Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 362 of 433
Found at i:113694987 original size:36 final size:37
Alignment explanation
Indices: 113694902--113694991 Score: 173
Period size: 37 Copynumber: 2.5 Consensus size: 37
113694892 GTTATGCCAA
113694902 AAGTCAATATTCCATCTCATGTATCAAAAAGAAAGAG
1 AAGTCAATATTCCATCTCATGTATCAAAAAGAAAGAG
113694939 AAGTCAATATTCCATCTCATGTATCAAAAAGAAAGAG
1 AAGTCAATATTCCATCTCATGTATCAAAAAGAAAGAG
113694976 -AGTCAATATTCCATCT
1 AAGTCAATATTCCATCT
113694992 AATAACGAAG
Statistics
Matches: 53, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
36 16 0.30
37 37 0.70
ACGTcount: A:0.43, C:0.18, G:0.12, T:0.27
Consensus pattern (37 bp):
AAGTCAATATTCCATCTCATGTATCAAAAAGAAAGAG
Found at i:113704789 original size:27 final size:27
Alignment explanation
Indices: 113704758--113704827 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 27
113704748 CTTATGAACC
* *
113704758 TCCACATTAGATAGTCATGACGGACTT
1 TCCACATAAGATAGTCATGACAGACTT
*
113704785 TCCACATAAGATAGTCCTGACAGACTT
1 TCCACATAAGATAGTCATGACAGACTT
* *
113704812 TCAACATCAGATAGTC
1 TCCACATAAGATAGTC
113704828 TTGATGGGCT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.27
Consensus pattern (27 bp):
TCCACATAAGATAGTCATGACAGACTT
Found at i:113704927 original size:24 final size:22
Alignment explanation
Indices: 113704880--113704943 Score: 67
Period size: 22 Copynumber: 2.8 Consensus size: 22
113704870 CTTCCATTAG
* *
113704880 TCCCACTAAGGGCTCT-TATACA
1 TCCCACAAAGGGCTCTCAAT-CA
113704902 TCCCACACAAGTGGCTCTCAATCA
1 TCCCACA-AAG-GGCTCTCAATCA
*
113704926 TCCCATAAAGGGCTCTCA
1 TCCCACAAAGGGCTCTCA
113704944 TACTGGTGTG
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
22 14 0.39
23 6 0.17
24 14 0.39
25 2 0.06
ACGTcount: A:0.28, C:0.34, G:0.14, T:0.23
Consensus pattern (22 bp):
TCCCACAAAGGGCTCTCAATCA
Found at i:113704942 original size:22 final size:24
Alignment explanation
Indices: 113704887--113704943 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 24
113704877 TAGTCCCACT
*
113704887 AAGGGCTCT-TATACATCCCACAC
1 AAGGGCTCTCAATACATCCCACAC
*
113704910 AAGTGGCTCTCAAT-CATCCCATA-
1 AAG-GGCTCTCAATACATCCCACAC
113704933 AAGGGCTCTCA
1 AAGGGCTCTCA
113704944 TACTGGTGTG
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
22 8 0.27
23 6 0.20
24 14 0.47
25 2 0.07
ACGTcount: A:0.30, C:0.32, G:0.16, T:0.23
Consensus pattern (24 bp):
AAGGGCTCTCAATACATCCCACAC
Found at i:113705756 original size:21 final size:20
Alignment explanation
Indices: 113705722--113705781 Score: 75
Period size: 21 Copynumber: 3.0 Consensus size: 20
113705712 GGCGCAACAT
*
113705722 GCACCTTATGTTGAGCCATA
1 GCACCCTATGTTGAGCCATA
* *
113705742 GCAGCCCTGTGTTGAGTCATA
1 GCA-CCCTATGTTGAGCCATA
*
113705763 GCATCCTATGTTGAGCCAT
1 GCACCCTATGTTGAGCCAT
113705782 TAGCCCAAAG
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
20 16 0.48
21 17 0.52
ACGTcount: A:0.22, C:0.25, G:0.23, T:0.30
Consensus pattern (20 bp):
GCACCCTATGTTGAGCCATA
Found at i:113710111 original size:19 final size:20
Alignment explanation
Indices: 113710087--113710124 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
113710077 GGTACCACCA
113710087 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
113710106 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
113710125 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:113710468 original size:47 final size:47
Alignment explanation
Indices: 113710354--113710571 Score: 247
Period size: 47 Copynumber: 4.7 Consensus size: 47
113710344 GCCCCTAAGT
* *
113710354 GAACTCGGACTCAACTCAACGAGCTCGG--G-C-A-TTCGCATCCATAAAT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-GCAT-C-T-AAC
*
113710400 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTGCATCTGAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTGCATCTAAC
* *
113710447 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTGCATCTAAC
* *
113710494 GAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTGCAT-C-TAA-C
113710540 GAACTCGGACTCAACTCAACGAGTTCGGATGC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGC
113710572 TCGACCATCC
Statistics
Matches: 152, Mismatches: 9, Indels: 19
0.84 0.05 0.11
Matches are distributed among these distances:
43 6 0.04
44 2 0.01
45 2 0.01
46 56 0.37
47 75 0.49
48 2 0.01
49 2 0.01
50 5 0.03
51 2 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.22
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTGCATCTAAC
Found at i:113710545 original size:93 final size:92
Alignment explanation
Indices: 113710400--113710571 Score: 258
Period size: 93 Copynumber: 1.8 Consensus size: 92
113710390 ATCCATAAAT
*
113710400 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTGCATCTGACGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGTTCGGA--CCTAGTTGCATCTAACGAACTCGGACTCAACTCA
113710465 ACGAGTTCGGATGCCTAGTTACATCTCAC
64 ACGAGTTCGGATGCCTAGTTACATCTCAC
* *
113710494 GAACTCGGACTCAACTCAACGAGTTCGGA-C-ATTTGCATCCATAAGTGAACTCGGACTCAACTC
1 GAACTCGGACTCAACTCAACGAGTTCGGACCTAGTTGCAT-C-TAA-CGAACTCGGACTCAACTC
113710557 AACGAGTTCGGATGC
63 AACGAGTTCGGATGC
113710572 TCGACCATCC
Statistics
Matches: 72, Mismatches: 3, Indels: 7
0.88 0.04 0.09
Matches are distributed among these distances:
90 7 0.10
91 2 0.03
92 2 0.03
93 32 0.44
94 29 0.40
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.23
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGTTCGGACCTAGTTGCATCTAACGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATCTCAC
Found at i:113717717 original size:19 final size:20
Alignment explanation
Indices: 113717693--113717730 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
113717683 GGTACCACCA
113717693 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
113717712 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
113717731 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:113721439 original size:40 final size:40
Alignment explanation
Indices: 113721373--113721539 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
113721363 AAATTGAATG
* * *
113721373 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
113721412 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
113721452 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
113721492 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
113721532 ATATCCGG
1 ATATCCGG
113721540 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:113729445 original size:40 final size:40
Alignment explanation
Indices: 113729379--113729545 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
113729369 AAATTGAATG
* * *
113729379 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
113729418 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
113729458 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
113729498 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
113729538 ATATCCGG
1 ATATCCGG
113729546 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:113731640 original size:48 final size:49
Alignment explanation
Indices: 113731588--113731799 Score: 171
Period size: 52 Copynumber: 4.2 Consensus size: 49
113731578 TTGTACATTG
*** *
113731588 TCACATATCACACACCGAAGCCATAGCTTTGTTATGGTCTTATACGG-A
1 TCACATATCACACACCGAAGCCATAGCCCAGATATGGTCTTATACGGAA
* *
113731636 TCAC--ATCACACACCGATGCCATATCCCAGATATGGTCTTATACGGAA
1 TCACATATCACACACCGAAGCCATAGCCCAGATATGGTCTTATACGGAA
* * * *
113731683 TCACATTATCATGTCATACCGATGTCATAGCCCAGCTATGGTCTTATACGGGAA
1 TCACA-TATCA---CACACCGAAGCCATAGCCCAGATATGGTCTTATAC-GGAA
* * * * * *
113731737 -CAAATATCACATTGCTCTGATGCCATAGCCCAGCTATGGTCTTATACAGAA
1 TCACATATCACA---CACCGAAGCCATAGCCCAGATATGGTCTTATACGGAA
*
113731788 GCACATATCACA
1 TCACATATCACA
113731800 TCTTTTTCGT
Statistics
Matches: 135, Mismatches: 17, Indels: 20
0.78 0.10 0.12
Matches are distributed among these distances:
46 35 0.26
47 5 0.04
48 4 0.03
49 2 0.01
50 4 0.03
51 3 0.02
52 44 0.33
53 34 0.25
54 4 0.03
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.27
Consensus pattern (49 bp):
TCACATATCACACACCGAAGCCATAGCCCAGATATGGTCTTATACGGAA
Found at i:113731657 original size:46 final size:47
Alignment explanation
Indices: 113731594--113731733 Score: 129
Period size: 46 Copynumber: 2.9 Consensus size: 47
113731584 ATTGTCACAT
*** *
113731594 ATCACACACCGAAGCCATAGCTTTGTTATGGTCTTATACGG-ATCAC
1 ATCACACACCGAAGCCATAGCCCAGATATGGTCTTATACGGAATCAC
* *
113731640 ATCACACACCGATGCCATATCCCAGATATGGTCTTATACGGAATCAC
1 ATCACACACCGAAGCCATAGCCCAGATATGGTCTTATACGGAATCAC
* * * *
113731687 ATTATCATGTCATACCGATGTCATAGCCCAGCTATGGTCTTATACGG
1 ---ATCA---CACACCGAAGCCATAGCCCAGATATGGTCTTATACGG
113731734 GAACAAATAT
Statistics
Matches: 77, Mismatches: 10, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
46 35 0.45
47 5 0.06
50 4 0.05
53 33 0.43
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (47 bp):
ATCACACACCGAAGCCATAGCCCAGATATGGTCTTATACGGAATCAC
Found at i:113739112 original size:46 final size:46
Alignment explanation
Indices: 113739030--113739176 Score: 161
Period size: 46 Copynumber: 3.0 Consensus size: 46
113739020 TTGCACATTG
* * *
113739030 TCACATATCACACACCGAAGCCATAGCCCTGCTATGGTCTTATACGGA
1 TCACAT-T-ACACACCGATGCCATAGCCCAGATATGGTCTTATACGGA
*
113739078 TCACATTACACACCGATGCCATATCCCAGATATGGTCTTATACGGAA
1 TCACATTACACACCGATGCCATAGCCCAGATATGGTCTTATACGG-A
113739125 TCACATTATCATGTCATACCGATGCCATAGCCCA-ACTATGGTCTTATACGGA
1 TCACATTA-CA---C--ACCGATGCCATAGCCCAGA-TATGGTCTTATACGGA
113739177 AACACATATC
Statistics
Matches: 86, Mismatches: 5, Indels: 12
0.83 0.05 0.12
Matches are distributed among these distances:
46 34 0.40
47 10 0.12
48 8 0.09
51 1 0.01
52 2 0.02
53 31 0.36
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.26
Consensus pattern (46 bp):
TCACATTACACACCGATGCCATAGCCCAGATATGGTCTTATACGGA
Found at i:113739216 original size:52 final size:52
Alignment explanation
Indices: 113739043--113739235 Score: 165
Period size: 53 Copynumber: 3.8 Consensus size: 52
113739033 CATATCACAC
* ** * *
113739043 ACCGAAGCCATAGCCCTGCTATGGTCTTATACGG-ATCACAT-T-A---CAC
1 ACCGATGCCATAGCCCAACTATGGTCTTATACGGAAACACATATCATGTCAT
* *
113739089 ACCGATGCCATATCCCAGA-TATGGTCTTATACGGAATCACATTATCATGTCAT
1 ACCGATGCCATAGCCCA-ACTATGGTCTTATACGGAAACACA-TATCATGTCAT
