Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 98 of 322
Found at i:31795010 original size:19 final size:19
Alignment explanation
Indices: 31794955--31795012 Score: 58
Period size: 19 Copynumber: 3.4 Consensus size: 19
31794945 ATTCTGATTT
*
31794955 TGATTCTGTTACCTGATAC
1 TGATTCTGTTACCTGTTAC
31794974 TGATTCTG--A--T-TT--
1 TGATTCTGTTACCTGTTAC
31794986 TGATTCTGTTACCTGTTAC
1 TGATTCTGTTACCTGTTAC
31795005 TGATTCTG
1 TGATTCTG
31795013 ATTCTGATTC
Statistics
Matches: 31, Mismatches: 1, Indels: 14
0.67 0.02 0.30
Matches are distributed among these distances:
12 8 0.26
14 2 0.06
15 1 0.03
16 1 0.03
17 3 0.10
19 16 0.52
ACGTcount: A:0.17, C:0.17, G:0.17, T:0.48
Consensus pattern (19 bp):
TGATTCTGTTACCTGTTAC
Found at i:31795073 original size:24 final size:24
Alignment explanation
Indices: 31794948--31795140 Score: 92
Period size: 25 Copynumber: 7.9 Consensus size: 24
31794938 GATACTGATT
* *
31794948 CTGATTTTGATTCTG-TTACCTGATA
1 CTGATTCTGATTCTGATT--CTAATA
* **
31794973 CTGATTCTGATTTTGATTCTGTTA
1 CTGATTCTGATTCTGATTCTAATA
* *
31794997 CCTG-TTACTGATTCTGATTCTGATT
1 -CTGATT-CTGATTCTGATTCTAATA
* * * *
31795022 CTG-TCACCTAATTCTGATTCTGATT
1 CTGAT--TCTGATTCTGATTCTAATA
* * * *
31795047 CTGATTCTG-TTACTAATACTGATT
1 CTGATTCTGATT-CTGATTCTAATA
* *
31795071 CTGATTCTGATTCTG-TTACTGATT
1 CTGATTCTGATTCTGATT-CTAATA
*
31795095 CTGATTCTGATTCTG-TCATCTAATT
1 CTGATTCTGATTCTGAT--TCTAATA
31795120 CTGATTCTGATTCTGATTCTA
1 CTGATTCTGATTCTGATTCTA
31795141 GTTCTGATAA
Statistics
Matches: 141, Mismatches: 15, Indels: 25
0.78 0.08 0.14
Matches are distributed among these distances:
23 3 0.02
24 60 0.43
25 73 0.52
26 5 0.04
ACGTcount: A:0.19, C:0.18, G:0.15, T:0.48
Consensus pattern (24 bp):
CTGATTCTGATTCTGATTCTAATA
Found at i:31795127 original size:31 final size:31
Alignment explanation
Indices: 31794926--31795139 Score: 257
Period size: 31 Copynumber: 7.2 Consensus size: 31
31794916 CTGATTTTTT
* * *
31794926 ATTCTGTTACCTGATACTGATTCTGATTTTG
1 ATTCTGTTACCTAATTCTGATTCTGATTCTG
* * *
31794957 ATTCTGTTACCTGATACTGATTCTGATTTTG
1 ATTCTGTTACCTAATTCTGATTCTGATTCTG
*
31794988 ATTCTGTTACCT-GTTACTGATTCTGATTCTG
1 ATTCTGTTACCTAATT-CTGATTCTGATTCTG
*
31795019 ATTCTGTCACCTAATTCTGATTCTGATTCTG
1 ATTCTGTTACCTAATTCTGATTCTGATTCTG
*
31795050 ATTCTGTTA-CTAATACTGATTCTGATTCTG
1 ATTCTGTTACCTAATTCTGATTCTGATTCTG
31795080 ATTCTG-T---T-A--CTGATTCTGATTCTG
1 ATTCTGTTACCTAATTCTGATTCTGATTCTG
* *
31795104 ATTCTGTCATCTAATTCTGATTCTGATTCTG
1 ATTCTGTTACCTAATTCTGATTCTGATTCTG
31795135 ATTCT
1 ATTCT
31795140 AGTTCTGATA
Statistics
Matches: 166, Mismatches: 8, Indels: 18
0.86 0.04 0.09
Matches are distributed among these distances:
24 21 0.13
26 1 0.01
27 1 0.01
28 1 0.01
29 2 0.01
30 27 0.16
31 111 0.67
32 2 0.01
ACGTcount: A:0.19, C:0.18, G:0.14, T:0.48
Consensus pattern (31 bp):
ATTCTGTTACCTAATTCTGATTCTGATTCTG
Found at i:31795163 original size:85 final size:85
Alignment explanation
Indices: 31794945--31795164 Score: 275
Period size: 85 Copynumber: 2.6 Consensus size: 85
31794935 CCTGATACTG
* * * ** *
31794945 ATTCTGATTTTGATTCTG-TTACCTGATACTGATTCTGATTTTGATTCTG-TTACCTGTTACTGA
1 ATTCTGATTCTGATTCTGATT--CTGTTACTAATAATGATTCTGATTCTGATT--CTGTTACTGA
31795008 TTCTGATTCTGATTCTGTCACCTA
62 TTCTGATTCTGATTCTGTCACCTA
*
31795032 ATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTCTGATTCTGATTCTGTTACTGATTCT
1 ATTCTGATTCTGATTCTGATTCTGTTACTAATAATGATTCTGATTCTGATTCTGTTACTGATTCT
*
31795097 GATTCTGATTCTGTCATCTA
66 GATTCTGATTCTGTCACCTA
* * *
31795117 ATTCTGATTCTGATTCTGATTCTAGTT-CTGATAATGTTTCTTATTCTG
1 ATTCTGATTCTGATTCTGATTCT-GTTACTAATAATGATTCTGATTCTG
31795165 TAATGGGTTA
Statistics
Matches: 120, Mismatches: 10, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
85 73 0.61
86 26 0.22
87 19 0.16
88 2 0.02
ACGTcount: A:0.19, C:0.17, G:0.15, T:0.49
Consensus pattern (85 bp):
ATTCTGATTCTGATTCTGATTCTGTTACTAATAATGATTCTGATTCTGATTCTGTTACTGATTCT
GATTCTGATTCTGTCACCTA
Found at i:31818998 original size:26 final size:27
Alignment explanation
Indices: 31818967--31819020 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
31818957 TCACACACTT
*
31818967 AGTGCC-CACTGACCGATCTCGCACAC
1 AGTGCCTCAATGACCGATCTCGCACAC
*
31818993 AGTGCCTCAATTACCGATCTCGCACAC
1 AGTGCCTCAATGACCGATCTCGCACAC
31819020 A
1 A
31819021 TAGTGCTCCG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 6 0.24
27 19 0.76
ACGTcount: A:0.26, C:0.39, G:0.17, T:0.19
Consensus pattern (27 bp):
AGTGCCTCAATGACCGATCTCGCACAC
Found at i:31819260 original size:43 final size:42
Alignment explanation
Indices: 31819224--31819433 Score: 267
Period size: 43 Copynumber: 4.9 Consensus size: 42
31819214 CACCGGAATT
* *
31819224 AAGCCTGTTAGGCACAAAGACCCGAATACACATCACCGGCATG
1 AAGCCTGCTAGGCACAAAG-CCCGAATACACATCACCGGCACG
* *
31819267 AAGCCTGCTAGGCACAATTGCCCGAATACACATCACTGGCACG
1 AAGCCTGCTAGGCACAA-AGCCCGAATACACATCACCGGCACG
*
31819310 AAGCCTACTAGGCACGAAAGCCCGAATACACATCACCGGCACG
1 AAGCCTGCTAGGCAC-AAAGCCCGAATACACATCACCGGCACG
* *
31819353 AAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACA
1 AAGCCTGCTAGGCAC-AAAGCCCGAATACACATCACCGGCACG
* * * * *
31819396 AAGCCTACTAGGCATGAAGGCTCAAATACACATCACCG
1 AAGCCTGCTAGGCA-CAAAGCCCGAATACACATCACCG
31819434 AGTTTCATGC
Statistics
Matches: 150, Mismatches: 14, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
43 147 0.98
44 3 0.02
ACGTcount: A:0.34, C:0.32, G:0.21, T:0.13
Consensus pattern (42 bp):
AAGCCTGCTAGGCACAAAGCCCGAATACACATCACCGGCACG
Found at i:31819357 original size:86 final size:86
Alignment explanation
Indices: 31819232--31819433 Score: 300
Period size: 86 Copynumber: 2.3 Consensus size: 86
31819222 TTAAGCCTGT
* *
31819232 TAGGCAC-AAAGACCCGAATACACATCACCGGCATGAAGCCTGCTAGGCAC-AATTGCCCGAATA
1 TAGGCACGAAAG-CCCGAATACACATCACCGGCACGAAGCCTGCTAGGCACGAA-GGCCCGAATA
* *
31819295 CACATCACTGGCACGAAGCCTAC
64 CACATCACCGGCACAAAGCCTAC
31819318 TAGGCACGAAAGCCCGAATACACATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACA
1 TAGGCACGAAAGCCCGAATACACATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACA
31819383 CATCACCGGCACAAAGCCTAC
66 CATCACCGGCACAAAGCCTAC
* * * *
31819404 TAGGCATGAAGGCTCAAATACACATCACCG
1 TAGGCACGAAAGCCCGAATACACATCACCG
31819434 AGTTTCATGC
Statistics
Matches: 106, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
86 100 0.94
87 6 0.06
ACGTcount: A:0.34, C:0.33, G:0.21, T:0.12
Consensus pattern (86 bp):
TAGGCACGAAAGCCCGAATACACATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACA
CATCACCGGCACAAAGCCTAC
Found at i:31839245 original size:4 final size:4
Alignment explanation
Indices: 31839236--31839264 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
31839226 AGTGTAGGTG
31839236 TATT TATT TATT TATT TATT TATT TATT T
1 TATT TATT TATT TATT TATT TATT TATT T
31839265 TAGTGAAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TATT
Found at i:31839979 original size:8 final size:8
Alignment explanation
Indices: 31839945--31839995 Score: 57
Period size: 8 Copynumber: 6.4 Consensus size: 8
31839935 GCAAAAGCCA
*
31839945 AAATGCCA
1 AAATGCCG
*
31839953 AAATGCTG
1 AAATGCCG
* *
31839961 AAAAGCTG
1 AAATGCCG
*
31839969 AAATACCG
1 AAATGCCG
31839977 AAATGCCG
1 AAATGCCG
31839985 AAATGCCG
1 AAATGCCG
31839993 AAA
1 AAA
31839996 AGTCGAAAGG
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
8 36 1.00
ACGTcount: A:0.47, C:0.20, G:0.20, T:0.14
Consensus pattern (8 bp):
AAATGCCG
Found at i:31839979 original size:16 final size:16
Alignment explanation
Indices: 31839960--31840003 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
31839950 CCAAAATGCT
*
31839960 GAAAAGCTGAAATACC
1 GAAAAGCCGAAATACC
* *
31839976 GAAATGCCGAAATGCC
1 GAAAAGCCGAAATACC
*
31839992 GAAAAGTCGAAA
1 GAAAAGCCGAAA
31840004 GGTTAGCTAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.48, C:0.18, G:0.23, T:0.11
Consensus pattern (16 bp):
GAAAAGCCGAAATACC
Found at i:31840298 original size:28 final size:28
Alignment explanation
Indices: 31840220--31840301 Score: 83
Period size: 29 Copynumber: 2.9 Consensus size: 28
31840210 CATGAATATG
* *
31840220 AATGTGACTTAGGCCTGATGGGCCATATA
1 AATGTGA-TTGGGCCTGATGGGCCATAAA
** * *
31840249 AATGAAAATTGAGCCTAATGGGCCATAAA
1 AATG-TGATTGGGCCTGATGGGCCATAAA
*
31840278 AATGTGATTGGGCCTGGTGGGCCA
1 AATGTGATTGGGCCTGATGGGCCA
31840302 CATACAAGTA
Statistics
Matches: 41, Mismatches: 11, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
28 15 0.37
29 25 0.61
30 1 0.02
ACGTcount: A:0.30, C:0.16, G:0.29, T:0.24
Consensus pattern (28 bp):
AATGTGATTGGGCCTGATGGGCCATAAA
Found at i:31841666 original size:37 final size:37
Alignment explanation
Indices: 31841624--31841694 Score: 115
Period size: 37 Copynumber: 1.9 Consensus size: 37
31841614 GTAAAGAATT
* * *
31841624 ACACTTCTCGCCGTATAAATGATGTTGCCGAATTATG
1 ACACTTCCCACCGTATAAATGATGTCGCCGAATTATG
31841661 ACACTTCCCACCGTATAAATGATGTCGCCGAATT
1 ACACTTCCCACCGTATAAATGATGTCGCCGAATT
31841695 TTCAATGTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (37 bp):
ACACTTCCCACCGTATAAATGATGTCGCCGAATTATG
Found at i:31846380 original size:48 final size:48
Alignment explanation
Indices: 31846272--31846514 Score: 283
Period size: 48 Copynumber: 5.1 Consensus size: 48
31846262 CTCAAGACTT
* * * * *
31846272 TCGCACCCTAGGTGCCAACATCATGGCCCAAAGCCAAATCAATAG-AGC
1 TCGCACCCGAAGTGCTAATATCATGGCCCAAAGCCAAATCAAT-GTAAC
* * *
31846320 TCGTACCCGAAGTGAC-AATATTATGGCCCCAAGCCAAATCAATGTAAC
1 TCGCACCCGAAGTG-CTAATATCATGGCCCAAAGCCAAATCAATGTAAC
* * ** *
31846368 TCGCACCTGAAGTGCTAATATCATGGACTTAAGCCAAATCAATATAAC
1 TCGCACCCGAAGTGCTAATATCATGGCCCAAAGCCAAATCAATGTAAC
* * *
31846416 TCGCACCCGAAGTGCTACTATCATGGCCCAAACCCAAATCAGTGTAAC
1 TCGCACCCGAAGTGCTAATATCATGGCCCAAAGCCAAATCAATGTAAC
** *
31846464 TTACACCCGAAGTACTAATATCATGGCCCAAAGCCAAATCAATGTAAC
1 TCGCACCCGAAGTGCTAATATCATGGCCCAAAGCCAAATCAATGTAAC
31846512 TCG
1 TCG
31846515 TAATGTCACG
Statistics
Matches: 162, Mismatches: 30, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
47 2 0.01
48 159 0.98
49 1 0.01
ACGTcount: A:0.35, C:0.29, G:0.16, T:0.20
Consensus pattern (48 bp):
TCGCACCCGAAGTGCTAATATCATGGCCCAAAGCCAAATCAATGTAAC
Found at i:31847745 original size:27 final size:27
Alignment explanation
Indices: 31847710--31847968 Score: 272
Period size: 27 Copynumber: 9.6 Consensus size: 27
31847700 TTAGCATACC
* *
31847710 AAATTACCAAAATACCCTCGATTAGCA
1 AAATTACCAAAATACCCTCGATTTGTA
* * *
31847737 AAATTACCAAAATACCATTGGTTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* * *
31847764 AAATTAGCAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* *
31847791 AAATTAGCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTA
* * *
31847818 AAATTACCAAAATACTCTTGGTTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* *
31847845 AAATTAACAAAATACCC-CTGATTTGTG
1 AAATTACCAAAATACCCTC-GATTTGTA
* *
31847872 AAATTACCGAAATACCCTCGATTTGCA
1 AAATTACCAAAATACCCTCGATTTGTA
* *
31847899 AAATTACTAAAATACCTTCGATTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
** *
31847926 AAATTACTGAAATACCC-CAATTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
*
31847952 AAATTACTAAAATACCC
1 AAATTACCAAAATACCC
31847969 CTGTAGGGTA
Statistics
Matches: 200, Mismatches: 28, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
26 24 0.12
27 175 0.88
28 1 0.00
ACGTcount: A:0.41, C:0.19, G:0.10, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGATTTGTA
Found at i:31847845 original size:81 final size:78
Alignment explanation
Indices: 31847710--31847968 Score: 313
Period size: 81 Copynumber: 3.2 Consensus size: 78
31847700 TTAGCATACC
*
31847710 AAATTACCAAAATACCCTCGATTAGCAAAATTACCAAAATACCATTGGTTTGTAAAATTAGCAAA
1 AAATTACCAAAATACCCTCGATTTGCAAAATTACCAAAATACC-TTGGTTTGTAAAATTA-CAAA
*
31847775 ATACCCTTGGTTTGTA
64 ATACCC-TGATTTGTA
* * *
31847791 AAATTAGCAAAATACCC-CTGGTTTGTAAAATTACCAAAATACTCTTGGTTTGTAAAATTAACAA
1 AAATTACCAAAATACCCTC-GATTTGCAAAATTACCAAAATAC-CTTGGTTTGTAAAATT-ACAA
*
31847855 AATACCCCTGATTTGTG
63 AATA-CCCTGATTTGTA
* * * *
31847872 AAATTACCGAAATACCCTCGATTTGCAAAATTACTAAAATACCTTCGATTTGTAAAATTACTGAA
1 AAATTACCAAAATACCCTCGATTTGCAAAATTACCAAAATACCTT-GGTTTGTAAAATTAC-AAA
**
31847937 ATACCCCAATTTGTA
