Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 418 of 433
Found at i:128210182 original size:46 final size:46
Alignment explanation
Indices: 128210116--128210208 Score: 186
Period size: 46 Copynumber: 2.0 Consensus size: 46
128210106 CTTATATATG
128210116 TATGTATGCAATCATAGTTCCCTGAAGTTAAGTTTGGTTACATGAA
1 TATGTATGCAATCATAGTTCCCTGAAGTTAAGTTTGGTTACATGAA
128210162 TATGTATGCAATCATAGTTCCCTGAAGTTAAGTTTGGTTACATGAA
1 TATGTATGCAATCATAGTTCCCTGAAGTTAAGTTTGGTTACATGAA
128210208 T
1 T
128210209 CCCCTCCTCA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.30, C:0.13, G:0.19, T:0.38
Consensus pattern (46 bp):
TATGTATGCAATCATAGTTCCCTGAAGTTAAGTTTGGTTACATGAA
Found at i:128216987 original size:28 final size:29
Alignment explanation
Indices: 128216923--128216987 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 29
128216913 CTTTTGGAAG
*
128216923 AATTTAATAATTCGTATTTATGTCTTTTT
1 AATTTAATAATTAGTATTTATGTCTTTTT
*
128216952 AATTTAATATTTAGTAATTTAT-T-TTTTT
1 AATTTAATAATTAGT-ATTTATGTCTTTTT
*
128216980 ATTTTAAT
1 AATTTAAT
128216988 TTATATATAG
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
28 12 0.38
29 14 0.44
30 6 0.19
ACGTcount: A:0.31, C:0.03, G:0.05, T:0.62
Consensus pattern (29 bp):
AATTTAATAATTAGTATTTATGTCTTTTT
Found at i:128220061 original size:14 final size:14
Alignment explanation
Indices: 128220042--128220073 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
128220032 AAAAGAGCTC
128220042 ATTGCAAACATTTA
1 ATTGCAAACATTTA
128220056 ATTGCAAACATTTA
1 ATTGCAAACATTTA
128220070 ATTG
1 ATTG
128220074 TTAGATGATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.41, C:0.12, G:0.09, T:0.38
Consensus pattern (14 bp):
ATTGCAAACATTTA
Found at i:128222591 original size:35 final size:35
Alignment explanation
Indices: 128222548--128222620 Score: 146
Period size: 35 Copynumber: 2.1 Consensus size: 35
128222538 TATTTTTTGT
128222548 TTGCTTTGATTGTAGTTGCAATGATAATTTGGTTG
1 TTGCTTTGATTGTAGTTGCAATGATAATTTGGTTG
128222583 TTGCTTTGATTGTAGTTGCAATGATAATTTGGTTG
1 TTGCTTTGATTGTAGTTGCAATGATAATTTGGTTG
128222618 TTG
1 TTG
128222621 GTTCAAGGTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.19, C:0.05, G:0.26, T:0.49
Consensus pattern (35 bp):
TTGCTTTGATTGTAGTTGCAATGATAATTTGGTTG
Found at i:128225864 original size:16 final size:16
Alignment explanation
Indices: 128225843--128225874 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
128225833 AATTTTTTAT
128225843 AATAATTATGAAATAA
1 AATAATTATGAAATAA
*
128225859 AATAATTATTAAATAA
1 AATAATTATGAAATAA
128225875 TACAAATATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.34
Consensus pattern (16 bp):
AATAATTATGAAATAA
Found at i:128226435 original size:29 final size:31
Alignment explanation
Indices: 128226372--128226437 Score: 84
Period size: 30 Copynumber: 2.2 Consensus size: 31
128226362 AAAGTCAAGT
**
128226372 TTAGGTACCTAATTGAACTGAAAAAAAGGGC
1 TTAGGTACCTAATTGAACTGAAAAAAAGCCC
*
128226403 -TAGGTACCTAATTGGACTG-AAAAAA-CCC
1 TTAGGTACCTAATTGAACTGAAAAAAAGCCC
128226431 TTAGGTA
1 TTAGGTA
128226438 TGAATTTAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
28 1 0.03
29 12 0.39
30 18 0.58
ACGTcount: A:0.39, C:0.15, G:0.21, T:0.24
Consensus pattern (31 bp):
TTAGGTACCTAATTGAACTGAAAAAAAGCCC
Found at i:128236005 original size:22 final size:22
Alignment explanation
Indices: 128235975--128236028 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
128235965 CATCAGTCTA
*
128235975 GTCTTGAGA-TAATCTAGCTTAG
1 GTCTCGAGACTAA-CTAGCTTAG
* * *
128235997 GTCTCGAGACTAAGTGGCTTAT
