Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 118 of 276
Found at i:37646120 original size:25 final size:25
Alignment explanation
Indices: 37646086--37646140 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
37646076 AGTTATAAAC
*
37646086 GGTAAGCTCCTCCAAGCTAAATAAT
1 GGTAAACTCCTCCAAGCTAAATAAT
* * *
37646111 GGTAAACTCCTCCGAGCTGAATAGT
1 GGTAAACTCCTCCAAGCTAAATAAT
37646136 GGTAA
1 GGTAA
37646141 GCTCATATGA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.24
Consensus pattern (25 bp):
GGTAAACTCCTCCAAGCTAAATAAT
Found at i:37651537 original size:18 final size:20
Alignment explanation
Indices: 37651501--37651547 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
37651491 AGTTGTAAGT
37651501 ATATATATGTGAATAATTTG
1 ATATATATGTGAATAATTTG
* *
37651521 ATAT-TATGTGATTATTTTG
1 ATATATATGTGAATAATTTG
37651540 ATGATATA
1 AT-ATATA
37651548 ACATGTTCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 15 0.65
20 6 0.26
21 2 0.09
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.49
Consensus pattern (20 bp):
ATATATATGTGAATAATTTG
Found at i:37652012 original size:50 final size:50
Alignment explanation
Indices: 37651945--37652327 Score: 305
Period size: 50 Copynumber: 7.7 Consensus size: 50
37651935 TAAGACAGTT
*
37651945 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATTG
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATTG
* * *** * *
37651995 TTAGGTCGCTTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAG
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATTG
* * * * * *
37652045 TTTCGATCACATGTATAGTACTAAGTGTAGGCTACT-TAT-T---AGATGG
1 -TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATTG
* * *
37652091 TTAGGTCACATGTGTAATACTAAGTGCAGGCTACTACGTGTACCGGATTG
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATTG
* * * * * *
37652141 ATAGGTCGCATGTGTAGTACCAAGTGCAGGGTAC-A-ATGCGTACCTG-TTAAC
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACAT--GTACCAGATT--G
* * * * * *
37652192 TTCGATCACGTGTGTAGTACTAAGTGCAGGCTATTACATGTATCAGATGG
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATTG
* * * * * * * *
37652242 ATAAGTCACGTGTGTAGTACAAAGGGCAGGCTACTACGTATACTAGATTG
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATTG
* * *
37652292 ATAGGTCACATGTATAGTACTAAGTGCAAGCTACTA
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTA
37652328 TGCGTACCAG
Statistics
Matches: 256, Mismatches: 64, Indels: 26
0.74 0.18 0.08
Matches are distributed among these distances:
45 30 0.12
46 5 0.02
47 1 0.00
48 1 0.00
49 4 0.02
50 151 0.59
51 60 0.23
52 2 0.01
53 2 0.01
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (50 bp):
TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATTG
Found at i:37652210 original size:146 final size:149
Alignment explanation
Indices: 37651945--37652335 Score: 509
Period size: 146 Copynumber: 2.6 Consensus size: 149
37651935 TAAGACAGTT
* * *
37651945 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATTGTTAGGTCGCTTGTGT
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGT
** *
37652010 AGTACTAAGTGCAGGCTACTATGCGTACCCGATAGTTTCGATCACATGTATAGTACTAAGTGTAG
66 AGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGATCACATGTATAGTACTAAGTGCAG
*
37652075 GC-TAC-T-TATTAGATGG
131 GCTTACATGTATCAGATGG
* * *
37652091 TTAGGTCACATGTGTAATACTAAGTGCAGGCTACTACGTGTACCGGATTGATAGGTCGCATGTGT
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGT
* * * * * * *
37652156 AGTACCAAGTGCAGGGTACAATGCGTACCTGTTAACTTCGATCACGTGTGTAGTACTAAGTGCAG
66 AGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGATCACATGTATAGTACTAAGTGCAG
37652221 GCTATTACATGTATCAGATGG
131 GC--TTACATGTATCAGATGG
* * * * * * * *
37652242 ATAAGTCACGTGTGTAGTACAAAGGGCAGGCTACTACGTATACTAGATTGATAGGTCACATGTAT
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGT
*
37652307 AGTACTAAGTGCAAGCTACTATGCGTACC
66 AGTACTAAGTGCAGGCTACTATGCGTACC
37652336 AGAGAGGTTC
Statistics
Matches: 208, Mismatches: 32, Indels: 5
0.85 0.13 0.02
Matches are distributed among these distances:
146 116 0.56
149 3 0.01
150 1 0.00
151 88 0.42
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (149 bp):
TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGT
AGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGATCACATGTATAGTACTAAGTGCAG
GCTTACATGTATCAGATGG
Found at i:37652558 original size:16 final size:16
Alignment explanation
Indices: 37652537--37652568 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
37652527 AGAATGGAGT
37652537 AAGTGAAATTATGTAA
1 AAGTGAAATTATGTAA
*
37652553 AAGTGAAATTTTGTAA
1 AAGTGAAATTATGTAA
37652569 TAAAACAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.19, T:0.34
Consensus pattern (16 bp):
AAGTGAAATTATGTAA
Found at i:37653210 original size:171 final size:170
Alignment explanation
Indices: 37652898--37653226 Score: 473
Period size: 171 Copynumber: 1.9 Consensus size: 170
37652888 TTGAGAGCTG
* * * * *
37652898 TACCATGAGATATATAATTTTTAGTGAAGAGAGGTTGGAACTGTCGGATAGTGAAACATGGGTAT
1 TACCATGAAATAAATAATTTTTAGTGAAGAGAGGTTGGAACTGTCAGACAGTGAAACAGGGGTAT
* ** * *
37652963 CTTTAATGAATAAACTATACTAATTGGCTAGGCTAAAAATTCTGAAAATTTTATGGTAAACATAT
66 ATTTAATGAATAAACTATACTAATTGGCTAAACCAAAAATTATGAAAATTTTATGGTAAACATAT
*
37653028 ACGCAAGTCTAGTTTCTAG-TAAAATTAAATTTGGAGTCCCA
131 ACG-AAGTCTAGTTT-TAGAGAAAATTAAATTTGGAGTCCCA
*
37653069 TACCATGAAATAAATAATTTTTAGTGAAGAGAGGTTGGAACTGTCAGACAGTGAAATAGGGGTAT
1 TACCATGAAATAAATAATTTTTAGTGAAGAGAGGTTGGAACTGTCAGACAGTGAAACAGGGGTAT
* *
37653134 ATTTAATGAATAAACTGTACTAATTGGCTAAACCAAAAATTATGAAAATTTTATGGTAAGAATAT
66 ATTTAATGAATAAACTATACTAATTGGCTAAACCAAAAATTATGAAAATTTTATGGT-A-AACAT
*
37653199 ATATG-AGTCTAGTTTTAGAGAAAATTAA
129 ATACGAAGTCTAGTTTTAGAGAAAATTAA
37653227 CGGATCTTAA
Statistics
Matches: 140, Mismatches: 15, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
170 3 0.02
171 128 0.91
172 1 0.01
173 8 0.06
ACGTcount: A:0.40, C:0.09, G:0.19, T:0.32
Consensus pattern (170 bp):
TACCATGAAATAAATAATTTTTAGTGAAGAGAGGTTGGAACTGTCAGACAGTGAAACAGGGGTAT
ATTTAATGAATAAACTATACTAATTGGCTAAACCAAAAATTATGAAAATTTTATGGTAAACATAT
ACGAAGTCTAGTTTTAGAGAAAATTAAATTTGGAGTCCCA
Found at i:37656754 original size:40 final size:40
Alignment explanation
Indices: 37656706--37656853 Score: 260
Period size: 40 Copynumber: 3.7 Consensus size: 40
37656696 GCAAACACAT
* *
37656706 TTGCCTTCGGGTCTTAACCCGGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCATAA
37656746 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCATAA
* *
37656786 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCGTAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCATAA
37656826 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
37656854 TCCAATGCTC
Statistics
Matches: 104, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 104 1.00
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.32
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCATAA
Found at i:37665377 original size:40 final size:40
Alignment explanation
Indices: 37665333--37665440 Score: 180
Period size: 40 Copynumber: 2.7 Consensus size: 40
37665323 GCAAACACAT
* * *
37665333 TTGCCTTCGGGTCTTAACCCGGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
37665373 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCGTAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
37665413 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
37665441 TCCAATGCTC
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 64 1.00
ACGTcount: A:0.20, C:0.27, G:0.21, T:0.31
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:37670235 original size:54 final size:54
Alignment explanation
Indices: 37670176--37670289 Score: 201
Period size: 54 Copynumber: 2.1 Consensus size: 54
37670166 TTAGATTGAT
*
37670176 AAATGACTGTTTTGCCCTTATATGGTAAAATGCTTGTTTTCCCCTCATAAGGTA
1 AAATGACTGTTTTGCCCTTATATGGTAAAATGATTGTTTTCCCCTCATAAGGTA
* *
37670230 AAATGACTGTTTTGCCCTTATATGGTAAAATGATTGTTTTGCCCTCATGAGGTA
1 AAATGACTGTTTTGCCCTTATATGGTAAAATGATTGTTTTCCCCTCATAAGGTA
37670284 AAATGA
1 AAATGA
37670290 TATGGTAATA
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
54 57 1.00
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.38
Consensus pattern (54 bp):
AAATGACTGTTTTGCCCTTATATGGTAAAATGATTGTTTTCCCCTCATAAGGTA
Found at i:37670290 original size:27 final size:27
Alignment explanation
Indices: 37670176--37670290 Score: 151
Period size: 27 Copynumber: 4.3 Consensus size: 27
37670166 TTAGATTGAT
* *
37670176 AAATGACTGTTTTGCCCTTATATGGTA
1 AAATGATTGTTTTGCCCTCATATGGTA
* * *
37670203 AAATGCTTGTTTTCCCCTCATAAGGTA
1 AAATGATTGTTTTGCCCTCATATGGTA
* *
37670230 AAATGACTGTTTTGCCCTTATATGGTA
1 AAATGATTGTTTTGCCCTCATATGGTA
37670257 AAATGATTGTTTTGCCCTCATGA-GGTA
1 AAATGATTGTTTTGCCCTCAT-ATGGTA
37670284 AAATGAT
1 AAATGAT
37670291 ATGGTAATAT
Statistics
Matches: 75, Mismatches: 12, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
27 74 0.99
28 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.38
Consensus pattern (27 bp):
AAATGATTGTTTTGCCCTCATATGGTA
Found at i:37670658 original size:18 final size:18
Alignment explanation
Indices: 37670635--37670681 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
37670625 GACTTATATT
37670635 CTGTTACTGTACTGA-TTA
1 CTGTTACTGTACT-ATTTA
*
37670653 CTGTTACTGCACTATTTA
1 CTGTTACTGTACTATTTA
*
37670671 TTGTTACTGTA
1 CTGTTACTGTA
37670682 TTGGGCCAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 1 0.04
18 24 0.96
ACGTcount: A:0.21, C:0.17, G:0.15, T:0.47
Consensus pattern (18 bp):
CTGTTACTGTACTATTTA
Found at i:37672064 original size:22 final size:22
Alignment explanation
Indices: 37672036--37672078 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
37672026 TAATGCTTTA
*
37672036 GAACTAGAGTGCTCAGCAGGAG
1 GAACTAGAGTGCGCAGCAGGAG
37672058 GAACTAGAGTGCGCAGCAGGA
1 GAACTAGAGTGCGCAGCAGGA
37672079 ACGTAGTGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.33, C:0.19, G:0.37, T:0.12
Consensus pattern (22 bp):
GAACTAGAGTGCGCAGCAGGAG
Found at i:37676354 original size:40 final size:40
Alignment explanation
Indices: 37676310--37676425 Score: 133
Period size: 40 Copynumber: 2.9 Consensus size: 40
37676300 GAATACATGT
* * *
37676310 CACCAGCATGATTGCTCTTCGGGACCTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGAACCTAGCCCGGATATAA
* * ***
37676350 CACCAGCACGAATGCTCTTCGGAACTTAGTCCGGATACCT
1 CACCAGCACGAATGCTCTTCGGAACCTAGCCCGGATATAA
* **
37676390 CACTAGCACGAATGCTCTTCGGAATTTAGCCCGGAT
1 CACCAGCACGAATGCTCTTCGGAACCTAGCCCGGAT
37676426 TTAGTAACTC
Statistics
Matches: 65, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 65 1.00
ACGTcount: A:0.25, C:0.30, G:0.22, T:0.23
Consensus pattern (40 bp):
CACCAGCACGAATGCTCTTCGGAACCTAGCCCGGATATAA
Found at i:37676450 original size:40 final size:40
Alignment explanation
Indices: 37676326--37676587 Score: 225
Period size: 40 Copynumber: 6.5 Consensus size: 40
37676316 CATGATTGCT
* * * *
37676326 CTTCGGGACCTAGCCCGGATATAAC-AC-CAGCACGAATGC
1 CTTCGGGTCTTAGCCCGGATATATCAACTC-GCACCAATGC
** * ** * *
37676365 TCTTCGGAACTTAGTCCGGATACCTC-ACTAGCACGAATGC
1 -CTTCGGGTCTTAGCCCGGATATATCAACTCGCACCAATGC
* *
37676405 TCTTCGGAAT-TTAGCCCGGATTTAGT-AACTCGCACCAATGC
1 -CTTCGG-GTCTTAGCCCGGATATA-TCAACTCGCACCAATGC
*
37676446 CTTCGGGTCTTAGCCCGGATATATCAACTTGCA-CAATTGC
1 CTTCGGGTCTTAGCCCGGATATATCAACTCGCACCAA-TGC
* *
37676486 CTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATATCAACTCGCACCAATGC
* *
37676526 CTTCGGGTCTTAGCCCGGATATAATC-ACTAGC-TCAATTGC
1 CTTCGGGTCTTAGCCCGGATAT-ATCAACTCGCACCAA-TGC
*
37676566 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
37676588 CATTCAAATG
Statistics
Matches: 187, Mismatches: 25, Indels: 20
0.81 0.11 0.09
Matches are distributed among these distances:
39 7 0.04
40 161 0.86
41 19 0.10
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.26
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATATCAACTCGCACCAATGC
Found at i:37676458 original size:80 final size:78
Alignment explanation
Indices: 37676336--37676587 Score: 251
Period size: 80 Copynumber: 3.2 Consensus size: 78
37676326 CTTCGGGACC
* * ** * **
37676336 TAGCCCGGATATAAC-AC-CAGCACGAATGCTCTTCGGAACTTAGTCCGGATACCTCACTAGCAC