113739142 ACCGATGCCATAGCCCAACTATGGTCTTATACGGAAACACATATCA-GATTGC-T
1 ACCGATGCCATAGCCCAACTATGGTCTTATACGGAAACACATATCATG--T-CAT
* * *
113739195 -CCGATGCTATAGGCCACCTATGGTCTTATAC-GAAAGCACAT
1 ACCGATGCCATAGCCCAACTATGGTCTTATACGGAAA-CACAT
113739236 CACATCTTTT
Statistics
Matches: 124, Mismatches: 10, Indels: 20
0.81 0.06 0.13
Matches are distributed among these distances:
46 29 0.23
47 6 0.05
48 1 0.01
49 1 0.01
50 1 0.01
51 5 0.04
52 39 0.31
53 41 0.33
54 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (52 bp):
ACCGATGCCATAGCCCAACTATGGTCTTATACGGAAACACATATCATGTCAT
Found at i:113741170 original size:57 final size:61
Alignment explanation
Indices: 113741037--113741170 Score: 172
Period size: 62 Copynumber: 2.2 Consensus size: 61
113741027 TCTATTGCCT
* *
113741037 TATTCAAAAGAACTTCTATTTTATTAAATAGGACAAAATATAAAAATAATTTACTATTAAAA
1 TATTCAAAACAACTTCTATTTTATTAAATA-GACAAAATATAAAAATAATTTACTATCAAAA
*
113741099 TATTCAAAACAACTTTTATTTTATTAAAT-G-CAACAATATAAAAATAATTTA-TA-CAAATA
1 TATTCAAAACAACTTCTATTTTATTAAATAGACAA-AATATAAAAATAATTTACTATCAAA-A
113741158 TATT-AAAA-AACTT
1 TATTCAAAACAACTT
113741171 GATACATGAT
Statistics
Matches: 67, Mismatches: 3, Indels: 9
0.85 0.04 0.11
Matches are distributed among these distances:
57 5 0.07
58 7 0.10
59 10 0.15
60 18 0.27
62 27 0.40
ACGTcount: A:0.51, C:0.09, G:0.03, T:0.37
Consensus pattern (61 bp):
TATTCAAAACAACTTCTATTTTATTAAATAGACAAAATATAAAAATAATTTACTATCAAAA
Found at i:113741919 original size:24 final size:24
Alignment explanation
Indices: 113741892--113741939 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
113741882 GTCTTAGGTT
113741892 TCATTCCCCTTAGGTATTTAGGGG
1 TCATTCCCCTTAGGTATTTAGGGG
*
113741916 TCATTGCCCTTAGGTATTTAGGGG
1 TCATTCCCCTTAGGTATTTAGGGG
113741940 GTTTAGTTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.17, C:0.19, G:0.27, T:0.38
Consensus pattern (24 bp):
TCATTCCCCTTAGGTATTTAGGGG
Found at i:113745530 original size:49 final size:50
Alignment explanation
Indices: 113745352--113745536 Score: 223
Period size: 50 Copynumber: 3.7 Consensus size: 50
113745342 TATATGTAGC
* *
113745352 TAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACTCG-ATAACT
1 TAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTAC-CGAATAA-T
* * * * ** *
113745403 TCGATCGCGTGTGTAGTACTAAGTGCAGACTACTACGTGTA-TTAGATAGT
1 TAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGA-ATAAT
* *
113745453 TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTATACCGAATAAT
1 TAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGAATAAT
113745503 T-GGTCGCATGTGTAGTACTAAGTGCAGGCTACTA
1 TAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTA
113745537 TGCGTACCAG
Statistics
Matches: 112, Mismatches: 19, Indels: 8
0.81 0.14 0.06
Matches are distributed among these distances:
49 32 0.29
50 41 0.37
51 39 0.35
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (50 bp):
TAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGAATAAT
Found at i:113745566 original size:101 final size:101
Alignment explanation
Indices: 113745352--113745552 Score: 273
Period size: 99 Copynumber: 2.0 Consensus size: 101
113745342 TATATGTAGC
* * * *
113745352 TAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACTCGATAACTTCGATCGCGTGTGT
1 TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCATACTCGATAACTTCGATCGCATGTGT
* **
113745417 AGTACTAAGTGCAGACTACTACGTGTATTAGATAGT
66 AGTACTAAGTGCAGACTACTACGCGTACCAGATAGT
* *
113745453 TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTATAC-CGAATAA-TT-GGTCGCATGTG
1 TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCATACTCG-ATAACTTCGATCGCATGTG
* *
113745515 TAGTACTAAGTGCAGGCTACTATGCGTACCAGATAGT
65 TAGTACTAAGTGCAGACTACTACGCGTACCAGATAGT
113745552 T
1 T
113745553 TGGCTACATA
Statistics
Matches: 88, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
99 42 0.48
100 4 0.05
101 42 0.48
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (101 bp):
TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCATACTCGATAACTTCGATCGCATGTGT
AGTACTAAGTGCAGACTACTACGCGTACCAGATAGT
Found at i:113747482 original size:13 final size:13
Alignment explanation
Indices: 113747466--113747498 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
113747456 TTTAATTAAA
*
113747466 TTAGTTAATTAGT
1 TTAGATAATTAGT
113747479 TTAGATAATTAGT
1 TTAGATAATTAGT
113747492 TTA-ATAA
1 TTAGATAA
113747499 ACAAACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:113758348 original size:21 final size:22
Alignment explanation
Indices: 113758324--113758368 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
113758314 TTTAACCTTT
*
113758324 ATAAAT-T-CATTTATAACGAAC
1 ATAAATGTCCATTTA-AACAAAC
113758345 ATAAATGTCCATTTAAACAAAC
1 ATAAATGTCCATTTAAACAAAC
113758367 AT
1 AT
113758369 TGGTATATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 6 0.29
22 9 0.43
23 6 0.29
ACGTcount: A:0.49, C:0.16, G:0.04, T:0.31
Consensus pattern (22 bp):
ATAAATGTCCATTTAAACAAAC
Found at i:113760075 original size:10 final size:10
Alignment explanation
Indices: 113760062--113760096 Score: 54
Period size: 10 Copynumber: 3.5 Consensus size: 10
113760052 AGTCAGCATC
113760062 AAAGAAATCT
1 AAAGAAATCT
113760072 AAAGAAATCT
1 AAAGAAATCT
113760082 AAAGAATATC-
1 AAAGAA-ATCT
113760092 AAAGA
1 AAAGA
113760097 GATAAATGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 21 0.88
11 3 0.12
ACGTcount: A:0.63, C:0.09, G:0.11, T:0.17
Consensus pattern (10 bp):
AAAGAAATCT
Found at i:113762016 original size:40 final size:40
Alignment explanation
Indices: 113761933--113762152 Score: 214
Period size: 40 Copynumber: 5.5 Consensus size: 40
113761923 ACCCAAGTAT
** * *
113761933 CTTCGGGAT-TTAG-CCGGATATAACCACTCGCAC-AAGGC
1 CTTCGGG-TCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
113761971 CTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
113762011 CTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
113762051 CTTCAGGTTTTAGCCCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAATGC
** * * * *
113762091 CTTCGAATCTTAGTCCGGATATAGTCATTAGCATAAAAGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
113762131 CTTCAGGACTTAGCCCAGATAT
1 CTTCGGGTCTTAGCCCGGATAT
113762153 CATTCGAATA
Statistics
Matches: 147, Mismatches: 30, Indels: 8
0.79 0.16 0.04
Matches are distributed among these distances:
37 1 0.01
38 11 0.07
39 16 0.11
40 118 0.80
41 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.25
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:113768312 original size:7 final size:7
Alignment explanation
Indices: 113768300--113768328 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
113768290 TAAATCAAGG
113768300 TTTGTAA
1 TTTGTAA
113768307 TTTGTAA
1 TTTGTAA
113768314 TTTGTAA
1 TTTGTAA
113768321 TTTGTAA
1 TTTGTAA
113768328 T
1 T
113768329 ATTTGTCACT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.28, C:0.00, G:0.14, T:0.59
Consensus pattern (7 bp):
TTTGTAA
Found at i:113769568 original size:132 final size:132
Alignment explanation
Indices: 113769329--113769574 Score: 377
Period size: 132 Copynumber: 1.9 Consensus size: 132
113769319 TGATTATACA
** * *
113769329 TTTAAAAATTCTTTAAAACGAAGACGAGATTCGATATTTGGCAATTCGCGGAAAAGTGCCCTAAC
1 TTTAAAAATTCTTTAAAACGAAGAAAAGATTCGATATTTGACAATTCGCGGAAAAGTACCCTAAC
* *
113769394 GTGTTGGGTTACAATTTCGCGTTTGCTCGAAATAATCGAATATCCCTTCAAACTTTCACTCATGC
66 GTGTTGGGTTACAATTTCGCGTTTGCTCAAAATAATCAAATATCCCTTCAAACTTTCACTCATGC
113769459 CT
131 CT
* **
113769461 TTTAAAAATTCTTTAAAACGAAGGAAAAG-TTTGATATTTGACAATTCGCGGAATCGTACCCTAA
1 TTTAAAAATTCTTTAAAACGAA-GAAAAGATTCGATATTTGACAATTCGCGGAAAAGTACCCTAA
* *
113769525 CGTGTTGGGTTGCAATTTCTCGTTTGCTCAAAATAATCAAATATCCCTTC
65 CGTGTTGGGTTACAATTTCGCGTTTGCTCAAAATAATCAAATATCCCTTC
113769575 GAGATTCCAT
Statistics
Matches: 102, Mismatches: 11, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
132 98 0.96
133 4 0.04
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Consensus pattern (132 bp):
TTTAAAAATTCTTTAAAACGAAGAAAAGATTCGATATTTGACAATTCGCGGAAAAGTACCCTAAC
GTGTTGGGTTACAATTTCGCGTTTGCTCAAAATAATCAAATATCCCTTCAAACTTTCACTCATGC
CT
Found at i:113769849 original size:133 final size:131
Alignment explanation
Indices: 113769358--113769852 Score: 443
Period size: 133 Copynumber: 3.7 Consensus size: 131
113769348 GAAGACGAGA
* * ** * * *
113769358 TTCGATATTTGGCAATTCGCGGAAAAGTGCCCTAACGTGTTGGGTTACAATTTCGCGTTTGCTCG
1 TTCGATGTTTGACAATTCG-GGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCTCGTTTGCTCA
* * * * *
113769423 AAATAATCGAATATCCCTTCAAACTTTCACTCATGCCTTTT-AAAAATTCTTTAAAACGAAGGAA
65 AAACAATCGAATATCCCTTCGAA-TTTCACTCATGTCTTTTAAAAAATCCTTTAAAACAAAGGAA
*
113769487 AAG
129 ATG
* * *
113769490 TTTGATATTTGACAATTCGCGGAATCGTACCCTAACGTGTTGGGTTGCAATTTCTCGTTTGCTCA
1 TTCGATGTTTGACAATTCG-GGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCTCGTTTGCTCA
* * * * * * * *
113769555 AAATAATCAAATATCCCTTCGAGATTCCATTCAGGTCTTCTAAAAAAATCCTCTAAAACAAAGGC
65 AAACAATCGAATATCCCTTCGA-ATTTCACTCATGTCTT-TTAAAAAATCCTTTAAAACAAAGGA
*
113769620 AATA
128 AATG
* * * * * * ** *
113769624 CTCGGTGTTTGACAATTCGGGAATCATGCCCTATCGTGCTAGGTTGTGATTTCTCGTTTGTTCAA
1 TTCGATGTTTGACAATTCGGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCTCGTTTGCTCAA
* * * ** * **
113769689 AACGATCGAATATTCCTTTAGGTTTTCACTCATGTCTTTTAAGAAAACCCTTTAAAACAAAGGTT
66 AACAATCGAATA-TCCCTTCGAATTTCACTCATGTCTTTTAA-AAAATCCTTTAAAACAAAGGAA
113769754 ATG
129 ATG
* * * * * * * *
113769757 TTCGATGTTTGGCAATTCGAGAGTCGTGCCCTATCGCGTTGGGATGCAATCTCTCGTTTGTTCAA
1 TTCGATGTTTGACAATTCGGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCTCGTTTGCTCAA
* *
113769822 AACAATCGAATATCTCTTTGGAATTTCACTC
66 AACAATCGAATATC-CCTTCGAATTTCACTC
113769853 GTATTTTCTA
Statistics
Matches: 291, Mismatches: 66, Indels: 11
0.79 0.18 0.03
Matches are distributed among these distances:
132 93 0.32
133 157 0.54
134 41 0.14
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.34
Consensus pattern (131 bp):
TTCGATGTTTGACAATTCGGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCTCGTTTGCTCAA
AACAATCGAATATCCCTTCGAATTTCACTCATGTCTTTTAAAAAATCCTTTAAAACAAAGGAAAT
G
Found at i:113771397 original size:19 final size:19
Alignment explanation
Indices: 113771373--113771419 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