1 GTCTCGAGACTAACTAGCTTAG
128236019 GTCTCGAGAC
1 GTCTCGAGAC
128236029 AGCCAAACAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 24 0.89
23 3 0.11
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.31
Consensus pattern (22 bp):
GTCTCGAGACTAACTAGCTTAG
Found at i:128237598 original size:1 final size:1
Alignment explanation
Indices: 128237594--128237622 Score: 58
Period size: 1 Copynumber: 29.0 Consensus size: 1
128237584 TTTTATAATC
128237594 TTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTT
128237623 ATCATTTTCC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:128238709 original size:17 final size:17
Alignment explanation
Indices: 128238687--128238721 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
128238677 TATAAAAATA
128238687 ATTTTATATAATTGAAT
1 ATTTTATATAATTGAAT
* *
128238704 ATTTTATTTATTTGAAT
1 ATTTTATATAATTGAAT
128238721 A
1 A
128238722 ATTAAAATTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.57
Consensus pattern (17 bp):
ATTTTATATAATTGAAT
Found at i:128243621 original size:16 final size:17
Alignment explanation
Indices: 128243590--128243625 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
128243580 TTTTCTAATT
*
128243590 TTTCACTTTATTTTGAA
1 TTTCACCTTATTTTGAA
128243607 TTTCACCTT-TTTTGAA
1 TTTCACCTTATTTTGAA
128243623 TTT
1 TTT
128243626 TATGCACTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 10 0.56
17 8 0.44
ACGTcount: A:0.19, C:0.14, G:0.06, T:0.61
Consensus pattern (17 bp):
TTTCACCTTATTTTGAA
Found at i:128256402 original size:30 final size:30
Alignment explanation
Indices: 128256366--128256428 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
128256356 ACTTATTTTA
*
128256366 TTGTTAATTTTGTTATTATTTTAAAGACAT
1 TTGTTAATTCTGTTATTATTTTAAAGACAT
*
128256396 TTGTTAATTCTGTTATTATTTTAGAGACAT
1 TTGTTAATTCTGTTATTATTTTAAAGACAT
128256426 TTG
1 TTG
128256429 CTTGTTACGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.27, C:0.05, G:0.13, T:0.56
Consensus pattern (30 bp):
TTGTTAATTCTGTTATTATTTTAAAGACAT
Found at i:128260489 original size:129 final size:129
Alignment explanation
Indices: 128260258--128260590 Score: 515
Period size: 129 Copynumber: 2.6 Consensus size: 129
128260248 TAATTATTCA
* *
128260258 TTTAAAAATTCTTAAAAACGAAGGCAACGTTCGATGTTTGGAAATTTGGGGAATCGTGCCCAATC
1 TTTAAAAATT-TTTAAAACGAAGGCAACGTTCGATGTTTGAAAATTTGGGGAATCGTGCCCAATC
128260323 GTGCTGGGTTGCAATTTCCCGTTTTTCCAAAATAATCGAATATTCCTTTGGAATTTCACTCATGT
65 GTGCTGGGTTGCAATTTCCCGTTTTTCCAAAATAATCGAATATTCCTTTGGAATTTCACTCATGT
* * * *
128260388 TTTAAAAATTTTTAAAATGAAGGTAACGTTTGATGTTTGAAAATTTGGGGAATCGTGCTCAATCG
1 TTTAAAAATTTTTAAAACGAAGGCAACGTTCGATGTTTGAAAATTTGGGGAATCGTGCCCAATCG
* *
128260453 TGCTGGTTTGCAATTTCCCGTTTTTTCAAAATAATCGAATATTCCTTTGGAATTTCACTCATGT
66 TGCTGGGTTGCAATTTCCCGTTTTTCCAAAATAATCGAATATTCCTTTGGAATTTCACTCATGT
* * * * * *
128260517 TTTAAAAATTTTTAAAACGAAGGCAATGTTCAATGTCT-AGAAATTCGAGGAATCGTACCCAATC
1 TTTAAAAATTTTTAAAACGAAGGCAACGTTCGATGTTTGA-AAATTTGGGGAATCGTGCCCAATC
128260581 GTGCTGGGTT
65 GTGCTGGGTT
128260591 CCGGTTTTTT
Statistics
Matches: 183, Mismatches: 19, Indels: 3
0.89 0.09 0.01
Matches are distributed among these distances:
128 1 0.01
129 172 0.94
130 10 0.05
ACGTcount: A:0.30, C:0.15, G:0.19, T:0.36
Consensus pattern (129 bp):
TTTAAAAATTTTTAAAACGAAGGCAACGTTCGATGTTTGAAAATTTGGGGAATCGTGCCCAATCG
TGCTGGGTTGCAATTTCCCGTTTTTCCAAAATAATCGAATATTCCTTTGGAATTTCACTCATGT
Found at i:128268564 original size:18 final size:18
Alignment explanation
Indices: 128268541--128268593 Score: 79