1 TAGCCCGGATATATCAACTC-GCACAAATGC-CTTCGGGTCTTAGCCCGGATAAATCACTAGCAC
37676399 GAA-TGCTCTTCGGAATT
64 -AATTGC-CTTCGG-ATT
* * * *
37676416 TAGCCCGGATTTAGT-AACTCGCACCAATGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCAC
1 TAGCCCGGATATA-TCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAAATC-ACTAGCAC
*
37676480 AATTGCCTTCGGGTCT
64 AATTGCCTTCGGAT-T
* *
37676496 TAGCCCGGATATATCAATTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAATCACTAGCTCA
1 TAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATA-AATCACTAGCACA
*
37676561 ATTGCCTTCGGGACT
65 ATTGCCTTC-GGATT
37676576 TAGCCCGGATAT
1 TAGCCCGGATAT
37676588 CATTCAAATG
Statistics
Matches: 145, Mismatches: 18, Indels: 18
0.80 0.10 0.10
Matches are distributed among these distances:
79 2 0.01
80 116 0.80
81 26 0.18
82 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.27
Consensus pattern (78 bp):
TAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAAATCACTAGCACAA
TTGCCTTCGGATT
Found at i:37676914 original size:29 final size:28
Alignment explanation
Indices: 37676880--37676953 Score: 87
Period size: 29 Copynumber: 2.6 Consensus size: 28
37676870 TAATCAACCA
*
37676880 CGCACACTTAGTGCCATGTACTTT-AAAC
1 CGCACACTTAGTGCCATGCA-TTTCAAAC
* *
37676908 TCGCACACTTAGTGTCATGCATTTCAAGC
1 -CGCACACTTAGTGCCATGCATTTCAAAC
37676937 CTGCACACTTAGTGCCA
1 C-GCACACTTAGTGCCA
37676954 ATCTCACAAC
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
28 4 0.10
29 35 0.90
ACGTcount: A:0.26, C:0.30, G:0.16, T:0.28
Consensus pattern (28 bp):
CGCACACTTAGTGCCATGCATTTCAAAC
Found at i:37677000 original size:43 final size:43
Alignment explanation
Indices: 37676939--37677037 Score: 189
Period size: 43 Copynumber: 2.3 Consensus size: 43
37676929 TTTCAAGCCT
37676939 GCACACTTAGTGCCAATCTCACAACCGTGAACACTTATTGCCC
1 GCACACTTAGTGCCAATCTCACAACCGTGAACACTTATTGCCC
*
37676982 GCACACTTAGTGCCAATCTCACAACCGTGAACACTTATTGCTC
1 GCACACTTAGTGCCAATCTCACAACCGTGAACACTTATTGCCC
37677025 GCACACTTAGTGC
1 GCACACTTAGTGC
37677038 TGAAAACCAA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 55 1.00
ACGTcount: A:0.27, C:0.33, G:0.15, T:0.24
Consensus pattern (43 bp):
GCACACTTAGTGCCAATCTCACAACCGTGAACACTTATTGCCC
Found at i:37679444 original size:27 final size:27
Alignment explanation
Indices: 37679380--37679509 Score: 106
Period size: 27 Copynumber: 4.9 Consensus size: 27
37679370 CCAGATTGAT
* * *
37679380 AAATGACTATTTTGCCCTCATGAGGT-
1 AAATGTCTATTTTGCCCTTATGTGGTA
*
37679406 AAATAAT-TATTTTGCCCTTATGTGGTA
1 AAAT-GTCTATTTTGCCCTTATGTGGTA
* **
37679433 AAATGTCTATTTTGCCCTCATAAGGTA
1 AAATGTCTATTTTGCCCTTATGTGGTA
* * * *
37679460 AAATGACTGTTTTTCCCTTATATGGTA
1 AAATGTCTATTTTGCCCTTATGTGGTA
*
37679487 ATATGAT-TATTTTGCCC-TATGTG
1 AAATG-TCTATTTTGCCCTTATGTG
37679510 ATGTATATAT
Statistics
Matches: 82, Mismatches: 18, Indels: 8
0.76 0.17 0.07
Matches are distributed among these distances:
26 27 0.33
27 55 0.67
ACGTcount: A:0.27, C:0.15, G:0.16, T:0.42
Consensus pattern (27 bp):
AAATGTCTATTTTGCCCTTATGTGGTA
Found at i:37679460 original size:53 final size:54
Alignment explanation
Indices: 37679380--37679504 Score: 155
Period size: 54 Copynumber: 2.3 Consensus size: 54
37679370 CCAGATTGAT
* * * *
37679380 AAATGACTATTTTGCCCTCATGAGGT-AAATAATTATTTTGCCCTTATGTGGTA
1 AAATGTCTATTTTGCCCTCATAAGGTAAAATAACTATTTTGCCCTTATATGGTA
* * *
37679433 AAATGTCTATTTTGCCCTCATAAGGTAAAATGACTGTTTTTCCCTTATATGGTA
1 AAATGTCTATTTTGCCCTCATAAGGTAAAATAACTATTTTGCCCTTATATGGTA
*
37679487 ATATGAT-TATTTTGCCCT
1 AAATG-TCTATTTTGCCCT
37679505 ATGTGATGTA
Statistics
Matches: 62, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
53 24 0.39
54 37 0.60
55 1 0.02
ACGTcount: A:0.27, C:0.16, G:0.15, T:0.42
Consensus pattern (54 bp):
AAATGTCTATTTTGCCCTCATAAGGTAAAATAACTATTTTGCCCTTATATGGTA
Found at i:37679853 original size:18 final size:18
Alignment explanation
Indices: 37679826--37679870 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
37679816 GACTTGTATT
*
37679826 CTGTTGCTGCACTGATTA
1 CTGTTACTGCACTGATTA
*
37679844 CTGTTACTGCACTGTTTA
1 CTGTTACTGCACTGATTA
*
37679862 TTGTTACTG
1 CTGTTACTG
37679871 TATTGGGTCA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.16, C:0.20, G:0.20, T:0.44
Consensus pattern (18 bp):
CTGTTACTGCACTGATTA
Found at i:37688496 original size:31 final size:31
Alignment explanation
Indices: 37688461--37688522 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
37688451 AAGATTCACA
*
37688461 GCAGGAATGACAAGTATAAACTCCTCGAACC
1 GCAGGAATGACAAGTACAAACTCCTCGAACC
** *
37688492 GCAGGAATGATGAGTACAAACTCCTTGAACC
1 GCAGGAATGACAAGTACAAACTCCTCGAACC
37688523 ACCATGACCA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.37, C:0.24, G:0.21, T:0.18
Consensus pattern (31 bp):
GCAGGAATGACAAGTACAAACTCCTCGAACC
Found at i:37697118 original size:22 final size:22
Alignment explanation
Indices: 37697090--37697165 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
37697080 GTGTATATAT
37697090 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCCGAATGGCCA
* * * *
37697112 ATGTGATGAATG-TGAACTTGCATA
1 ATGTGAT-AAGGCCGAA-TGGC-CA
*
37697136 TATGAGATAAGGCCGAATGGCCA
1 -ATGTGATAAGGCCGAATGGCCA
37697159 ATGTGAT
1 ATGTGAT
37697166 GAATGTGAAC
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 16 0.41
23 7 0.18
24 7 0.18
25 9 0.23
ACGTcount: A:0.33, C:0.13, G:0.29, T:0.25
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATGGCCA
Found at i:37698214 original size:47 final size:47
Alignment explanation
Indices: 37696711--37698206 Score: 2165
Period size: 47 Copynumber: 31.7 Consensus size: 47
37696701 AGTTTATATA
* * * *
37696711 TGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAA-AGTGTATATATA
1 TGTGCTAAGGCCGAATGGCCAATGTGATGAATGTGAACA-TG--TGTATG
* * * *
37696760 TGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAA-AGTGTATATATA
1 TGTGCTAAGGCCGAATGGCCAATGTGATGAATGTGAACA-TG--TGTATG
* * * * *
37696809 TGTGATAAGGCCTAATGGCCGATGTGATG-A-GTGAA-AGTGTATATA
1 TGTGCTAAGGCCGAATGGCCAATGTGATGAATGTGAACA-TGTGTATG
* * * *
37696854 TGTGATAAGGCCTAATAGCCGAA-GTGATGAATGTGAA-A-GTGCATATA
1 TGTGCTAAGGCCGAATGGCC-AATGTGATGAATGTGAACATGTG--TATG
* * * * * *
37696901 TGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA-AGTGTATATA
1 TGTGCTAAGGCCGAATGGCCAATGTGATGAATGTGAACA-TGTGTATG
* * * * *
37696948 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA-AGTGTATATA
1 TGTGCTAAGGCCGAATGGCCAATGTGATGAATGTGAACA-TGTGTATG
* * * * * * *
37696995 TGTGATAAGGCCTAATAGCCGATGTGACGAATGTGAA-AGTGTATATA
1 TGTGCTAAGGCCGAATGGCCAATGTGATGAATGTGAACA-TGTGTATG
* * * * *
37697042 TGTGATAAGGCCTAATGGCCAATTTGATGAATGTGAA-AGTGTATATATA
1 TGTGCTAAGGCCGAATGGCCAATGTGATGAATGTGAACA-TG--TGTATG
* * ** *
37697091 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACTTGCATATA
1 TGTGCTAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
* *
37697138 TGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
1 TGTGCTAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
37697185 TGTGCTAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
1 TGTGCTAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
37697232 TGTGCTAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
1 TGTGCTAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
37697279 TGTGCTAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
1 TGTGCTAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
37697326 TGTGCTAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
1 TGTGCTAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
37697373 TGTGCTAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
1 TGTGCTAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
37697420 TGTGCTAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
1 TGTGCTAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
37697467 TGTGCTAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
1 TGTGCTAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
37697514 TGTGCTAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
1 TGTGCTAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
37697561 TGTGCTAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
1 TGTGCTAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
37697608 TGTGCTAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
1 TGTGCTAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
37697655 TGTGCTAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
1 TGTGCTAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
37697702 TGTGCTAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
1 TGTGCTAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
37697749 TGTGCTAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
1 TGTGCTAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
37697796 TGTGCTAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
1 TGTGCTAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
37697843 TGTGCTAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
1 TGTGCTAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
37697890 TGTGCTAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
1 TGTGCTAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
37697937 TGTGCTAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
1 TGTGCTAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
* *
37697984 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGCATG
1 TGTGCTAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
* ** *
37698031 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATA
1 TGTGCTAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
* * ** *
37698078 TGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATA
1 TGTGCTAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
* * *
37698125 TGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-A-GTGTACATA
1 TGTGCTAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGT--ATG
* *
37698172 TGTGATAAGGCCGAATGGCCAATGTGATGGATGTG
1 TGTGCTAAGGCCGAATGGCCAATGTGATGAATGTG
37698207 GAAGTGTATA
Statistics
Matches: 1399, Mismatches: 35, Indels: 28
0.96 0.02 0.02
Matches are distributed among these distances:
45 35 0.03
46 4 0.00
47 1237 0.88
48 1 0.00
49 122 0.09
ACGTcount: A:0.30, C:0.12, G:0.30, T:0.28
Consensus pattern (47 bp):
TGTGCTAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
Found at i:37709841 original size:40 final size:39
Alignment explanation
Indices: 37709786--37709942 Score: 165
Period size: 40 Copynumber: 3.9 Consensus size: 39
37709776 CATCTACATA
37709786 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
1 ATCACTAGCACGAATGC-CTTCGGGACTTAGCCCGGATAT
* *
37709826 ATCACTAGCACGAATGGTCTTCGGGACTTAGCCCGGATTT
1 ATCACTAGCACGAAT-GCCTTCGGGACTTAGCCCGGATAT
* * * *
37709866 AGTAACTCGCACCAATGCCTTC-GGATCTTAGTCCGGATAT
1 A-TCACTAGCACGAATGCCTTCGGGA-CTTAGCCCGGATAT
* * *
37709906 GGTCACTTAGCAC-AAAGCCTTCAGGACTTAGCCCGGA
1 -ATCAC-TAGCACGAATGCCTTCGGGACTTAGCCCGGA
37709943 CATCATTTGA
Statistics
Matches: 98, Mismatches: 13, Indels: 12
0.80 0.11 0.10
Matches are distributed among these distances:
39 3 0.03
40 75 0.77
41 20 0.20
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (39 bp):
ATCACTAGCACGAATGCCTTCGGGACTTAGCCCGGATAT
Found at i:37709933 original size:80 final size:81
Alignment explanation
Indices: 37709793--37709942 Score: 191
Period size: 80 Copynumber: 1.9 Consensus size: 81
37709783 ATAATCACTA
* * * *
37709793 GCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGGTCTTCGGGACTTAGC
1 GCACCAATGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATAGCCTTCAGGACTTAGC
37709858 CCGGATTTAGTAACTC
66 CCGGATTTAGTAACTC
* *
37709874 GCACCAATGC-CTTC-GGATCTTAGTCCGGATATGGTCACTTAGCAC-AA-AGCCTTCAGGACTT
1 GCACCAATGCTCTTCGGGA-CTTAGCCCGGATAT-ATCAC-TAGCACGAATAGCCTTCAGGACTT
37709935 AGCCCGGA
63 AGCCCGGA
37709943 CATCATTTGA
Statistics
Matches: 60, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
79 3 0.05
80 36 0.60
81 15 0.25
82 6 0.10
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (81 bp):
GCACCAATGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATAGCCTTCAGGACTTAGC
CCGGATTTAGTAACTC