64 ATACCCTGATTTGTA
*
31847952 AAATTACTAAAATACCC
1 AAATTACCAAAATACCC
31847969 CTGTAGGGTA
Statistics
Matches: 153, Mismatches: 18, Indels: 15
0.82 0.10 0.08
Matches are distributed among these distances:
80 30 0.20
81 117 0.76
82 6 0.04
ACGTcount: A:0.41, C:0.19, G:0.10, T:0.31
Consensus pattern (78 bp):
AAATTACCAAAATACCCTCGATTTGCAAAATTACCAAAATACCTTGGTTTGTAAAATTACAAAAT
ACCCTGATTTGTA
Found at i:31847995 original size:27 final size:27
Alignment explanation
Indices: 31847956--31848386 Score: 390
Period size: 27 Copynumber: 16.0 Consensus size: 27
31847946 TTTGTAAAAT
*
31847956 TACTAAAATACCCCTGTAGGGTAGAAA
1 TACTGAAATACCCCTGTAGGGTAGAAA
* ** *
31847983 TACCGAAATACCCCTGTAATGTAGAAT
1 TACTGAAATACCCCTGTAGGGTAGAAA
* * *
31848010 TACTGAAATA-CCCTATAAGGTAAAAA
1 TACTGAAATACCCCTGTAGGGTAGAAA
**
31848036 TACCAAAATACCCCTGTAGGGTA-AAA
1 TACTGAAATACCCCTGTAGGGTAGAAA
* * *
31848062 TTACTGAAATACCCCTATAAGGTAAAAA
1 -TACTGAAATACCCCTGTAGGGTAGAAA
*
31848090 TA-TCGAAATACCCCTGTAGGGTAGAAT
1 TACT-GAAATACCCCTGTAGGGTAGAAA
* * *
31848117 TACTAAAATACCCCTGTAAGGTAGAAT
1 TACTGAAATACCCCTGTAGGGTAGAAA
* *
31848144 TA-TCGAAATACCCCTGTATGGTAGAAT
1 TACT-GAAATACCCCTGTAGGGTAGAAA
* * *
31848171 TACTGAAATACCCCTATAAGGTAAAAA
1 TACTGAAATACCCCTGTAGGGTAGAAA
**
31848198 TACTGAAATACCCCTGTAACGTAG-AA
1 TACTGAAATACCCCTGTAGGGTAGAAA
* * *
31848224 TAACTGAAATACCCCTATATGGTAGAAT
1 T-ACTGAAATACCCCTGTAGGGTAGAAA
* * * *
31848252 TACCGAAATACTCTTGTAGGGTAGAAT
1 TACTGAAATACCCCTGTAGGGTAGAAA
* *
31848279 TACTGAAATCCCCCTGTAGGGTAGAAT
1 TACTGAAATACCCCTGTAGGGTAGAAA
* *
31848306 TA-TCGAAATACCCTTGTAGGGTAAAAA
1 TACT-GAAATACCCCTGTAGGGTAGAAA
* * *
31848333 TACTGAAAAACCCCTGTAGGATAGAAT
1 TACTGAAATACCCCTGTAGGGTAGAAA
* * * *
31848360 TACCGAGATACCCTTGTGGGGTA-AAA
1 TACTGAAATACCCCTGTAGGGTAGAAA
31848386 T
1 T
31848387 TACCATTTTG
Statistics
Matches: 331, Mismatches: 62, Indels: 23
0.80 0.15 0.06
Matches are distributed among these distances:
26 32 0.10
27 291 0.88
28 8 0.02
ACGTcount: A:0.39, C:0.19, G:0.17, T:0.25
Consensus pattern (27 bp):
TACTGAAATACCCCTGTAGGGTAGAAA
Found at i:31848020 original size:54 final size:54
Alignment explanation
Indices: 31847953--31848389 Score: 500
Period size: 54 Copynumber: 8.1 Consensus size: 54
31847943 CAATTTGTAA
* * * **
31847953 AATTACTAAAATACCCCTGTAGGGTAGAAATACCGAAATACCCCTGTAATGTAG
1 AATTACTGAAATACCCCTATAAGGTAGAAATACCGAAATACCCCTGTAGGGTAG
* * *
31848007 AATTACTGAAATA-CCCTATAAGGTAAAAATACCAAAATACCCCTGTAGGGTAA
1 AATTACTGAAATACCCCTATAAGGTAGAAATACCGAAATACCCCTGTAGGGTAG
* *
31848060 AATTACTGAAATACCCCTATAAGGTAAAAATATCGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTATAAGGTAGAAATACCGAAATACCCCTGTAGGGTAG
* * * * *
31848114 AATTACTAAAATACCCCTGTAAGGTAGAATTATCGAAATACCCCTGTATGGTAG
1 AATTACTGAAATACCCCTATAAGGTAGAAATACCGAAATACCCCTGTAGGGTAG
* * **
31848168 AATTACTGAAATACCCCTATAAGGTAAAAATACTGAAATACCCCTGTAACGTAG
1 AATTACTGAAATACCCCTATAAGGTAGAAATACCGAAATACCCCTGTAGGGTAG
* * * * *
31848222 AATAACTGAAATACCCCTATATGGTAGAATTACCGAAATACTCTTGTAGGGTAG
1 AATTACTGAAATACCCCTATAAGGTAGAAATACCGAAATACCCCTGTAGGGTAG
* * * * * * *
31848276 AATTACTGAAATCCCCCTGTAGGGTAGAATTATCGAAATACCCTTGTAGGGTAA
1 AATTACTGAAATACCCCTATAAGGTAGAAATACCGAAATACCCCTGTAGGGTAG
* * * * * * * *
31848330 AAATACTGAAAAACCCCTGT-AGGATAGAATTACCGAGATACCCTTGTGGGGTAA
1 AATTACTGAAATACCCCTATAAGG-TAGAAATACCGAAATACCCCTGTAGGGTAG
31848384 AATTAC
1 AATTAC
31848390 CATTTTGCCC
Statistics
Matches: 333, Mismatches: 48, Indels: 4
0.86 0.12 0.01
Matches are distributed among these distances:
53 48 0.14
54 285 0.86
ACGTcount: A:0.39, C:0.19, G:0.17, T:0.25
Consensus pattern (54 bp):
AATTACTGAAATACCCCTATAAGGTAGAAATACCGAAATACCCCTGTAGGGTAG
Found at i:31848152 original size:81 final size:81
Alignment explanation
Indices: 31847927--31848362 Score: 450
Period size: 81 Copynumber: 5.4 Consensus size: 81
31847917 CGATTTGTAA
** ** * * *
31847927 AATTACTGAAATACCCCAAT-TTGTAAAATTACTAAAATACCCCTGTAGGGTAGAAATACCGAAA
1 AATTACTGAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTGTAGGGTAGAATTATCGAAA
*
31847991 TACCCCTGTAATGTAG
66 TACCCCTGTAAGGTAG
* * * * * *
31848007 AATTACTGAAATA-CCCTATAAGGTAAAAATACCAAAATACCCCTGTAGGGTAAAATTA-CTGAA
1 AATTACTGAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTGTAGGGTAGAATTATC-GAA
* *
31848070 ATACCCCTATAAGGTAA
65 ATACCCCTGTAAGGTAG
* *
31848087 AAATA-TCGAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTGTAAGGTAGAATTATCGAA
1 AATTACT-GAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTGTAGGGTAGAATTATCGAA
*
31848151 ATACCCCTGTATGGTAG
65 ATACCCCTGTAAGGTAG
* * * * * ** *
31848168 AATTACTGAAATACCCCTATAAGGTAAAAATACTGAAATACCCCTGTAACGTAGAA-TAACTGAA
1 AATTACTGAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTGTAGGGTAGAATTATC-GAA
* *
31848232 ATACCCCTATATGGTAG
65 ATACCCCTGTAAGGTAG
* * * * *
31848249 AATTACCGAAATACTCTTGTAGGGTAGAATTACTGAAATCCCCCTGTAGGGTAGAATTATCGAAA
1 AATTACTGAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTGTAGGGTAGAATTATCGAAA
* * *
31848314 TACCCTTGTAGGGTAA
66 TACCCCTGTAAGGTAG
* * *
31848330 AAATACTGAAAAACCCCTGTAGGATAGAATTAC
1 AATTACTGAAATACCCCTGTAGGGTAGAATTAC
31848363 CGAGATACCC
Statistics
Matches: 297, Mismatches: 51, Indels: 15
0.82 0.14 0.04
Matches are distributed among these distances:
79 7 0.02
80 75 0.25
81 210 0.71
82 5 0.02
ACGTcount: A:0.40, C:0.19, G:0.16, T:0.25
Consensus pattern (81 bp):
AATTACTGAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTGTAGGGTAGAATTATCGAAA
TACCCCTGTAAGGTAG
Found at i:31848538 original size:21 final size:20
Alignment explanation
Indices: 31848504--31848550 Score: 67
Period size: 21 Copynumber: 2.3 Consensus size: 20
31848494 ATTGTTATAC
* *
31848504 ATGAGAGGACATGATATGTT
1 ATGATAGGACATGATATGCT
31848524 ATGATAGGCACATGATATGCT
1 ATGATAGG-ACATGATATGCT
31848545 ATGATA
1 ATGATA
31848551 TACTCATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 7 0.29
21 17 0.71
ACGTcount: A:0.36, C:0.09, G:0.26, T:0.30
Consensus pattern (20 bp):
ATGATAGGACATGATATGCT
Found at i:31848636 original size:25 final size:25
Alignment explanation
Indices: 31848600--31848669 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
31848590 AGGAAGTGCT
*
31848600 AAAAGGGCTTTGCCCTAGTTTACCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
* *
31848625 AAAAGGGTTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
31848650 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
31848670 ATTAAAAGCG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:31848682 original size:24 final size:24
Alignment explanation
Indices: 31848600--31848682 Score: 96
Period size: 25 Copynumber: 3.4 Consensus size: 24
31848590 AGGAAGTGCT
* *
31848600 AAAAGGGCTTTGCCCTAGTTTACCA
1 AAAAGGGCTTTGCCCCAGTTTA-TA
*
31848625 AAAAGGGTTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTAT-A
*
31848650 AAAAGGGCTTTGCCCCAG-TTATT
1 AAAAGGGCTTTGCCCCAGTTTATA
31848673 AAAAGCGGCT
1 AAAAG-GGCT
31848683 AGGCCTCCAG
Statistics
Matches: 51, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
23 5 0.10
24 8 0.16
25 38 0.75
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTATA
Found at i:31850418 original size:13 final size:13
Alignment explanation
Indices: 31850400--31850424 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
31850390 TAATGGTATA
31850400 TTGAATCCATGAC
1 TTGAATCCATGAC
31850413 TTGAATCCATGA
1 TTGAATCCATGA
31850425 AAATTTAGTA
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:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TTGAATCCATGAC
Found at i:31851009 original size:27 final size:27
Alignment explanation
Indices: 31850974--31851152 Score: 184
Period size: 27 Copynumber: 6.6 Consensus size: 27
31850964 TTAAATTGTA
31850974 TAGCACTAAGTGTGCGATATGACTATG
1 TAGCACTAAGTGTGCGATATGACTATG
* * *
31851001 TTGCACTAAGTGTGCGAAATGAATATG
1 TAGCACTAAGTGTGCGATATGACTATG
*
31851028 -ATGCACTAAGTGTGCGA-ATTGACCATG
1 TA-GCACTAAGTGTGCGATA-TGACTATG
** *
31851055 CGGCACTAAGTGTGCGAGTTTGACTATG
1 TAGCACTAAGTGTGCGA-TATGACTATG
* * *
31851083 TAGCACTAAGTGTGCGATTTGATTACG
1 TAGCACTAAGTGTGCGATATGACTATG
* *
31851110 TAGCACTAAGTGTGCGAGT-TGATTATA
1 TAGCACTAAGTGTGCGA-TATGACTATG
*
31851137 TAGCACTGAGTGTGCG
1 TAGCACTAAGTGTGCG
31851153 GGCTCAATAT
Statistics
Matches: 130, Mismatches: 16, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
26 1 0.01
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
TAGCACTAAGTGTGCGATATGACTATG
Found at i:31851090 original size:82 final size:81
Alignment explanation
Indices: 31850976--31851131 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
31850966 AAATTGTATA
* *
31850976 GCACTAAGTGTGCGATATGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
31851040 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** *
31851057 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TATGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
31851122 TGCGAGTTGA
65 TGCGAATTGA
31851132 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 15 0.23
82 50 0.76
83 1 0.02
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:31851143 original size:82 final size:81
Alignment explanation
Indices: 31850972--31851152 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
31850962 GATTAAATTG
* *
31850972 TATAGCACTAAGTGTGCGATATGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TATAGCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
31851037 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
*** * ** *
31851053 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TATAGCACTAAGTGTGCGA-TATGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
31851117 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
*
31851135 TATAGCACTGAGTGTGCG
1 TATAGCACTAAGTGTGCG
31851153 GGCTCAATAT
Statistics
Matches: 82, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
81 17 0.21
82 65 0.79
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TATAGCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:31861663 original size:48 final size:48
Alignment explanation
Indices: 31861577--31861671 Score: 113
Period size: 48 Copynumber: 2.0 Consensus size: 48
31861567 TCATGTTAGT
* * *
31861577 GCCGATGCCGTGTCCCAGACATGGTCTTATACTAGCACACA-TATCATC
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCACA-ATTATCATC
**
31861625 GCCGATGCCATGTCTTAAACATGGTCTTACA-TAGGCACAATTATCAT
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTA-GCACAATTATCAT
31861672 TAATCACAGT
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
47 3 0.08
48 37 0.93
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.27
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCACAATTATCATC
Found at i:31864675 original size:27 final size:27
Alignment explanation
Indices: 31864645--31864784 Score: 167
Period size: 27 Copynumber: 5.2 Consensus size: 27
31864635 CGATTTACAA
*
31864645 AATTATTAAAATACCCCTGTAGGGTAG
1 AATTATCAAAATACCCCTGTAGGGTAG
31864672 AATTA-CTAAAATACCCCTGTAGGGTAG
1 AATTATC-AAAATACCCCTGTAGGGTAG
* *
31864699 AATTATCGAAATACCCTTGTAGGGTAGG
1 AATTATCAAAATACCCCTGTAGGGTA-G
*
31864727 AA-TACCAAAATACCCCTGTAGGGTAG
1 AATTATCAAAATACCCCTGTAGGGTAG
* * * * *
31864753 AATTATCGAGATACCCTTGTAAGGTAA
1 AATTATCAAAATACCCCTGTAGGGTAG
31864780 AATTA
1 AATTA
31864785 CCATTTTGCC
Statistics
Matches: 97, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
26 3 0.03
27 90 0.93
28 4 0.04
ACGTcount: A:0.37, C:0.16, G:0.19, T:0.27
Consensus pattern (27 bp):
AATTATCAAAATACCCCTGTAGGGTAG
Found at i:31864703 original size:54 final size:54
Alignment explanation
Indices: 31864653--31864787 Score: 209
Period size: 54 Copynumber: 2.5 Consensus size: 54
31864643 AAAATTATTA
* *
31864653 AAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTGTAGGGTAGAATTATCG
1 AAATACCCTTGTAGGGTAGAATTACCAAAATACCCCTGTAGGGTAGAATTATCG
31864707 AAATACCCTTGTAGGGTAGGAA-TACCAAAATACCCCTGTAGGGTAGAATTATCG
1 AAATACCCTTGTAGGGTA-GAATTACCAAAATACCCCTGTAGGGTAGAATTATCG
* * *
31864761 AGATACCCTTGTAAGGTAAAATTACCA
1 AAATACCCTTGTAGGGTAGAATTACCA
31864788 TTTTGCCCCT
Statistics
Matches: 74, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
53 2 0.03
54 69 0.93
55 3 0.04