Period size: 18 Copynumber: 2.9 Consensus size: 18
128268531 TAGCCTATTT
*
128268541 CAGTAATAGTAAATAGTG
1 CAGTAATAGTAAACAGTG
128268559 CAGTAATAGTAAACAGTG
1 CAGTAATAGTAAACAGTG
**
128268577 CAGTAGCAGTAAACAGT
1 CAGTAATAGTAAACAGT
128268594 ATGCAAGTCC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.43, C:0.11, G:0.23, T:0.23
Consensus pattern (18 bp):
CAGTAATAGTAAACAGTG
Found at i:128268995 original size:27 final size:27
Alignment explanation
Indices: 128268960--128269018 Score: 100
Period size: 27 Copynumber: 2.2 Consensus size: 27
128268950 GGCATTCTGA
128268960 CATTTTACCACATAAGGGCAAAACAGT
1 CATTTTACCACATAAGGGCAAAACAGT
* *
128268987 TATTTTACCACATAAGGGCAAAATAGT
1 CATTTTACCACATAAGGGCAAAACAGT
128269014 CATTT
1 CATTT
128269019 CATCAAATTG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.29
Consensus pattern (27 bp):
CATTTTACCACATAAGGGCAAAACAGT
Found at i:128276388 original size:22 final size:21
Alignment explanation
Indices: 128276360--128276400 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
128276350 TTTTTTTAAC
*
128276360 TAATATAATAAATATAATATAG
1 TAATATAAT-AATAAAATATAG
128276382 TAATATAATAATAAAATAT
1 TAATATAATAATAAAATAT
128276401 TATTTACTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (21 bp):
TAATATAATAATAAAATATAG
Found at i:128278541 original size:20 final size:20
Alignment explanation
Indices: 128278509--128278546 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
128278499 TGTTTCACAT
128278509 TCATATAACTAATATTTATA
1 TCATATAACTAATATTTATA
*
128278529 TCAT-TAACATAATTTTTA
1 TCATATAAC-TAATATTTA
128278547 ACTTAAAAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.42, C:0.11, G:0.00, T:0.47
Consensus pattern (20 bp):
TCATATAACTAATATTTATA
Found at i:128279270 original size:38 final size:39
Alignment explanation
Indices: 128279186--128279279 Score: 111
Period size: 39 Copynumber: 2.4 Consensus size: 39
128279176 ACCAATATGG
* *
128279186 CACCCAATGCCTCATCGGATAGTTCGAAGTAATAGTTGA
1 CACCCAGTGCCTCATCGGATAGTCCGAAGTAATAGTTGA
* *
128279225 CACCCAGTGCCTCATCGGCCTAG-CCGAAGTAA-AGTTGG
1 CACCCAGTGCCTCATCGG-ATAGTCCGAAGTAATAGTTGA
* *
128279263 TACCCAGTACCTCATCG
1 CACCCAGTGCCTCATCG
128279280 AATCTATCCG
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
38 20 0.42
39 25 0.52
40 3 0.06
ACGTcount: A:0.27, C:0.30, G:0.21, T:0.22
Consensus pattern (39 bp):
CACCCAGTGCCTCATCGGATAGTCCGAAGTAATAGTTGA
Found at i:128280234 original size:12 final size:12
Alignment explanation
Indices: 128280219--128280249 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
128280209 TTCTCTTTTA
128280219 TTTTTCTTTCCC
1 TTTTTCTTTCCC
*
128280231 TTTTTCTTTCTC
1 TTTTTCTTTCCC
128280243 TTTTTCT
1 TTTTTCT
128280250 CCCCTGCTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (12 bp):
TTTTTCTTTCCC
Found at i:128281197 original size:2 final size:2
Alignment explanation
Indices: 128281190--128281216 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
128281180 TTGGATGCTG
128281190 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
128281217 CACTAGATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:128283885 original size:15 final size:16
Alignment explanation
Indices: 128283842--128283895 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 16
128283832 TTTGTCTAGA
*
128283842 AATTATTTTTATCATACT
1 AATTATTTTT-T-ATAGT
* *
128283860 AATAAATTTTTATAGT
1 AATTATTTTTTATAGT
128283876 AATTATTTTTTTATAGT
1 AATTA-TTTTTTATAGT
128283893 AAT
1 AAT
128283896 CAATCTTTTA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
16 8 0.27
17 14 0.47