113771363 CTTCCTTGCT
113771373 TTTGCATT-CATCCCATGCA
1 TTTGCATTGCATCCCAT-CA
**
113771392 TTTGCATTGCATTGCATCA
1 TTTGCATTGCATCCCATCA
113771411 TTTGCATTG
1 TTTGCATTG
113771420 AATTTCCCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 19 0.76
20 6 0.24
ACGTcount: A:0.19, C:0.23, G:0.15, T:0.43
Consensus pattern (19 bp):
TTTGCATTGCATCCCATCA
Found at i:113778121 original size:79 final size:80
Alignment explanation
Indices: 113777977--113778129 Score: 186
Period size: 79 Copynumber: 1.9 Consensus size: 80
113777967 AGCAATTGAA
* * * *
113777977 TGATATCCGGGCTAAGTCTCGAGGACATTTGTGCTAGTGACTACATCCGGGCTAAGACCCAAAGG
1 TGATATCCGGGCTAAGTCCCGAGGACAATTGTGCGAGTGACGACATCCGGGCTAAGACCCAAAGG
113778042 CATTTGTGCAAATTG
66 CATTTGTGCAAATTG
* * * *
113778057 TGATATCCGGGCTAAG-CCCGAAGG-CAATTGTGCGAGTTG-CGATATCCGGGTTAAGTCCCGAA
1 TGATATCCGGGCTAAGTCCCG-AGGACAATTGTGCGAG-TGACGACATCCGGGCTAAGACCCAAA
*
113778119 GGCCTTTGTGC
64 GGCATTTGTGC
113778130 GGGCTACCAT
Statistics
Matches: 62, Mismatches: 9, Indels: 5
0.82 0.12 0.07
Matches are distributed among these distances:
79 41 0.66
80 21 0.34
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (80 bp):
TGATATCCGGGCTAAGTCCCGAGGACAATTGTGCGAGTGACGACATCCGGGCTAAGACCCAAAGG
CATTTGTGCAAATTG
Found at i:113778130 original size:40 final size:40
Alignment explanation
Indices: 113777978--113778166 Score: 168
Period size: 40 Copynumber: 4.8 Consensus size: 40
113777968 GCAATTGAAT
* *
113777978 GATATCCGGGCTAAGTCTCG-AGGACATTTGTGCTAG-TGAC
1 GATATCCGGGCTAAGTCCCGAAGG-CATTTGTGCGAGTTG-C
* * * * * * *
113778018 TACATCCGGGCTAAGACCCAAAGGCATTTGTGCAAATTGT
1 GATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGC
*
113778058 GATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTGC
1 GATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGC
* * * * *
113778097 GATATCCGGGTTAAGTCCCGAAGGCCTTTGTGCGGGCTAC
1 GATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGC
* * * *
113778137 CATAACCGGGCTATGTCCCGAAGGCGTTTG
1 GATATCCGGGCTAAGTCCCGAAGGCATTTG
113778167 AACGATCAGC
Statistics
Matches: 120, Mismatches: 26, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
39 33 0.28
40 82 0.68
41 5 0.04
ACGTcount: A:0.23, C:0.23, G:0.30, T:0.24
Consensus pattern (40 bp):
GATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGC
Found at i:113781786 original size:20 final size:20
Alignment explanation
Indices: 113781761--113781803 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
113781751 TTGGAAAATA
113781761 CTTTCATTGCGAAAGCTTTG
1 CTTTCATTGCGAAAGCTTTG
*
113781781 CTTTCATTGCGGAAGCTTTG
1 CTTTCATTGCGAAAGCTTTG
113781801 CTT
1 CTT
113781804 GTTGTCATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.16, C:0.21, G:0.21, T:0.42
Consensus pattern (20 bp):
CTTTCATTGCGAAAGCTTTG
Found at i:113782430 original size:27 final size:27
Alignment explanation
Indices: 113782388--113782520 Score: 173
Period size: 27 Copynumber: 5.0 Consensus size: 27
113782378 GTCACCAAAT
*
113782388 ACAGATAT-TGTGGCAGAGCCACTAGA
1 ACAGATATATGTGGCAGAGCCACCAGA
113782414 ACAGATATATGTGGCAGAGCCACCAGA
1 ACAGATATATGTGGCAGAGCCACCAGA
* * *
113782441 TCAGATA-ATTGTGGCATAGCCACCAGG
1 ACAGATATA-TGTGGCAGAGCCACCAGA
113782468 ACAGATATATGTGGCAGAGCCACCAGA
1 ACAGATATATGTGGCAGAGCCACCAGA
* *
113782495 TCAGATA-ATTGTGGCATAGCCACCAG
1 ACAGATATA-TGTGGCAGAGCCACCAG
113782521 GACGCTTCCT
Statistics
Matches: 94, Mismatches: 9, Indels: 7
0.85 0.08 0.06
Matches are distributed among these distances:
26 10 0.11
27 83 0.88
28 1 0.01
ACGTcount: A:0.34, C:0.22, G:0.26, T:0.19
Consensus pattern (27 bp):
ACAGATATATGTGGCAGAGCCACCAGA
Found at i:113782521 original size:54 final size:54
Alignment explanation
Indices: 113782380--113782523 Score: 236
Period size: 54 Copynumber: 2.7 Consensus size: 54
113782370 GTGACGAAGT
* * * *
113782380 CACCAAATACAGAT-ATTGTGGCAGAGCCACTAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
113782434 CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
113782488 CACCAGATCAGATAATTGTGGCATAGCCACCAGGAC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGAC
113782524 GCTTCCTCTA
Statistics
Matches: 85, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
53 5 0.06
54 80 0.94
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
Found at i:113786251 original size:49 final size:48
Alignment explanation
Indices: 113786192--113786398 Score: 167
Period size: 49 Copynumber: 4.4 Consensus size: 48
113786182 GATGCCATCT
* *
113786192 CAGACAGGTCTTACACTGACTTTCATATATCGAGGCCGATGTCGTGTCC
1 CAGACAGGTCTTACACTGACTTTCATATAT-GAGGCCGATGCCATGTCC
* * * * * * *
113786241 CAGACAGGTCTTATACTGGCTCTCATCTATTACTGTCGATGCCATGTCC
1 CAGACAGGTCTTACACTGACTTTCATATATGA-GGCCGATGCCATGTCC
* * * * *
113786290 CAGACAGGTCTTACACTGAC--ACAGA-AT-AAGCTGACGCCATGTCC
1 CAGACAGGTCTTACACTGACTTTCATATATGAGGCCGATGCCATGTCC
* *
113786334 TAGACAGGTCTTACACT-AGCTTGT-ATATCTCGAGGCCGATG-CATGTCC
1 CAGACAGGTCTTACACTGA-CTT-TCATATAT-GAGGCCGATGCCATGTCC
*
113786382 CAGACATGTCTTACACT
1 CAGACAGGTCTTACACT
113786399 AGCTCTCGTC
Statistics
Matches: 123, Mismatches: 27, Indels: 17
0.74 0.16 0.10
Matches are distributed among these distances:
43 1 0.01
44 29 0.24
45 1 0.01
46 4 0.03
47 3 0.02
48 23 0.19
49 62 0.50
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.28
Consensus pattern (48 bp):
CAGACAGGTCTTACACTGACTTTCATATATGAGGCCGATGCCATGTCC
Found at i:113786393 original size:48 final size:48
Alignment explanation
Indices: 113786327--113786495 Score: 193
Period size: 48 Copynumber: 3.6 Consensus size: 48
113786317 AAGCTGACGC
* * *
113786327 CATGTCCTAGACAGGTCTTACACTAGCTTGTATATCTCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCAAGGCCGATG
* ** *
113786375 CATGTCCCAGACATGTCTTACACTAGC-TCT-CGTCTCAATGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCAAGGCCGATG
* * * *
113786421 CATGTACCAGACATGTCTTTA-ACTGGCTGGTATATCTCAAGGCTGATG
1 CATGTCCCAGACATGTC-TTACACTAGCTTGTATATCTCAAGGCCGATG
113786469 CAT-TACCCAGACATGTCTTACACTAGC
1 CATGT-CCCAGACATGTCTTACACTAGC
113786496 ACACATATCA
Statistics
Matches: 99, Mismatches: 17, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
46 33 0.33
47 10 0.10
48 56 0.57
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.29
Consensus pattern (48 bp):
CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCAAGGCCGATG
Found at i:113787171 original size:20 final size:20
Alignment explanation
Indices: 113787146--113787184 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
113787136 AAAATTTCAA
113787146 TTATTTCAC-ACATTTACAAC
1 TTATTTCACAAC-TTTACAAC
*
113787166 TTATTTTACAACTTTACAA
1 TTATTTCACAACTTTACAA
113787185 AATGGTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.36, C:0.21, G:0.00, T:0.44
Consensus pattern (20 bp):
TTATTTCACAACTTTACAAC
Found at i:113789553 original size:15 final size:15
Alignment explanation
Indices: 113789533--113789561 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
113789523 CACAAGAGAA
113789533 ACAGATTACAGATTC
1 ACAGATTACAGATTC
113789548 ACAGATTACAGATT
1 ACAGATTACAGATT
113789562 TTTTTAAAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (15 bp):
ACAGATTACAGATTC
Found at i:113790302 original size:27 final size:27
Alignment explanation
Indices: 113790269--113790321 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
113790259 TTAATCCTTT
*
113790269 TTATATATTTAATTTATTT-TAAATACC
1 TTATATATAT-ATTTATTTATAAATACC
*
113790296 TTATATATATATTTTTTTATAAATAC
1 TTATATATATATTTATTTATAAATAC
113790322 TAGTTATATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 7 0.30
27 16 0.70
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.57
Consensus pattern (27 bp):
TTATATATATATTTATTTATAAATACC
Found at i:113790912 original size:15 final size:16
Alignment explanation
Indices: 113790892--113790921 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
113790882 TGCTTAATGT
113790892 TTTTATTTT-TTTTTG
1 TTTTATTTTGTTTTTG
113790907 TTTTATTTTGTTTTT
1 TTTTATTTTGTTTTT
113790922 ATCCCTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.07, C:0.00, G:0.07, T:0.87
Consensus pattern (16 bp):
TTTTATTTTGTTTTTG
Found at i:113794250 original size:48 final size:47
Alignment explanation
Indices: 113794176--113794306 Score: 190
Period size: 48 Copynumber: 2.7 Consensus size: 47
113794166 CACACAACAA
* * *
113794176 GCTGATGCCATGTCCCAGAAAAGTCTTACACTAGCTTGTATATCTCGAG
1 GCTGATG-CAT-TCCCAGACATGTCTTACACTAGCTGGTATATCTCGAG
*
113794225 GCTGATGCATATCCCAGACATGTCTTACACTGGCTGGTATATCTCGAG
1 GCTGATGCAT-TCCCAGACATGTCTTACACTAGCTGGTATATCTCGAG
113794273 GCTGATGCATTACCCAGACATGTCTTACACTAGC
1 GCTGATGCATT-CCCAGACATGTCTTACACTAGC
113794307 ACACATATCA
Statistics
Matches: 75, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
47 1 0.01
48 67 0.89
49 7 0.09
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.28
Consensus pattern (47 bp):
GCTGATGCATTCCCAGACATGTCTTACACTAGCTGGTATATCTCGAG
Found at i:113794315 original size:48 final size:48
Alignment explanation
Indices: 113794144--113794315 Score: 149
Period size: 48 Copynumber: 3.7 Consensus size: 48
113794134 CAATCCCATG
* * * *
113794144 TCCCAGACAGGTCTTACACTAACACACA-A---C-AAGCTGATGCCATG
1 TCCCAGACATGTCTTACACTAGCACACATATCTCGAGGCTGATG-CATA
* * ****
113794188 TCCCAGAAAAGTCTTACACTAGCTTGTATATCTCGAGGCTGATGCATA
1 TCCCAGACATGTCTTACACTAGCACACATATCTCGAGGCTGATGCATA
* ****
113794236 TCCCAGACATGTCTTACACTGGCTGGTATATCTCGAGGCTGATGCAT-
1 TCCCAGACATGTCTTACACTAGCACACATATCTCGAGGCTGATGCATA
113794283 TACCCAGACATGTCTTACACTAGCACACATATC
1 T-CCCAGACATGTCTTACACTAGCACACATATC
113794316 ACCCAATGCC
Statistics
Matches: 104, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
44 21 0.20
45 1 0.01
47 1 0.01
48 73 0.70
49 8 0.08
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.26
Consensus pattern (48 bp):
TCCCAGACATGTCTTACACTAGCACACATATCTCGAGGCTGATGCATA
Found at i:113794954 original size:20 final size:20
Alignment explanation
Indices: 113794929--113794967 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
113794919 AAAATTTCAA
113794929 TTATTTCAC-ACATTTACAAC
1 TTATTTCACAAC-TTTACAAC
*
113794949 TTATTTTACAACTTTACAA
1 TTATTTCACAACTTTACAA
113794968 AATGGCCCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.36, C:0.21, G:0.00, T:0.44
Consensus pattern (20 bp):