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.25
Consensus pattern (54 bp):
AAATACCCTTGTAGGGTAGAATTACCAAAATACCCCTGTAGGGTAGAATTATCG
Found at i:31865360 original size:21 final size:22
Alignment explanation
Indices: 31865300--31865361 Score: 83
Period size: 22 Copynumber: 2.9 Consensus size: 22
31865290 GCCAATTATT
*
31865300 CTGATTATGGCTTTGCGCCAAC
1 CTGATTATGGCTTTGTGCCAAC
*
31865322 CT-ACATATGGCTTTGTGCCAAC
1 CTGA-TTATGGCTTTGTGCCAAC
31865344 CTGATTATGGC-TTGTGCC
1 CTGATTATGGCTTTGTGCC
31865362 GTTATTGTGG
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
21 8 0.23
22 26 0.74
23 1 0.03
ACGTcount: A:0.18, C:0.26, G:0.23, T:0.34
Consensus pattern (22 bp):
CTGATTATGGCTTTGTGCCAAC
Found at i:31865605 original size:6 final size:6
Alignment explanation
Indices: 31865596--31865683 Score: 65
Period size: 6 Copynumber: 14.3 Consensus size: 6
31865586 TTGCATTCAC
* * *
31865596 ATTCTG ATTCTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG -TCACCTA
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG AT--TCTG
* *
31865646 ATTCTG ATTCTG ATTCTC ATTTTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
31865684 AATGTTTCTT
Statistics
Matches: 64, Mismatches: 10, Indels: 16
0.71 0.11 0.18
Matches are distributed among these distances:
5 4 0.06
6 52 0.81
7 6 0.09
8 2 0.03
ACGTcount: A:0.19, C:0.19, G:0.14, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:31865627 original size:25 final size:25
Alignment explanation
Indices: 31865599--31865662 Score: 101
Period size: 25 Copynumber: 2.6 Consensus size: 25
31865589 CATTCACATT
* *
31865599 CTGATTCTGATTCTGTTACCTGATA
1 CTGATTCTGATTCTGTCACCTAATA
*
31865624 CTGATTCTGATTCTGTCACCTAATT
1 CTGATTCTGATTCTGTCACCTAATA
31865649 CTGATTCTGATTCT
1 CTGATTCTGATTCT
31865663 CATTTTGATT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.19, C:0.22, G:0.14, T:0.45
Consensus pattern (25 bp):
CTGATTCTGATTCTGTCACCTAATA
Found at i:31870447 original size:27 final size:26
Alignment explanation
Indices: 31870430--31870499 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 26
31870420 ATATTAAGTC
31870430 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATAT-ATCAACT
*
31870457 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATAT-ATC-AACT
*
31870485 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
31870500 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (26 bp):
CGCACACTCAGTGCTATATATCAACT
Found at i:31870493 original size:28 final size:28
Alignment explanation
Indices: 31870430--31870527 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
31870420 ATATTAAGTC
*
31870430 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
31870457 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
31870485 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
31870514 CGCACACTTAGTGC
1 CGCACACTTAGTGC
31870528 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:31877333 original size:165 final size:165
Alignment explanation
Indices: 31877061--31877386 Score: 643
Period size: 165 Copynumber: 2.0 Consensus size: 165
31877051 ATCCGAGACC
31877061 GTCGCCGGAGTCGAACACGAGGTGTTAACAGACTTCAAACCACTTATTAAAAATTTCCCAGACAA
1 GTCGCCGGAGTCGAACACGAGGTGTTAACAGACTTCAAACCACTTATTAAAAATTTCCCAGACAA
31877126 GCTGCCAATCTGCGTACTAGTCACTTTAAAAATCATATCTTGAGTTATGAAACTCGAAATCCAGT
66 GCTGCCAATCTGCGTACTAGTCACTTTAAAAATCATATCTTGAGTTATGAAACTCGAAATCCAGT
*
31877191 TCCGTAAATTTTCCCCGGAACTAGACTCATACATA
131 TCCGTAAATTTTCCCCAGAACTAGACTCATACATA
31877226 GTCGCCGGAGTCGAACACGAGGTGTTAACAGACTTCAAACCACTTATTAAAAATTTCCCAGACAA
1 GTCGCCGGAGTCGAACACGAGGTGTTAACAGACTTCAAACCACTTATTAAAAATTTCCCAGACAA
31877291 GCTGCCAATCTGCGTACTAGTCACTTTAAAAATCATATCTTGAGTTATGAAACTCGAAATCCAGT
66 GCTGCCAATCTGCGTACTAGTCACTTTAAAAATCATATCTTGAGTTATGAAACTCGAAATCCAGT
31877356 TCCGTAAATTTTCCCCAGAACTAGACTCATA
131 TCCGTAAATTTTCCCCAGAACTAGACTCATA
31877387 TATCTATATG
Statistics
Matches: 160, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
165 160 1.00
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.27
Consensus pattern (165 bp):
GTCGCCGGAGTCGAACACGAGGTGTTAACAGACTTCAAACCACTTATTAAAAATTTCCCAGACAA
GCTGCCAATCTGCGTACTAGTCACTTTAAAAATCATATCTTGAGTTATGAAACTCGAAATCCAGT
TCCGTAAATTTTCCCCAGAACTAGACTCATACATA
Found at i:31882934 original size:23 final size:23
Alignment explanation
Indices: 31882904--31882948 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
31882894 TGCCAAAATT
31882904 AGACAAGGATGCAAGACTGTTTC
1 AGACAAGGATGCAAGACTGTTTC
*
31882927 AGACAAGGATGCAAGTCTGTTT
1 AGACAAGGATGCAAGACTGTTT
31882949 AGTGATTAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.33, C:0.16, G:0.27, T:0.24
Consensus pattern (23 bp):
AGACAAGGATGCAAGACTGTTTC
Found at i:31885838 original size:14 final size:14
Alignment explanation
Indices: 31885819--31885849 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
31885809 AGGTGGTGTT
31885819 TCGGGGGCTTGAAA
1 TCGGGGGCTTGAAA
31885833 TCGGGGGCTTGAAA
1 TCGGGGGCTTGAAA
31885847 TCG
1 TCG
31885850 TTTGACGGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.19, C:0.16, G:0.42, T:0.23
Consensus pattern (14 bp):
TCGGGGGCTTGAAA
Found at i:31889249 original size:27 final size:27
Alignment explanation
Indices: 31889216--31889277 Score: 92
Period size: 26 Copynumber: 2.3 Consensus size: 27
31889206 ATTCACTAAA
31889216 ATACCCCTAAGTATG-AAAATTACCATT
1 ATACCCCTAAG-ATGCAAAATTACCATT
*
31889243 ATACCCCT-AGGTGCAAAATTACCATT
1 ATACCCCTAAGATGCAAAATTACCATT
31889269 ATACCCCTA
1 ATACCCCTA
31889278 GGGTTAATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
25 2 0.06
26 22 0.69
27 8 0.25
ACGTcount: A:0.37, C:0.27, G:0.08, T:0.27
Consensus pattern (27 bp):
ATACCCCTAAGATGCAAAATTACCATT
Found at i:31889441 original size:27 final size:27
Alignment explanation
Indices: 31889383--31889463 Score: 117
Period size: 27 Copynumber: 3.0 Consensus size: 27
31889373 GAAGAAGCAT
* *
31889383 TCTGGTGGCTCTGCCACAAATATCTATT
1 TCTGGTGGCTCTGCCAC-AATATCTGTA
31889411 TCTGGTGGCTCTGCCACAATATCTGTA
1 TCTGGTGGCTCTGCCACAATATCTGTA
* *
31889438 TCTGGTGACTCTGTCACAATATCTGT
1 TCTGGTGGCTCTGCCACAATATCTGT
31889464 TTTGGCAGCC
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 32 0.65
28 17 0.35
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.36
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAATATCTGTA
Found at i:31892996 original size:27 final size:27
Alignment explanation
Indices: 31892963--31893024 Score: 92
Period size: 26 Copynumber: 2.3 Consensus size: 27
31892953 ATTCACTAAA
31892963 ATACCCCTAAGTATG-AAAATTACCATT
1 ATACCCCTAAG-ATGCAAAATTACCATT
*
31892990 ATACCCCT-AGGTGCAAAATTACCATT
1 ATACCCCTAAGATGCAAAATTACCATT
31893016 ATACCCCTA
1 ATACCCCTA
31893025 GGGTTAATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
25 2 0.06
26 22 0.69
27 8 0.25
ACGTcount: A:0.37, C:0.27, G:0.08, T:0.27
Consensus pattern (27 bp):
ATACCCCTAAGATGCAAAATTACCATT
Found at i:31893168 original size:27 final size:26
Alignment explanation
Indices: 31893128--31893215 Score: 113
Period size: 27 Copynumber: 3.3 Consensus size: 26
31893118 TTGAGGAAGC
31893128 GTTCTGGTGGCTCTGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCA-AAATATCT
*
31893155 GATCTGGTGGCTCTGCCAGAAATATCT
1 GTTCTGGTGGCTCTGCCA-AAATATCT
* **
31893182 GTTTCTGGTGACTCTATCAAAATATCT
1 G-TTCTGGTGGCTCTGCCAAAATATCT
31893209 GTTCTGG
1 GTTCTGG
31893216 CAGCCATGCT
Statistics
Matches: 54, Mismatches: 6, Indels: 3
0.86 0.10 0.05
Matches are distributed among these distances:
26 6 0.11
27 35 0.65
28 13 0.24
ACGTcount: A:0.20, C:0.22, G:0.23, T:0.35
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCAAAATATCT
Found at i:31895029 original size:40 final size:40
Alignment explanation
Indices: 31894970--31895167 Score: 283
Period size: 40 Copynumber: 5.0 Consensus size: 40
31894960 GTGTGCATGA
* * *
31894970 GCAA-TTGATATATCCGGGCTAAAACTCGAAGGCATTTGT
1 GCAAGTTGATATATCCGGGCTAAGACCCGAAGGCAATTGT
* *
31895009 GCGAGTTGATATATCCGGGCTAAAACCCGAAGGCAATTGT
1 GCAAGTTGATATATCCGGGCTAAGACCCGAAGGCAATTGT
*
31895049 GCAAGTTGATATATCCGGGCTAAGACCTGAAGGCAATTGT
1 GCAAGTTGATATATCCGGGCTAAGACCCGAAGGCAATTGT
31895089 GCAAGTTGATATATCCGGGCTAAGACCCGAAGGC-ATTCGT
1 GCAAGTTGATATATCCGGGCTAAGACCCGAAGGCAATT-GT
* * * *
31895129 GCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCAATTG
1 GCAAGTTGATATATCCGGGCTAAGACCCGAAGGCAATTG
31895168 AGCTTGTGGT
Statistics
Matches: 145, Mismatches: 11, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
39 6 0.04
40 136 0.94
41 3 0.02
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (40 bp):
GCAAGTTGATATATCCGGGCTAAGACCCGAAGGCAATTGT
Found at i:31895182 original size:80 final size:80
Alignment explanation
Indices: 31894970--31895191 Score: 252
Period size: 80 Copynumber: 2.8 Consensus size: 80
31894960 GTGTGCATGA
* * * * * * *
31894970 GCAA-TTGATATATCCGGGCTAAAACTCGAAGGCATTTGTGCGAGTTGATATATCCGGGCTAAAA
1 GCAAGTTGATATACCCGGGCTAAGACCCGAAGGCAATTGAGCAAGTGGATATATCCGGGCTAAAA
31895034 CCCGAAGGCAATTGT
66 CCCGAAGGCAATTGT
* * * * *
31895049 GCAAGTTGATATATCCGGGCTAAGACCTGAAGGCAATTGTGCAAGTTGATATATCCGGGCTAAGA
1 GCAAGTTGATATACCCGGGCTAAGACCCGAAGGCAATTGAGCAAGTGGATATATCCGGGCTAAAA
31895114 CCCGAAGGC-ATTCGT
66 CCCGAAGGCAATT-GT
* * * ** *
31895129 GCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCAATTGAGCTTGTGGTTATATCC-GGCTAAA
1 GCAAGTTGATATACCCGGGCTAAGACCCGAAGGCAATTGAGCAAGTGGATATATCCGGGCTAAA
31895192 TTCCGAAGAA
Statistics
Matches: 124, Mismatches: 17, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
79 13 0.10
80 111 0.90
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (80 bp):
GCAAGTTGATATACCCGGGCTAAGACCCGAAGGCAATTGAGCAAGTGGATATATCCGGGCTAAAA
CCCGAAGGCAATTGT
Found at i:31896878 original size:14 final size:14
Alignment explanation
Indices: 31896859--31896886 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
31896849 ATTCTATGTT
31896859 TATTATATGTGAAA
1 TATTATATGTGAAA
31896873 TATTATATGTGAAA
1 TATTATATGTGAAA
31896887 ATATCGTGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.14, T:0.43
Consensus pattern (14 bp):
TATTATATGTGAAA
Found at i:31898664 original size:39 final size:39
Alignment explanation
Indices: 31898609--31898889 Score: 409
Period size: 39 Copynumber: 7.2 Consensus size: 39
31898599 GAAATGTGTA
*
31898609 TGGAAATATATCCGGGCTAAAGACCCGCAGGCTTTGTGC
1 TGGAAATATATCCGGGCTAAAGACCCACAGGCTTTGTGC
* * * *
31898648 TGGAAATATATTCGGGCCAAAGACCCGCAGGCTTCGTGC
1 TGGAAATATATCCGGGCTAAAGACCCACAGGCTTTGTGC
* *
31898687 TGGAAATGTATCCGGGCTAAAGACCCGCAGGCTTTGTGC
1 TGGAAATATATCCGGGCTAAAGACCCACAGGCTTTGTGC
* *
31898726 TGGAAATGTATCCGGGCTAAAGTCCCACAGGCTTTGTGC
1 TGGAAATATATCCGGGCTAAAGACCCACAGGCTTTGTGC
* *
31898765 TGGAAATATATCCGGGCCAAAGACCCACAGGCTTCGTGC
1 TGGAAATATATCCGGGCTAAAGACCCACAGGCTTTGTGC
*
31898804 TGGAAATGTATCCGGGCTAAAGACCCACAGGCTTTGTGC
1 TGGAAATATATCCGGGCTAAAGACCCACAGGCTTTGTGC
* * * *
31898843 TGGAAATGTATCCGGGCTAAAGTCCCACAAGCTTAGTGC
1 TGGAAATATATCCGGGCTAAAGACCCACAGGCTTTGTGC
*
31898882 TGGTAATA
1 TGGAAATA
31898890 AAATTTCAGG
Statistics
Matches: 221, Mismatches: 21, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 221 1.00
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.23
Consensus pattern (39 bp):
TGGAAATATATCCGGGCTAAAGACCCACAGGCTTTGTGC
Found at i:31898815 original size:117 final size:117
Alignment explanation
Indices: 31898609--31898889 Score: 481
Period size: 117 Copynumber: 2.4 Consensus size: 117
31898599 GAAATGTGTA
* * * *
31898609 TGGAAATATATCCGGGCTAAAGACCCGCAGGCTTTGTGCTGGAAATATATTCGGGCCAAAGACCC
1 TGGAAATGTATCCGGGCTAAAGTCCCACAGGCTTTGTGCTGGAAATATATCCGGGCCAAAGACCC
* *
31898674 GCAGGCTTCGTGCTGGAAATGTATCCGGGCTAAAGACCCGCAGGCTTTGTGC
66 ACAGGCTTCGTGCTGGAAATGTATCCGGGCTAAAGACCCACAGGCTTTGTGC
31898726 TGGAAATGTATCCGGGCTAAAGTCCCACAGGCTTTGTGCTGGAAATATATCCGGGCCAAAGACCC
1 TGGAAATGTATCCGGGCTAAAGTCCCACAGGCTTTGTGCTGGAAATATATCCGGGCCAAAGACCC
31898791 ACAGGCTTCGTGCTGGAAATGTATCCGGGCTAAAGACCCACAGGCTTTGTGC
66 ACAGGCTTCGTGCTGGAAATGTATCCGGGCTAAAGACCCACAGGCTTTGTGC
* * *
31898843 TGGAAATGTATCCGGGCTAAAGTCCCACAAGCTTAGTGCTGGTAATA
1 TGGAAATGTATCCGGGCTAAAGTCCCACAGGCTTTGTGCTGGAAATA
31898890 AAATTTCAGG
Statistics