Found at i:37711237 original size:41 final size:40
Alignment explanation
Indices: 37711172--37711287 Score: 162
Period size: 41 Copynumber: 2.8 Consensus size: 40
37711162 AACATTTCGT
*
37711172 GGCTTTAGCGGCGTTTTTCAAAAAGCGCCGCTAATGCCT-GG
1 GGCTTTAGCGGCGTTTTT-GAAAAGCGCCGCTAATG-CTAGG
* *
37711213 GTCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGGTAGG
1 GGCTTTAGCGGCGTTTTT-GAAAAGCGCCGCTAATGCTAGG
37711254 GGCTTTAGCGGCGTTTTTGATAAAGCGCCGCTAA
1 GGCTTTAGCGGCGTTTTTGA-AAAGCGCCGCTAA
37711288 AAACATTTTA
Statistics
Matches: 68, Mismatches: 5, Indels: 4
0.88 0.06 0.05
Matches are distributed among these distances:
40 3 0.04
41 65 0.96
ACGTcount: A:0.20, C:0.21, G:0.31, T:0.28
Consensus pattern (40 bp):
GGCTTTAGCGGCGTTTTTGAAAAGCGCCGCTAATGCTAGG
Found at i:37711529 original size:22 final size:22
Alignment explanation
Indices: 37711504--37711578 Score: 75
Period size: 21 Copynumber: 3.5 Consensus size: 22
37711494 GAGTTACTGT
37711504 TTTAAGGTTTATGGAGTATGGA
1 TTTAAGGTTTATGGAGTATGGA
* * *
37711526 TTTAAGGATTATGGATTAGGGA
1 TTTAAGGTTTATGGAGTATGGA
* *
37711548 -TTATGGTTTAAGG-GT-TGAGA
1 TTTAAGGTTTATGGAGTATG-GA
37711568 TTTAAGGTTTA
1 TTTAAGGTTTA
37711579 GGGGTTAGTG
Statistics
Matches: 42, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
19 1 0.02
20 3 0.07
21 19 0.45
22 19 0.45
ACGTcount: A:0.28, C:0.00, G:0.31, T:0.41
Consensus pattern (22 bp):
TTTAAGGTTTATGGAGTATGGA
Found at i:37711550 original size:14 final size:15
Alignment explanation
Indices: 37711520--37711560 Score: 59
Period size: 14 Copynumber: 2.9 Consensus size: 15
37711510 GTTTATGGAG
37711520 TATGGATTTAAGGAT
1 TATGGATTTAAGGAT
*
37711535 TATGGA-TTAGGGAT
1 TATGGATTTAAGGAT
37711549 TATGG-TTTAAGG
1 TATGGATTTAAGG
37711561 GTTGAGATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
14 17 0.74
15 6 0.26
ACGTcount: A:0.29, C:0.00, G:0.32, T:0.39
Consensus pattern (15 bp):
TATGGATTTAAGGAT
Found at i:37711599 original size:22 final size:22
Alignment explanation
Indices: 37711573--37711635 Score: 74
Period size: 22 Copynumber: 2.9 Consensus size: 22
37711563 TGAGATTTAA
*
37711573 GGTTTAGGGGTT-AGTGGTTAGG
1 GGTTTAGGGGTTAAG-AGTTAGG
37711595 GGTTTAGGGGTTAAGAGTTAGG
1 GGTTTAGGGGTTAAGAGTTAGG
* * *
37711617 GATTTAGGGTTTATGAGTT
1 GGTTTAGGGGTTAAGAGTT
37711636 CATGGGTCAA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
22 34 0.94
23 2 0.06
ACGTcount: A:0.19, C:0.00, G:0.43, T:0.38
Consensus pattern (22 bp):
GGTTTAGGGGTTAAGAGTTAGG
Found at i:37711687 original size:12 final size:12
Alignment explanation
Indices: 37711666--37711708 Score: 54
Period size: 11 Copynumber: 3.8 Consensus size: 12
37711656 TGGGTTTAGA
37711666 TTAA-TTATTTT
1 TTAATTTATTTT
37711677 TTAATTTATTTT
1 TTAATTTATTTT
* *
37711689 TAAATAT-TTTT
1 TTAATTTATTTT
37711700 TTAATTTAT
1 TTAATTTAT
37711709 ATATTAAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
11 13 0.50
12 13 0.50
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (12 bp):
TTAATTTATTTT
Found at i:37711703 original size:23 final size:24
Alignment explanation
Indices: 37711665--37711718 Score: 76
Period size: 23 Copynumber: 2.3 Consensus size: 24
37711655 TTGGGTTTAG
*
37711665 ATTAATTA-TTTTTTAATTTAT-T
1 ATTAAATATTTTTTTAATTTATAT
*
37711687 TTTAAATATTTTTTTAATTTATAT
1 ATTAAATATTTTTTTAATTTATAT
37711711 ATTAAATA
1 ATTAAATA
37711719 ATTTCATATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
22 6 0.22
23 13 0.48
24 8 0.30
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (24 bp):
ATTAAATATTTTTTTAATTTATAT
Found at i:37711940 original size:21 final size:21
Alignment explanation
Indices: 37711916--37711956 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
37711906 GATTTAAGGT
37711916 TTAGGGATTAAGAGTTAGGGG
1 TTAGGGATTAAGAGTTAGGGG
*
37711937 TTAGGGGTTAAGAGTTAGGG
1 TTAGGGATTAAGAGTTAGGG
37711957 ATTTAGGGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.44, T:0.29
Consensus pattern (21 bp):
TTAGGGATTAAGAGTTAGGGG
Found at i:37711965 original size:21 final size:20
Alignment explanation
Indices: 37711913--37711966 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 20
37711903 TAGGATTTAA
37711913 GGTTTAGGGATTAAGAGTTAG
1 GGTTTAGGG-TTAAGAGTTAG
*
37711934 GGGTTAGGGGTTAAGAGTTAG
1 GGTTTA-GGGTTAAGAGTTAG
37711955 GGATTTAGGGTT
1 GG-TTTAGGGTT
37711967 TCAAGGGTCG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
21 23 0.79
22 6 0.21
ACGTcount: A:0.24, C:0.00, G:0.43, T:0.33
Consensus pattern (20 bp):
GGTTTAGGGTTAAGAGTTAG
Found at i:37716636 original size:42 final size:43
Alignment explanation
Indices: 37716518--37716762 Score: 260
Period size: 43 Copynumber: 5.7 Consensus size: 43
37716508 ATGGCACTTT
* ** * * * *
37716518 TAGCGGCGTTTGCGAAAAAAACGTCGCTAAAAGTCATGATCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGATCTA
* * *** *
37716561 TAGCGGTGTTTATAAAAAAAGCGCCGCTAAAGGTCTTGATCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGATCTA
* * *
37716604 TAGCGGTGTTTGT-GTAAAAGTGCCGCTAAAGGTCCTGATCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGATCTA
* ** *
37716646 T-GCGGCGTTTGTGGGAAAAGTGTTGCTAAAGGTTCTGATCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGATCTA
* * *
37716688 TAGCGGCGTTTGTGGGAAAAGCGCCGTTAAAGGTCCTGGTCTT
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGATCTA
*
37716731 TAGCGGCGTTTATGGGAAAAGCGCCGCTAAAG
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAG
37716763 TTAGCGATGC
Statistics
Matches: 173, Mismatches: 27, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
41 10 0.06
42 52 0.30
43 111 0.64
ACGTcount: A:0.27, C:0.17, G:0.29, T:0.27
Consensus pattern (43 bp):
TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGATCTA
Found at i:37716685 original size:84 final size:86
Alignment explanation
Indices: 37716518--37716751 Score: 249
Period size: 85 Copynumber: 2.7 Consensus size: 86
37716508 ATGGCACTTT
* ** * * * * * *** *
37716518 TAGCGGCGTTTGCGAAAAAAACGTCGCTAAAAGTCATGATCTATAGCGGTGTTTATAAAAAAAGC
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGATCTATAGCGGCGTTTATGGGAAAAGT
**
37716583 GCCGCTAAAGGTCTTGATCTA
66 GTTGCTAAAGGTCTTGATCTA
* * * *
37716604 TAGCGGTGTTTGT-GTAAAAGTGCCGCTAAAGGTCCTGATCTAT-GCGGCGTTTGTGGGAAAAGT
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGATCTATAGCGGCGTTTATGGGAAAAGT
37716667 GTTGCTAAAGGT-TCTGATCTA
66 GTTGCTAAAGGTCT-TGATCTA
* * *
37716688 TAGCGGCGTTTGTGGGAAAAGCGCCGTTAAAGGTCCTGGTCTTTAGCGGCGTTTATGGGAAAAG
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGATCTATAGCGGCGTTTATGGGAAAAG
37716752 CGCCGCTAAA
Statistics
Matches: 121, Mismatches: 24, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
83 1 0.01
84 43 0.36
85 48 0.40
86 29 0.24
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.28
Consensus pattern (86 bp):
TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGATCTATAGCGGCGTTTATGGGAAAAGT
GTTGCTAAAGGTCTTGATCTA
Found at i:37716862 original size:22 final size:22
Alignment explanation
Indices: 37716834--37716876 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
37716824 CAGCGGCGCT
* *
37716834 AAAAAGCGCCGTTAAAGGCCTA
1 AAAAAGCGCCGCTAAAAGCCTA
37716856 AAAAAGCGCCGCTAAAAGCCT
1 AAAAAGCGCCGCTAAAAGCCT
37716877 GTTTTGGTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.42, C:0.26, G:0.21, T:0.12
Consensus pattern (22 bp):
AAAAAGCGCCGCTAAAAGCCTA
Found at i:37718358 original size:23 final size:23
Alignment explanation
Indices: 37718332--37718380 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
37718322 AAATTCTAAA
*
37718332 TTAAAGCAAATAATAATAATTAT
1 TTAAAGAAAATAATAATAATTAT
* *
37718355 TTAAAGAAAATTATAATATTTAT
1 TTAAAGAAAATAATAATAATTAT
37718378 TTA
1 TTA
37718381 CTTTACATGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.41
Consensus pattern (23 bp):
TTAAAGAAAATAATAATAATTAT
Found at i:37730125 original size:40 final size:40
Alignment explanation
Indices: 37730043--37730262 Score: 259
Period size: 40 Copynumber: 5.5 Consensus size: 40
37730033 ACCCAAGTAT
** * *
37730043 CTTCGGGAT-TTAG-CCGGATATAACCACTCGCAC-AAGGC
1 CTTCGGG-TCTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
37730081 CTTCGGGTCTTAGCTCGGATATGGTCACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
37730121 CTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
*
37730161 CTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* * * *
37730201 CTTCGGATCTTAGTCCGGATATAGTCACTAGCATAAAAGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
*
37730241 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
37730263 CATTCGAATA
Statistics
Matches: 154, Mismatches: 23, Indels: 8
0.83 0.12 0.04
Matches are distributed among these distances:
37 1 0.01
38 11 0.07
39 15 0.10
40 126 0.82
41 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:37732859 original size:40 final size:40
Alignment explanation
Indices: 37732808--37733084 Score: 455
Period size: 40 Copynumber: 6.9 Consensus size: 40
37732798 ATAACCGCAA
* * * *
37732808 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
37732848 GCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
37732888 GCATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
37732928 GCACAAATGCCTTCGGGTTTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
37732968 GCACAAATGCCTTCGGGTCTTAGCCCGGATTTATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
37733008 GCACAAATGCCTTCGGGTCTTAGCCTGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
37733048 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAA
37733085 ATGCTCATGC
Statistics
Matches: 219, Mismatches: 18, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 219 1.00
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.27
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:37734549 original size:21 final size:21
Alignment explanation
Indices: 37734523--37734590 Score: 90
Period size: 21 Copynumber: 3.4 Consensus size: 21
37734513 TTCTTTTTTT
37734523 TTTCTTTTAGTATCCTTAGTA
1 TTTCTTTTAGTATCCTTAGTA
* *
37734544 TTTCTTTTATTAT--TT-CT-
1 TTTCTTTTAGTATCCTTAGTA
37734561 TTTCTTTTAGTATCCTTAGTA
1 TTTCTTTTAGTATCCTTAGTA
37734582 TTTCTTTTA
1 TTTCTTTTA
37734591 TTATTTCTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
17 12 0.31
18 1 0.03
19 4 0.10
20 1 0.03
21 21 0.54
ACGTcount: A:0.16, C:0.13, G:0.06, T:0.65
Consensus pattern (21 bp):
TTTCTTTTAGTATCCTTAGTA
Found at i:37734559 original size:12 final size:12
Alignment explanation
Indices: 37734542--37734601 Score: 50
Period size: 12 Copynumber: 4.8 Consensus size: 12
37734532 GTATCCTTAG
37734542 TATTTCTTTTAT
1 TATTTCTTTTAT
*
37734554 TATTTCTTTTCT
1 TATTTCTTTTAT
* * *
37734566 T-TTAGTATCCTTAG
1 TATT--TCT-TTTAT
37734580 TATTTCTTTTAT
1 TATTTCTTTTAT
37734592 TATTTCTTTT
1 TATTTCTTTT
37734602 CTTTTACTTA
Statistics
Matches: 36, Mismatches: 8, Indels: 8
0.69 0.15 0.15
Matches are distributed among these distances:
11 2 0.06
12 25 0.69
13 4 0.11
14 3 0.08
15 2 0.06
ACGTcount: A:0.15, C:0.12, G:0.03, T:0.70
Consensus pattern (12 bp):
TATTTCTTTTAT
Found at i:37734564 original size:38 final size:38
Alignment explanation
Indices: 37734522--37734607 Score: 172
Period size: 38 Copynumber: 2.3 Consensus size: 38
37734512 TTTCTTTTTT
37734522 TTTTCTTTTAGTATCCTTAGTATTTCTTTTATTATTTC
1 TTTTCTTTTAGTATCCTTAGTATTTCTTTTATTATTTC
37734560 TTTTCTTTTAGTATCCTTAGTATTTCTTTTATTATTTC
1 TTTTCTTTTAGTATCCTTAGTATTTCTTTTATTATTTC
37734598 TTTTCTTTTA
1 TTTTCTTTTA
37734608 CTTAAAATAA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 48 1.00
ACGTcount: A:0.15, C:0.13, G:0.05, T:0.67
Consensus pattern (38 bp):
TTTTCTTTTAGTATCCTTAGTATTTCTTTTATTATTTC
Found at i:37734566 original size:17 final size:17
Alignment explanation
Indices: 37734544--37734607 Score: 74
Period size: 17 Copynumber: 3.5 Consensus size: 17
37734534 ATCCTTAGTA
37734544 TTTCTTTTATTATTTCT
1 TTTCTTTTATTATTTCT
* *
37734561 TTTCTTTTAGTATCCTTAGT
1 TTTCTTTTATTAT--TT-CT
37734581 ATTTCTTTTATTATTTCT
1 -TTTCTTTTATTATTTCT
37734599 TTTCTTTTA
1 TTTCTTTTA
37734608 CTTAAAATAA
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
17 21 0.54
18 1 0.03
19 4 0.10
20 1 0.03
21 12 0.31