TTATTTCACAACTTTACAAC
Found at i:113796567 original size:27 final size:27
Alignment explanation
Indices: 113796511--113796617 Score: 119
Period size: 27 Copynumber: 4.0 Consensus size: 27
113796501 ATACTTATAA
* *
113796511 TGGCAAACCCCAA-TCACTAAACCAAC
1 TGGCAAACCCCAACTCGCCAAACCAAC
*
113796537 TGGCAAACCCCAGCTCGCCAAACCAAC
1 TGGCAAACCCCAACTCGCCAAACCAAC
** *
113796564 TGGCGTACCCCAACTAGCCAAACCAAC
1 TGGCAAACCCCAACTCGCCAAACCAAC
* *
113796591 TAGCGAAA-CCCAACTTGCCAAACCAAC
1 TGGC-AAACCCCAACTCGCCAAACCAAC
113796618 CGACGAACCC
Statistics
Matches: 68, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
26 12 0.18
27 55 0.81
28 1 0.01
ACGTcount: A:0.37, C:0.40, G:0.12, T:0.10
Consensus pattern (27 bp):
TGGCAAACCCCAACTCGCCAAACCAAC
Found at i:113796591 original size:13 final size:13
Alignment explanation
Indices: 113796573--113796617 Score: 63
Period size: 13 Copynumber: 3.4 Consensus size: 13
113796563 CTGGCGTACC
113796573 CCAACTAGCCAAA
1 CCAACTAGCCAAA
*
113796586 CCAACTAGCGAAA
1 CCAACTAGCCAAA
*
113796599 CCCAACTTGCCAAA
1 -CCAACTAGCCAAA
113796613 CCAAC
1 CCAAC
113796618 CGACGAACCC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
13 17 0.61
14 11 0.39
ACGTcount: A:0.42, C:0.40, G:0.09, T:0.09
Consensus pattern (13 bp):
CCAACTAGCCAAA
Found at i:113796605 original size:14 final size:14
Alignment explanation
Indices: 113796572--113796614 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
113796562 ACTGGCGTAC
113796572 CCCAACTAGCCAAA
1 CCCAACTAGCCAAA
*
113796586 -CCAACTAGCGAAA
1 CCCAACTAGCCAAA
*
113796599 CCCAACTTGCCAAA
1 CCCAACTAGCCAAA
113796613 CC
1 CC
113796615 AACCGACGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
13 12 0.48
14 13 0.52
ACGTcount: A:0.40, C:0.42, G:0.09, T:0.09
Consensus pattern (14 bp):
CCCAACTAGCCAAA
Found at i:113796638 original size:27 final size:27
Alignment explanation
Indices: 113796516--113796638 Score: 88
Period size: 27 Copynumber: 4.6 Consensus size: 27
113796506 TATAATGGCA
* * * * *
113796516 AACCCCAA-TCACTAAACCAACTGGCA
1 AACCCCAACTCGCCAAACCAACCGACG
* * *
113796542 AACCCCAGCTCGCCAAACCAACTGGCG
1 AACCCCAACTCGCCAAACCAACCGACG
* * *
113796569 TACCCCAACTAGCCAAACCAA-CTAGCG
1 AACCCCAACTCGCCAAACCAACCGA-CG
* *
113796596 AAACCCAACTTGCCAAACCAACCGACG
1 AACCCCAACTCGCCAAACCAACCGACG
* *
113796623 AACCCCAGCTCTCCAA
1 AACCCCAACTCGCCAA
113796639 TTCGCCAAAC
Statistics
Matches: 76, Mismatches: 18, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
26 7 0.09
27 67 0.88
28 2 0.03
ACGTcount: A:0.37, C:0.42, G:0.11, T:0.10
Consensus pattern (27 bp):
AACCCCAACTCGCCAAACCAACCGACG
Found at i:113797257 original size:17 final size:18
Alignment explanation
Indices: 113797232--113797265 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
113797222 ATTGATTTTA
113797232 TGTTAGTAAA-TAATTAT
1 TGTTAGTAAATTAATTAT
*
113797249 TGTTGGTAAATTAATTA
1 TGTTAGTAAATTAATTA
113797266 AGTTATCTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.47
Consensus pattern (18 bp):
TGTTAGTAAATTAATTAT
Found at i:113801380 original size:22 final size:23
Alignment explanation
Indices: 113801325--113801381 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 23
113801315 CAAAGAATAA
* *
113801325 AAAACTAAAATAAACCTAAAGCCT
1 AAAACTAGAA-AAACCTAAAGACT
**
113801349 AAAAAGAGAAAAA-CTAAAGACT
1 AAAACTAGAAAAACCTAAAGACT
113801371 AAAACTAGAAA
1 AAAACTAGAAA
113801382 GAAAATTATA
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
22 17 0.63
23 3 0.11
24 7 0.26
ACGTcount: A:0.65, C:0.14, G:0.09, T:0.12
Consensus pattern (23 bp):
AAAACTAGAAAAACCTAAAGACT
Found at i:113801645 original size:21 final size:21
Alignment explanation
Indices: 113801603--113801647 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
113801593 AATATACTCT
* *
113801603 ATCTTCAAGGTATGTTGCGAC
1 ATCTTCAAGCTATGTGGCGAC
* *
113801624 ATCTTCAAGCTGTGTGGTGAC
1 ATCTTCAAGCTATGTGGCGAC
113801645 ATC
1 ATC
113801648 AAAGGCAGTC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.22, C:0.20, G:0.24, T:0.33
Consensus pattern (21 bp):
ATCTTCAAGCTATGTGGCGAC
Found at i:113808695 original size:27 final size:27
Alignment explanation
Indices: 113808664--113808719 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
113808654 GAACAGAACT
113808664 CTTGTATAGATTCTCTATAAATAGGAA
1 CTTGTATAGATTCTCTATAAATAGGAA
*
113808691 CTTGTATTGATTCTCTATAAATAGGAA
1 CTTGTATAGATTCTCTATAAATAGGAA
113808718 CT
1 CT
113808720 ATGTGTTGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.34, C:0.12, G:0.14, T:0.39
Consensus pattern (27 bp):
CTTGTATAGATTCTCTATAAATAGGAA
Found at i:113810534 original size:40 final size:40
Alignment explanation
Indices: 113810468--113810634 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
113810458 AAATTGAATG
* * *
113810468 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
113810507 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
113810547 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
113810587 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
113810627 ATATCCGG
1 ATATCCGG
113810635 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:113818541 original size:40 final size:40
Alignment explanation
Indices: 113818475--113818641 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
113818465 AAATTGAATG
* * *
113818475 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
113818514 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
113818554 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
113818594 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
113818634 ATATCCGG
1 ATATCCGG
113818642 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:113823119 original size:6 final size:6
Alignment explanation
Indices: 113823108--113823144 Score: 74
Period size: 6 Copynumber: 6.2 Consensus size: 6
113823098 TGGTCGAGAA
113823108 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT G
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT G
113823145 TGGAGGAGCC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.49, C:0.00, G:0.35, T:0.16
Consensus pattern (6 bp):
GAAGAT
Found at i:113827694 original size:28 final size:28
Alignment explanation
Indices: 113827663--113827718 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
113827653 TACTCAATGC
* *
113827663 CTCGCACACTAAGTGCCATACTCGATAT
1 CTCGCAAACTAAGTGCCACACTCGATAT
*
113827691 CTCGCAAACTAAGTGCCACACTTGATAT
1 CTCGCAAACTAAGTGCCACACTCGATAT
113827719 GTGACAGCCC
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:0.30, C:0.30, G:0.14, T:0.25
Consensus pattern (28 bp):
CTCGCAAACTAAGTGCCACACTCGATAT
Found at i:113829565 original size:40 final size:40
Alignment explanation
Indices: 113829491--113829636 Score: 175
Period size: 40 Copynumber: 3.6 Consensus size: 40
113829481 CCGCACCAAG
* * * * * *
113829491 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* *
113829531 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* * * *
113829571 GCCTTCGGGTCTTAGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
*
113829611 GCCTTCGGGTCTTAACCCGGATATAA
1 GCCTTCGGGTCTTAGCCCGGATATAA
113829637 TTTTCAGCAT
Statistics
Matches: 90, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 90 1.00
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
Found at i:113829651 original size:40 final size:40
Alignment explanation
Indices: 113829523--113829674 Score: 164
Period size: 40 Copynumber: 3.8 Consensus size: 40
113829513 ATCACGATTT
* * * * *
113829523 GCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACAACTT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
113829563 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
* * **
113829603 GCACAATTGCCTTCGGGTCTTAACCCGGATATA-ATTTTCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACT-A
* * *
113829643 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
113829675 CATTCAATTT
Statistics
Matches: 97, Mismatches: 12, Indels: 6
0.84 0.10 0.05
Matches are distributed among these distances:
39 4 0.04
40 91 0.94
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.29
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
Found at i:113834607 original size:56 final size:55
Alignment explanation
Indices: 113834498--113834608 Score: 125
Period size: 56 Copynumber: 2.0 Consensus size: 55
113834488 GACTAGCATT
** *
113834498 AAAGAAAAAAAAAATTGTTCATCCATTCTAAACACTTTGGCCGAATGTCCTAAGG
1 AAAGAAAAAAAAAATTGTTCATCCATTCTAAACACTTTGGCCGAAAATACTAAGG
* * * * *
113834553 AAAGAAAAGAAAAATTTGTTCATCCTTTCTCATC-TTCTTGGCCGAAAATACTAAGG
1 AAAGAAAA-AAAAAATTGTTCATCCATTCTAAACACT-TTGGCCGAAAATACTAAGG
113834609 GAAAAGGGGA
Statistics
Matches: 46, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
55 9 0.20
56 37 0.80
ACGTcount: A:0.40, C:0.18, G:0.14, T:0.28
Consensus pattern (55 bp):
AAAGAAAAAAAAAATTGTTCATCCATTCTAAACACTTTGGCCGAAAATACTAAGG
Found at i:113835906 original size:40 final size:37
Alignment explanation
Indices: 113835804--113835952 Score: 156
Period size: 40 Copynumber: 3.9 Consensus size: 37
113835794 AAATTGAATG
* * * *
113835804 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCT---AGTT
*
113835844 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGT---T
*
113835884 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTT
* *
113835921 TTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
113835953 ACGTGATTAT
Statistics
Matches: 95, Mismatches: 9, Indels: 13
0.81 0.08 0.11
Matches are distributed among these distances:
37 30 0.32
38 2 0.02
39 3 0.03
40 60 0.63
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.23
Consensus pattern (37 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTT
Found at i:113840154 original size:39 final size:40
Alignment explanation
Indices: 113839976--113840158 Score: 181
Period size: 40 Copynumber: 4.6 Consensus size: 40
113839966 CCGCACCAAG
* * * * * * * *
113839976 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
* * *
113840016 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAA-T
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCAC-AATT
*
113840056 GCCTTCGGGTCTTAGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
* * * *