Matches: 155, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
117 155 1.00
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.23
Consensus pattern (117 bp):
TGGAAATGTATCCGGGCTAAAGTCCCACAGGCTTTGTGCTGGAAATATATCCGGGCCAAAGACCC
ACAGGCTTCGTGCTGGAAATGTATCCGGGCTAAAGACCCACAGGCTTTGTGC
Found at i:31926194 original size:28 final size:27
Alignment explanation
Indices: 31926131--31926310 Score: 270
Period size: 28 Copynumber: 6.6 Consensus size: 27
31926121 ATATTAAGTC
* *
31926131 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
31926158 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
31926186 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
*
31926214 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
31926241 CGCACACTTAGTACTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
* *
31926269 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
31926296 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
31926311 GCACAATTTA
Statistics
Matches: 145, Mismatches: 6, Indels: 4
0.94 0.04 0.03
Matches are distributed among these distances:
27 65 0.45
28 80 0.55
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:31926241 original size:55 final size:55
Alignment explanation
Indices: 31926131--31926310 Score: 290
Period size: 55 Copynumber: 3.3 Consensus size: 55
31926121 ATATTAAGTC
* * *
31926131 CGCACACTCAGTGCTATATAATC-AACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCTACATAGTC-AACT
31926186 CGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCTACATAGTCAACT
* * *
31926241 CGCACACTTAGTACTACATAGTCAAACTCGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCTACATAGTCAACT
31926296 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
31926311 GCACAATTTA
Statistics
Matches: 117, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
55 91 0.78
56 26 0.22
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCTACATAGTCAACT
Found at i:31926270 original size:83 final size:82
Alignment explanation
Indices: 31926131--31926310 Score: 288
Period size: 83 Copynumber: 2.2 Consensus size: 82
31926121 ATATTAAGTC
* * *
31926131 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTACTACATAATCAAACTCGCACACTTA
31926196 GTGCTACATAATCAAACT
66 GTGCTACATAATC-AACT
* *
31926214 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTACTACATAGTCAAACTCGCACACTTA
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTACTACATAATCAAACTCGCACACTTA
* *
31926279 GTGCTACATAGTCAATT
66 GTGCTACATAATCAACT
31926296 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
31926311 GCACAATTTA
Statistics
Matches: 90, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
82 18 0.20
83 72 0.80
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.26
Consensus pattern (82 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTACTACATAATCAAACTCGCACACTTA
GTGCTACATAATCAACT
Found at i:31947506 original size:40 final size:38
Alignment explanation
Indices: 31947462--31947587 Score: 166
Period size: 40 Copynumber: 3.2 Consensus size: 38
31947452 CGGGCTATGT
31947462 CCCGAAGGCATTTATGCTAGTGATTATATCCGAGCTAAGA
1 CCCGAAGGCATTTATG-TAGTGATTATATCCG-GCTAAGA
31947502 CCCGAAGGCATTTATGGTAGTGATTATATCCGGGCTAAGA
1 CCCGAAGGCATTTAT-GTAGTGATTATATCC-GGCTAAGA
*
31947542 CCCGAAGGCATTTGTGTGAGTTG-TTATATCCGGCTAA-A
1 CCCGAAGGCATTTATGT-AG-TGATTATATCCGGCTAAGA
31947580 TCCCGAAG
1 -CCCGAAG
31947588 ATACTTGGGT
Statistics
Matches: 80, Mismatches: 1, Indels: 11
0.87 0.01 0.12
Matches are distributed among these distances:
38 1 0.01
39 15 0.19
40 60 0.75
41 4 0.05
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (38 bp):
CCCGAAGGCATTTATGTAGTGATTATATCCGGCTAAGA
Found at i:31947760 original size:115 final size:115
Alignment explanation
Indices: 31947558--31947787 Score: 460
Period size: 115 Copynumber: 2.0 Consensus size: 115
31947548 GGCATTTGTG
31947558 TGAGTTGTTATATCCGGCTAAATCCCGAAGATACTTGGGTTTGGAAGTGAGCGATCTTGCTGTAA
1 TGAGTTGTTATATCCGGCTAAATCCCGAAGATACTTGGGTTTGGAAGTGAGCGATCTTGCTGTAA
31947623 TAATTTCAATTAATACGCTCATAAAATCCAAACGATAAGGTATGTTTCGT
66 TAATTTCAATTAATACGCTCATAAAATCCAAACGATAAGGTATGTTTCGT
31947673 TGAGTTGTTATATCCGGCTAAATCCCGAAGATACTTGGGTTTGGAAGTGAGCGATCTTGCTGTAA
1 TGAGTTGTTATATCCGGCTAAATCCCGAAGATACTTGGGTTTGGAAGTGAGCGATCTTGCTGTAA
31947738 TAATTTCAATTAATACGCTCATAAAATCCAAACGATAAGGTATGTTTCGT
66 TAATTTCAATTAATACGCTCATAAAATCCAAACGATAAGGTATGTTTCGT
31947788 ATATGCATCG
Statistics
Matches: 115, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
115 115 1.00
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.33
Consensus pattern (115 bp):
TGAGTTGTTATATCCGGCTAAATCCCGAAGATACTTGGGTTTGGAAGTGAGCGATCTTGCTGTAA
TAATTTCAATTAATACGCTCATAAAATCCAAACGATAAGGTATGTTTCGT
Found at i:31949455 original size:43 final size:43
Alignment explanation
Indices: 31949394--31949543 Score: 130
Period size: 43 Copynumber: 3.5 Consensus size: 43
31949384 CAATACCGAC
* *
31949394 GTCCCAGAC-GTGGTCTTACATGTAATTCAATATCGATGCCTCT
1 GTCCCAGACAG-GGTCTTACACGTAATTCAATATCGATGCCTAT
** **
31949437 GTCCCAGACAGGGTCTTACACAAAATT-AGATA-CGATGCGGAT
1 GTCCCAGACAGGGTCTTACACGTAATTCA-ATATCGATGCCTAT
* * * *
31949479 GTCCCAGACATGGTCTTATACGTAAATCTC-A-ATCGAGGCCTGT
1 GTCCCAGACAGGGTCTTACACGT-AAT-TCAATATCGATGCCTAT
*
31949522 GTCCCAGACATGGTCTTACACG
1 GTCCCAGACAGGGTCTTACACG
31949544 ATGTCTTGAC
Statistics
Matches: 86, Mismatches: 15, Indels: 12
0.76 0.13 0.11
Matches are distributed among these distances:
42 28 0.33
43 56 0.65
44 2 0.02
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.27
Consensus pattern (43 bp):
GTCCCAGACAGGGTCTTACACGTAATTCAATATCGATGCCTAT
Found at i:31957876 original size:46 final size:46
Alignment explanation
Indices: 31957826--31957998 Score: 183
Period size: 46 Copynumber: 3.7 Consensus size: 46
31957816 TGGTTGAGCA
* *
31957826 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
31957872 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* * *
31957919 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
*
31957965 -CTCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TC-CGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
31957999 GGGGCGGGTT
Statistics
Matches: 104, Mismatches: 15, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
43 6 0.06
45 4 0.04
46 59 0.57
47 28 0.27
48 3 0.03
50 4 0.04
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:31957982 original size:93 final size:93
Alignment explanation
Indices: 31957823--31957993 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
31957813 GGATGGTTGA
* * * *
31957823 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATACAAACGTCCGAACTCGTTGAGT
31957888 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
31957916 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG-CTCGAGCTCGTTGAG
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATACAAACGTC-CGAACTCGTTGAG
31957980 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
31957994 ACTTAGGGGC
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 1 0.01
93 70 0.99
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATACAAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:31959919 original size:9 final size:9
Alignment explanation
Indices: 31959905--31959931 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
31959895 CATTCAATCG
31959905 TTCATTTCA
1 TTCATTTCA
31959914 TTCATTTCA
1 TTCATTTCA
31959923 TTCATTTCA
1 TTCATTTCA
31959932 CTCAATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.22, C:0.22, G:0.00, T:0.56
Consensus pattern (9 bp):
TTCATTTCA
Found at i:31966634 original size:41 final size:41
Alignment explanation
Indices: 31966577--31966656 Score: 160
Period size: 41 Copynumber: 2.0 Consensus size: 41
31966567 GAAGTGAAAG
31966577 AACTGAGAAATAAGAAGGTAGCTTTAGTAAAACTTTTCTGC
1 AACTGAGAAATAAGAAGGTAGCTTTAGTAAAACTTTTCTGC
31966618 AACTGAGAAATAAGAAGGTAGCTTTAGTAAAACTTTTCT
1 AACTGAGAAATAAGAAGGTAGCTTTAGTAAAACTTTTCT
31966657 AGAAATGATC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.40, C:0.11, G:0.19, T:0.30
Consensus pattern (41 bp):
AACTGAGAAATAAGAAGGTAGCTTTAGTAAAACTTTTCTGC
Found at i:31972224 original size:43 final size:45
Alignment explanation
Indices: 31972164--31972261 Score: 123
Period size: 45 Copynumber: 2.2 Consensus size: 45
31972154 CTCAAATCAT
* * *
31972164 CGGCATT-TCGCCTGCTAGGCTCG-AGGCCCG-ATA-TCATTTCAC
1 CGGCATTATAGCCTGCTAGGCTCGAAAGCCCGAATAGT-ATCTCAC
31972206 CGGCATTATAGCCTGCTAGGCTCGAAAGCCCGAATAGTATCTCAC
1 CGGCATTATAGCCTGCTAGGCTCGAAAGCCCGAATAGTATCTCAC
*
31972251 TGGCATTATAG
1 CGGCATTATAG
31972262 TCTACTAAGC
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
42 7 0.15
43 15 0.31
44 6 0.12
45 19 0.40
46 1 0.02
ACGTcount: A:0.22, C:0.29, G:0.23, T:0.26
Consensus pattern (45 bp):
CGGCATTATAGCCTGCTAGGCTCGAAAGCCCGAATAGTATCTCAC
Found at i:31972650 original size:43 final size:43
Alignment explanation
Indices: 31972602--31972726 Score: 198
Period size: 43 Copynumber: 2.9 Consensus size: 43
31972592 ACATATCATT
* *
31972602 TCACCGGCATTACA-CCTGCTAGGCACGAAAGCCCGAATACACA
1 TCACCGGCATGA-AGCCTGCTAGGCACGAAGGCCCGAATACACA
*
31972645 TCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACACA
1 TCACCGGCATGAAGCCTGCTAGGCACGAAGGCCCGAATACACA
*
31972688 TCACCAGCATGAAGCCTGCTAGGCACGAAGGCCCGAATA
1 TCACCGGCATGAAGCCTGCTAGGCACGAAGGCCCGAATA
31972727 TAATACCAGC
Statistics
Matches: 76, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
42 1 0.01
43 75 0.99
ACGTcount: A:0.31, C:0.34, G:0.23, T:0.12
Consensus pattern (43 bp):
TCACCGGCATGAAGCCTGCTAGGCACGAAGGCCCGAATACACA
Found at i:31972792 original size:38 final size:38
Alignment explanation
Indices: 31972719--31972802 Score: 105
Period size: 38 Copynumber: 2.2 Consensus size: 38
31972709 GGCACGAAGG
* * * ** *
31972719 CCCGAATATAATACCAGCACTAGGCCTGCGGGATTTAT
1 CCCGGATATAATACCAGCACGAAGCCTGCAAGATTTAA
*
31972757 CCTGGATATAATACCAGCACGAAGCCTGCAAGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCAAGATTTAA
31972795 CCCGGATA
1 CCCGGATA
31972803 CACATCAAAT
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.32, C:0.26, G:0.20, T:0.21
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACGAAGCCTGCAAGATTTAA
Found at i:31978876 original size:30 final size:30
Alignment explanation
Indices: 31978840--31978900 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
31978830 TTCCCGAGTC
*
31978840 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGAAAAAGTT
* * *
31978870 TAGGGGCAAAATTGTAATTTTGAAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGAAAAAGTT
31978900 T
1 T
31978901 GAGTTAAGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.41, C:0.05, G:0.25, T:0.30
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAAATATGAAAAAGTT
Found at i:31981648 original size:42 final size:42
Alignment explanation
Indices: 31981589--31981678 Score: 117
Period size: 42 Copynumber: 2.1 Consensus size: 42
31981579 GTAAGGGGTG
* * * **
31981589 TTACACGAAGTCTCATATCGATGTCATATCCCAAATATGGTC
1 TTACACAAAATCTCATATAGATACCATATCCCAAATATGGTC
* *
31981631 TTACACAAAATCTCATATAGATACCGTATCCCAGATATGGTC
1 TTACACAAAATCTCATATAGATACCATATCCCAAATATGGTC
31981673 TTACAC
1 TTACAC
31981679 TAATCTTAGT
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.33, C:0.24, G:0.12, T:0.30
Consensus pattern (42 bp):
TTACACAAAATCTCATATAGATACCATATCCCAAATATGGTC
Found at i:31983916 original size:27 final size:27
Alignment explanation
Indices: 31983875--31983943 Score: 102
Period size: 27 Copynumber: 2.6 Consensus size: 27
31983865 TTGTTTTGGT
* *
31983875 GAAGAAGTAGGAGAAGTGGCCTGCTTA
1 GAAGATGTAGAAGAAGTGGCCTGCTTA
*
31983902 GAAGATGTAGAAGAAGTGGGCTGCTTA
1 GAAGATGTAGAAGAAGTGGCCTGCTTA
*
31983929 GACGATGTAGAAGAA
1 GAAGATGTAGAAGAA
31983944 AGTTTTGTAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.36, C:0.09, G:0.36, T:0.19
Consensus pattern (27 bp):
GAAGATGTAGAAGAAGTGGCCTGCTTA
Found at i:31986007 original size:28 final size:27
Alignment explanation
Indices: 31985947--31986038 Score: 100
Period size: 28 Copynumber: 3.4 Consensus size: 27
31985937 GATATGACAT
* * *
31985947 TGTGCTAAATGAAATAAGACCATGGCA
1 TGTGCTAAGTGAAATAAGTCCATGGAA