ACGTcount: A:0.14, C:0.12, G:0.03, T:0.70
Consensus pattern (17 bp):
TTTCTTTTATTATTTCT
Found at i:37735305 original size:13 final size:13
Alignment explanation
Indices: 37735287--37735311 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
37735277 TTTATTATTC
37735287 CTAACATAAAATA
1 CTAACATAAAATA
37735300 CTAACATAAAAT
1 CTAACATAAAAT
37735312 GTTTATAATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.60, C:0.16, G:0.00, T:0.24
Consensus pattern (13 bp):
CTAACATAAAATA
Found at i:37749654 original size:19 final size:18
Alignment explanation
Indices: 37749630--37749675 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
37749620 GTTTAAAAAC
*
37749630 TTTTATTTATTATTTATTA
1 TTTTATTTATTACTT-TTA
*
37749649 TTTTATGTTTTTACTTTTA
1 TTTTAT-TTATTACTTTTA
37749668 TTTTATTT
1 TTTTATTT
37749676 TAAGACTACT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 2 0.08
19 15 0.62
20 7 0.29
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.76
Consensus pattern (18 bp):
TTTTATTTATTACTTTTA
Found at i:37750233 original size:17 final size:17
Alignment explanation
Indices: 37750207--37750240 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
37750197 TTTAGGATAA
* *
37750207 ATTTTGATTGATTTATG
1 ATTTTAATTGATATATG
37750224 ATTTTAATTGATATATG
1 ATTTTAATTGATATATG
37750241 TTAAATTAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.15, T:0.56
Consensus pattern (17 bp):
ATTTTAATTGATATATG
Found at i:37752534 original size:40 final size:41
Alignment explanation
Indices: 37752483--37753075 Score: 751
Period size: 40 Copynumber: 14.8 Consensus size: 41
37752473 ATAACCACAA
* * * * * *
37752483 GCACAATTGCCTTCGGGTCCTAACCCGGGT-ATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCAACTC
* *
37752523 ACACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCAACTC
*
37752563 GCACAAATGCCTTCGGGTCTTAGCCCGGTTAAAATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCAACTC
37752604 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCAACTC
*
37752645 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCAACTC
* * *
37752685 GCATAAATGCCTTCGGGACTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCAACTC
* * *
37752725 GCATAAATGCCTTCGGGACTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCAACTC
* * *
37752765 GCATAAATGCCTTCGGGACTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCAACTC
* * *
37752805 GCATAAATGCCTTCGGGACTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCAACTC
* * *
37752845 GCATAAATGCCTTCGGGACTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCAACTC
* * *
37752885 GCATAAATGCCTTCGGGACTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCAACTC
* * *
37752925 GCATAAATGCCTTCGGGACTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCAACTC
* * *
37752965 GCATAAATGCCTTCGGGACTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCAACTC
* * *
37753005 GCATAAATGCCTTCGGGACTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCAACTC
* *
37753045 GCATAAATGCCTTCGGGACTTAGCCCGGATA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATA
37753076 TCATTCAAAT
Statistics
Matches: 539, Mismatches: 13, Indels: 2
0.97 0.02 0.00
Matches are distributed among these distances:
40 454 0.84
41 85 0.16
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (41 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCAACTC
Found at i:37752567 original size:80 final size:80
Alignment explanation
Indices: 37752527--37753075 Score: 956
Period size: 80 Copynumber: 6.8 Consensus size: 80
37752517 CAACTCACAC
* * * * *
37752527 AAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGG
1 AAATGCCTTCGGGACTTAGCCCGGATAAAATC-ACTAGCATAAATGCCTTCGGGACTTAGCCCGG
* * *
37752591 TTAAAATCAACTCGCAC
65 ATAAAATC-ACTAGCAT
* * * *
37752608 AAATGCCTTCGGGTCTTAGCCCGGATAAAATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGG
1 AAATGCCTTCGGGACTTAGCCCGGATAAAATC-ACTAGCATAAATGCCTTCGGGACTTAGCCCGG
37752673 ATAAAATCACTAGCAT
65 ATAAAATCACTAGCAT
37752689 AAATGCCTTCGGGACTTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGA
1 AAATGCCTTCGGGACTTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGA
37752754 TAAAATCACTAGCAT
66 TAAAATCACTAGCAT
37752769 AAATGCCTTCGGGACTTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGA
1 AAATGCCTTCGGGACTTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGA
37752834 TAAAATCACTAGCAT
66 TAAAATCACTAGCAT
37752849 AAATGCCTTCGGGACTTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGA
1 AAATGCCTTCGGGACTTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGA
37752914 TAAAATCACTAGCAT
66 TAAAATCACTAGCAT
37752929 AAATGCCTTCGGGACTTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGA
1 AAATGCCTTCGGGACTTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGA
37752994 TAAAATCACTAGCAT
66 TAAAATCACTAGCAT
37753009 AAATGCCTTCGGGACTTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGA
1 AAATGCCTTCGGGACTTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGA
37753074 TA
66 TA
37753076 TCATTCAAAT
Statistics
Matches: 459, Mismatches: 8, Indels: 3
0.98 0.02 0.01
Matches are distributed among these distances:
80 352 0.77
81 63 0.14
82 44 0.10
ACGTcount: A:0.31, C:0.26, G:0.20, T:0.23
Consensus pattern (80 bp):
AAATGCCTTCGGGACTTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGA
TAAAATCACTAGCAT
Found at i:37752801 original size:120 final size:120
Alignment explanation
Indices: 37752527--37753075 Score: 956
Period size: 120 Copynumber: 4.6 Consensus size: 120
37752517 CAACTCACAC
* * * * *
37752527 AAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGG
1 AAATGCCTTCGGGACTTAGCCCGGATAAAATC-ACTAGCATAAATGCCTTCGGGACTTAGCCCGG
* * * * * *
37752591 TTAAAATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCAACTCGCAC
65 ATAAAATC-ACTAGCATAAATGCCTTCGGGACTTAGCCCGGATAAAATC-ACTAGCAT
*
37752649 AAATGCCTTCGGGTCTTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGA
1 AAATGCCTTCGGGACTTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGA
37752714 TAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGATAAAATCACTAGCAT
66 TAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGATAAAATCACTAGCAT
37752769 AAATGCCTTCGGGACTTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGA
1 AAATGCCTTCGGGACTTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGA
37752834 TAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGATAAAATCACTAGCAT
66 TAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGATAAAATCACTAGCAT
37752889 AAATGCCTTCGGGACTTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGA
1 AAATGCCTTCGGGACTTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGA
37752954 TAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGATAAAATCACTAGCAT
66 TAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGATAAAATCACTAGCAT
37753009 AAATGCCTTCGGGACTTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGA
1 AAATGCCTTCGGGACTTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGA
37753074 TA
66 TA
37753076 TCATTCAAAT
Statistics
Matches: 415, Mismatches: 11, Indels: 4
0.97 0.03 0.01
Matches are distributed among these distances:
120 312 0.75
121 37 0.09
122 62 0.15
123 4 0.01
ACGTcount: A:0.31, C:0.26, G:0.20, T:0.23
Consensus pattern (120 bp):
AAATGCCTTCGGGACTTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGA
TAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGATAAAATCACTAGCAT
Found at i:37753533 original size:62 final size:61
Alignment explanation
Indices: 37753436--37753559 Score: 239
Period size: 62 Copynumber: 2.0 Consensus size: 61
37753426 TCCCTCCCTA
37753436 CTTCCTCTTCACAATCGGCCAAGAAGAACAAAATGAGAAAGACTTTTTGTTCTTTTTTTTTT
1 CTTCCTCTTCACAATCGGCCAAGAAGAACAAAATGAGAAAGAC-TTTTGTTCTTTTTTTTTT
37753498 CTTCCTCTTCACAATCGGCCAAGAAGAACAAAATGAGAAAGACTTTTGTTCTTTTTTTTTT
1 CTTCCTCTTCACAATCGGCCAAGAAGAACAAAATGAGAAAGACTTTTGTTCTTTTTTTTTT
37753559 C
1 C
37753560 CCTTTTCCCC
Statistics
Matches: 62, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
61 19 0.31
62 43 0.69
ACGTcount: A:0.29, C:0.20, G:0.13, T:0.38
Consensus pattern (61 bp):
CTTCCTCTTCACAATCGGCCAAGAAGAACAAAATGAGAAAGACTTTTGTTCTTTTTTTTTT
Found at i:37759816 original size:41 final size:41
Alignment explanation
Indices: 37759687--37759959 Score: 383
Period size: 40 Copynumber: 6.8 Consensus size: 41
37759677 ATAACCACAA
* * * * * * *
37759687 GCACAATTGCCTTCGGGTCTGAACCCGGGT-ATAGCAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCAACTC
*
37759727 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCAACTC
37759767 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCAACTC
*
37759808 GCACAAATGCCTTCGGGTCCTAGCCCGGATAAAATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCAACTC
*
37759849 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCAACTC
* * *
37759889 GCATAAATGCCTTCGGGACTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCAACTC
* *
37759929 GCATAAATGCCTTCGGGACTTAGCCCGGATA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATA
37759960 TCATTCAAAT
Statistics
Matches: 220, Mismatches: 12, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
40 136 0.62
41 84 0.38
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (41 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCAACTC
Found at i:37760412 original size:55 final size:54
Alignment explanation
Indices: 37760328--37760436 Score: 209
Period size: 55 Copynumber: 2.0 Consensus size: 54
37760318 TACTTCCTCT
37760328 TCACAATCGGCCAAGAAGAACAAAATGAGAAAGACTTTTTGTTCTTTTTTTTTTC
1 TCACAATCGGCCAAGAAGAACAAAATGAGAAAGAC-TTTTGTTCTTTTTTTTTTC
37760383 TCACAATCGGCCAAGAAGAACAAAATGAGAAAGACTTTTGTTCTTTTTTTTTTC
1 TCACAATCGGCCAAGAAGAACAAAATGAGAAAGACTTTTGTTCTTTTTTTTTTC
37760437 CCTTTTCCCC
Statistics
Matches: 54, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
54 19 0.35
55 35 0.65
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.36
Consensus pattern (54 bp):
TCACAATCGGCCAAGAAGAACAAAATGAGAAAGACTTTTGTTCTTTTTTTTTTC
Found at i:37767261 original size:47 final size:47
Alignment explanation
Indices: 37767207--37767400 Score: 280
Period size: 47 Copynumber: 4.1 Consensus size: 47
37767197 TTAGGATTTT
** * *
37767207 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
37767254 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
37767301 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGTCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * *
37767348 ATGTGGTGAATATGAACATGCATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
37767395 ATGTGA
1 ATGTGA
37767401 AATATGTATG
Statistics
Matches: 131, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 131 1.00
ACGTcount: A:0.33, C:0.10, G:0.29, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:37767307 original size:22 final size:22
Alignment explanation
Indices: 37767236--37767307 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
37767226 GTATATATGA
37767236 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
* * *
37767258 GATGAATG-TGAACAT-GCATATATGT
1 GAT-AAGGCCG-A-ATGGC-CA-ATGT
37767283 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
37767305 GAT
1 GAT
37767308 GAATGTGAGC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 11 0.30
23 9 0.24
24 9 0.24
25 8 0.22
ACGTcount: A:0.33, C:0.14, G:0.29, T:0.24
Consensus pattern (22 bp):
GATAAGGCCGAATGGCCAATGT
Found at i:37769176 original size:174 final size:174
Alignment explanation
Indices: 37768885--37769212 Score: 611
Period size: 174 Copynumber: 1.9 Consensus size: 174
37768875 AACTCAAGGT
* *
37768885 ACTTACCTTTTCCGCTGTCCAAAATTGACTTGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
37768950 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
37769015 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTTGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTTGCAC
*
37769059 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAGGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
37769124 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
*
37769189 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
37769213 TGTACAATTT
Statistics
Matches: 149, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