113840096 GCCTTCGGGTCTTAACCCGGATATAATTTC-AGCATAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
* *
113840135 GTCTTCGGGGCTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
113840159 CATTCAATTT
Statistics
Matches: 122, Mismatches: 19, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
39 31 0.25
40 89 0.73
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
Found at i:113842425 original size:40 final size:40
Alignment explanation
Indices: 113842369--113842617 Score: 244
Period size: 40 Copynumber: 6.2 Consensus size: 40
113842359 CAATTGAATG
* *
113842369 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTG-CTT
**
113842410 -TATCCGGGCTAAGACCCGAAGGC-ATTCGTGTAAGTTG-TT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAG-TGCTT
* * *
113842449 ATATCCGGGCTAATACCCGATGGCATTTGTGCGAGT-CGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGC-TT
*
113842489 ATATCCGGGACTAAGACCCGAAGGC-ATTCGTGCAAGTTG-TT
1 ATATCCGGG-CTAAGACCCGAAGGCAATT-GTGCGAG-TGCTT
* * *
113842530 ATATCCGGGCTAATACCCGATGGCATTTGTGCGAGT-CGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGC-TT
* *
113842570 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTGCTT
113842610 ATATCCGG
1 ATATCCGG
113842618 TTGTATCCGA
Statistics
Matches: 172, Mismatches: 21, Indels: 31
0.77 0.09 0.14
Matches are distributed among these distances:
39 9 0.05
40 126 0.73
41 36 0.21
42 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGCTT
Found at i:113842528 original size:81 final size:80
Alignment explanation
Indices: 113842369--113842617 Score: 376
Period size: 81 Copynumber: 3.1 Consensus size: 80
113842359 CAATTGAATG
* * * * *
113842369 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGT-GACTT-TATCCGGGCTAAGACCCGAAGG
1 ATATCCGGGCTAATACCCGATGGCATTTGTGCGAGTCG--TTATATCCGGGCTAAGACCCGAAGG
*
113842432 CATTCGTGTAAGTTGTT
64 CATTCGTGCAAGTTGTT
113842449 ATATCCGGGCTAATACCCGATGGCATTTGTGCGAGTCGTTATATCCGGGACTAAGACCCGAAGGC
1 ATATCCGGGCTAATACCCGATGGCATTTGTGCGAGTCGTTATATCCGGG-CTAAGACCCGAAGGC
113842514 ATTCGTGCAAGTTGTT
65 ATTCGTGCAAGTTGTT
113842530 ATATCCGGGCTAATACCCGATGGCATTTGTGCGAGTCGTTATATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAATACCCGATGGCATTTGTGCGAGTCGTTATATCCGGGCTAAGACCCGAAGGCA
** *
113842595 TTCGTGCGTGTGGTT
66 TTCGTGCAAGTTGTT
113842610 ATATCCGG
1 ATATCCGG
113842618 TTGTATCCGA
Statistics
Matches: 157, Mismatches: 9, Indels: 6
0.91 0.05 0.03
Matches are distributed among these distances:
79 2 0.01
80 75 0.48
81 80 0.51
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (80 bp):
ATATCCGGGCTAATACCCGATGGCATTTGTGCGAGTCGTTATATCCGGGCTAAGACCCGAAGGCA
TTCGTGCAAGTTGTT
Found at i:113842595 original size:121 final size:119
Alignment explanation
Indices: 113842369--113842617 Score: 322
Period size: 121 Copynumber: 2.1 Consensus size: 119
113842359 CAATTGAATG
* *
113842369 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTTTATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGA-TTTATCCGGGCTAAGACCCGAAGGCA
* * * * *
113842434 TTCGTGTAAGTTGTTATATCCGGGCTAATACCCGATGGCATTTGTGCGAGTCGTT
65 TTCGTGCAAGTCGTTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCGTT
* *
113842489 ATATCCGGGACTAAGACCCGAAGGC-ATTCGTGCAAGTTG-TTATATCCGGGCTAATACCCGATG
1 ATATCCGGG-CTAAGACCCGAAGGCAATT-GTGCAAG-TGATT-TATCCGGGCTAAGACCCGAAG
* * * *
113842552 GCATTTGTGCGAGTCGTTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGTGTGGTT
62 GCATTCGTGCAAGTCGTTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCGTT
113842610 ATATCCGG
1 ATATCCGG
113842618 TTGTATCCGA
Statistics
Matches: 112, Mismatches: 13, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
120 14 0.12
121 96 0.86
122 2 0.02
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (119 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGATTTATCCGGGCTAAGACCCGAAGGCAT
TCGTGCAAGTCGTTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCGTT
Found at i:113844067 original size:39 final size:40
Alignment explanation
Indices: 113843999--113844092 Score: 127
Period size: 39 Copynumber: 2.4 Consensus size: 40
113843989 ATGATATCTT
* * * *
113843999 GCACACTAACTGCCGTACATAGCCGAAGCTATCTCCAATC
1 GCACACTAAGTGCCATACATAGCCAAAGCTAACTCCAATC
* *
113844039 GCACACTAAGTGCCATA-ATAGCCAAAGCTAAGTCGAATC
1 GCACACTAAGTGCCATACATAGCCAAAGCTAACTCCAATC
113844078 GCACACTAAGTGCCA
1 GCACACTAAGTGCCA
113844093 CAAATAACTG
Statistics
Matches: 48, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
39 33 0.69
40 15 0.31
ACGTcount: A:0.34, C:0.31, G:0.17, T:0.18
Consensus pattern (40 bp):
GCACACTAAGTGCCATACATAGCCAAAGCTAACTCCAATC
Found at i:113849487 original size:46 final size:46
Alignment explanation
Indices: 113849434--113849609 Score: 223
Period size: 46 Copynumber: 3.8 Consensus size: 46
113849424 TATTTGGGCA
113849434 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
113849480 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
113849527 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * *
113849573 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
113849610 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 66 0.59
47 33 0.30
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:113849589 original size:93 final size:93
Alignment explanation
Indices: 113849430--113849602 Score: 319
Period size: 93 Copynumber: 1.9 Consensus size: 93
113849420 GGGATATTTG
* *
113849430 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
113849495 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
113849523 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
113849588 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
113849603 CTTATGGGCG
Statistics
Matches: 77, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 77 1.00
ACGTcount: A:0.20, C:0.22, G:0.31, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:113852546 original size:15 final size:15
Alignment explanation
Indices: 113852526--113852588 Score: 80
Period size: 14 Copynumber: 4.4 Consensus size: 15
113852516 GTATCTTGGG
113852526 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
113852541 TTTC-TTATTCTGGA
1 TTTCTTTATTCTGGA
*
113852555 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
113852570 TTTCTTTATTC-GG-
1 TTTCTTTATTCTGGA
113852583 TTTCTT
1 TTTCTT
113852589 GTTATCTTTG
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
13 6 0.14
14 18 0.42
15 17 0.40
16 2 0.05
ACGTcount: A:0.11, C:0.16, G:0.13, T:0.60
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:113855034 original size:46 final size:46
Alignment explanation
Indices: 113854967--113855142 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
113854957 TATTTGGGCA
113854967 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
113855013 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
113855058 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
113855106 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
113855143 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:113855122 original size:93 final size:93
Alignment explanation
Indices: 113854963--113855135 Score: 319
Period size: 93 Copynumber: 1.9 Consensus size: 93
113854953 GGGATATTTG
* *
113854963 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
113855028 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
113855056 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
113855121 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
113855136 CTTATGGGCG
Statistics
Matches: 77, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 77 1.00
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:113860058 original size:20 final size:20
Alignment explanation
Indices: 113860035--113860096 Score: 72
Period size: 20 Copynumber: 3.1 Consensus size: 20
113860025 TTCATGTAAC
113860035 CAATAGTTCATCCGTATAAA
1 CAATAGTTCATCCGTATAAA
*
113860055 CAATAGTTCATCAGTA-ATAA
1 CAATAGTTCATCCGTATA-AA
* * *
113860075 CAGTAATTCATCCGTATCAA
1 CAATAGTTCATCCGTATAAA
113860095 CA
1 CA
113860097 CATATCTTAT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
19 1 0.03
20 34 0.97
ACGTcount: A:0.40, C:0.21, G:0.10, T:0.29
Consensus pattern (20 bp):
CAATAGTTCATCCGTATAAA
Found at i:113860298 original size:23 final size:23
Alignment explanation
Indices: 113860254--113860352 Score: 87
Period size: 23 Copynumber: 4.3 Consensus size: 23
113860244 AAGCTACTCC
*
113860254 TGAGCTGATGAACAATAAGCTCTAT
1 TGAGCTGA--AACGATAAGCTCTAT
113860279 TGAGCTGAAACGATAAGCTCTAT
1 TGAGCTGAAACGATAAGCTCTAT
*
113860302 CGAGCT-AAAC-AGTAAGCTC-AT
1 TGAGCTGAAACGA-TAAGCTCTAT
* * * *
113860323 ACGAGCTAAAACGGTAAGCTCTAA
1 -TGAGCTGAAACGATAAGCTCTAT
113860347 TGAGCT
1 TGAGCT
113860353 AAAAATAGTA
Statistics
Matches: 64, Mismatches: 5, Indels: 12
0.79 0.06 0.15
Matches are distributed among these distances:
21 3 0.05
22 17 0.27
23 35 0.55
24 1 0.02
25 8 0.12
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.23
Consensus pattern (23 bp):
TGAGCTGAAACGATAAGCTCTAT
Found at i:113860317 original size:22 final size:23
Alignment explanation
Indices: 113860264--113860367 Score: 99
Period size: 23 Copynumber: 4.5 Consensus size: 23
113860254 TGAGCTGATG
* * *
113860264 AACAATAAGCTCTATTGAGCTGA
1 AACAGTAAGCTCTATCGAGCTAA
113860287 AAC-GATAAGCTCTATCGAGCT-A
1 AACAG-TAAGCTCTATCGAGCTAA
113860309 AACAGTAAGCTC-ATACGAGCTAA
1 AACAGTAAGCTCTAT-CGAGCTAA
*
113860332 AACGGTAAGCTCTAAT-GAGCTAAA
1 AACAGTAAGCTCT-ATCGAGCT-AA
*
113860356 AATAGTAAGCTC
1 AACAGTAAGCTC
113860368 GTGAGTTTGC
Statistics
Matches: 69, Mismatches: 5, Indels: 13
0.79 0.06 0.15
Matches are distributed among these distances:
21 2 0.03
22 17 0.25
23 36 0.52
24 12 0.17
25 2 0.03
ACGTcount: A:0.40, C:0.19, G:0.18, T:0.22
Consensus pattern (23 bp):
AACAGTAAGCTCTATCGAGCTAA
Found at i:113860319 original size:45 final size:45
Alignment explanation
Indices: 113860264--113860359 Score: 117
Period size: 45 Copynumber: 2.2 Consensus size: 45
113860254 TGAGCTGATG
* *
113860264 AACAATAAGCTC-TATTGAGCTGAAACGATAAGCTCT-ATCGAGCTA
1 AACAATAAGCTCATA-CGAGCTAAAACGATAAGCTCTAAT-GAGCTA
* *
113860309 AACAGTAAGCTCATACGAGCTAAAACGGTAAGCTCTAATGAGCTA
1 AACAATAAGCTCATACGAGCTAAAACGATAAGCTCTAATGAGCTA
113860354 AA-AATA
1 AACAATA
113860360 GTAAGCTCGT
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
44 3 0.07