31985974 --T-CTAAGTGAAATAAGTCCATGGTAA
1 TGTGCTAAGTGAAATAAGTCCATGG-AA
*
31985999 TGTGCTAAGTGAAATAAGTCCATGGCAT
1 TGTGCTAAGTGAAATAAGTCCATGG-AA
*
31986027 TGTGTTAAGTGA
1 TGTGCTAAGTGA
31986039 GAAAGTTCCC
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
24 19 0.35
25 2 0.04
27 1 0.02
28 33 0.60
ACGTcount: A:0.36, C:0.12, G:0.24, T:0.28
Consensus pattern (27 bp):
TGTGCTAAGTGAAATAAGTCCATGGAA
Found at i:31986117 original size:51 final size:51
Alignment explanation
Indices: 31986057--31986261 Score: 234
Period size: 51 Copynumber: 4.0 Consensus size: 51
31986047 CCAATTGAAC
* *
31986057 CTTTG-GAATAAAATAGCTTTGGACACAAGTGTGGTACCATGTGAAGGCTA
1 CTTTGTGAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCA
* * * *
31986107 CTTTTTGAATATAATAGCTTTGGACACAAGTATGGTACTATGTGATGGCCA
1 CTTTGTGAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCA
** *
31986158 CTTTGTGAGGAAAGATAGCTTTGGTCACAAGTGTGGTACTATGTGAAGGCCA
1 CTTTGTGAATAAA-ATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCA
* * * ** * *
31986210 CCTTGCGAAGAAGGTAGCTTT-GACTACAAGGGTGGTACTATGTGCAGGCCA
1 CTTTGTGAATAAAATAGCTTTGGAC-ACAAGTGTGGTACTATGTGAAGGCCA
31986261 C
1 C
31986262 CGAGAATCCG
Statistics
Matches: 131, Mismatches: 21, Indels: 5
0.83 0.13 0.03
Matches are distributed among these distances:
50 6 0.05
51 81 0.62
52 44 0.34
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.29
Consensus pattern (51 bp):
CTTTGTGAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCA
Found at i:31986248 original size:103 final size:103
Alignment explanation
Indices: 31986069--31986261 Score: 248
Period size: 103 Copynumber: 1.9 Consensus size: 103
31986059 TTGGAATAAA
* * ** *
31986069 ATAGCTTTGGACACAAGTGTGGTACCATGTGAAGGCTACTTTTTGAATATAATAGCTTTGGACAC
1 ATAGCTTTGGACACAAGTGTGGTACCATGTGAAGGCCACCTTGCGAAGATAATAGCTTTGGACAC
*
31986134 AAGTATGGTACTATGTG-ATGGCCACTTTGTGAGGAAAG
66 AAGGATGGTACTATGTGCA-GGCCACTTTGTGAGGAAAG
* * *
31986172 ATAGCTTTGGTCACAAGTGTGGTACTATGTGAAGGCCACCTTGCGAAGA-AGGTAGCTTT-GACT
1 ATAGCTTTGGACACAAGTGTGGTACCATGTGAAGGCCACCTTGCGAAGATA-ATAGCTTTGGAC-
*
31986235 ACAAGGGTGGTACTATGTGCAGGCCAC
64 ACAAGGATGGTACTATGTGCAGGCCAC
31986262 CGAGAATCCG
Statistics
Matches: 77, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
102 4 0.05
103 72 0.94
104 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.28
Consensus pattern (103 bp):
ATAGCTTTGGACACAAGTGTGGTACCATGTGAAGGCCACCTTGCGAAGATAATAGCTTTGGACAC
AAGGATGGTACTATGTGCAGGCCACTTTGTGAGGAAAG
Found at i:31991184 original size:43 final size:42
Alignment explanation
Indices: 31991074--31991184 Score: 109
Period size: 43 Copynumber: 2.6 Consensus size: 42
31991064 GATTTATGTA
* ** * *
31991074 TAAGACCATGTCTGGGATATCGGCATCGTATCTGATTTCGTG
1 TAAGACCATGTCTAGGACGTCGGCATCGTATCTGATTACATG
* *
31991116 TAAGACCTTGTCTAGGACAG-AGGCATCGATAT-TGAATTACATG
1 TAAGACCATGTCTAGGAC-GTCGGCATCG-TATCTG-ATTACATG
*
31991159 TAAGACCACGTCTAGGACGTCGGCAT
1 TAAGACCATGTCTAGGACGTCGGCAT
31991185 TGTACTTGAT
Statistics
Matches: 55, Mismatches: 10, Indels: 7
0.76 0.14 0.10
Matches are distributed among these distances:
42 25 0.45
43 30 0.55
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (42 bp):
TAAGACCATGTCTAGGACGTCGGCATCGTATCTGATTACATG
Found at i:31993789 original size:46 final size:46
Alignment explanation
Indices: 31993722--31993850 Score: 213
Period size: 46 Copynumber: 2.8 Consensus size: 46
31993712 TGCAACCCGC
* * * *
31993722 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCCTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
31993768 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
31993814 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
31993851 TGCTCAACCA
Statistics
Matches: 77, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 77 1.00
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.19
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:31993869 original size:46 final size:45
Alignment explanation
Indices: 31993730--31993869 Score: 137
Period size: 46 Copynumber: 3.0 Consensus size: 45
31993720 GCCCATAAGC
* *
31993730 GAACTCGGACTCAACTCAACGAGCTCGG--GCCTTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCATC-CATCC-T-AGT
*
31993776 GAACTCAGACTCAACTCAACGAGTTCGGA---CATTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCA-TC-CATCC-T-AGT
*
31993822 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGC-CATCCATCCTAGT
31993868 GA
1 GA
31993870 CATGTCACTT
Statistics
Matches: 83, Mismatches: 5, Indels: 12
0.83 0.05 0.12
Matches are distributed among these distances:
45 1 0.01
46 73 0.88
47 1 0.01
48 5 0.06
49 1 0.01
50 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (45 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCCATCCATCCTAGT
Found at i:31994304 original size:30 final size:30
Alignment explanation
Indices: 31994270--31994329 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
31994260 ATTTAATACG
31994270 AACTTTAAAAAAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
*** *
31994300 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
31994330 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.25, G:0.05, T:0.37
Consensus pattern (30 bp):
AACTTTAAAAAAATTACACTTTTGCCCCTA
Found at i:31998815 original size:19 final size:19
Alignment explanation
Indices: 31998787--31998825 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
31998777 GCTGTGAAAA
*
31998787 TGAACTGCTCATCGGTCTT
1 TGAACCGCTCATCGGTCTT
31998806 TGAACCGCTCATCGGTCTT
1 TGAACCGCTCATCGGTCTT
31998825 T
1 T
31998826 TCTTCCAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.15, C:0.28, G:0.21, T:0.36
Consensus pattern (19 bp):
TGAACCGCTCATCGGTCTT
Found at i:32001397 original size:256 final size:256
Alignment explanation
Indices: 32000942--32001430 Score: 978
Period size: 256 Copynumber: 1.9 Consensus size: 256
32000932 TCCATTTCTC
32000942 ATCACTTACCAATACGTCTCTTTTCATCTCGAGTATTCCTCCATTTGAGTAAAACTTTACCCGTT
1 ATCACTTACCAATACGTCTCTTTTCATCTCGAGTATTCCTCCATTTGAGTAAAACTTTACCCGTT
32001007 GAACACATCGGAATATAATTCGGATACATGGATAATTAGCATATAAGTGCCACATATTCAATCAA
66 GAACACATCGGAATATAATTCGGATACATGGATAATTAGCATATAAGTGCCACATATTCAATCAA
32001072 GCCATCATGTAACCCGCCCATAAGAGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCC
131 GCCATCATGTAACCCGCCCATAAGAGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCC
32001137 ATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCACGAACTCGA
196 ATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCACGAACTCGA
32001198 ATCACTTACCAATACGTCTCTTTTCATCTCGAGTATTCCTCCATTTGAGTAAAACTTTACCCGTT
1 ATCACTTACCAATACGTCTCTTTTCATCTCGAGTATTCCTCCATTTGAGTAAAACTTTACCCGTT
32001263 GAACACATCGGAATATAATTCGGATACATGGATAATTAGCATATAAGTGCCACATATTCAATCAA
66 GAACACATCGGAATATAATTCGGATACATGGATAATTAGCATATAAGTGCCACATATTCAATCAA
32001328 GCCATCATGTAACCCGCCCATAAGAGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCC
131 GCCATCATGTAACCCGCCCATAAGAGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCC
32001393 ATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC
196 ATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC
32001431 TCAACCATCC
Statistics
Matches: 233, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
256 233 1.00
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (256 bp):
ATCACTTACCAATACGTCTCTTTTCATCTCGAGTATTCCTCCATTTGAGTAAAACTTTACCCGTT
GAACACATCGGAATATAATTCGGATACATGGATAATTAGCATATAAGTGCCACATATTCAATCAA
GCCATCATGTAACCCGCCCATAAGAGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCC
ATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCACGAACTCGA
Found at i:32001446 original size:46 final size:46
Alignment explanation
Indices: 32001345--32001432 Score: 122
Period size: 46 Copynumber: 1.9 Consensus size: 46
32001335 TGTAACCCGC
* * * *
32001345 CCATAAGAGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCCCAT
* *
32001391 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTC
32001433 AACCATCCTA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 37 1.00
ACGTcount: A:0.28, C:0.30, G:0.23, T:0.19
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCCCAT
Found at i:32002990 original size:121 final size:121
Alignment explanation
Indices: 32002852--32003329 Score: 420
Period size: 121 Copynumber: 3.7 Consensus size: 121
32002842 TTGAATTTAT
* * * * *
32002852 TAATATAAATAGTTATATTAATAAATTTTGGTCAAAATATAAAAGATATGGAAATTAATATTCTT
1 TAATATAAACAATTATATTAATAAATTTCGGTCAAAATATAAAAGACATGAAAATTAATATTCTT
* * *
32002917 TTGGCAAGAATATAATCAATATATGAATTTGATTCATATAAAATATTTATTGTATA
66 TTGGAAAGAATATAATAAATATATGAATTTGATTCATACAAAATATTTATTGTATA
* * *
32002973 TAATATAAACAATTATATTAATTAATTTCAGTCAAAATATAAAAGACATGAAAATTAATATTATT
1 TAATATAAACAATTATATTAATAAATTTCGGTCAAAATATAAAAGACATGAAAATTAATATTCTT
* *
32003038 TTGGAAAGAATATAATTAATATATGAATTTGATTAATACAAAATA-TTAGTTGTATA
66 TTGGAAAGAATATAATAAATATATGAATTTGATTCATACAAAATATTTA-TTGTATA
* * * *
32003094 T-ATTTTACCGAATTTATTAATATAAACAGTTATATTTTAATTTCGGTCAAAATATAAAAAACAT
1 TAATATAAAC-AA-TTA-T-AT-T----A---ATA----AATTTCGGTCAAAATATAAAAGACAT
32003158 GAAAATTAATATTCTTTTGGAAAGAATATAATTAATATATATGAATTTGATTCATACAAAATATT
50 GAAAATTAATATTCTTTTGGAAAGAATATAA-TAA-ATATATGAATTTGATTCATAC-AAA-A-T
*
32003223 AATTGTATATAGTTTA
110 -ATT-TAT-T-GTATA
* * *
32003239 TCGAATTCACTAATATAAACAGTTATATTAATTAATTTCGGTTAAAATATAAAAGACATGAAAAT
1 T--AA-T-A-T-A-A-ACA-A-TTATATTAATAAATTTCGGTCAAAATATAAAAGACATGAAAAT
*
32003304 TAATATTCTTTTGGAAAGAACATAAT
56 TAATATTCTTTTGGAAAGAATATAAT
32003330 TCCTTGTTCT
Statistics
Matches: 289, Mismatches: 31, Indels: 56
0.77 0.08 0.15
Matches are distributed among these distances:
120 8 0.03
121 108 0.37
122 3 0.01
123 1 0.00
124 2 0.01
125 1 0.00
129 1 0.00
132 2 0.01
136 54 0.19
137 2 0.01
138 20 0.07
139 4 0.01
140 55 0.19
141 1 0.00
142 1 0.00
143 2 0.01
144 5 0.02
145 5 0.02
147 1 0.00
148 1 0.00
149 1 0.00
151 2 0.01
152 2 0.01
153 3 0.01
154 4 0.01
ACGTcount: A:0.46, C:0.06, G:0.09, T:0.39
Consensus pattern (121 bp):
TAATATAAACAATTATATTAATAAATTTCGGTCAAAATATAAAAGACATGAAAATTAATATTCTT
TTGGAAAGAATATAATAAATATATGAATTTGATTCATACAAAATATTTATTGTATA
Found at i:32003127 original size:138 final size:140
Alignment explanation
Indices: 32002973--32003330 Score: 580
Period size: 138 Copynumber: 2.6 Consensus size: 140
32002963 TTATTGTATA
* * *
32002973 TAATATAAACAATTATATTAATTAATTTCAGTCAAAATATAAAAGACATGAAAATTAATATTATT
1 TAATATAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGACATGAAAATTAATATTCTT
* *
32003038 TTGGAAAGAATATAATT-A-ATATATGAATTTGATTAATACAAAATATTAGTTGTATATATTTTA
66 TTGGAAAGAATATAATTAATATATATGAATTTGATTAATACAAAATATTAATTGTATATAGTTTA
* *
32003101 CCGAATTTAT
131 CCGAATTCAC
*
32003111 TAATATAAACAGTTATATT--TTAATTTCGGTCAAAATATAAAAAACATGAAAATTAATATTCTT
1 TAATATAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGACATGAAAATTAATATTCTT
*
32003174 TTGGAAAGAATATAATTAATATATATGAATTTGATTCATACAAAATATTAATTGTATATAGTTTA
66 TTGGAAAGAATATAATTAATATATATGAATTTGATTAATACAAAATATTAATTGTATATAGTTTA
*
32003239 TCGAATTCAC
131 CCGAATTCAC
*
32003249 TAATATAAACAGTTATATTAATTAATTTCGGTTAAAATATAAAAGACATGAAAATTAATATTCTT
1 TAATATAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGACATGAAAATTAATATTCTT
*
32003314 TTGGAAAGAACATAATT
66 TTGGAAAGAATATAATT
32003331 CCTTGTTCTA
Statistics
Matches: 203, Mismatches: 13, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
136 58 0.29
137 1 0.00
138 86 0.42
140 58 0.29
ACGTcount: A:0.46, C:0.06, G:0.09, T:0.39
Consensus pattern (140 bp):
TAATATAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGACATGAAAATTAATATTCTT
TTGGAAAGAATATAATTAATATATATGAATTTGATTAATACAAAATATTAATTGTATATAGTTTA
CCGAATTCAC
Found at i:32010442 original size:20 final size:20
Alignment explanation
Indices: 32010417--32010457 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
32010407 TATTTCACGG
* *
32010417 AAAATTGACTTAACATCTTT
1 AAAATTAACTCAACATCTTT
32010437 AAAATTAACTCAACATCTTT
1 AAAATTAACTCAACATCTTT
32010457 A
1 A
32010458 CTTAACATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.44, C:0.17, G:0.02, T:0.37
Consensus pattern (20 bp):
AAAATTAACTCAACATCTTT
Found at i:32017314 original size:19 final size:19