174 149 1.00
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTTGCAC
Found at i:37769204 original size:29 final size:30
Alignment explanation
Indices: 37769165--37769243 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
37769155 CTTAATAATC
37769165 AACCACGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
37769195 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
37769224 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
37769244 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:37771190 original size:37 final size:37
Alignment explanation
Indices: 37771045--37771189 Score: 245
Period size: 37 Copynumber: 3.9 Consensus size: 37
37771035 GGAAATATAT
*
37771045 TCCGGGTAAGATCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
37771082 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
37771119 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * *
37771156 TCCAGGTAAGACCCGATAACTTCGTGTGGAGATT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATT
37771190 TCGTCTGAGC
Statistics
Matches: 103, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 103 1.00
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.26
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:37784608 original size:92 final size:95
Alignment explanation
Indices: 37784441--37784665 Score: 228
Period size: 92 Copynumber: 2.4 Consensus size: 95
37784431 CGAAATCGAG
* * ** ** * *
37784441 GCCGACGTCATGTCCCAGACATGGTGTTACACTAGCTCTCACATATCCGTGCTGATGCTATGTCC
1 GCCGACGTCATGTCCCAGACATGGTCTTACACTAGATCT-ACATATCAATGCCAATGCCAAGTCC
*
37784506 CAGACATGGTCATACACTGACACATCTTGTA
65 CAAACATGGTCATACACTGACACATCTTGTA
*
37784537 GCCGACGT-ATGTCCCAGACAT-GTCTTACACTAGATCT-CATCTCAATGCCAATGCCAAGTCCC
1 GCCGACGTCATGTCCCAGACATGGTCTTACACTAGATCTACATATCAATGCCAATGCCAAGTCCC
* *
37784599 AAACATGGTCTTACACT-A-GC-TCTTGTCTCAA
66 AAACATGGTCATACACTGACACATCTTG--T--A
* *
37784630 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAG
1 -GCCGACGTCATGTCCCAGACATGGTCTTACACTAG
37784666 CACAGTAATA
Statistics
Matches: 108, Mismatches: 14, Indels: 14
0.79 0.10 0.10
Matches are distributed among these distances:
89 5 0.05
90 1 0.01
91 2 0.02
92 33 0.31
93 1 0.01
94 20 0.19
95 26 0.24
96 20 0.19
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (95 bp):
GCCGACGTCATGTCCCAGACATGGTCTTACACTAGATCTACATATCAATGCCAATGCCAAGTCCC
AAACATGGTCATACACTGACACATCTTGTA
Found at i:37784666 original size:48 final size:48
Alignment explanation
Indices: 37784449--37784666 Score: 185
Period size: 48 Copynumber: 4.6 Consensus size: 48
37784439 AGGCCGACGT
* * ** **
37784449 CATGTCCCAGACATGGTGTTACACTAGCTCTCACATATCCGTGCTGATGC
1 CATGTCCCAGACATGGTCTTACACTAGCTCT--CATCTCAATGCCAATGC
* * * * ** * *
37784499 TATGTCCCAGACATGGTCATACACT-G-ACACATCT-TGTAGCCGACG-
1 CATGTCCCAGACATGGTCTTACACTAGCTCTCATCTCAAT-GCCAATGC
* *
37784544 TATGTCCCAGACAT-GTCTTACACTAGATCTCATCTCAATGCCAATGC
1 CATGTCCCAGACATGGTCTTACACTAGCTCTCATCTCAATGCCAATGC
* * ** *
37784591 CAAGTCCCAAACATGGTCTTACACTAGCTCTTGTCTCAATGCCGATGC
1 CATGTCCCAGACATGGTCTTACACTAGCTCTCATCTCAATGCCAATGC
37784639 CATGTCCCAGACATGGTCTTACACTAGC
1 CATGTCCCAGACATGGTCTTACACTAGC
37784667 ACAGTAATAA
Statistics
Matches: 137, Mismatches: 25, Indels: 14
0.78 0.14 0.08
Matches are distributed among these distances:
44 9 0.07
45 17 0.12
46 20 0.15
47 12 0.09
48 56 0.41
49 1 0.01
50 22 0.16
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.27
Consensus pattern (48 bp):
CATGTCCCAGACATGGTCTTACACTAGCTCTCATCTCAATGCCAATGC
Found at i:37786895 original size:20 final size:20
Alignment explanation
Indices: 37786870--37786916 Score: 94
Period size: 20 Copynumber: 2.4 Consensus size: 20
37786860 ATTCTGATAT
37786870 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
37786890 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
37786910 ACATGAT
1 ACATGAT
37786917 GTATTCATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.36, C:0.11, G:0.19, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:37787015 original size:25 final size:25
Alignment explanation
Indices: 37786963--37787056 Score: 111
Period size: 24 Copynumber: 3.8 Consensus size: 25
37786953 GAGGAAGTGC
* **
37786963 AAAAGGGCTATGCCCCAG-TTACCG
1 AAAAGGGCTTTGCCCCAGTTTACTA
37786987 AAAAGGGCTTTGCCCCAGTTTACTA
1 AAAAGGGCTTTGCCCCAGTTTACTA
* *
37787012 AAAAGGGCTTTTGCCTCAGTTTA-TC
1 AAAAGGGC-TTTGCCCCAGTTTACTA
*
37787037 AAAAGGGCTTTGCCCTAGTT
1 AAAAGGGCTTTGCCCCAGTT
37787057 ATTAAAAGAG
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
24 27 0.44
25 21 0.34
26 13 0.21
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.28
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACTA
Found at i:37787031 original size:26 final size:25
Alignment explanation
Indices: 37786987--37787069 Score: 91
Period size: 25 Copynumber: 3.4 Consensus size: 25
37786977 CCAGTTACCG
37786987 AAAAGGGC-TTTGCCCCAGTTTACTA
1 AAAAGGGCTTTTGCCCCAGTTTA-TA
* *
37787012 AAAAGGGCTTTTGCCTCAGTTTATC
1 AAAAGGGCTTTTGCCCCAGTTTATA
* *
37787037 AAAAGGGC-TTTGCCCTAG-TTATT
1 AAAAGGGCTTTTGCCCCAGTTTATA
37787060 AAAAGAGGCT
1 AAAAG-GGCT
37787070 AGGCCTCCAG
Statistics
Matches: 50, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
23 9 0.18
24 11 0.22
25 17 0.34
26 13 0.26
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (25 bp):
AAAAGGGCTTTTGCCCCAGTTTATA
Found at i:37787312 original size:31 final size:31
Alignment explanation
Indices: 37787277--37787340 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
37787267 CGTTTACAGT
37787277 AAAGGCTTCGACCCAGTAATATGAAATATGA
1 AAAGGCTTCGACCCAGTAATATGAAATATGA
* **
37787308 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGACCCAGTAATATGAAATATGA
37787339 AA
1 AA
37787341 TATGTAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGACCCAGTAATATGAAATATGA
Found at i:37794967 original size:24 final size:24
Alignment explanation
Indices: 37794940--37794985 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
37794930 TATAATAAGG
* * *
37794940 AAATGACTATTTTGCCCCTAGGTA
1 AAATGACCATTATACCCCTAGGTA
37794964 AAATGACCATTATACCCCTAGG
1 AAATGACCATTATACCCCTAGG
37794986 GTTTAATTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.28
Consensus pattern (24 bp):
AAATGACCATTATACCCCTAGGTA
Found at i:37795047 original size:20 final size:20
Alignment explanation
Indices: 37795022--37795068 Score: 94
Period size: 20 Copynumber: 2.4 Consensus size: 20
37795012 ATTCTGATAT
37795022 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
37795042 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
37795062 ACATGAT
1 ACATGAT
37795069 TGGGTTTATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.36, C:0.11, G:0.19, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:37795147 original size:25 final size:25
Alignment explanation
Indices: 37795095--37795188 Score: 129
Period size: 24 Copynumber: 3.8 Consensus size: 25
37795085 GAGGAAGTGC
* *
37795095 AAAAGGGCTATGCCCCAG-TTACCG
1 AAAAGGGCTTTGCCCCAGTTTACTG
37795119 AAAAGGGCTTTGCCCCAGTTTACTG
1 AAAAGGGCTTTGCCCCAGTTTACTG
*
37795144 AAAAGGGCTTTTGCCCCAGTTTA-TC
1 AAAAGGGC-TTTGCCCCAGTTTACTG
*
37795169 AAAAGGGCTTTGCCCTAGTT
1 AAAAGGGCTTTGCCCCAGTT
37795189 ATTAAAAGAG
Statistics
Matches: 64, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
24 28 0.44
25 22 0.34
26 14 0.22
ACGTcount: A:0.26, C:0.24, G:0.23, T:0.27
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACTG
Found at i:37795201 original size:24 final size:24
Alignment explanation
Indices: 37795094--37795201 Score: 121
Period size: 24 Copynumber: 4.4 Consensus size: 24
37795084 GGAGGAAGTG
* *
37795094 CAAAAGGGCTATGCCCCAG-TTAC
1 CAAAAGGGCTTTGCCCCAGTTTAT
37795117 CGAAAAGGGCTTTGCCCCAGTTTACT
1 C-AAAAGGGCTTTGCCCCAGTTTA-T
*
37795143 GAAAAGGGCTTTTGCCCCAGTTTAT
1 CAAAAGGGC-TTTGCCCCAGTTTAT
*
37795168 CAAAAGGGCTTTGCCCTAG-TTAT
1 CAAAAGGGCTTTGCCCCAGTTTAT
*
37795191 TAAAAGAGGCT
1 CAAAAG-GGCT
37795202 AGGACTCTAG
Statistics
Matches: 74, Mismatches: 6, Indels: 9
0.83 0.07 0.10
Matches are distributed among these distances:
23 10 0.14
24 30 0.41
25 20 0.27
26 14 0.19
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.26
Consensus pattern (24 bp):
CAAAAGGGCTTTGCCCCAGTTTAT
Found at i:37795443 original size:31 final size:31
Alignment explanation
Indices: 37795408--37795471 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
37795398 CGTTTACAGT
37795408 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
37795439 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
37795470 AA
1 AA
37795472 TATGTAAAGG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.38, C:0.16, G:0.23, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:37797960 original size:40 final size:40
Alignment explanation
Indices: 37797900--37799056 Score: 2046
Period size: 40 Copynumber: 28.9 Consensus size: 40
37797890 CAAGCTCAAT
* * * * * **
37797900 TGCCTTTGGGTCTTAACCCGGGTATAGCAACTCGCAGGAA
1 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
* *
37797940 TGCCTTCGGGTCTTAGCCCGGATATATCAACTT-GCACAAT
1 TGCCTTCGGGTCTTATCCCGGATATATCAA-TTCGCACAAA
*
37797980 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
* * *
37798020 TGCCGTCGGGTCTTAGCCCGGATATATCAGTTCGCACAAA
1 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
37798060 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
*
37798100 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
* * *
37798140 TGCCGTCGGGTCTTAGCCCGGATATATCAGTTCGCACAAA
1 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
37798180 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
37798220 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
37798260 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
37798300 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
37798340 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
37798380 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
37798420 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
37798460 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
37798500 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
37798540 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
37798580 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
37798620 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
37798660 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
* * *
37798700 TGCCGTCGGGTCTTAGCCCGGATATATCAGTTCGCACAAA
1 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
37798740 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
*
37798780 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
*
37798820 TGCCTTCGGGTCTTATCCCAGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
*
37798860 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
*
37798900 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
* *
37798940 TGCCTTCAGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
*
37798980 TGCCTTCGGGTCTTAACCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
*
37799020 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCAC
1 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCAC
37799057 CATGCACACA
Statistics
Matches: 1080, Mismatches: 35, Indels: 4
0.97 0.03 0.00
Matches are distributed among these distances:
39 2 0.00
40 1077 1.00
41 1 0.00
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (40 bp):
TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
Found at i:37799287 original size:140 final size:140
Alignment explanation
Indices: 37799057--37799314 Score: 516
Period size: 140 Copynumber: 1.8 Consensus size: 140
37799047 CAATTCGCAC
37799057 CATGCACACATATATCAACAATCATGACACATCCATATTTCACTTTCGTTACTAAGGCTCAAACA
1 CATGCACACATATATCAACAATCATGACACATCCATATTTCACTTTCGTTACTAAGGCTCAAACA
37799122 CAAAGCATTTATTAAACCTTTCCAATTTCGGCTCAATAGCCACACAAAAAGAGGCCCGGATATCA
66 CAAAGCATTTATTAAACCTTTCCAATTTCGGCTCAATAGCCACACAAAAAGAGGCCCGGATATCA
37799187 TTCAAATGCT
131 TTCAAATGCT
37799197 CATGCACACATATATCAACAATCATGACACATCCATATTTCACTTTCGTTACTAAGGCTCAAACA
1 CATGCACACATATATCAACAATCATGACACATCCATATTTCACTTTCGTTACTAAGGCTCAAACA