45 37 0.84
46 4 0.09
ACGTcount: A:0.42, C:0.19, G:0.18, T:0.22
Consensus pattern (45 bp):
AACAATAAGCTCATACGAGCTAAAACGATAAGCTCTAATGAGCTA
Found at i:113860531 original size:23 final size:24
Alignment explanation
Indices: 113860498--113860553 Score: 66
Period size: 23 Copynumber: 2.5 Consensus size: 24
113860488 ACATTTTATT
*
113860498 ATCA-ATA-ATTCAATT-TATCAA
1 ATCATATACATTCAATTCAATCAA
*
113860519 ATCATATACATTCAATTCAATTAA
1 ATCATATACATTCAATTCAATCAA
113860543 AT-ATATACATT
1 ATCATATACATT
113860554 TAAATACTCA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
21 4 0.13
22 3 0.10
23 17 0.57
24 6 0.20
ACGTcount: A:0.46, C:0.14, G:0.00, T:0.39
Consensus pattern (24 bp):
ATCATATACATTCAATTCAATCAA
Found at i:113865742 original size:13 final size:13
Alignment explanation
Indices: 113865726--113865758 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
113865716 TTTAATAAAA
*
113865726 TTAGTTAATTAGT
1 TTAGATAATTAGT
113865739 TTAGATAATTAGT
1 TTAGATAATTAGT
113865752 TTA-ATAA
1 TTAGATAA
113865759 ACAAACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:113870786 original size:58 final size:58
Alignment explanation
Indices: 113870696--113870813 Score: 227
Period size: 58 Copynumber: 2.0 Consensus size: 58
113870686 ACAAGAGAGC
113870696 TACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATG
1 TACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATG
*
113870754 TACGTGAGAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATG
1 TACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATG
113870812 TA
1 TA
113870814 GACAAGAGAG
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 59 1.00
ACGTcount: A:0.32, C:0.17, G:0.28, T:0.23
Consensus pattern (58 bp):
TACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATG
Found at i:113879228 original size:93 final size:93
Alignment explanation
Indices: 113879116--113879287 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
113879106 GCCCATAAGT
* *
113879116 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
113879181 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
113879209 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
113879274 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
113879288 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:113879283 original size:46 final size:46
Alignment explanation
Indices: 113879108--113879283 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
113879098 TGTAACCCGC
* * *
113879108 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
113879154 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
113879204 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
113879247 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
113879284 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:113880995 original size:30 final size:30
Alignment explanation
Indices: 113880951--113881039 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
113880941 CAAAGATAAC
113880951 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
113880980 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
113881010 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
113881040 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:113880999 original size:15 final size:15
Alignment explanation
Indices: 113880951--113881030 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
113880941 CAAAGATAAC
*
113880951 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
113880965 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
113880980 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
113880995 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
113881010 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
113881025 AAGAAA
1 AAGAAA
113881031 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:113881039 original size:15 final size:15
Alignment explanation
Indices: 113880962--113881039 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
113880952 AGAAAACCGA
113880962 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
113880977 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
113880991 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
113881006 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
113881022 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
113881037 ATA
1 ATA
113881040 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:113884146 original size:93 final size:93
Alignment explanation
Indices: 113883987--113884159 Score: 319
Period size: 93 Copynumber: 1.9 Consensus size: 93
113883977 CGCCCATAAG
* *
113883987 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
113884052 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
113884080 CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
113884145 ACGAGTTCGGATGCC
66 ACGAGTTCGGATGCC
113884160 CAAATATCCA
Statistics
Matches: 77, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 77 1.00
ACGTcount: A:0.27, C:0.31, G:0.22, T:0.20
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:113884155 original size:46 final size:46
Alignment explanation
Indices: 113883980--113884155 Score: 223
Period size: 46 Copynumber: 3.8 Consensus size: 46
113883970 TGTAACCCGC
* * *
113883980 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* * *
113884026 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
*
113884076 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
*
113884119 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
113884156 TGCCCAAATA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 67 0.60
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:113885262 original size:58 final size:58
Alignment explanation
Indices: 113885172--113885289 Score: 227
Period size: 58 Copynumber: 2.0 Consensus size: 58
113885162 ACAAGAGAGC
113885172 TACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATG
1 TACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATG
*
113885230 TACGTGAGAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATG
1 TACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATG
113885288 TA
1 TA
113885290 GACAAGAGAG
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 59 1.00
ACGTcount: A:0.32, C:0.17, G:0.28, T:0.23
Consensus pattern (58 bp):
TACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATG
Found at i:113888319 original size:6 final size:6
Alignment explanation
Indices: 113888308--113888387 Score: 83
Period size: 6 Copynumber: 13.5 Consensus size: 6
113888298 AATCCTCCTA
* * *
113888308 TTTTAT TTTTAT TTTTAT TTTTAT TATTAT TATTAT TATTT-T ATTTA-
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT T-TTTAT TTTTAT
* * *
113888355 TTTTAT TCTTAT TTTTCT TTTGAT TTTTAT TTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTT
113888388 CATGTCAATT
Statistics
Matches: 61, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
5 7 0.11
6 52 0.85
7 2 0.03
ACGTcount: A:0.19, C:0.03, G:0.01, T:0.78
Consensus pattern (6 bp):
TTTTAT
Found at i:113888340 original size:9 final size:9
Alignment explanation
Indices: 113888306--113888367 Score: 58
Period size: 9 Copynumber: 7.1 Consensus size: 9
113888296 TAAATCCTCC
113888306 TATT-TTAT
1 TATTATTAT
* *
113888314 TTTTATTTT
1 TATTATTAT
*
113888323 TATTTTTAT
1 TATTATTAT
113888332 TATTATTAT
1 TATTATTAT
113888341 TATTATT-T
1 TATTATTAT
113888349 TATTTATT-T
1 TA-TTATTAT
*
113888358 TATTCTTAT
1 TATTATTAT
113888367 T
1 T
113888368 TTTCTTTTGA
Statistics
Matches: 44, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
8 10 0.23
9 34 0.77
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.76
Consensus pattern (9 bp):
TATTATTAT
Found at i:113891293 original size:13 final size:13
Alignment explanation
Indices: 113891277--113891309 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
113891267 TTTAATTAAA
*
113891277 TTAGTTAATTAGT
1 TTAGATAATTAGT
113891290 TTAGATAATTAGT
1 TTAGATAATTAGT
113891303 TTA-ATAA
1 TTAGATAA
113891310 ACAAACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:113894782 original size:13 final size:13
Alignment explanation
Indices: 113894764--113894791 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
113894754 TAGTTTACCG
113894764 AAATTATTATAAT
1 AAATTATTATAAT
113894777 AAATTATTATAAT
1 AAATTATTATAAT
113894790 AA
1 AA
113894792 TGTTTTTGGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (13 bp):
AAATTATTATAAT
Found at i:113896806 original size:24 final size:25
Alignment explanation
Indices: 113896779--113896827 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
113896769 CTTTTTTTAT
*
113896779 TAAATAAAAAAC-TTTAAAATATAA
1 TAAATAAAAAACATTTAAAACATAA
* *
113896803 TAAATCAAATACATTTAAAACATAA
1 TAAATAAAAAACATTTAAAACATAA
113896828 AAACAAATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 10 0.48
25 11 0.52
ACGTcount: A:0.63, C:0.08, G:0.00, T:0.29
Consensus pattern (25 bp):
TAAATAAAAAACATTTAAAACATAA
Found at i:113896820 original size:25 final size:23
Alignment explanation
Indices: 113896791--113896836 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
113896781 AATAAAAAAC
*
113896791 TTTAAAATATAATAAATCAAATACA
1 TTTAAAACATAA-AAA-CAAATACA
113896816 TTTAAAACATAAAAACAAATA
1 TTTAAAACATAAAAACAAATA
113896837 TTAAAAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 3 0.15
25 11 0.55
ACGTcount: A:0.63, C:0.09, G:0.00, T:0.28
Consensus pattern (23 bp):
TTTAAAACATAAAAACAAATACA
Found at i:113900579 original size:35 final size:35
Alignment explanation
Indices: 113900540--113900610 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
113900530 GGGAATCAGG
*
113900540 CTGTAATGGTTATTTAATGGAATAGGTTTTACAAT
1 CTGTAATGGTTATTCAATGGAATAGGTTTTACAAT
113900575 CTGTAATGGTTATTCAATGGAATAGGTTTTACAAT
1 CTGTAATGGTTATTCAATGGAATAGGTTTTACAAT
113900610 C
1 C
113900611 AACCGAGCTC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.41
Consensus pattern (35 bp):
CTGTAATGGTTATTCAATGGAATAGGTTTTACAAT
Found at i:113900609 original size:17 final size:17
Alignment explanation
Indices: 113900555--113900609 Score: 60
Period size: 17 Copynumber: 3.2 Consensus size: 17
113900545 ATGGTTATTT
113900555 AATGGAATAGGTTTTAC
1 AATGGAATAGGTTTTAC
*