Alignment explanation
Indices: 32017216--32017313 Score: 79
Period size: 20 Copynumber: 4.9 Consensus size: 19
32017206 CTTGTACGAG
*
32017216 ATTTGCACTTCGATGCCCCT
1 ATTTGCACTTTG-TGCCCCT
* * * * *
32017236 ATATACACTTCGGTGTCTCT
1 ATTTGCACTT-TGTGCCCCT
32017256 ATTTGCACTATTGTGCCCCT
1 ATTTGCACT-TTGTGCCCCT
*
32017276 ATTTGCATATTTGTGCCCCT
1 ATTTGCA-CTTTGTGCCCCT
*
32017296 GTTTGCACTTTGATGCCC
1 ATTTGCACTTTG-TGCCC
32017314 TTGTTATGCA
Statistics
Matches: 61, Mismatches: 13, Indels: 8
0.74 0.16 0.10
Matches are distributed among these distances:
19 4 0.07
20 54 0.89
21 3 0.05
ACGTcount: A:0.15, C:0.29, G:0.16, T:0.40
Consensus pattern (19 bp):
ATTTGCACTTTGTGCCCCT
Found at i:32017318 original size:20 final size:19
Alignment explanation
Indices: 32017257--32017323 Score: 71
Period size: 20 Copynumber: 3.3 Consensus size: 19
32017247 GGTGTCTCTA
*
32017257 TTTGCACTATTGTGCCCCTA
1 TTTGCACT-TTGTGCCCCTG
*
32017277 TTTGCATATTTGTGCCCCTG
1 TTTGCA-CTTTGTGCCCCTG
*
32017297 TTTGCACTTTGATGCCCTTG
1 TTTGCACTTTG-TGCCCCTG
32017317 TTATGCA
1 TT-TGCA
32017324 TCCATGATGC
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
19 4 0.10
20 31 0.77
21 5 0.12
ACGTcount: A:0.13, C:0.25, G:0.18, T:0.43
Consensus pattern (19 bp):
TTTGCACTTTGTGCCCCTG
Found at i:32017742 original size:25 final size:25
Alignment explanation
Indices: 32017704--32017755 Score: 86
Period size: 25 Copynumber: 2.1 Consensus size: 25
32017694 AGTGATTTAA
* *
32017704 GAATGACATGTTTATAGGAAAGTTT
1 GAATGACATATTTATACGAAAGTTT
32017729 GAATGACATATTTATACGAAAGTTT
1 GAATGACATATTTATACGAAAGTTT
32017754 GA
1 GA
32017756 GACAAATGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.38, C:0.06, G:0.21, T:0.35
Consensus pattern (25 bp):
GAATGACATATTTATACGAAAGTTT
Found at i:32017768 original size:25 final size:25
Alignment explanation
Indices: 32017704--32017762 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
32017694 AGTGATTTAA
** *
32017704 GAATGACATGTTTATAGGAAAGTTT
1 GAATGACAAATTTATACGAAAGTTT
*
32017729 GAATGACATATTTATACGAAAGTTT
1 GAATGACAAATTTATACGAAAGTTT
32017754 G-A-GACAAAT
1 GAATGACAAAT
32017763 GATTATTAGT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
23 6 0.19
24 1 0.03
25 24 0.77
ACGTcount: A:0.41, C:0.07, G:0.20, T:0.32
Consensus pattern (25 bp):
GAATGACAAATTTATACGAAAGTTT
Found at i:32019882 original size:22 final size:22
Alignment explanation
Indices: 32019857--32019900 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
32019847 CATCTTTTAA
* * *
32019857 CACATAAACATTCAATTCTATT
1 CACACAAACAATCAATTATATT
*
32019879 CACACAATCAATCAATTATATT
1 CACACAAACAATCAATTATATT
32019901 GGTATAATCA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.43, C:0.23, G:0.00, T:0.34
Consensus pattern (22 bp):
CACACAAACAATCAATTATATT
Found at i:32019909 original size:22 final size:22
Alignment explanation
Indices: 32019884--32019930 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
32019874 CTATTCACAC
* *
32019884 AATCAATCAATTATATTGGTAT
1 AATCAATAAATTATATTGGCAT
32019906 AATCAATAAATTATATTGGCAT
1 AATCAATAAATTATATTGGCAT
32019928 AAT
1 AAT
32019931 ACATCCATGG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.45, C:0.09, G:0.09, T:0.38
Consensus pattern (22 bp):
AATCAATAAATTATATTGGCAT
Found at i:32026124 original size:27 final size:26
Alignment explanation
Indices: 32026042--32026125 Score: 105
Period size: 27 Copynumber: 3.2 Consensus size: 26
32026032 ATGGAAGAAG
* *
32026042 TACTGTACTGGTGACTATGTCACATT
1 TACTGTACTGGTGGCTATGCCACATT
* *
32026068 AACTGTTACTGGTGGCTATGCCACAAT
1 TACTG-TACTGGTGGCTATGCCACATT
*
32026095 TACTGATACTGGTGGCTTTGCCACATT
1 TACTG-TACTGGTGGCTATGCCACATT
32026122 TACT
1 TACT
32026126 ATTTTTGGCA
Statistics
Matches: 49, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
26 4 0.08
27 45 0.92
ACGTcount: A:0.23, C:0.21, G:0.20, T:0.36
Consensus pattern (26 bp):
TACTGTACTGGTGGCTATGCCACATT
Found at i:32026337 original size:28 final size:28
Alignment explanation
Indices: 32026284--32026338 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
32026274 ATTACACTGT
* * *
32026284 ACTGATACTGTATTGGGCTTAGGCCCAC
1 ACTGATACTGTATAGGGCTAAAGCCCAC
*
32026312 ACTGTTACTGTATAGGGCTAAAGCCCA
1 ACTGATACTGTATAGGGCTAAAGCCCA
32026339 GGCTATTTTG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.25, C:0.24, G:0.24, T:0.27
Consensus pattern (28 bp):
ACTGATACTGTATAGGGCTAAAGCCCAC
Found at i:32028895 original size:13 final size:13
Alignment explanation
Indices: 32028877--32028901 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
32028867 ACATGGCATG
32028877 TGTCTCAGTCGTA
1 TGTCTCAGTCGTA
32028890 TGTCTCAGTCGT
1 TGTCTCAGTCGT
32028902 GTGTGACACA
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:0.12, C:0.24, G:0.24, T:0.40
Consensus pattern (13 bp):
TGTCTCAGTCGTA
Found at i:32035593 original size:30 final size:30
Alignment explanation
Indices: 32035557--32035619 Score: 126
Period size: 30 Copynumber: 2.1 Consensus size: 30
32035547 ATTTTCTATA
32035557 AGACCATAGCTGGGCTATTGGCATGATACG
1 AGACCATAGCTGGGCTATTGGCATGATACG
32035587 AGACCATAGCTGGGCTATTGGCATGATACG
1 AGACCATAGCTGGGCTATTGGCATGATACG
32035617 AGA
1 AGA
32035620 TCCCATATAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.29, C:0.19, G:0.30, T:0.22
Consensus pattern (30 bp):
AGACCATAGCTGGGCTATTGGCATGATACG
Found at i:32042442 original size:22 final size:22
Alignment explanation
Indices: 32042404--32042479 Score: 82
Period size: 22 Copynumber: 3.3 Consensus size: 22
32042394 AGTAAGCATT
*
32042404 GAGCTGAAATAGTAAGCTCTAAC
1 GAGCTG-AACAGTAAGCTCTAAC
*
32042427 GAGCTGAACAGTAAGC-CCATAC
1 GAGCTGAACAGTAAGCTCTA-AC
*
32042449 GAGCTGAGAACAGTAAGCTCTTAC
1 GAGCT--GAACAGTAAGCTCTAAC
32042473 GAGCTGA
1 GAGCTGA
32042480 TATATCGGTA
Statistics
Matches: 45, Mismatches: 4, Indels: 9
0.78 0.07 0.16
Matches are distributed among these distances:
21 2 0.04
22 18 0.40
23 6 0.13
24 18 0.40
25 1 0.02
ACGTcount: A:0.36, C:0.21, G:0.25, T:0.18
Consensus pattern (22 bp):
GAGCTGAACAGTAAGCTCTAAC
Found at i:32042464 original size:24 final size:23
Alignment explanation
Indices: 32042404--32042479 Score: 86
Period size: 24 Copynumber: 3.3 Consensus size: 23
32042394 AGTAAGCATT
*
32042404 GAGCTGA-AATAGTAAGCTCTAAC
1 GAGCTGAGAACAGTAAGCTCT-AC
*
32042427 GAGCT--GAACAGTAAGCCCATAC
1 GAGCTGAGAACAGTAAGCTC-TAC
32042449 GAGCTGAGAACAGTAAGCTCTTAC
1 GAGCTGAGAACAGTAAGCTC-TAC
32042473 GAGCTGA
1 GAGCTGA
32042480 TATATCGGTA
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
22 17 0.38
23 6 0.13
24 22 0.49
ACGTcount: A:0.36, C:0.21, G:0.25, T:0.18
Consensus pattern (23 bp):
GAGCTGAGAACAGTAAGCTCTAC
Found at i:32042464 original size:46 final size:42
Alignment explanation
Indices: 32042389--32042479 Score: 119
Period size: 46 Copynumber: 2.1 Consensus size: 42
32042379 CCTAAGCTAA
* *
32042389 TGAACAGTAAGCATTGAGCTGAAATAGTAAGCTCTAACGAGC
1 TGAACAGTAAGCATCGAGCTGAAACAGTAAGCTCTAACGAGC
*
32042431 TGAACAGTAAGCCCATACGAGCTGAGAACAGTAAGCTCTTACGAGC
1 TGAACAGTAAG--CAT-CGAGCTGA-AACAGTAAGCTCTAACGAGC
32042477 TGA
1 TGA
32042480 TATATCGGTA
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
42 11 0.26
44 3 0.07
45 7 0.17
46 21 0.50
ACGTcount: A:0.36, C:0.20, G:0.24, T:0.20
Consensus pattern (42 bp):
TGAACAGTAAGCATCGAGCTGAAACAGTAAGCTCTAACGAGC
Found at i:32060843 original size:40 final size:40
Alignment explanation
Indices: 32060766--32060987 Score: 258
Period size: 40 Copynumber: 5.6 Consensus size: 40
32060756 AAACCAAGTA
* * *
32060766 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGTTATAG-TAACTCGCACAAATG
32060805 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
32060845 CCTT-GAGGACTTAGCCC-GTATATAGTAACTCGCACAAATG
1 CCTTCG-GGACTTAGCCCGGT-TATAGTAACTCGCACAAATG
* * *
32060885 CCTTTGGGACTTAGCCCGGATATAGTAACTCGAACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
* ** *
32060925 CCTTCGGGGCTTAGCCCGGAATT-T-GCCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGG--TTATAGTAACTCGCACAAATG
*
32060965 CCTTCGGGACTTAGCCCGATTAT
1 CCTTCGGGACTTAGCCCGGTTAT
32060988 CATCCGAATA
Statistics
Matches: 160, Mismatches: 14, Indels: 18
0.83 0.07 0.09
Matches are distributed among these distances:
38 2 0.01
39 18 0.11
40 136 0.85
41 3 0.02
42 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
Found at i:32062951 original size:53 final size:53
Alignment explanation
Indices: 32062768--32062975 Score: 249
Period size: 55 Copynumber: 3.8 Consensus size: 53
32062758 ATTAGGGTTT
*
32062768 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGC-ATTGGTAA-G-TTCATAAGGC
* * * * *
32062823 AAGAAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT-C-ATAAGGC
* *
32062878 AAAGG-TCCCATGTAAGACCATGCCAAGACATGGCATTGGTGAGTTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCATAAGGC
* * *
32062931 TAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT
32062976 TCAAAACGAT
Statistics
Matches: 130, Mismatches: 18, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
52 5 0.04
53 45 0.35
54 8 0.06
55 69 0.53
56 3 0.02
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.23
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCATAAGGC
Found at i:32062974 original size:108 final size:110
Alignment explanation
Indices: 32062775--32062975 Score: 300
Period size: 108 Copynumber: 1.8 Consensus size: 110
32062765 TTTAAGGATA
* *
32062775 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGAAAATCATGTAAGA
1 CCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGGTTTCTAAGGCAAGAAAACCATGTAAGA
*
32062840 CCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
* * * *
32062885 CCATGTAAGACCATGCCAAGACATGGC-ATTGGTGA-G-TTCATAAGGCTAGGATACCATGTAAG
1 CCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGGTTTC-TAAGGCAAGAAAACCATGTAAG
*
32062947 ACCATGTCAAGACATGGCAATGGTAAGTT
65 ACCATGTCAAGACATGGCAATGATAAGTT
32062976 TCAAAACGAT
Statistics
Matches: 82, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
107 3 0.04
108 46 0.56
109 7 0.09
110 26 0.32
ACGTcount: A:0.35, C:0.18, G:0.24, T:0.23
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGGTTTCTAAGGCAAGAAAACCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
Found at i:32070543 original size:53 final size:53
Alignment explanation
Indices: 32070359--32070564 Score: 218
Period size: 55 Copynumber: 3.8 Consensus size: 53
32070349 ATTAGGGTCT
* *
32070359 AAGGATACCATGTAAGACCATACCAAGGCATGGGAATTGGTAAGGTTTC-TAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGGCAT-GGCATTGGTAA-G-TTCATAAGGC
* * * * *
32070414 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGGTAAGTT-C-ATAAGGC
* * *
32070469 AAAGG-TCCCATGTATGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTCATAAGGC
* * * *
32070522 AAGGATACCACGTAAGACCATGACAAGTCATGGCAATGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGGTAAG
32070565 GTACCCGCGT
Statistics
Matches: 124, Mismatches: 22, Indels: 12
0.78 0.14 0.08
Matches are distributed among these distances:
52 6 0.05
53 40 0.32
54 10 0.08
55 64 0.52
56 4 0.03
ACGTcount: A:0.35, C:0.17, G:0.26, T:0.21
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTCATAAGGC
Found at i:32075597 original size:27 final size:26
Alignment explanation
Indices: 32075541--32075691 Score: 115
Period size: 27 Copynumber: 5.6 Consensus size: 26
32075531 AAATTGTACA
* * *
32075541 GCACTAAGTGTGCG-ATTCTACTTTGTT
1 GCACTAAGTGTGCGAAAT-GACTATG-T
*
32075568 GCACTAAGTGTGCGAAATGAATATGAT
1 GCACTAAGTGTGCGAAATGACTATG-T
* * *
32075595 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAAATGACTATG-T
*
32075622 GCACTAAGTGTGCGAGATGGACTATGT
1 GCACTAAGTGTGCGAAAT-GACTATGT
** * *
32075649 GGCACTAAGTGTGCGATTTGATTACGT
1 -GCACTAAGTGTGCGAAATGACTATGT
*
32075676 GGCACTAAATGTGCGA
1 -GCACTAAGTGTGCGA
32075692 GTTGATTATA
Statistics
Matches: 102, Mismatches: 19, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
27 78 0.76
28 24 0.24
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.28
Consensus pattern (26 bp):
GCACTAAGTGTGCGAAATGACTATGT
Found at i:32075601 original size:54 final size:54
Alignment explanation
Indices: 32075541--32075666 Score: 148