37799262 CAAAGCATTTATTAAACCTTTCCAATTTCGGCTCAATAGCCACACAAAAAGAG
66 CAAAGCATTTATTAAACCTTTCCAATTTCGGCTCAATAGCCACACAAAAAGAG
37799315 CATGATTTCA
Statistics
Matches: 118, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
140 118 1.00
ACGTcount: A:0.37, C:0.26, G:0.10, T:0.26
Consensus pattern (140 bp):
CATGCACACATATATCAACAATCATGACACATCCATATTTCACTTTCGTTACTAAGGCTCAAACA
CAAAGCATTTATTAAACCTTTCCAATTTCGGCTCAATAGCCACACAAAAAGAGGCCCGGATATCA
TTCAAATGCT
Found at i:37808795 original size:31 final size:31
Alignment explanation
Indices: 37808760--37808864 Score: 79
Period size: 31 Copynumber: 3.2 Consensus size: 31
37808750 GGAAATTATA
37808760 ATAAATATATCAATTTTACATTGAAACATGC
1 ATAAATATATCAATTTTACATTGAAACATGC
** * * *
37808791 ATAAAT-TAGTGCTTTTTTCAACACCTCGGAAATTAT-A
1 ATAAATATA-T-CAATTTT--ACA--T-TGAAA-CATGC
37808828 ATAAATATATCAATTTTACATTGAAACATGC
1 ATAAATATATCAATTTTACATTGAAACATGC
37808859 ATAAAT
1 ATAAAT
37808865 TAATGCTTGT
Statistics
Matches: 54, Mismatches: 10, Indels: 20
0.64 0.12 0.24
Matches are distributed among these distances:
30 4 0.07
31 17 0.31
32 6 0.11
34 6 0.11
36 6 0.11
37 11 0.20
38 4 0.07
ACGTcount: A:0.43, C:0.13, G:0.08, T:0.36
Consensus pattern (31 bp):
ATAAATATATCAATTTTACATTGAAACATGC
Found at i:37808817 original size:68 final size:68
Alignment explanation
Indices: 37808738--37808872 Score: 261
Period size: 68 Copynumber: 2.0 Consensus size: 68
37808728 ACTTACATAC
*
37808738 TTTCAACACCTCGGAAATTATAATAAATATATCAATTTTACATTGAAACATGCATAAATTAGTGC
1 TTTCAACACCTCGGAAATTATAATAAATATATCAATTTTACATTGAAACATGCATAAATTAATGC
37808803 TTT
66 TTT
37808806 TTTCAACACCTCGGAAATTATAATAAATATATCAATTTTACATTGAAACATGCATAAATTAATGC
1 TTTCAACACCTCGGAAATTATAATAAATATATCAATTTTACATTGAAACATGCATAAATTAATGC
37808871 TT
66 TT
37808873 GTTATACATA
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
68 66 1.00
ACGTcount: A:0.41, C:0.15, G:0.08, T:0.36
Consensus pattern (68 bp):
TTTCAACACCTCGGAAATTATAATAAATATATCAATTTTACATTGAAACATGCATAAATTAATGC
TTT
Found at i:37809068 original size:30 final size:30
Alignment explanation
Indices: 37809034--37809094 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
37809024 TCCTTAACTC
37809034 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
37809064 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
37809094 A
1 A
37809095 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:37814947 original size:47 final size:47
Alignment explanation
Indices: 37814786--37815174 Score: 661
Period size: 47 Copynumber: 8.2 Consensus size: 47
37814776 NNNNNNNNNN
*
37814786 TGTGATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATA
37814835 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATA
37814884 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
37814931 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
37814978 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
37815025 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
37815072 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* * * * * * * *
37815119 TGTGACAGGGCCGAGTGGCCAATGTGATGGATGTGAAAGTGCATAAA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
37815166 TGTGATAAG
1 TGTGATAAG
37815175 TCCCGAAGGG
Statistics
Matches: 329, Mismatches: 11, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
47 240 0.73
49 89 0.27
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.29
Consensus pattern (47 bp):
TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
Found at i:37815206 original size:44 final size:44
Alignment explanation
Indices: 37815154--37815286 Score: 266
Period size: 44 Copynumber: 3.0 Consensus size: 44
37815144 GATGGATGTG
37815154 AAAGTGCATAAATGTGATAAGTCCCGAAGGGCATTTGTGTCAGT
1 AAAGTGCATAAATGTGATAAGTCCCGAAGGGCATTTGTGTCAGT
37815198 AAAGTGCATAAATGTGATAAGTCCCGAAGGGCATTTGTGTCAGT
1 AAAGTGCATAAATGTGATAAGTCCCGAAGGGCATTTGTGTCAGT
37815242 AAAGTGCATAAATGTGATAAGTCCCGAAGGGCATTTGTGTCAGT
1 AAAGTGCATAAATGTGATAAGTCCCGAAGGGCATTTGTGTCAGT
37815286 A
1 A
37815287 CTATATCCGG
Statistics
Matches: 89, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 89 1.00
ACGTcount: A:0.32, C:0.14, G:0.27, T:0.27
Consensus pattern (44 bp):
AAAGTGCATAAATGTGATAAGTCCCGAAGGGCATTTGTGTCAGT
Found at i:37815437 original size:37 final size:37
Alignment explanation
Indices: 37815381--37815459 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
37815371 CCGAGCTCTA
* * *
37815381 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
37815418 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
37815455 AAGAC
1 AAGAC
37815460 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:37815991 original size:23 final size:23
Alignment explanation
Indices: 37815965--37816008 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
37815955 GGACTATCTC
*
37815965 ATGGCATGTATAAAATAGACTTT
1 ATGGCACGTATAAAATAGACTTT
37815988 ATGGCACGTATAAAATAGACT
1 ATGGCACGTATAAAATAGACT
37816009 AGTGGCGGAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.41, C:0.11, G:0.18, T:0.30
Consensus pattern (23 bp):
ATGGCACGTATAAAATAGACTTT
Found at i:37816545 original size:25 final size:25
Alignment explanation
Indices: 37816507--37816556 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
37816497 ATCAGTATTG
*
37816507 AAGCCCTGTACAGGGATATATCCAA
1 AAGCCCTGTACAGGGAGATATCCAA
* *
37816532 AAGCTCTGTCCAGGGAGATATCCAA
1 AAGCCCTGTACAGGGAGATATCCAA
37816557 GTCGTAATGC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.34, C:0.24, G:0.22, T:0.20
Consensus pattern (25 bp):
AAGCCCTGTACAGGGAGATATCCAA
Found at i:37817420 original size:43 final size:43
Alignment explanation
Indices: 37817372--37817515 Score: 279
Period size: 43 Copynumber: 3.3 Consensus size: 43
37817362 GGTTTTCATA
37817372 ACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTGGC
1 ACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTGGC
37817415 ACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTGGC
1 ACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTGGC
*
37817458 ACTAAGTGTGCGGGCAATAAGTGTTCACTGTTGTGAGATTGGC
1 ACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTGGC
37817501 ACTAAGTGTGCGGGC
1 ACTAAGTGTGCGGGC
37817516 TTGAAATGCA
Statistics
Matches: 100, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
43 100 1.00
ACGTcount: A:0.23, C:0.15, G:0.35, T:0.28
Consensus pattern (43 bp):
ACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTGGC
Found at i:37817532 original size:29 final size:29
Alignment explanation
Indices: 37817497--37817570 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
37817487 GTTGTGAGAT
* *
37817497 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
37817526 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
37817555 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
37817571 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:37817939 original size:40 final size:40
Alignment explanation
Indices: 37817881--37817991 Score: 104
Period size: 40 Copynumber: 2.8 Consensus size: 40
37817871 TTGAATGATG
* *
37817881 TCCGGGCTAAGTCTCGAAG-GC-TTTGTGCTAAGTGACCATA
1 TCCGGACTAAGTCTCGAAGAGCATTCGTGCT-AGTGA-CATA
*
37817921 TCCGGACTAAGT-TCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGACTAAGTCT-CGAAGAGCATTCGTGCTAGTGACATA
** *
37817961 TCCGTG-CTAAACCCCGAAGAGCATTCGTGCT
1 TCCG-GACTAAGTCTCGAAGAGCATTCGTGCT
37817992 GGTGTTATAT
Statistics
Matches: 60, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
39 1 0.02
40 44 0.73
41 8 0.13
42 7 0.12
ACGTcount: A:0.24, C:0.24, G:0.25, T:0.26
Consensus pattern (40 bp):
TCCGGACTAAGTCTCGAAGAGCATTCGTGCTAGTGACATA
Found at i:37818001 original size:40 final size:40
Alignment explanation
Indices: 37817934--37818037 Score: 172
Period size: 40 Copynumber: 2.6 Consensus size: 40
37817924 GGACTAAGTT
*
37817934 CCGAAGAGCATTCGTGCTAGTGATATATCCGTGCTAAACC
1 CCGAAGAGCATTCGTGCTGGTGATATATCCGTGCTAAACC
*
37817974 CCGAAGAGCATTCGTGCTGGTGTTATATCCGTGCTAAACC
1 CCGAAGAGCATTCGTGCTGGTGATATATCCGTGCTAAACC
* *
37818014 CCGAAGAGCAATCATGCTGGTGAT
1 CCGAAGAGCATTCGTGCTGGTGAT
37818038 GTGTATTCGG
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 59 1.00
ACGTcount: A:0.26, C:0.24, G:0.25, T:0.25
Consensus pattern (40 bp):
CCGAAGAGCATTCGTGCTGGTGATATATCCGTGCTAAACC
Found at i:37821508 original size:47 final size:47
Alignment explanation
Indices: 37821450--37821703 Score: 391
Period size: 47 Copynumber: 5.4 Consensus size: 47
37821440 CAGCCAAGAC
*
37821450 AGTGTATATATGTGATAAGGCCTAATGGACGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
37821497 AGTGTATATATGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
37821544 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
37821591 AGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * * * * **
37821638 AGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGGTGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
37821685 AGTGTAAAAATGTGATAAG
1 AGTGTATATATGTGATAAG
37821704 TCCCGAAGGG
Statistics
Matches: 192, Mismatches: 15, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 192 1.00
ACGTcount: A:0.33, C:0.08, G:0.31, T:0.29
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:37821923 original size:37 final size:37
Alignment explanation
Indices: 37821822--37821923 Score: 168
Period size: 37 Copynumber: 2.8 Consensus size: 37
37821812 CCGAGCTCTA
*
37821822 AAGACCCGATGACTACGTGTGGAGATTATGTCCGAGT
1 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGAGT
*
37821859 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGAGT
* *
37821896 AAGACCCGATAACTTCGTGTGGAGATTT
1 AAGACCCGATGACTACGTGTGGAGATTT
37821924 CGTCTGAGCT
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 61 1.00
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.26
Consensus pattern (37 bp):
AAGACCCGATGACTACGTGTGGAGATTTTGTCCGAGT
Found at i:37823503 original size:30 final size:30
Alignment explanation
Indices: 37823469--37823529 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
37823459 TCCTTAACTC
37823469 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
37823499 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
37823529 A
1 A
37823530 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:37826956 original size:28 final size:28
Alignment explanation
Indices: 37826908--37826994 Score: 131
Period size: 28 Copynumber: 3.1 Consensus size: 28
37826898 CATACTTGTC
37826908 TATGGCCCACTAGGCCC-AATCACATTTA
1 TATGGCCCA-TAGGCCCAAATCACATTTA
*
37826936 TATGGCCCATTGGCCCAAATCACATTTA
1 TATGGCCCATAGGCCCAAATCACATTTA
*
37826964 TATGGCCCATCAGGCCCAATTCACATTTA
1 TATGGCCCAT-AGGCCCAAATCACATTTA
37826993 TA
1 TA
37826995 GTCATGCTCA
Statistics
Matches: 54, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
27 6 0.11
28 30 0.56
29 18 0.33
ACGTcount: A:0.29, C:0.30, G:0.14, T:0.28
Consensus pattern (28 bp):
TATGGCCCATAGGCCCAAATCACATTTA
Found at i:37838121 original size:46 final size:46
Alignment explanation
Indices: 37838069--37838193 Score: 196
Period size: 46 Copynumber: 2.7 Consensus size: 46
37838059 GGTTGAGCAT
* *
37838069 CCGAACTCGTTGAGTTAAGTCCGAGTTCACTTATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGC
* *
37838115 CTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGC
* *
37838161 CCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
37838194 GGGGCGGGTT
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 72 1.00
ACGTcount: A:0.22, C:0.19, G:0.27, T:0.32
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGC
Found at i:37845848 original size:138 final size:138
Alignment explanation
Indices: 37845595--37845869 Score: 523
Period size: 138 Copynumber: 2.0 Consensus size: 138
37845585 GGTTGAGCAT
*
37845595 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGGTTACATGATTTCTTGATTACATAT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAGGGATGGGTTACATGATTTCTTGATTACATAT
37845660 GAGGCACTTATGTGCAAATTATCCGTGTATCCGAGTTGTATTCCAATGTGTTCAACAGGGTGAAA
66 GAGGCACTTATGTGCAAATTATCCGTGTATCCGAGTTGTATTCCAATGTGTTCAACAGGGTGAAA
37845725 TTTCTAGC
131 TTTCTAGC
* *
