAGCCCAGC
Statistics
Matches: 97, Mismatches: 13, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
129 1 0.01
130 96 0.99
ACGTcount: A:0.49, C:0.11, G:0.10, T:0.29
Consensus pattern (130 bp):
ATTAAGGACTAAACAATAATTACTTAACAATCAAGAGACCAAACTAAAAATAAAAGAAAATTATA
TGAGACCACATTGAAACTTTTATAAATTTAAGGATCTAAGTATAAATAACTATAAAATAACAAAT
Found at i:116916 original size:36 final size:34
Alignment explanation
Indices: 116869--116995 Score: 109
Period size: 36 Copynumber: 3.6 Consensus size: 34
116859 TCTATACAAT
116869 AAATTAGGTTGCAACTAAAAACGTATTTCTATTTGA
1 AAATTAGGTTGCAACTAAAAACGTATTTCTA-TT-A
* *
116905 AAATCAGGTTGCAACCTATAAAATC-AAGTTTCTA-TA
1 AAATTAGGTTGCAA-CTA-AAAA-CGTA-TTTCTATTA
116941 ATCAATTAGGTTGCAACTAAAAACGTATTTCTA-T-
1 A--AATTAGGTTGCAACTAAAAACGTATTTCTATTA
**
116975 AAACCAGGTTGCAACCTAAAA
1 AAATTAGGTTGCAA-CTAAAA
116996 TGAATCATGT
Statistics
Matches: 77, Mismatches: 6, Indels: 19
0.75 0.06 0.19
Matches are distributed among these distances:
32 11 0.14
33 6 0.08
34 1 0.01
35 8 0.10
36 20 0.26
37 7 0.09
38 17 0.22
39 7 0.09
ACGTcount: A:0.41, C:0.16, G:0.13, T:0.31
Consensus pattern (34 bp):
AAATTAGGTTGCAACTAAAAACGTATTTCTATTA
Found at i:116958 original size:74 final size:71
Alignment explanation
Indices: 116832--117012 Score: 222
Period size: 74 Copynumber: 2.5 Consensus size: 71
116822 AAGCAAAATT
*
116832 AGGTTGCAA-CTAAAAAGGAATCAGGTTTCTATACAATAAATTAGGTTGCAACTAAAAACGTATT
1 AGGTTGCAACCT-AAAA-GAATCAAGTTTCTAT--AATAAATTAGGTTGCAACTAAAAACGTATT
*
116896 TCTATTTGAAAATC
62 TCTA--T--AAACC
* *
116910 AGGTTGCAACCTATAA-AATCAAGTTTCTATAATCAATTAGGTTGCAACTAAAAACGTATTTCTA
1 AGGTTGCAACCTAAAAGAATCAAGTTTCTATAATAAATTAGGTTGCAACTAAAAACGTATTTCTA
116974 TAAACC
66 TAAACC
*
116980 AGGTTGCAACCTAAAATGAATCATGTTTCTATA
1 AGGTTGCAACCTAAAA-GAATCAAGTTTCTATA
117013 CAATAAAAAC
Statistics
Matches: 94, Mismatches: 6, Indels: 12
0.84 0.05 0.11
Matches are distributed among these distances:
70 19 0.20
72 15 0.16
74 33 0.35
76 13 0.14
78 12 0.13
79 2 0.02
ACGTcount: A:0.40, C:0.15, G:0.14, T:0.31
Consensus pattern (71 bp):
AGGTTGCAACCTAAAAGAATCAAGTTTCTATAATAAATTAGGTTGCAACTAAAAACGTATTTCTA
TAAACC
Found at i:124297 original size:80 final size:80
Alignment explanation
Indices: 124188--124414 Score: 323
Period size: 79 Copynumber: 2.9 Consensus size: 80
124178 TAAGCAAAAC
* * * * * *
124188 CAGGTTGCAA-TTAAAAATGAATCAAGTTTCAATACAATAAACTAGGTTACAACTAAAAACATGT
1 CAGGTTGCAACCTAAAAAGGAATCAGGTTTCTATACAATAAATTAGGTTGCAACTAAAAACATGT
124252 TTCAATTTGATAAAT
66 TTCAATTTGATAAAT
124267 CAGGTTGCAACCTAAAAAGGAATCAGGTTTCTATACAATAAATTAGGTTGCAACT-AAAACATGT
1 CAGGTTGCAACCTAAAAAGGAATCAGGTTTCTATACAATAAATTAGGTTGCAACTAAAAACATGT
*
124331 TTCTATTTGATAAAT
66 TTCAATTTGATAAAT
* * * * *
124346 TAGGTTGCAACCTAAAAAGAAATTAGGTTTCTATACAATAAATTAGGTTGCAATTAAAAATCAGG
1 CAGGTTGCAACCTAAAAAGGAATCAGGTTTCTATACAATAAATTAGGTTGCAACTAAAAA-CATG
124411 TTTC
65 TTTC
124415 CACGAGACTT
Statistics
Matches: 133, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
79 84 0.63
80 42 0.32
81 7 0.05
ACGTcount: A:0.42, C:0.13, G:0.14, T:0.31
Consensus pattern (80 bp):
CAGGTTGCAACCTAAAAAGGAATCAGGTTTCTATACAATAAATTAGGTTGCAACTAAAAACATGT
TTCAATTTGATAAAT
Found at i:124315 original size:43 final size:42
Alignment explanation
Indices: 124189--124398 Score: 165
Period size: 43 Copynumber: 5.2 Consensus size: 42
124179 AAGCAAAACC
* * * *
124189 AGGTTGCAA-TTAAAAATGAATCAAGTTTCAATACAATAAACT
1 AGGTTGCAACCTAAAAA-GAATCAGGTTTCTATACAATAAATT
* * * *** *
124231 AGGTTACAA-CT--AAA-AA-CATGTTTCAATTTGATAAATC
1 AGGTTGCAACCTAAAAAGAATCAGGTTTCTATACAATAAATT
124268 AGGTTGCAACCTAAAAAGGAATCAGGTTTCTATACAATAAATT
1 AGGTTGCAACCTAAAAA-GAATCAGGTTTCTATACAATAAATT
* ***
124311 AGGTTGCAA-CT---AA-AA-CATGTTTCTATTTGATAAATT
1 AGGTTGCAACCTAAAAAGAATCAGGTTTCTATACAATAAATT
*
124347 AGGTTGCAACCTAAAAAGAAATTAGGTTTCTATACAATAAATT
1 AGGTTGCAACCTAAAAAG-AATCAGGTTTCTATACAATAAATT
124390 AGGTTGCAA
1 AGGTTGCAA
124399 TTAAAAATCA
Statistics
Matches: 131, Mismatches: 24, Indels: 25
0.73 0.13 0.14
Matches are distributed among these distances:
36 26 0.20
37 27 0.21
38 4 0.03
39 2 0.02
40 8 0.06
42 15 0.11
43 49 0.37
ACGTcount: A:0.42, C:0.12, G:0.14, T:0.31
Consensus pattern (42 bp):
AGGTTGCAACCTAAAAAGAATCAGGTTTCTATACAATAAATT
Done.