Period size: 54 Copynumber: 2.3 Consensus size: 54
32075531 AAATTGTACA
* ** **
32075541 GCACTAAGTGTGCGATTCTACTTTGTTGCACTAAGTGTGCGAAAT-GAATATGAT-
1 GCACTAAGTGTGCGATT-GACCATGCGGCACTAAGTGTGCGAAATGGAATATG-TG
* *
32075595 GCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGATGGACTATGTG
1 GCACTAAGTGTGCG-ATTGACCATGCGGCACTAAGTGTGCGAAATGGAATATGTG
32075650 GCACTAAGTGTGCGATT
1 GCACTAAGTGTGCGATT
32075667 TGATTACGTG
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
54 39 0.63
55 23 0.37
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.29
Consensus pattern (54 bp):
GCACTAAGTGTGCGATTGACCATGCGGCACTAAGTGTGCGAAATGGAATATGTG
Found at i:32075664 original size:55 final size:54
Alignment explanation
Indices: 32075568--32075717 Score: 160
Period size: 55 Copynumber: 2.8 Consensus size: 54
32075558 CTACTTTGTT
* *
32075568 GCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAGATGAATATGATGCACTAAGTGTGCGAATTGACCACGCG
* * ** *
32075622 GCACTAAGTGTGCGAGATGGACTATG-TGGCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGAGAT-GAATATGAT-GCACTAAGTGTGCGAATTGACCACGCG
* * * *
32075677 GCACTAAATGTGCGAGTTGATTAT-ATAGCACTGAGTGTGCG
1 GCACTAAGTGTGCGAGATGAATATGAT-GCACTAAGTGTGCG
32075718 GGCTCAATAT
Statistics
Matches: 81, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
54 37 0.46
55 44 0.54
ACGTcount: A:0.27, C:0.15, G:0.30, T:0.27
Consensus pattern (54 bp):
GCACTAAGTGTGCGAGATGAATATGATGCACTAAGTGTGCGAATTGACCACGCG
Found at i:32075681 original size:82 final size:81
Alignment explanation
Indices: 32075541--32075696 Score: 188
Period size: 82 Copynumber: 1.9 Consensus size: 81
32075531 AAATTGTACA
* * * * * *
32075541 GCACTAAGTGTGCGATTCTACTTTGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGAATCGACTATGTGGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
32075606 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
* ** *
32075622 GCACTAAGTGTGCGAGATGGACTATGTGGCACTAAGTGTGCGATTTGATTACG-TGGCACTAAAT
1 GCACTAAGTGTGCGA-ATCGACTATGTGGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAAT
*
32075686 GTGCGAGTTGA
64 GTGCGAATTGA
32075697 TTATATAGCA
Statistics
Matches: 62, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
81 16 0.26
82 46 0.74
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGAATCGACTATGTGGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
GCGAATTGACCATGCG
Found at i:32075696 original size:27 final size:27
Alignment explanation
Indices: 32075568--32075717 Score: 113
Period size: 27 Copynumber: 5.5 Consensus size: 27
32075558 CTACTTTGTT
** * *
32075568 GCACTAAGTGTGCGAAATGAATATGAT-
1 GCACTAAGTGTGCGAGTTGATTACG-TG
* ** * *
32075595 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAGTTGATTACGTG
* * *
32075622 GCACTAAGTGTGCGAGATGGACTATGTG
1 GCACTAAGTGTGCGAG-TTGATTACGTG
*
32075650 GCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGAGTTGATTACGTG
* ** *
32075677 GCACTAAATGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAGTTGATTACGTG
*
32075704 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
32075718 GGCTCAATAT
Statistics
Matches: 102, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
27 79 0.77
28 23 0.23
ACGTcount: A:0.27, C:0.15, G:0.30, T:0.27
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGTTGATTACGTG
Found at i:32083652 original size:27 final size:27
Alignment explanation
Indices: 32083621--32083798 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
32083611 TAAATTGTAC
32083621 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
32083648 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
32083674 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
32083702 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
32083730 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
32083757 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
32083784 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
32083799 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:32083735 original size:82 final size:81
Alignment explanation
Indices: 32083622--32083777 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
32083612 AAATTGTACA
* *
32083622 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
32083686 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
32083703 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
32083768 TGCGAGTTGA
65 TGCGAATTGA
32083778 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:32083789 original size:82 final size:81
Alignment explanation
Indices: 32083618--32083798 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
32083608 GATTAAATTG
* *
32083618 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
32083683 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
32083699 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
32083763 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
32083781 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
32083799 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:32085530 original size:42 final size:42
Alignment explanation
Indices: 32085477--32085597 Score: 120
Period size: 43 Copynumber: 2.9 Consensus size: 42
32085467 TTTGAGATTA
* *
32085477 CGTGTTAGACCATATCTGGGATATGGCATTGATATGAGA-CTT
1 CGTGTAAGACCATATCTGGGATATGGCATTGATATGAGATC-C
* * *
32085519 TGTGTAAGACCATAGT-TGGGCTATTGGCATCGATATGAGATCC
1 CGTGTAAGACCATA-TCTGGGATA-TGGCATTGATATGAGATCC
** * *
32085562 CACGTAAGACCATAACTGGGATATGGCATTGGTATG
1 CGTGTAAGACCATATCTGGGATATGGCATTGATATG
32085598 GTGCTATGAG
Statistics
Matches: 63, Mismatches: 12, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
42 29 0.46
43 33 0.52
44 1 0.02
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (42 bp):
CGTGTAAGACCATATCTGGGATATGGCATTGATATGAGATCC
Found at i:32089381 original size:47 final size:47
Alignment explanation
Indices: 32089325--32089422 Score: 160
Period size: 47 Copynumber: 2.1 Consensus size: 47
32089315 TAAGTTGAAT
**
32089325 TTAAGCTTGTTAAATTTGTTCTTAATAATTCCGGATAAGTTACTTAG
1 TTAAGCTTGTTAAATTTGCCCTTAATAATTCCGGATAAGTTACTTAG
* *
32089372 TTAAGCTTGTTAAATTTGCCCTTAATATTTTCGGATAAGTTACTTAG
1 TTAAGCTTGTTAAATTTGCCCTTAATAATTCCGGATAAGTTACTTAG
32089419 TTAA
1 TTAA
32089423 AGAAAATTTT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.45
Consensus pattern (47 bp):
TTAAGCTTGTTAAATTTGCCCTTAATAATTCCGGATAAGTTACTTAG
Found at i:32090270 original size:45 final size:45
Alignment explanation
Indices: 32090200--32090419 Score: 270
Period size: 45 Copynumber: 5.0 Consensus size: 45
32090190 TATCGTACAG
* *
32090200 TACTATTTAGGCCTTTAAGCCTAGCAGGCTATAATGCCGGTGATA
1 TACTATTCAGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGATA
* *
32090245 TACTATTTAGGCCTTTGAGCTTAGCAGGCTATAATGCCGGTGATA
1 TACTATTCAGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGATA
* * *
32090290 TACTATTCGGGCCTTTGAGCCTAGCAAGCTATAATGCCAGTGATA
1 TACTATTCAGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGATA
* * * * *
32090335 TACTATTCGGGCCTTCGAGCCTAGTAGGCTATAATGCCAGTGAAA
1 TACTATTCAGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGATA
*
32090380 TGA-TA-TC-GAG-CTTTGAGCCTAGCAGGCGA-AATGCCGGTGA
1 T-ACTATTCAG-GCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
32090420 ATGAATTCGG
Statistics
Matches: 158, Mismatches: 15, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
42 10 0.06
43 17 0.11
44 3 0.02
45 127 0.80
46 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.29
Consensus pattern (45 bp):
TACTATTCAGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGATA
Found at i:32092219 original size:27 final size:27
Alignment explanation
Indices: 32092152--32092434 Score: 204
Period size: 27 Copynumber: 10.6 Consensus size: 27
32092142 TTAGTTTACC
* *
32092152 AAATTATTGAAATACCC-AG-GTTGTA
1 AAATTATTGAAATACCCTCGATTTGTA
** * *
32092177 AAATTA-CCAAAGTACCC-CCAGTTTATA
1 AAATTATTGAAA-TACCCTCGA-TTTGTA
*
32092204 AAATTATTGAAATACCTTCGATTTGTA
1 AAATTATTGAAATACCCTCGATTTGTA
* **
32092231 AAATTATCGAAATACTGTCGA-TTGTA
1 AAATTATTGAAATACCCTCGATTTGTA
*
32092257 AAATTATTAAAATACCCTCGATTTGTA
1 AAATTATTGAAATACCCTCGATTTGTA
** * *
32092284 AAATTACCG-AATACGCTC-AGTTTGCA
1 AAATTATTGAAATACCCTCGA-TTTGTA
* *
32092310 AAATTACTAAAATACCCTCGATTTGTA
1 AAATTATTGAAATACCCTCGATTTGTA
* * *
32092337 AAATTACTGAAATACCCACGACTTGTA
1 AAATTATTGAAATACCCTCGATTTGTA
** * *
32092364 AAATTA-CCAAAGTACCCCCGATTTATA
1 AAATTATTGAAA-TACCCTCGATTTGTA
* *** **
32092391 GAATTATTGTTTTACCCTCGATTTACA
1 AAATTATTGAAATACCCTCGATTTGTA
32092418 AAATTATTGAAATACCC
1 AAATTATTGAAATACCC
32092435 CTATAGGGTA
Statistics
Matches: 200, Mismatches: 47, Indels: 20
0.75 0.18 0.07
Matches are distributed among these distances:
24 3 0.01
25 12 0.06
26 45 0.22
27 134 0.67
28 6 0.03
ACGTcount: A:0.39, C:0.18, G:0.11, T:0.33
Consensus pattern (27 bp):
AAATTATTGAAATACCCTCGATTTGTA
Found at i:32092271 original size:53 final size:51
Alignment explanation
Indices: 32092202--32092396 Score: 194
Period size: 53 Copynumber: 3.7 Consensus size: 51
32092192 CCCCAGTTTA
* *
32092202 TAAAATTATTGAAATACCTTCGATTTGTAAAATTATCGAAATACTGTCGATTG
1 TAAAATTATTAAAATACCCTCGATTTGTAAAATTA-CGAAATAC-GTCGATTG
*
32092255 TAAAATTATTAAAATACCCTCGATTTGTAAAATTACCG-AATACGCTCAGTTTG
1 TAAAATTATTAAAATACCCTCGATTTGTAAAATTA-CGAAATACG-TC-GATTG
* * **
32092308 CAAAATTACTAAAATACCCTCGATTTGTAAAATTACTGAAATACCCACGACTTG
1 TAAAATTATTAAAATACCCTCGATTTGTAAAATTAC-GAAATA-CGTCGA-TTG
** * * * *
32092362 TAAAATTACCAAAGTACCCCCGATTTATAGAATTA
1 TAAAATTATTAAAATACCCTCGATTTGTAAAATTA
32092397 TTGTTTTACC
Statistics
Matches: 121, Mismatches: 15, Indels: 11
0.82 0.10 0.07
Matches are distributed among these distances:
51 1 0.01
52 8 0.07
53 74 0.61
54 37 0.31
55 1 0.01
ACGTcount: A:0.39, C:0.17, G:0.11, T:0.32
Consensus pattern (51 bp):
TAAAATTATTAAAATACCCTCGATTTGTAAAATTACGAAATACGTCGATTG
Found at i:32092447 original size:27 final size:27
Alignment explanation
Indices: 32092417--32092817 Score: 377
Period size: 27 Copynumber: 14.9 Consensus size: 27
32092407 CTCGATTTAC
** *
32092417 AAAATTATTGAAATACCCCTATAGGGT
1 AAAATTACCGAAATACCCCTGTAGGGT
*
32092444 AAAATTACCGAAATACCCCTGTAGGAT
1 AAAATTACCGAAATACCCCTGTAGGGT
* * * *
32092471 AGAATTATCGAAATACCCTTGTAGGAT
1 AAAATTACCGAAATACCCCTGTAGGGT
32092498 AGAAA-TACCGAAATACCCCTGTAGGGT
1 A-AAATTACCGAAATACCCCTGTAGGGT
* *
32092525 AAAATTACTGAAATACCCCTGTAGGAT
1 AAAATTACCGAAATACCCCTGTAGGGT
* * *
32092552 AGAATTACCGAAATACCCTTGTAGGAT
1 AAAATTACCGAAATACCCCTGTAGGGT
*
32092579 AGAAA-TACCGAAATACCCTTGTAGGGT
1 A-AAATTACCGAAATACCCCTGTAGGGT
* *
32092606 AGAAA-TACTGAAATACCCTTGTAGGGT
1 A-AAATTACCGAAATACCCCTGTAGGGT
*
32092633 AGAATTA-CGAAAATACCCCTGTAGGGT
1 AAAATTACCG-AAATACCCCTGTAGGGT
* **
32092660 AGAATTACCGAAATACCATTGTAGGGT
1 AAAATTACCGAAATACCCCTGTAGGGT
* *
32092687 AGAAA-TACCGAAATACTCTTGTAGGGT
1 A-AAATTACCGAAATACCCCTGTAGGGT
*
32092714 AGAAA-TA-TGAAAATACCCCTGTAGGGT
1 A-AAATTACCG-AAATACCCCTGTAGGGT
* ** * *
32092741 AGAATTACTAAAATACCCCTATAGGAT
1 AAAATTACCGAAATACCCCTGTAGGGT
* * * *
32092768 AGAGTTATCGAAATACCCTTGTAGGGT
1 AAAATTACCGAAATACCCCTGTAGGGT
*
32092795 AGAAA-TACCGAAATACCCTTGTA
1 A-AAATTACCGAAATACCCCTGTA
32092818 AAAATACCCT
Statistics
Matches: 319, Mismatches: 44, Indels: 22
0.83 0.11 0.06
Matches are distributed among these distances:
26 9 0.03
27 300 0.94
28 10 0.03
ACGTcount: A:0.38, C:0.17, G:0.19, T:0.25
Consensus pattern (27 bp):
AAAATTACCGAAATACCCCTGTAGGGT
Found at i:32092477 original size:54 final size:54
Alignment explanation
Indices: 32092426--32092817 Score: 425
Period size: 54 Copynumber: 7.3 Consensus size: 54
32092416 CAAAATTATT
* * * *
32092426 GAAATACCCCTATAGGGTAAAATTACCGAAATACCCCTGTAGGATAGAATTATC
1 GAAATACCCCTGTAGGGTAAAATTACCGAAATACCCTTGTAGGGTAGAATTACC
* * * * *
32092480 GAAATACCCTTGTAGGATAGAAA-TACCGAAATACCCCTGTAGGGTAAAATTACT
1 GAAATACCCCTGTAGGGTA-AAATTACCGAAATACCCTTGTAGGGTAGAATTACC
* * * *
32092534 GAAATACCCCTGTAGGATAGAATTACCGAAATACCCTTGTAGGATAGAAATACC
1 GAAATACCCCTGTAGGGTAAAATTACCGAAATACCCTTGTAGGGTAGAATTACC
* *
32092588 GAAATACCCTTGTAGGGTAGAAA-TACTGAAATACCCTTGTAGGGTAGAATTA-C
1 GAAATACCCCTGTAGGGTA-AAATTACCGAAATACCCTTGTAGGGTAGAATTACC
* * *