37845733 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTAGGGGTGGGTTACATGATTTCTTGATTACATAT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAGGGATGGGTTACATGATTTCTTGATTACATAT
37845798 GAGGCACTTATGTGCAAATTATCCGTGTATCCGAGTTGTATTCCAATGTGTTCAACAGGGTGAAA
66 GAGGCACTTATGTGCAAATTATCCGTGTATCCGAGTTGTATTCCAATGTGTTCAACAGGGTGAAA
37845863 TTTCTAG
131 TTTCTAG
37845870 TGAAATGGAA
Statistics
Matches: 134, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
138 134 1.00
ACGTcount: A:0.24, C:0.17, G:0.24, T:0.35
Consensus pattern (138 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAGGGATGGGTTACATGATTTCTTGATTACATAT
GAGGCACTTATGTGCAAATTATCCGTGTATCCGAGTTGTATTCCAATGTGTTCAACAGGGTGAAA
TTTCTAGC
Found at i:37850747 original size:50 final size:49
Alignment explanation
Indices: 37850641--37850770 Score: 179
Period size: 50 Copynumber: 2.6 Consensus size: 49
37850631 CTGGTACGCA
* * * ** *
37850641 TAGTAGCCTGCACATAGTACTACACATGCGACCAATTATCTGGTACACG
1 TAGTAGCCTACACTTAGTACTACACATGTGACCAACCATCTGATACACG
* *
37850690 TAGTAGCCTACACTTAGTACTACACACGTGACCTAACCATCTGATACATG
1 TAGTAGCCTACACTTAGTACTACACATGTGACC-AACCATCTGATACACG
37850740 TAGTAGCCTACACTTAGTACTACACATGTGA
1 TAGTAGCCTACACTTAGTACTACACATGTGA
37850771 TCGAAGTTAT
Statistics
Matches: 71, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
49 29 0.41
50 42 0.59
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTACACTTAGTACTACACATGTGACCAACCATCTGATACACG
Found at i:37850824 original size:101 final size:99
Alignment explanation
Indices: 37850641--37850824 Score: 244
Period size: 101 Copynumber: 1.8 Consensus size: 99
37850631 CTGGTACGCA
* *
37850641 TAGTAGCCTGCACATAGTACTACACATGCGACCAATTATCTGGTACACGTAGTAGCCTACACTTA
1 TAGTAGCCTACACATAGTACTACACATGCGACCAATTATCTGGTACACATAGTAGCCTACACTTA
*
37850706 GTACTACACACGTGACCTAACCATCTGATACATG
66 GTACTACACACGCGACCTAACCATCTGATACATG
* * * * * *
37850740 TAGTAGCCTACACTTAGTACTACACATGTGATCGAAGTTAT-TGGGTGCGCATAGTAGCCTGCAC
1 TAGTAGCCTACACATAGTACTACACATGCGA-CCAA-TTATCT-GGTACACATAGTAGCCTACAC
*
37850804 TTAGTACTACACATGCGACCT
63 TTAGTACTACACACGCGACCT
37850825 CACAATAGAT
Statistics
Matches: 72, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
99 28 0.39
100 4 0.06
101 40 0.56
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (99 bp):
TAGTAGCCTACACATAGTACTACACATGCGACCAATTATCTGGTACACATAGTAGCCTACACTTA
GTACTACACACGCGACCTAACCATCTGATACATG
Found at i:37853781 original size:49 final size:49
Alignment explanation
Indices: 37853722--37853906 Score: 185
Period size: 50 Copynumber: 3.7 Consensus size: 49
37853712 GTAGACAAGG
* *
37853722 TTATCTGGTACGCATAGTAGCCTGCACATAGTACT-ACACATGCAACCAA
1 TTATCTGGTACACATAGTAGCCTGCACTTAGTACTCACACATG-AACCAA
* *
37853771 TTATCTGGTACACGTAGTAGCCTGCATTTAGTACTGCACACATG-ACCTAA
1 TTATCTGGTACACATAGTAGCCTGCACTTAGTACT-CACACATGAACC-AA
** * * * * *
37853821 CCATCTGATACACGTAGTAGCCTGCACTTAGGACTACACACATGATCGAA
1 TTATCTGGTACACATAGTAGCCTGCACTTAGTACT-CACACATGAACCAA
* **
37853871 GTTATCAGGTACGTATAGTAGCCTGCACTTAGTACT
1 -TTATCTGGTACACATAGTAGCCTGCACTTAGTACT
37853907 ACATATGCGA
Statistics
Matches: 111, Mismatches: 20, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
49 34 0.31
50 42 0.38
51 35 0.32
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (49 bp):
TTATCTGGTACACATAGTAGCCTGCACTTAGTACTCACACATGAACCAA
Found at i:37855042 original size:20 final size:19
Alignment explanation
Indices: 37854998--37855043 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
37854988 GAGAAGATGA
37854998 CCATTTTTGTGTTACTTTT
1 CCATTTTTGTGTTACTTTT
37855017 CCATTTTTGTGTTACTTTT
1 CCATTTTTGTGTTACTTTT
37855036 CCAATTTT
1 CC-ATTTT
37855044 ATTTCATTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 21 0.81
20 5 0.19
ACGTcount: A:0.13, C:0.17, G:0.09, T:0.61
Consensus pattern (19 bp):
CCATTTTTGTGTTACTTTT
Found at i:37857484 original size:27 final size:29
Alignment explanation
Indices: 37857454--37857517 Score: 87
Period size: 29 Copynumber: 2.3 Consensus size: 29
37857444 AAAGTGATTT
*
37857454 TTGAGAAAA-TGTCAATT-AGGGATTAAA
1 TTGAGAAAAGTGTAAATTGAGGGATTAAA
*
37857481 TTGAGAAAAGTGTAAATTGAGGGGTTAAA
1 TTGAGAAAAGTGTAAATTGAGGGATTAAA
*
37857510 TTGTGAAA
1 TTGAGAAA
37857518 CAAATGAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
27 9 0.28
28 7 0.22
29 16 0.50
ACGTcount: A:0.42, C:0.02, G:0.27, T:0.30
Consensus pattern (29 bp):
TTGAGAAAAGTGTAAATTGAGGGATTAAA
Found at i:37881601 original size:43 final size:43
Alignment explanation
Indices: 37881553--37881699 Score: 154
Period size: 43 Copynumber: 3.4 Consensus size: 43
37881543 ATTGAGATGA
* *
37881553 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTGT
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATTAT
* * *
37881596 GATTACGTGTAAAACCATGTCTGGGACATTGACATCGT-TATAT
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT-TAT
* * * * *
37881639 GATTTCATGTAAGACCACGTATGGGACGTTGGCAATGGTA-TAT
1 GATTACATGTAAGACCATGTCTGGGACATTGGC-ATCGTATTAT
**
37881682 GAAAACATGTAAGACCAT
1 GATTACATGTAAGACCAT
37881700 ATTTTAACAT
Statistics
Matches: 84, Mismatches: 17, Indels: 6
0.79 0.16 0.06
Matches are distributed among these distances:
42 1 0.01
43 79 0.94
44 4 0.05
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.31
Consensus pattern (43 bp):
GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATTAT
Found at i:37883494 original size:25 final size:25
Alignment explanation
Indices: 37883466--37883515 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
37883456 CCCTTATATT
* * * *
37883466 ATGAAAATGACTGTTTTGCCCCTAG
1 ATGAAAAAGACCGTTATACCCCTAG
37883491 ATGAAAAAGACCGTTATACCCCTAG
1 ATGAAAAAGACCGTTATACCCCTAG
37883516 GGTTTACTTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.26
Consensus pattern (25 bp):
ATGAAAAAGACCGTTATACCCCTAG
Found at i:37883577 original size:20 final size:20
Alignment explanation
Indices: 37883552--37883598 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
37883542 ATTTTGATAT
*
37883552 ACATGAT-TGATATGATATGC
1 ACATGATATG-TAGGATATGC
37883572 ACATGATATGTAGGATATGC
1 ACATGATATGTAGGATATGC
37883592 ACATGAT
1 ACATGAT
37883599 GTATTCATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 23 0.92
21 2 0.08
ACGTcount: A:0.36, C:0.11, G:0.21, T:0.32
Consensus pattern (20 bp):
ACATGATATGTAGGATATGC
Found at i:37883774 original size:25 final size:26
Alignment explanation
Indices: 37883648--37883822 Score: 275
Period size: 26 Copynumber: 6.8 Consensus size: 26
37883638 GAGGAAGTGC
*
37883648 AAAAGGGCTTATGCCCTAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
37883674 AAAAAGGGCTTATGCCCCAGTTTATTG
1 -AAAAGGGCTTATGCCCCAGTTTATTG
37883701 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
37883727 AAAAGGGCTTATGCCCCAATTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
37883753 AAAAGGGCTT-TGCCCCAGTTTATCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
* *
37883778 AAAAGGGATT-TGCCCCAGTTTACTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
37883803 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
37883823 ATTAAAGAGG
Statistics
Matches: 140, Mismatches: 8, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
25 54 0.39
26 61 0.44
27 25 0.18
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:37888895 original size:8 final size:8
Alignment explanation
Indices: 37888878--37888913 Score: 63
Period size: 8 Copynumber: 4.5 Consensus size: 8
37888868 TTGAAACGAT
37888878 AAATGCCG
1 AAATGCCG
*
37888886 AAAAGCCG
1 AAATGCCG
37888894 AAATGCCG
1 AAATGCCG
37888902 AAATGCCG
1 AAATGCCG
37888910 AAAT
1 AAAT
37888914 TCTAGCATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.44, C:0.22, G:0.22, T:0.11
Consensus pattern (8 bp):
AAATGCCG
Found at i:37889442 original size:20 final size:20
Alignment explanation
Indices: 37889417--37889462 Score: 76
Period size: 20 Copynumber: 2.3 Consensus size: 20
37889407 GGATTTTGAT
37889417 CATGAT-TGATATGATATGCA
1 CATGATATG-TATGATATGCA
37889437 CATGATATGTATGATATGCA
1 CATGATATGTATGATATGCA
37889457 CATGAT
1 CATGAT
37889463 GTATTCATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 23 0.92
21 2 0.08
ACGTcount: A:0.35, C:0.11, G:0.20, T:0.35
Consensus pattern (20 bp):
CATGATATGTATGATATGCA
Found at i:37889584 original size:25 final size:26
Alignment explanation
Indices: 37889512--37889609 Score: 146
Period size: 25 Copynumber: 3.8 Consensus size: 26
37889502 GAGGAAGTGC
37889512 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
37889538 AAAAAGGGCTTATGCCCCAGTTTATTG
1 -AAAAGGGCTTATGCCCCAGTTTATTG
**
37889565 AAAAGGGCTT-TGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
37889590 AAAAGGGCTT-TTCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
37889610 ATTAAAGAGG
Statistics
Matches: 68, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
25 32 0.47
26 10 0.15
27 26 0.38
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:37908976 original size:39 final size:41
Alignment explanation
Indices: 37908859--37909042 Score: 201
Period size: 40 Copynumber: 4.6 Consensus size: 41
37908849 GCTCCTCGTT
* *
37908859 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAATCTCGCA
*
37908899 CAAATGCCTTCGGGACTTAACCCGG-ATTCAGTAA-CTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATT-AGTAATCTCGCA
37908939 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGT-ATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAATCTCGCA
* *
37908978 CAAATGCCTTC-GGATCTTAGCCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGTAATC-TCGCA
37909019 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
37909043 CATCATTCAA
Statistics
Matches: 129, Mismatches: 5, Indels: 21
0.83 0.03 0.14
Matches are distributed among these distances:
38 3 0.02
39 47 0.36
40 70 0.54
41 9 0.07
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (41 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAATCTCGCA
Found at i:37909036 original size:79 final size:81
Alignment explanation
Indices: 37908859--37909042 Score: 222
Period size: 79 Copynumber: 2.3 Consensus size: 81
37908849 GCTCCTCGTT
* *
37908859 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCG
*
37908923 GATTCAGTAACTCGCA
66 GATTCAGTAACTAGCA
*
37908939 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGT-ATCTCGCACAAATGCCTTC-GGATCTTAGCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAAT-TCGCACAAATGCCTTCGGGA-CTTAACC
* *
37909000 CGGATAT-TGTCACTTAGCA
64 CGGAT-TCAGTAAC-TAGCA
37909019 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
37909043 CATCATTCAA
Statistics
Matches: 92, Mismatches: 6, Indels: 13
0.83 0.05 0.12
Matches are distributed among these distances:
78 14 0.15
79 57 0.62
80 21 0.23
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCG
GATTCAGTAACTAGCA
Found at i:37915670 original size:33 final size:32
Alignment explanation
Indices: 37915612--37915674 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 32
37915602 CGAAGTGGGT
* *
37915612 AGATATAGATATTGTGGCTAGGCCACCAGAAC
1 AGATATAGATATTGTGGCGAAGCCACCAGAAC
*
37915644 AGATATATATATATGTGGCGAAGCCACCAGA
1 AGATATAGATAT-TGTGGCGAAGCCACCAGA
37915675 TTGCAGCGAG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 11 0.41
33 16 0.59
ACGTcount: A:0.37, C:0.17, G:0.24, T:0.22
Consensus pattern (32 bp):
AGATATAGATATTGTGGCGAAGCCACCAGAAC
Found at i:37919562 original size:43 final size:43
Alignment explanation
Indices: 37919501--37919663 Score: 179
Period size: 43 Copynumber: 3.8 Consensus size: 43
37919491 AACGCCAACA
* *
37919501 TCCCAGACGTGGTCTTACATGTAATCACATATCGATGCGAACG
1 TCCCAGACTTGGTCTTACACGTAATCACATATCGATGCGAACG
* *
37919544 TCCCAGACTTGGTCTTACACG-AA-CTCATATACGATGTC-AATG
1 TCCCAGACTTGGTCTTACACGTAATCACATAT-CGATG-CGAACG
* * * * * *
37919586 TCCTAAACATGGTCCTACACGTAAATCACAAATCGATGTGAACG
1 TCCCAGACTTGGTCTTACACGT-AATCACATATCGATGCGAACG
*
37919630 TCCCAGACTTGGTCTTACACGAAATCACATATCG
1 TCCCAGACTTGGTCTTACACGTAATCACATATCG
37919664 GAATCCTATG
Statistics
Matches: 96, Mismatches: 18, Indels: 12
0.76 0.14 0.10
Matches are distributed among these distances:
41 6 0.06
42 27 0.28
43 31 0.32
44 27 0.28
45 5 0.05
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (43 bp):
TCCCAGACTTGGTCTTACACGTAATCACATATCGATGCGAACG