113900572 AATCTGTAAT-GGTTATT-C
1 AA--TGGAATAGGTT-TTAC
113900590 AATGGAATAGGTTTTAC
1 AATGGAATAGGTTTTAC
113900607 AAT
1 AAT
113900610 CAACCGAGCT
Statistics
Matches: 31, Mismatches: 2, Indels: 10
0.72 0.05 0.23
Matches are distributed among these distances:
16 7 0.23
17 10 0.32
18 7 0.23
19 7 0.23
ACGTcount: A:0.35, C:0.07, G:0.20, T:0.38
Consensus pattern (17 bp):
AATGGAATAGGTTTTAC
Found at i:113903113 original size:3 final size:3
Alignment explanation
Indices: 113903105--113903148 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
113903095 AAGAGCTTGA
113903105 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
113903149 GACATATGAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:113904360 original size:38 final size:35
Alignment explanation
Indices: 113904302--113904373 Score: 83
Period size: 36 Copynumber: 2.0 Consensus size: 35
113904292 GTTTAATTGA
* *
113904302 GTTTATTATATATATTAATAAATTTATATTTTAAATT
1 GTTTATTACATATATTAAT-AATTTAT-TTATAAATT
113904339 GTTT-TTACATATATTGCAATAATTTATTTATAAAT
1 GTTTATTACATATATT--AATAATTTATTTATAAAT
113904374 AAATCAAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
36 17 0.55
37 11 0.35
38 3 0.10
ACGTcount: A:0.39, C:0.03, G:0.04, T:0.54
Consensus pattern (35 bp):
GTTTATTACATATATTAATAATTTATTTATAAATT
Found at i:113912303 original size:27 final size:27
Alignment explanation
Indices: 113912198--113912296 Score: 119
Period size: 27 Copynumber: 3.7 Consensus size: 27
113912188 ACACGCTAGA
* * *
113912198 AAATAGAAGCCTTTGTGGTAACCTATG
1 AAATGGAAGCCTTTGTGGCAATCTATG
*
113912225 AAATGGAAACCTTTGTGGCAATCTATG
1 AAATGGAAGCCTTTGTGGCAATCTATG
* * *
113912252 AAATAGAAGCCTTTGTAGCGATCTAT-
1 AAATGGAAGCCTTTGTGGCAATCTATG
113912278 AAACTGGAAGCCTTTGTGG
1 AAA-TGGAAGCCTTTGTGG
113912297 TGATCTAAGG
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
26 3 0.05
27 58 0.95
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.29
Consensus pattern (27 bp):
AAATGGAAGCCTTTGTGGCAATCTATG
Found at i:113912974 original size:18 final size:20
Alignment explanation
Indices: 113912927--113912976 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
113912917 CATGTATTTA
113912927 ATATTAAATAGATATTTATT
1 ATATTAAATAGATATTTATT
*
113912947 AT-TTAGTAAAAGATATTTATT
1 ATATTA--AATAGATATTTATT
113912968 A-ATTAAATA
1 ATATTAAATA
113912977 ATTATATTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 7
0.74 0.06 0.21
Matches are distributed among these distances:
19 6 0.24
20 2 0.08
21 17 0.68
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.46
Consensus pattern (20 bp):
ATATTAAATAGATATTTATT
Found at i:113913128 original size:2 final size:2
Alignment explanation
Indices: 113913117--113913165 Score: 73
Period size: 2 Copynumber: 25.0 Consensus size: 2
113913107 ATTAAGTTAT
* *
113913117 TA TA TA -A TA TA TA TA TA CA TA CA 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
113913158 TA TA TA TA
1 TA TA TA TA
113913166 AAGTAAATAA
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
1 1 0.02
2 41 0.98
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (2 bp):
TA
Found at i:113913189 original size:10 final size:9
Alignment explanation
Indices: 113913174--113913208 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
113913164 TAAAGTAAAT
113913174 AAAGAAAGAA
1 AAAGAAAG-A
113913184 AAAGAAAGA
1 AAAGAAAGA
*
113913193 AAACAAAGA
1 AAAGAAAGA
113913202 AAAGAAA
1 AAAGAAA
113913209 CAGAATGCTC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 15 0.65
10 8 0.35
ACGTcount: A:0.80, C:0.03, G:0.17, T:0.00
Consensus pattern (9 bp):
AAAGAAAGA
Found at i:113914279 original size:6 final size:6
Alignment explanation
Indices: 113914264--113914304 Score: 55
Period size: 6 Copynumber: 6.8 Consensus size: 6
113914254 TTGTGTACCA
* * *
113914264 TACTGC TACTGT TACTGT TACTGT TACTAT TACCGT TACTG
1 TACTGT TACTGT TACTGT TACTGT TACTGT TACTGT TACTG
113914305 ACACGGTGTA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.20, C:0.22, G:0.15, T:0.44
Consensus pattern (6 bp):
TACTGT
Found at i:113914443 original size:18 final size:18
Alignment explanation
Indices: 113914416--113914514 Score: 85
Period size: 18 Copynumber: 5.6 Consensus size: 18
113914406 TAAATAAAAG
*
113914416 TACT-AATAATTGACTGC
1 TACTGAATAATTGACTGT
*
113914433 TACTGAATAATTAACTGT
1 TACTGAATAATTGACTGT
**
113914451 TACTGAATAAACGACTGT
1 TACTGAATAATTGACTGT
* * *
113914469 TACTGAATAAATGATTAT
1 TACTGAATAATTGACTGT
* * * *
113914487 TACTG-TTGACTGACTGA
1 TACTGAATAATTGACTGT
113914504 TACTGAATAAT
1 TACTGAATAAT
113914515 AAAGATTAAC
Statistics
Matches: 63, Mismatches: 17, Indels: 3
0.76 0.20 0.04
Matches are distributed among these distances:
17 15 0.24
18 48 0.76
ACGTcount: A:0.37, C:0.13, G:0.14, T:0.35
Consensus pattern (18 bp):
TACTGAATAATTGACTGT
Found at i:113915718 original size:27 final size:27
Alignment explanation
Indices: 113915688--113915749 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
113915678 TGGCAAACAC
* * ** *
113915688 TGAAGGGATAGTATGTATGGTGAACTT
1 TGAAGGAATAGTAAGTATAATGAACCT
*
113915715 TGAAGGAATGGTAAGTATAATGAACCT
1 TGAAGGAATAGTAAGTATAATGAACCT
113915742 TGAAGGAA
1 TGAAGGAA
113915750 AAGCCTTTAT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.37, C:0.05, G:0.31, T:0.27
Consensus pattern (27 bp):
TGAAGGAATAGTAAGTATAATGAACCT
Found at i:113919015 original size:12 final size:12
Alignment explanation
Indices: 113918986--113919022 Score: 51
Period size: 10 Copynumber: 3.2 Consensus size: 12
113918976 TAAAAATAGT
113918986 ATTAAAAAG-AA
1 ATTAAAAAGTAA
113918997 A-TAAAAAGTAA
1 ATTAAAAAGTAA
113919008 ATTAAAAAGATAA
1 ATTAAAAAG-TAA
113919021 AT
1 AT
113919023 AAATATAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
10 7 0.30
11 4 0.17
12 7 0.30
13 5 0.22
ACGTcount: A:0.70, C:0.00, G:0.08, T:0.22
Consensus pattern (12 bp):
ATTAAAAAGTAA
Found at i:113919036 original size:6 final size:6
Alignment explanation
Indices: 113918995--113919052 Score: 55
Period size: 6 Copynumber: 9.5 Consensus size: 6
113918985 TATTAAAAAG
* * * *
113918995 AAATAA AAAGT-A AATTAA AAAGAT AAATAA ATATAA AAATAA AAATAAA
1 AAATAA AAA-TAA AAATAA AAATAA AAATAA AAATAA AAATAA AAAT-AA
113919044 AAATAA AAA
1 AAATAA AAA
113919053 ATCTTCAAAA
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
5 1 0.02
6 33 0.80
7 7 0.17
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.19
Consensus pattern (6 bp):
AAATAA
Found at i:113919045 original size:7 final size:7
Alignment explanation
Indices: 113919010--113919054 Score: 56
Period size: 7 Copynumber: 6.1 Consensus size: 7
113919000 AAAAGTAAAT
113919010 TAAAAAGA
1 TAAAAA-A
113919018 TAAATAAA
1 TAAA-AAA
113919026 TATAAAAA
1 TA-AAAAA
113919034 T-AAAAA
1 TAAAAAA
113919040 TAAAAAA
1 TAAAAAA
113919047 TAAAAAA
1 TAAAAAA
113919054 T
1 T
113919055 CTTCAAAAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
6 6 0.18
7 13 0.38
8 11 0.32
9 4 0.12
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (7 bp):
TAAAAAA
Found at i:113932689 original size:27 final size:27
Alignment explanation
Indices: 113932659--113932731 Score: 128
Period size: 27 Copynumber: 2.7 Consensus size: 27
113932649 GCCTTTTTGC
113932659 TGAACTTTGAAAGAATAGCCATTGTGG
1 TGAACTTTGAAAGAATAGCCATTGTGG
*
113932686 TGAACTTTGAAAGAATAGCCTTTGTGG
1 TGAACTTTGAAAGAATAGCCATTGTGG
*
113932713 CGAACTTTGAAAGAATAGC
1 TGAACTTTGAAAGAATAGC
113932732 TTTCACAGCA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 44 1.00
ACGTcount: A:0.34, C:0.12, G:0.25, T:0.29
Consensus pattern (27 bp):
TGAACTTTGAAAGAATAGCCATTGTGG
Found at i:113932745 original size:27 final size:26
Alignment explanation
Indices: 113932688--113932776 Score: 88
Period size: 27 Copynumber: 3.3 Consensus size: 26
113932678 CATTGTGGTG
*** *
113932688 AACTTTGAAAGAATAGCCTTTGTGGCG
1 AACTTTGAAAGAATAG-CTTTACAGCA
113932715 AACTTTGAAAGAATAGCTTTCACAGCA
1 AACTTTGAAAGAATAGCTTT-ACAGCA
* **
113932742 AACTCTGAAAGAATAGCTTTTGAGGCA
1 AACTTTGAAAGAATAGCTTTACA-GCA
113932769 AACTTTGA
1 AACTTTGA
113932777 GTGAACTACC
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
26 5 0.10
27 47 0.90
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.28
Consensus pattern (26 bp):
AACTTTGAAAGAATAGCTTTACAGCA
Found at i:113937884 original size:36 final size:36
Alignment explanation
Indices: 113937837--113937965 Score: 129
Period size: 36 Copynumber: 3.6 Consensus size: 36
113937827 TTTAATACAT
* *
113937837 TGGCATTCTTAACATGCGAATCAGAATCAGAAATAA
1 TGGCATGCTTAACATGCGAATCAAAATCAGAAATAA
* * * * *
113937873 TGGCATTCTTAACATGCAAATGAAAATAAAAAATAA
1 TGGCATGCTTAACATGCGAATCAAAATCAGAAATAA
* * *
113937909 TGGCATGCTTAACATACGAGTCAAAATCAG--TTGAA
1 TGGCATGCTTAACATGCGAATCAAAATCAGAAAT-AA
*
113937944 TAGCA-GCTTAACATGCGAATCA
1 TGGCATGCTTAACATGCGAATCA
113937966 GAATATTAAC
Statistics
Matches: 76, Mismatches: 16, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
34 16 0.21
35 6 0.08
36 54 0.71
ACGTcount: A:0.43, C:0.16, G:0.16, T:0.25
Consensus pattern (36 bp):
TGGCATGCTTAACATGCGAATCAAAATCAGAAATAA
Found at i:113939716 original size:36 final size:36
Alignment explanation
Indices: 113939650--113939740 Score: 101
Period size: 36 Copynumber: 2.5 Consensus size: 36
113939640 AGTAACATAA
* * * * * *
113939650 TTAACAAGCAAATCAAAATTAGAAATAATGGCATGT
1 TTAACATGCGAATCAAAATAAAAAAAAATGGCATGC
* *
113939686 TTCACATGTGAATCAAAATAAAAAAAAATGGCATGC
1 TTAACATGCGAATCAAAATAAAAAAAAATGGCATGC
*
113939722 TTAACATGCGAGTCAAAAT
1 TTAACATGCGAATCAAAAT
113939741 CAGCTTAATA
Statistics
Matches: 44, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
36 44 1.00
ACGTcount: A:0.48, C:0.13, G:0.14, T:0.24
Consensus pattern (36 bp):
TTAACATGCGAATCAAAATAAAAAAAAATGGCATGC
Found at i:113945998 original size:10 final size:10
Alignment explanation
Indices: 113945983--113946008 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
113945973 AGTGTGATAG
113945983 GATCTCCGAC
1 GATCTCCGAC
113945993 GATCTCCGAC
1 GATCTCCGAC
113946003 GATCTC
1 GATCTC
113946009 TAACTCAAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.19, C:0.38, G:0.19, T:0.23
Consensus pattern (10 bp):
GATCTCCGAC
Found at i:113950220 original size:22 final size:22
Alignment explanation
Indices: 113950186--113950227 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