32092641 GAAAATACCCCTGTAGGGTAGAATTACCGAAATACCATTGTAGGGTAGAAATACC
1 G-AAATACCCCTGTAGGGTAAAATTACCGAAATACCCTTGTAGGGTAGAATTACC
* * * * *
32092696 GAAATACTCTTGTAGGGTAGAAA-TA-TGAAAATACCCCTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTA-AAATTACCG-AAATACCCTTGTAGGGTAGAATTACC
* * * * * * *
32092750 AAAATACCCCTATAGGATAGAGTTATCGAAATACCCTTGTAGGGTAGAAATACC
1 GAAATACCCCTGTAGGGTAAAATTACCGAAATACCCTTGTAGGGTAGAATTACC
*
32092804 GAAATACCCTTGTA
1 GAAATACCCCTGTA
32092818 AAAATACCCT
Statistics
Matches: 281, Mismatches: 47, Indels: 20
0.81 0.14 0.06
Matches are distributed among these distances:
53 8 0.03
54 263 0.94
55 10 0.04
ACGTcount: A:0.38, C:0.18, G:0.20, T:0.24
Consensus pattern (54 bp):
GAAATACCCCTGTAGGGTAAAATTACCGAAATACCCTTGTAGGGTAGAATTACC
Found at i:32092610 original size:108 final size:108
Alignment explanation
Indices: 32092417--32092817 Score: 581
Period size: 108 Copynumber: 3.7 Consensus size: 108
32092407 CTCGATTTAC
* * * * * *
32092417 AAAATTATTGAAATACCCCTATAGGGTAAAATTACCGAAATACCCCTGTAGGATAGAATTATCGA
1 AAAATTACTGAAATACCCCTATAGGATAGAATTACCGAAATACCCTTGTAGGATAGAAATACCGA
* *
32092482 AATACCCTTGTAGGATAGAAATACCGAAATACCCCTGTAGGGT
66 AATACCCTTGTAGGGTAGAAATACTGAAATACCCCTGTAGGGT
*
32092525 AAAATTACTGAAATACCCCTGTAGGATAGAATTACCGAAATACCCTTGTAGGATAGAAATACCGA
1 AAAATTACTGAAATACCCCTATAGGATAGAATTACCGAAATACCCTTGTAGGATAGAAATACCGA
*
32092590 AATACCCTTGTAGGGTAGAAATACTGAAATACCCTTGTAGGGT
66 AATACCCTTGTAGGGTAGAAATACTGAAATACCCCTGTAGGGT
* * * * *
32092633 AGAATTAC-GAAAATACCCCTGTAGGGTAGAATTACCGAAATACCATTGTAGGGTAGAAATACCG
1 AAAATTACTG-AAATACCCCTATAGGATAGAATTACCGAAATACCCTTGTAGGATAGAAATACCG
*
32092697 AAATACTCTTGTAGGGTAGAAATA-TGAAAATACCCCTGTAGGGT
65 AAATACCCTTGTAGGGTAGAAATACTG-AAATACCCCTGTAGGGT
* * * * *
32092741 AGAATTACTAAAATACCCCTATAGGATAGAGTTATCGAAATACCCTTGTAGGGTAGAAATACCGA
1 AAAATTACTGAAATACCCCTATAGGATAGAATTACCGAAATACCCTTGTAGGATAGAAATACCGA
32092806 AATACCCTTGTA
66 AATACCCTTGTA
32092818 AAAATACCCT
Statistics
Matches: 267, Mismatches: 23, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
107 3 0.01
108 264 0.99
ACGTcount: A:0.38, C:0.17, G:0.19, T:0.25
Consensus pattern (108 bp):
AAAATTACTGAAATACCCCTATAGGATAGAATTACCGAAATACCCTTGTAGGATAGAAATACCGA
AATACCCTTGTAGGGTAGAAATACTGAAATACCCCTGTAGGGT
Found at i:32092824 original size:14 final size:14
Alignment explanation
Indices: 32092805--32092831 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
32092795 AGAAATACCG
32092805 AAATACCCTTGTAA
1 AAATACCCTTGTAA
32092819 AAATACCCTTGTA
1 AAATACCCTTGTA
32092832 GGGTAGGATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.41, C:0.22, G:0.07, T:0.30
Consensus pattern (14 bp):
AAATACCCTTGTAA
Found at i:32092835 original size:41 final size:41
Alignment explanation
Indices: 32092778--32092857 Score: 126
Period size: 41 Copynumber: 2.0 Consensus size: 41
32092768 AGAGTTATCG
32092778 AAATACCCTTGTAGGGTAGAAATACCGAA-ATACCCTTGTAA
1 AAATACCCTTGTAGGGTAGAAATACC-AAGATACCCTTGTAA
* *
32092819 AAATACCCTTGTAGGGTAGGATTACCAAGATACCCTTGT
1 AAATACCCTTGTAGGGTAGAAATACCAAGATACCCTTGT
32092858 GGGGTAAAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
40 2 0.06
41 34 0.94
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.26
Consensus pattern (41 bp):
AAATACCCTTGTAGGGTAGAAATACCAAGATACCCTTGTAA
Found at i:32092862 original size:27 final size:27
Alignment explanation
Indices: 32092821--32092872 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
32092811 CCTTGTAAAA
**
32092821 ATACCCTTGTAGGGTAGGATTACCAAG
1 ATACCCTTGTAGGGTAAAATTACCAAG
*
32092848 ATACCCTTGTGGGGTAAAATTACCA
1 ATACCCTTGTAGGGTAAAATTACCA
32092873 TTTTGCCCCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (27 bp):
ATACCCTTGTAGGGTAAAATTACCAAG
Found at i:32093333 original size:22 final size:22
Alignment explanation
Indices: 32093281--32093345 Score: 80
Period size: 22 Copynumber: 3.0 Consensus size: 22
32093271 TTTAAGCCTT
*
32093281 CTGATTATGGCTTTGCGCCAAC
1 CTGATTATGGCTTTGTGCCAAC
*
32093303 CT-ACATATGGCTTTGTGCCAAC
1 CTGA-TTATGGCTTTGTGCCAAC
32093325 CTGATTATGG-TTGTGTGCCAA
1 CTGATTATGGCTT-TGTGCCAA
32093346 ACGTATTTGC
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
21 3 0.08
22 33 0.89
23 1 0.03
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.34
Consensus pattern (22 bp):
CTGATTATGGCTTTGTGCCAAC
Found at i:32093534 original size:27 final size:26
Alignment explanation
Indices: 32093504--32093611 Score: 135
Period size: 27 Copynumber: 4.0 Consensus size: 26
32093494 ATTCTGTTAA
* *
32093504 GTGGCTTTGCCACATTATCTGTTTCTG
1 GTGGCTCTGCCACAATATCTG-TTCTG
*
32093531 GTGGCTATGCCACAAATATCTGTTCTG
1 GTGGCTCTGCCAC-AATATCTGTTCTG
*
32093558 GTGGCTCTGCCACAATAGCTGTATCTG
1 GTGGCTCTGCCACAATATCTGT-TCTG
* *
32093585 GTGACTCTGTCACAATATCTGTTCTG
1 GTGGCTCTGCCACAATATCTGTTCTG
32093611 G
1 G
32093612 CAGCCATGTT
Statistics
Matches: 72, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
26 13 0.18
27 52 0.72
28 7 0.10
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.36
Consensus pattern (26 bp):
GTGGCTCTGCCACAATATCTGTTCTG
Found at i:32093768 original size:6 final size:6
Alignment explanation
Indices: 32093729--32093816 Score: 56
Period size: 6 Copynumber: 14.3 Consensus size: 6
32093719 TTGCATTCAC
* * *
32093729 ATTCTG ACTCTG ATTCT- ATTATCTG ATACTG ATTCTG ATTCTG -TCACTTG
1 ATTCTG ATTCTG ATTCTG A-T-TCTG ATTCTG ATTCTG ATTCTG AT-TC-TG
* * *
32093779 ATTCTG CTTCTG ATTCTC ATTTTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
32093817 AATGTTTCTT
Statistics
Matches: 62, Mismatches: 12, Indels: 16
0.69 0.13 0.18
Matches are distributed among these distances:
5 3 0.05
6 49 0.79
7 8 0.13
8 2 0.03
ACGTcount: A:0.18, C:0.19, G:0.14, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:32095855 original size:27 final size:27
Alignment explanation
Indices: 32095774--32096003 Score: 172
Period size: 27 Copynumber: 8.7 Consensus size: 27
32095764 TTAGTTTACC
* *
32095774 AAATTACTGAAATACCC-CCAGTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* *
32095800 AAATTAC-CAAAGTACCC-CGATTTATA
1 AAATTACTGAAA-TACCCTCGATTTGTA
*
32095826 AAATTATTGAAATACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* * *
32095853 AAATTA-TCG-AATACGCT-TAGTTTGCA
1 AAATTACT-GAAATACCCTCGA-TTTGTA
*
32095879 AAATTACTAAAATACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* *
32095906 AAATTACTAAAATACCCTCGACTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* * *
32095933 AAATTAC-CAAAGTACCCCCGATTTATA
1 AAATTACTGAAA-TACCCTCGATTTGTA
* * **
32095960 GAATTACCG-TTTACCCTCGATTTAG-A
1 AAATTACTGAAATACCCTCGATTT-GTA
* *
32095986 AAATTATTAAAATACCCT
1 AAATTACTGAAATACCCT
32096004 GTAGGGTAGA
Statistics
Matches: 161, Mismatches: 31, Indels: 23
0.75 0.14 0.11
Matches are distributed among these distances:
25 4 0.02
26 68 0.42
27 88 0.55
28 1 0.01
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.31
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGATTTGTA
Found at i:32096002 original size:53 final size:53
Alignment explanation
Indices: 32095774--32096003 Score: 189
Period size: 53 Copynumber: 4.3 Consensus size: 53
32095764 TTAGTTTACC
* * * * **
32095774 AAATTACTGAAATACCC-CCAGTTGTAAAATTACCAAAGTACCC-CGATTTATA
1 AAATTACTAAAATACCCTCGATTTGTAAAATTACCGAA-TACCCTCGATTTGCA
* * * * *
32095826 AAATTATTGAAATACCCTCGATTTGTAAAATTATCGAATACGCT-TAGTTTGCA
1 AAATTACTAAAATACCCTCGATTTGTAAAATTACCGAATACCCTCGA-TTTGCA
** * *
32095879 AAATTACTAAAATACCCTCGATTTGTAAAATTACTAAAATACCCTCGACTTGTA
1 AAATTACTAAAATACCCTCGATTTGTAAAATTAC-CGAATACCCTCGATTTGCA
* * * * * **
32095933 AAATTACCAAAGTACCCCCGATTTATAGAATTACCGTTTACCCTCGATTTAG-A
1 AAATTACTAAAATACCCTCGATTTGTAAAATTACCGAATACCCTCGATTT-GCA
*
32095986 AAATTATTAAAATACCCT
1 AAATTACTAAAATACCCT
32096004 GTAGGGTAGA
Statistics
Matches: 140, Mismatches: 32, Indels: 11
0.77 0.17 0.06
Matches are distributed among these distances:
52 21 0.15
53 77 0.55
54 41 0.29
55 1 0.01
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.31
Consensus pattern (53 bp):
AAATTACTAAAATACCCTCGATTTGTAAAATTACCGAATACCCTCGATTTGCA
Found at i:32096038 original size:27 final size:27
Alignment explanation
Indices: 32095995--32096316 Score: 387
Period size: 27 Copynumber: 12.0 Consensus size: 27
32095985 AAAATTATTA
**
32095995 AAATACCC-TGTAGGGTAGAATTATTG
1 AAATACCCTTGTAGGGTAGAATTACCG
*
32096021 AAATACCCCTGTAGGGTAGAATTACCG
1 AAATACCCTTGTAGGGTAGAATTACCG
32096048 AAATACCCTTGTAGGGTAGAATTACCG
1 AAATACCCTTGTAGGGTAGAATTACCG
* *
32096075 AAATACCCTTGTAGGGTAGAAATACCT
1 AAATACCCTTGTAGGGTAGAATTACCG
* * * *
32096102 AAATACCCCTGTGGGGTAGATTTACTG
1 AAATACCCTTGTAGGGTAGAATTACCG
* * *
32096129 AAATACTCTTGTAGGGTAGAAATAACG
1 AAATACCCTTGTAGGGTAGAATTACCG
*
32096156 AAATACCCTTGTAGGGTAGAACTACCG
1 AAATACCCTTGTAGGGTAGAATTACCG
**
32096183 AAATACCCTTGTAGGGTAGAATTACTA
1 AAATACCCTTGTAGGGTAGAATTACCG
* * * *
32096210 AAATACCCCTGTAGGATAGAATTATCA
1 AAATACCCTTGTAGGGTAGAATTACCG
* *
32096237 AAATACCATTGTAGGGTAGAAATACCG
1 AAATACCCTTGTAGGGTAGAATTACCG
* *
32096264 AAATACCCCTATAGGGTAGAATTACC-
1 AAATACCCTTGTAGGGTAGAATTACCG
* * *
32096290 ATGATACCCTTGTGGGGTAAAATTACC
1 A-AATACCCTTGTAGGGTAGAATTACC
32096317 ATTTTGCTCT
Statistics
Matches: 251, Mismatches: 43, Indels: 3
0.85 0.14 0.01
Matches are distributed among these distances:
26 9 0.04
27 242 0.96
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.26
Consensus pattern (27 bp):
AAATACCCTTGTAGGGTAGAATTACCG
Found at i:32096795 original size:22 final size:22
Alignment explanation
Indices: 32096743--32096807 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
32096733 TTTAAGCCTT
* *
32096743 CTAATTATGGCTTTGCGCCAAC
1 CTAATTATGGCTCTGTGCCAAC
32096765 CTACA-TATGGCTCTGTGCCAAC
1 CTA-ATTATGGCTCTGTGCCAAC
* *
32096787 CTAATTATGGTTGTGTGCCAA
1 CTAATTATGGCTCTGTGCCAA
32096808 ACGTATTTGC
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
21 1 0.03
22 35 0.95
23 1 0.03
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.32
Consensus pattern (22 bp):
CTAATTATGGCTCTGTGCCAAC
Found at i:32096995 original size:27 final size:26
Alignment explanation
Indices: 32096958--32097071 Score: 104
Period size: 27 Copynumber: 4.3 Consensus size: 26
32096948 TGCCACGTAT
* *
32096958 TCTGTTC-AGTGGCTTTGCCACATTA
1 TCTGTTCTAGTGGCTATGCCACAATA
32096983 TCTGTTTCTAGTGGCTATGCCACAAATA
1 TCTG-TTCTAGTGGCTATGCCAC-AATA
* * *
32097011 TCTGTTCTGGTGGCTCTGCTACAATA
1 TCTGTTCTAGTGGCTATGCCACAATA
* * * *
32097037 TCTGTATCTGGTGACTCTGTCACAATA
1 TCTGT-TCTAGTGGCTATGCCACAATA
*
32097064 TCTATTCT
1 TCTGTTCT
32097072 GGCAGCCATG
Statistics
Matches: 76, Mismatches: 9, Indels: 7
0.83 0.10 0.08
Matches are distributed among these distances:
25 4 0.05
26 15 0.20
27 50 0.66
28 7 0.09
ACGTcount: A:0.19, C:0.23, G:0.18, T:0.39
Consensus pattern (26 bp):
TCTGTTCTAGTGGCTATGCCACAATA
Found at i:32097039 original size:54 final size:53
Alignment explanation
Indices: 32096958--32097073 Score: 126
Period size: 54 Copynumber: 2.2 Consensus size: 53
32096948 TGCCACGTAT
* * * * *
32096958 TCTGTTC-AGTGGCTTTGCCACATTATCTGTTTCTAGTGGCTATGCCACAAATA
1 TCTGTTCTGGTGGCTCTGCCACAATATCTGTATCTAGTGACTATGCCAC-AATA
* * * *
32097011 TCTGTTCTGGTGGCTCTGCTACAATATCTGTATCTGGTGACTCTGTCACAATA
1 TCTGTTCTGGTGGCTCTGCCACAATATCTGTATCTAGTGACTATGCCACAATA
*
32097064 TCTATTCTGG
1 TCTGTTCTGG
32097074 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
53 20 0.38
54 32 0.62
ACGTcount: A:0.19, C:0.22, G:0.20, T:0.39
Consensus pattern (53 bp):
TCTGTTCTGGTGGCTCTGCCACAATATCTGTATCTAGTGACTATGCCACAATA
Found at i:32108821 original size:43 final size:43
Alignment explanation
Indices: 32108773--32108870 Score: 142
Period size: 43 Copynumber: 2.3 Consensus size: 43
32108763 ATTACTCCTG
* **
32108773 CTAGGCTTGAAGCCCGATATTAACTCATTGGCATTATAGCCTA
1 CTAGGCTTGAAGCCCGATATTAAATCACCGGCATTATAGCCTA
* *
32108816 CTAGGCTTAAAGCCCGATATTAAATCACCGGCATTATAGCCTG
1 CTAGGCTTGAAGCCCGATATTAAATCACCGGCATTATAGCCTA
*
32108859 CTAGGCTCGAAG
1 CTAGGCTTGAAG
32108871 GCCTGAATAG
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 48 1.00
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (43 bp):
CTAGGCTTGAAGCCCGATATTAAATCACCGGCATTATAGCCTA
Done.