Found at i:37922980 original size:16 final size:16
Alignment explanation
Indices: 37922959--37922992 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
37922949 GATGTCGGCA
37922959 AGTGTACCTATCGAAC
1 AGTGTACCTATCGAAC
37922975 AGTGTACCTATCGAAC
1 AGTGTACCTATCGAAC
37922991 AG
1 AG
37922993 CCTAGAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.32, C:0.24, G:0.21, T:0.24
Consensus pattern (16 bp):
AGTGTACCTATCGAAC
Found at i:37936056 original size:17 final size:17
Alignment explanation
Indices: 37936030--37936069 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
37936020 AACTCAAGTG
*
37936030 GGGCCTAGGAGCCCATT
1 GGGCCAAGGAGCCCATT
37936047 GGGCCAAGGAGCCCATT
1 GGGCCAAGGAGCCCATT
37936064 GGGCCA
1 GGGCCA
37936070 TACGACCCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.20, C:0.30, G:0.38, T:0.12
Consensus pattern (17 bp):
GGGCCAAGGAGCCCATT
Found at i:37936078 original size:17 final size:17
Alignment explanation
Indices: 37936038--37936080 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
37936028 TGGGGCCTAG
*
37936038 GAGCCCATTGGGCCAAG
1 GAGCCCATTGGGCCAAC
37936055 GAGCCCATTGGGCCATAC
1 GAGCCCATTGGGCCA-AC
37936073 GA-CCCATT
1 GAGCCCATT
37936081 TCAGCCCAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 21 0.88
18 3 0.12
ACGTcount: A:0.23, C:0.33, G:0.28, T:0.16
Consensus pattern (17 bp):
GAGCCCATTGGGCCAAC
Found at i:37946226 original size:32 final size:33
Alignment explanation
Indices: 37946180--37946243 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
37946170 AACAGCGGGT
37946180 ACTGGGCCGAAG-CCCTTTTCAGA-ATACAGTAA
1 ACTGGGCCGAAGCCCCTTTTCAGATA-ACAGTAA
**
37946212 ACTGGGCCTTAGCCCCTTTTCAGATAACAGTA
1 ACTGGGCCGAAGCCCCTTTTCAGATAACAGTA
37946244 TGGCCGATAG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
32 10 0.36
33 17 0.61
34 1 0.04
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (33 bp):
ACTGGGCCGAAGCCCCTTTTCAGATAACAGTAA
Found at i:37946345 original size:22 final size:24
Alignment explanation
Indices: 37946304--37946349 Score: 69
Period size: 22 Copynumber: 2.0 Consensus size: 24
37946294 CCCAACCCAG
37946304 CCTATAACCAACCTCTACACTCCA
1 CCTATAACCAACCTCTACACTCCA
*
37946328 CCTAT-ACCAGCC-CTACACTCCA
1 CCTATAACCAACCTCTACACTCCA
37946350 TGTGGGTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 10 0.48
23 6 0.29
24 5 0.24
ACGTcount: A:0.30, C:0.48, G:0.02, T:0.20
Consensus pattern (24 bp):
CCTATAACCAACCTCTACACTCCA
Found at i:37955491 original size:40 final size:40
Alignment explanation
Indices: 37955447--37955629 Score: 182
Period size: 40 Copynumber: 4.6 Consensus size: 40
37955437 GCTCCTCGTT
*
37955447 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAATTCGCA
* * *
37955487 CAAATGCCTTCGAGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAATTCGCA
*
37955527 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGT-ATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAAT-TCGCA
* * * * *
37955566 CAAATGCCTTC-GGATCTTAGTCCGGATATTGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGT-AATTCGCA
37955607 C-AA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
37955630 ACATCATTCA
Statistics
Matches: 119, Mismatches: 14, Indels: 21
0.77 0.09 0.14
Matches are distributed among these distances:
38 3 0.03
39 44 0.37
40 63 0.53
41 8 0.07
42 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAATTCGCA
Found at i:37955550 original size:79 final size:81
Alignment explanation
Indices: 37955447--37955630 Score: 222
Period size: 79 Copynumber: 2.3 Consensus size: 81
37955437 GCTCCTCGTT
* *
37955447 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCACAAATGCCTTCGAGA-CTTAACC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCACAAATGCCTTCG-GATCTTAACC
*
37955509 CGGAT-TTAGTAAC-TCGCA
63 CGGATATT-GTAACTTAGCA
**
37955527 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAACCCGG
*
37955591 ATATTGTCACTTAGCA
66 ATATTGTAACTTAGCA
37955607 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
37955631 CATCATTCAA
Statistics
Matches: 92, Mismatches: 6, Indels: 13
0.83 0.05 0.12
Matches are distributed among these distances:
78 13 0.14
79 57 0.62
80 22 0.24
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATTGTAACTTAGCA
Found at i:37960376 original size:40 final size:39
Alignment explanation
Indices: 37960284--37960426 Score: 160
Period size: 40 Copynumber: 3.5 Consensus size: 39
37960274 CTCGAATGAT
* *
37960284 ATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACTAC
1 ATCCGGGCTAAGT-CCGAAGGCATTTGTGCT-AGCGACTAA
*
37960325 ATCCGGACTAAGATCCGAAGGCATTTGTGCTAGCGACTAA
1 ATCCGGGCTAAG-TCCGAAGGCATTTGTGCTAGCGACTAA
* * * *
37960365 ATCCGGGCTAAGTCCTGAAGGCATTTATGCTAGTGACCAT
1 ATCCGGGCTAAGTCC-GAAGGCATTTGTGCTAGCGACTAA
* *
37960405 ATCCGGGTTAAGACCCGAAGGC
1 ATCCGGGCTAAG-TCCGAAGGC
37960427 CTTGTGCGAG
Statistics
Matches: 89, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
39 3 0.03
40 56 0.63
41 29 0.33
42 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (39 bp):
ATCCGGGCTAAGTCCGAAGGCATTTGTGCTAGCGACTAA
Found at i:37962827 original size:15 final size:15
Alignment explanation
Indices: 37962780--37962835 Score: 69
Period size: 15 Copynumber: 3.7 Consensus size: 15
37962770 CAAGAAAACT
37962780 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
* * *
37962795 -AGATAGACAAACCCA
1 GA-ATAAAGAAATCCA
37962810 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
37962825 GAATAAAGAAA
1 GAATAAAGAAA
37962836 CCCAAGATAT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
14 1 0.03
15 31 0.94
16 1 0.03
ACGTcount: A:0.61, C:0.14, G:0.14, T:0.11
Consensus pattern (15 bp):
GAATAAAGAAATCCA
Found at i:37962837 original size:30 final size:30
Alignment explanation
Indices: 37962780--37962839 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
37962770 CAAGAAAACT
*
37962780 GAATAAAGAAATCCAAGATAGACAAACCCA
1 GAATAAAGAAATCCAAGATAAACAAACCCA
*
37962810 GAATAAAGAAATCC-AGAATAAAGAAACCCA
1 GAATAAAGAAATCCAAG-ATAAACAAACCCA
37962840 AGATATGATA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 2 0.07
30 25 0.93
ACGTcount: A:0.58, C:0.18, G:0.13, T:0.10
Consensus pattern (30 bp):
GAATAAAGAAATCCAAGATAAACAAACCCA
Found at i:37964801 original size:40 final size:40
Alignment explanation
Indices: 37964743--37964964 Score: 336
Period size: 40 Copynumber: 5.5 Consensus size: 40
37964733 GAGGATTATA
37964743 TCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGCTATT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGCTATT
*
37964783 TCCGGGTTAAGTCTCGAAGGCATTCGTGCTGGTTGCTATT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGCTATT
* * *
37964823 TCCGGGTTAAGACCCGAAGGCATTTGTGCTGGTTGTTATT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGCTATT
* *
37964863 TCCGGGTTAAGCCCCGAAGGCATTCGTGCTGGTCGCTATT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGCTATT
* * **
37964903 TCCGGGTTAAGTCCCGAAGGCATTTGTGCTGGTTGTTACA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGCTATT
* *
37964943 TCCGGGCTAAATCCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCA
37964965 ATTGGGTTGG
Statistics
Matches: 165, Mismatches: 17, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 165 1.00
ACGTcount: A:0.17, C:0.23, G:0.30, T:0.31
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGCTATT
Found at i:37965831 original size:36 final size:36
Alignment explanation
Indices: 37965479--37965826 Score: 610
Period size: 36 Copynumber: 9.7 Consensus size: 36
37965469 CTATCTAAAC
37965479 TAATTACGTATCTTTTTGGTGATGGATGTTTGATGT
1 TAATTACGTATCTTTTTGGTGATGGATGTTTGATGT
37965515 TAATTACGTATCTTTTTGGTGATGGATGTTTGATGT
1 TAATTACGTATCTTTTTGGTGATGGATGTTTGATGT
37965551 TAATTACGTATCTTTTTGGTGATGGATGTTTGATGT
1 TAATTACGTATCTTTTTGGTGATGGATGTTTGATGT
37965587 TAATTACGTATCTTTTTGGTGATGGATGTTTGATGT
1 TAATTACGTATCTTTTTGGTGATGGATGTTTGATGT
37965623 TAATTACGTATCTTTTTGGTGATGGATGTTTGATGT
1 TAATTACGTATCTTTTTGGTGATGGATGTTTGATGT
37965659 TAATTACGTATCTTTTTGGTGATGGATGTTTGATGT
1 TAATTACGTATCTTTTTGGTGATGGATGTTTGATGT
37965695 TAATTACGTATCTTTTTGGTGATGGATGTTTGATGT
1 TAATTACGTATCTTTTTGGTGATGGATGTTTGATGT
* * * *
37965731 TAATTACGTATCATGTATAG-GATTGACT-TTTGATGT
1 TAATTACGTATC-TTTTTGGTGATGGA-TGTTTGATGT
* *
37965767 TAATTACGTATCTTTTTGGTGATGTATATTTGATGT
1 TAATTACGTATCTTTTTGGTGATGGATGTTTGATGT
37965803 TAATTACGTATCTTTTTGGTGATG
1 TAATTACGTATCTTTTTGGTGATG
37965827 TATATATGTA
Statistics
Matches: 299, Mismatches: 9, Indels: 8
0.95 0.03 0.03
Matches are distributed among these distances:
35 5 0.02
36 289 0.97
37 5 0.02
ACGTcount: A:0.21, C:0.06, G:0.24, T:0.50
Consensus pattern (36 bp):
TAATTACGTATCTTTTTGGTGATGGATGTTTGATGT
Found at i:37971913 original size:30 final size:30
Alignment explanation
Indices: 37971877--37971937 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
37971867 AATAATTAAA
*
37971877 TAATATGTCTACAAAGAATGTGGGAAAGAG
1 TAATATGTATACAAAGAATGTGGGAAAGAG
*
37971907 TAATATGTATACAAAGAATGTGTGAAAGAG
1 TAATATGTATACAAAGAATGTGGGAAAGAG
37971937 T
1 T
37971938 GAATTGGCAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.44, C:0.05, G:0.25, T:0.26
Consensus pattern (30 bp):
TAATATGTATACAAAGAATGTGGGAAAGAG
Found at i:37973133 original size:40 final size:40
Alignment explanation
Indices: 37973077--37973258 Score: 249
Period size: 40 Copynumber: 4.5 Consensus size: 40
37973067 GAGGATTATA
*
37973077 TCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGCTATT
1 TCCGGGTTAAGACCCGAAGGCATTCGTGCTGGTTGCTATT
* *
37973117 TCCGGGTTAAGACCCGAAGGCATTTGTGCTGGTTGTTATT
1 TCCGGGTTAAGACCCGAAGGCATTCGTGCTGGTTGCTATT
* *
37973157 TCCGGGTTAAGCCCCGAAGGCATTCGTGCTGGTCGCTATT
1 TCCGGGTTAAGACCCGAAGGCATTCGTGCTGGTTGCTATT
* * * **
37973197 TCCGGGTTAAGTCCCGAAGGCATTTGTGCTGGTTGTTACA
1 TCCGGGTTAAGACCCGAAGGCATTCGTGCTGGTTGCTATT
*
37973237 TCCGGGCTAA-ATCCCGAAGGCA
1 TCCGGGTTAAGA-CCCGAAGGCA
37973259 ATTGGGTTGG
Statistics
Matches: 126, Mismatches: 15, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
40 126 1.00
ACGTcount: A:0.18, C:0.23, G:0.30, T:0.30
Consensus pattern (40 bp):
TCCGGGTTAAGACCCGAAGGCATTCGTGCTGGTTGCTATT
Found at i:37973213 original size:80 final size:80
Alignment explanation
Indices: 37973072--37973258 Score: 311
Period size: 80 Copynumber: 2.3 Consensus size: 80
37973062 CAATTGAGGA
*
37973072 TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGCTATTTCCGGGTTAAGACCCGAAGG
1 TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTCGCTATTTCCGGGTTAAGACCCGAAGG
37973137 CATTTGTGCTGGTTG
66 CATTTGTGCTGGTTG
* * *
37973152 TTATTTCCGGGTTAAGCCCCGAAGGCATTCGTGCTGGTCGCTATTTCCGGGTTAAGTCCCGAAGG
1 TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTCGCTATTTCCGGGTTAAGACCCGAAGG
37973217 CATTTGTGCTGGTTG
66 CATTTGTGCTGGTTG
* * *
37973232 TTACATCCGGGCTAAATCCCGAAGGCA
1 TTATATCCGGGTTAAGTCCCGAAGGCA
37973259 ATTGGGTTGG
Statistics
Matches: 98, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
80 98 1.00
ACGTcount: A:0.18, C:0.22, G:0.29, T:0.30
Consensus pattern (80 bp):
TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTCGCTATTTCCGGGTTAAGACCCGAAGG
CATTTGTGCTGGTTG
Found at i:37976687 original size:49 final size:49
Alignment explanation
Indices: 37976620--37976813 Score: 214
Period size: 49 Copynumber: 4.0 Consensus size: 49
37976610 GTAGACAAGG
* * * *
37976620 TTATCTGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACCAA
1 TTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAA
* * *
37976669 TTATCCGGTACACGTAGTAGCCTGCATTTAGTACTACACACGTGACCTAA
1 TTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACC-AA
** * *
37976719 CCATCTGATACAC---GTAGCCTGCACTTAGTACTACACACGTGATCGAA
1 TTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA
* * *
37976766 GTTATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACC
1 -TTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACC
37976814 TCACAATAAA
Statistics
Matches: 119, Mismatches: 20, Indels: 11
0.79 0.13 0.07
Matches are distributed among these distances:
47 30 0.25
48 9 0.08
49 40 0.34
50 12 0.10
51 28 0.24
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (49 bp):
TTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAA
Done.