113950176 ATATACTCAG
* *
113950186 AATACTCAGAAAAGATCATTGT
1 AATACTAAAAAAAGATCATTGT
113950208 AATACTAAAAAAAGATCATT
1 AATACTAAAAAAAGATCATT
113950228 AAAATCTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.52, C:0.12, G:0.10, T:0.26
Consensus pattern (22 bp):
AATACTAAAAAAAGATCATTGT
Found at i:113950957 original size:37 final size:37
Alignment explanation
Indices: 113950902--113951002 Score: 112
Period size: 37 Copynumber: 2.7 Consensus size: 37
113950892 CGTTTACTTG
* * *
113950902 ATGCCATAGTCCAACTATGGTCTTACACAAAATCATA
1 ATGCCATAGCCCAGCTATGGTCTTACACAAAATCACA
**** * *
113950939 ATGCCATAGCCCAGCTATGGTCTTACATGTCATTACG
1 ATGCCATAGCCCAGCTATGGTCTTACACAAAATCACA
*
113950976 ATGCCATAGCCTAGCTATGGTCTTACA
1 ATGCCATAGCCCAGCTATGGTCTTACA
113951003 TTCCATACTT
Statistics
Matches: 54, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
37 54 1.00
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.29
Consensus pattern (37 bp):
ATGCCATAGCCCAGCTATGGTCTTACACAAAATCACA
Found at i:113953866 original size:48 final size:48
Alignment explanation
Indices: 113953792--113954306 Score: 746
Period size: 48 Copynumber: 10.6 Consensus size: 48
113953782 ACGATACCTC
113953792 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACG
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACG
* * *
113953840 ATACCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAAG
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACG
* * *
113953888 ATACCGAAGCCATGTCCCAAACATGGTCTTACACTGGCTCACATAACG
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACG
* * * *
113953936 ATGCTGATGCCATGCCCCAGACATGGCCTTACACTGGCTCACATAATG
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACG
*
113953984 ATGTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACG
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACG
* * *
113954032 ATGCCGAAGCCATGTCCCAAACATGGTCTTACACTGGGTCACATAACG
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACG
* *
113954080 ATGCCGATGCCATGTCCTAGACATGGTCTTACAC--GCTCACATAAGG
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACG
* * *
113954126 ATGCCTATGCCATGTCCCAGACATGGTCTTATACTGGCTTACATAACG
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACG
*
113954174 ATGCCGATGCCATGTCCCAGACATGGTCTTACATTGGCTCACATAACG
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACG
* *
113954222 ATGCCGATGCTGATGCCATGTCCTAGACATGGTCTTACACTAGCTCACATAACG
1 ATG-C----C-GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACG
* *
113954276 ATGCCGATGCAATGTCCCAGATATGGTCTTA
1 ATGCCGATGCCATGTCCCAGACATGGTCTTA
113954307 TTGCCATGGT
Statistics
Matches: 416, Mismatches: 43, Indels: 16
0.88 0.09 0.03
Matches are distributed among these distances:
46 41 0.10
48 328 0.79
49 2 0.00
53 2 0.00
54 43 0.10
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.24
Consensus pattern (48 bp):
ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACG
Found at i:113955613 original size:15 final size:14
Alignment explanation
Indices: 113955549--113955624 Score: 59
Period size: 15 Copynumber: 5.3 Consensus size: 14
113955539 ATTATTAGTT
113955549 TTATAATATTTTAAA
1 TTATAAT-TTTTAAA
*
113955564 TGTAT-ATTTTAAATA
1 T-TATAATTTTTAA-A
* *
113955579 TTTTTAA-TTTTACA
1 -TTATAATTTTTAAA
113955593 -TATAATTTTTAAAA
1 TTATAATTTTT-AAA
113955607 TTATAATTTTTAAA
1 TTATAATTTTTAAA
113955621 TTAT
1 TTAT
113955625 TTTTAAGGAT
Statistics
Matches: 48, Mismatches: 6, Indels: 15
0.70 0.09 0.22
Matches are distributed among these distances:
12 4 0.08
13 4 0.08
14 15 0.31
15 20 0.42
16 5 0.10
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.57
Consensus pattern (14 bp):
TTATAATTTTTAAA
Found at i:113955628 original size:27 final size:30
Alignment explanation
Indices: 113955548--113955628 Score: 80
Period size: 29 Copynumber: 2.8 Consensus size: 30
113955538 TATTATTAGT
* *
113955548 TTTATAATATTTTAAATGTATATTTTAAATA
1 TTTATAAT-TTTTAAATATATTTTTTAAATA
* * *
113955579 TTTTTAA-TTTTACATATAATTTTTAAA-A
1 TTTATAATTTTTAAATATATTTTTTAAATA
113955607 -TTATAATTTTTAAAT-TATTTTT
1 TTTATAATTTTTAAATATATTTTT
113955629 AAGGATATTC
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
27 11 0.27
28 8 0.20
29 16 0.39
31 6 0.15
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.59
Consensus pattern (30 bp):
TTTATAATTTTTAAATATATTTTTTAAATA
Found at i:113967461 original size:42 final size:42
Alignment explanation
Indices: 113967402--113967481 Score: 142
Period size: 42 Copynumber: 1.9 Consensus size: 42
113967392 CTAGTGTTAC
113967402 TTCAACCTGAGTTGGGTAAAGAATATGTGATTTACAACTTAG
1 TTCAACCTGAGTTGGGTAAAGAATATGTGATTTACAACTTAG
* *
113967444 TTCAACCTGAGTTGGGTAAAGAATTTTTGATTTACAAC
1 TTCAACCTGAGTTGGGTAAAGAATATGTGATTTACAAC
113967482 GACGCTTCAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.33, C:0.12, G:0.20, T:0.35
Consensus pattern (42 bp):
TTCAACCTGAGTTGGGTAAAGAATATGTGATTTACAACTTAG
Found at i:113972689 original size:18 final size:20
Alignment explanation
Indices: 113972652--113972692 Score: 59
Period size: 18 Copynumber: 2.1 Consensus size: 20
113972642 AAAAATTAAT
113972652 AATTTATAAAAATTATATTTA
1 AATTTATAAAAA-TATATTTA
113972673 AATTT-TAAAAA-ATATTTA
1 AATTTATAAAAATATATTTA
113972691 AA
1 AA
113972693 ATATACATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 9 0.45
20 6 0.30
21 5 0.25
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
AATTTATAAAAATATATTTA
Found at i:113972875 original size:99 final size:100
Alignment explanation
Indices: 113972682--113972863 Score: 305
Period size: 99 Copynumber: 1.8 Consensus size: 100
113972672 AAATTTTAAA
*
113972682 AAATATTTAAAATATACATTTAAAATATTATAAAACAAATAATAAATTTGAAATGTCATATCTTT
1 AAATATTTAAAATATACATTTAAAATATTATAAAACAAATAATAAATTTGAAAGGTCATATCTTT
*
113972747 AAAAATAATATATTTTTAAAAAATTAAAAATATTT
66 AAAAATAATAAATTTTTAAAAAATTAAAAATATTT
*
113972782 AAAT-TTTAAAATATACATTTAAAATATTATAAAACTAATAATAAATTTGAAAGGTCATATCTTT
1 AAATATTTAAAATATACATTTAAAATATTATAAAACAAATAATAAATTTGAAAGGTCATATCTTT
*
113972846 -AAAATATTTAAATTTTTA
66 AAAAATA-ATAAATTTTTA
113972864 TATTATTAAA
Statistics
Matches: 77, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
98 6 0.08
99 67 0.87
100 4 0.05
ACGTcount: A:0.53, C:0.04, G:0.03, T:0.40
Consensus pattern (100 bp):
AAATATTTAAAATATACATTTAAAATATTATAAAACAAATAATAAATTTGAAAGGTCATATCTTT
AAAAATAATAAATTTTTAAAAAATTAAAAATATTT
Found at i:113972903 original size:20 final size:20
Alignment explanation
Indices: 113972869--113972928 Score: 86
Period size: 19 Copynumber: 2.9 Consensus size: 20
113972859 TTTTATATTA
113972869 TTAAAAAATATATTTAAAATTT
1 TTAAAAAATA-ATTT-AAATTT
113972891 TTAAAAAA-AATTTAAATTT
1 TTAAAAAATAATTTAAATTT
113972910 TTAAAAAATAATTTCAAAT
1 TTAAAAAATAATTT-AAAT
113972929 ATATATTTAA
Statistics
Matches: 36, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
19 14 0.39
20 9 0.25
21 5 0.14
22 8 0.22
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (20 bp):
TTAAAAAATAATTTAAATTT
Found at i:113972942 original size:20 final size:20
Alignment explanation
Indices: 113972919--113972985 Score: 64
Period size: 20 Copynumber: 3.2 Consensus size: 20
113972909 TTTAAAAAAT
113972919 AATTTCAAATATATATTTAA
1 AATTTCAAATATATATTTAA
* *
113972939 AATTTTAAA-AAATATTATAAA
1 AATTTCAAATATATATT-T-AA
* *
113972960 ACATTTCAAATATACATTTCA
1 A-ATTTCAAATATATATTTAA
113972981 AATTT
1 AATTT
113972986 TTGAAAATCA
Statistics
Matches: 37, Mismatches: 6, Indels: 8
0.73 0.12 0.16
Matches are distributed among these distances:
19 6 0.16
20 13 0.35
21 5 0.14
22 8 0.22
23 5 0.14
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.42
Consensus pattern (20 bp):
AATTTCAAATATATATTTAA
Found at i:113972946 original size:41 final size:42
Alignment explanation
Indices: 113972849--113972947 Score: 103
Period size: 41 Copynumber: 2.4 Consensus size: 42
113972839 TATCTTTAAA
* * *
113972849 ATATTTAAATTTTTATATTATTAAAAAATATATTTAAAATTT
1 ATATTTAAAATTTTAAATTATTAAAAAATATATTTAAAATAT
* ** * * *
113972891 TTA-AAAAAAATTTAAATTTTTAAAAAATA-ATTTCAAATAT
1 ATATTTAAAATTTTAAATTATTAAAAAATATATTTAAAATAT
113972931 ATATTTAAAATTTTAAA
1 ATATTTAAAATTTTAAA
113972948 AAATATTATA
Statistics
Matches: 43, Mismatches: 13, Indels: 3
0.73 0.22 0.05
Matches are distributed among these distances:
40 11 0.26
41 30 0.70
42 2 0.05
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (42 bp):
ATATTTAAAATTTTAAATTATTAAAAAATATATTTAAAATAT
Found at i:113986841 original size:25 final size:25
Alignment explanation
Indices: 113986813--113986888 Score: 61
Period size: 25 Copynumber: 3.2 Consensus size: 25
113986803 GTCTTACACA
113986813 TTTCATATCATGTTGCCATGGTATC
1 TTTCATATCATGTTGCCATGGTATC
* * *** *
113986838 TTTCA-ACCATG--GTC-TTACATA
1 TTTCATATCATGTTGCCATGGTATC
*
113986859 TTTCATATCAGGTTGCCATGGTATC
1 TTTCATATCATGTTGCCATGGTATC
113986884 TTTCA
1 TTTCA
113986889 ACCATGGTCT
Statistics
Matches: 34, Mismatches: 13, Indels: 8
0.62 0.24 0.15
Matches are distributed among these distances:
21 8 0.24
22 6 0.18
24 7 0.21
25 13 0.38
ACGTcount: A:0.22, C:0.21, G:0.14, T:0.42
Consensus pattern (25 bp):
TTTCATATCATGTTGCCATGGTATC
Found at i:113986908 original size:46 final size:46
Alignment explanation
Indices: 113986648--113986910 Score: 366
Period size: 46 Copynumber: 5.7 Consensus size: 46
113986638 TGATGCTATA
* * * *
113986648 GTATCTTTCAACTATGGTTTTACTCGTTTTC-TGTCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACAC-ATTTCATGTCATGTTGCCATG
** **
113986694 GTATCTTTCAACCATGGTCTTATTCATTTTCCCGTCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACACA-TTTCATGTCATGTTGCCATG
** *
113986741 GTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACACATTTCATGTCATGTTGCCATG
*
113986787 GTATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACACATTTCATGTCATGTTGCCATG
* * *
113986833 GTATCTTTCAACCATGGTCTTACATATTTCATATCAGGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACACATTTCATGTCATGTTGCCATG
113986879 GTATCTTTCAACCATGGTCTTACACATTTCAT
1 GTATCTTTCAACCATGGTCTTACACATTTCAT
113986911 TTCAGAGAGC
Statistics
Matches: 200, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
46 160 0.80
47 40 0.20
ACGTcount: A:0.21, C:0.23, G:0.14, T:0.42
Consensus pattern (46 bp):
GTATCTTTCAACCATGGTCTTACACATTTCATGTCATGTTGCCATG
Done.