18 8 0.27
ACGTcount: A:0.37, C:0.04, G:0.04, T:0.56
Consensus pattern (16 bp):
AATTATTTTTTATAGT
Found at i:128283904 original size:17 final size:17
Alignment explanation
Indices: 128283867--128283905 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
128283857 ACTAATAAAT
* * *
128283867 TTTTATAGTAATTATTT
1 TTTTATAGTAATCAATC
128283884 TTTTATAGTAATCAATC
1 TTTTATAGTAATCAATC
128283901 TTTTA
1 TTTTA
128283906 AAAATATAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.31, C:0.05, G:0.05, T:0.59
Consensus pattern (17 bp):
TTTTATAGTAATCAATC
Found at i:128284170 original size:99 final size:99
Alignment explanation
Indices: 128283993--128284190 Score: 283
Period size: 99 Copynumber: 2.0 Consensus size: 99
128283983 TCTATTAGCT
* * *
128283993 AAACACGTCTAGGGAATTACAATTCTTTGTAATTACAAGAGAGTGTAATTACCGCCTTAATATTT
1 AAACACGTCTAGGGAATTACAATTCTTTGTAATTACAAGAGAGTGTAATTACCACCGTAAGATTT
* * **
128284058 ATTACACTTATTCAATTACTCTGTTTTGTCCAAA
66 ATTACACTCATTCAATTACACTGTGCTGTCCAAA
**
128284092 AAACACGTCTAGGGAATTACAATTCTTTGTAATTACAAGAGAGTGTAATTAGTACCGTAAGAGTT
1 AAACACGTCTAGGGAATTACAATTCTTTGTAATTACAAGAGAGTGTAATTACCACCGTAAGA-TT
128284157 T-TTACA-TCCATTCAATTACACTGTGCTGTCCAAA
65 TATTACACT-CATTCAATTACACTGTGCTGTCCAAA
128284191 CATACATGTT
Statistics
Matches: 88, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
98 1 0.01
99 84 0.95
100 3 0.03
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.35
Consensus pattern (99 bp):
AAACACGTCTAGGGAATTACAATTCTTTGTAATTACAAGAGAGTGTAATTACCACCGTAAGATTT
ATTACACTCATTCAATTACACTGTGCTGTCCAAA
Found at i:128287023 original size:22 final size:24
Alignment explanation
Indices: 128286972--128287023 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 24
128286962 AAAATCACTT
* *
128286972 TTTATTTTAGTATATTTTAAAATT
1 TTTATTATAGTATATTTTAAAATA
128286996 TGTTATTATA-TAT-TTTTAAAATA
1 T-TTATTATAGTATATTTTAAAATA
128287019 TTTAT
1 TTTAT
128287024 GTATTTTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
22 4 0.16
23 10 0.40
24 4 0.16
25 7 0.28
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.62
Consensus pattern (24 bp):
TTTATTATAGTATATTTTAAAATA
Found at i:128290388 original size:26 final size:27
Alignment explanation
Indices: 128290359--128290420 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 27
128290349 GTCTAATATT
**
128290359 TAAAATATTAGTATTTATTATTTAA-A
1 TAAAATATTAGTATTTATTATCAAAGA
* * *
128290385 TAAAAAATTATTGTTTATTATCAAAGA
1 TAAAATATTAGTATTTATTATCAAAGA
128290412 TAAAATATT
1 TAAAATATT
128290421 TATGTTTAAT
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
26 20 0.69
27 9 0.31
ACGTcount: A:0.48, C:0.02, G:0.05, T:0.45
Consensus pattern (27 bp):
TAAAATATTAGTATTTATTATCAAAGA
Found at i:128297375 original size:16 final size:16
Alignment explanation
Indices: 128297354--128297386 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
128297344 AAGCTTTTCC
128297354 TGTGTA-TATATTACTT
1 TGTGTATTAT-TTACTT
128297370 TGTGTATTATTTACTT
1 TGTGTATTATTTACTT
128297386 T
1 T
128297387 TAATCTTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 13 0.81
17 3 0.19
ACGTcount: A:0.21, C:0.06, G:0.12, T:0.61
Consensus pattern (16 bp):
TGTGTATTATTTACTT
Found at i:128306130 original size:206 final size:205
Alignment explanation
Indices: 128305610--128306156 Score: 824
Period size: 205 Copynumber: 2.7 Consensus size: 205
128305600 GATTTGGCTA
**
128305610 AAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAGCAAATGGAAGACATAGCTGATT
1 AAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAGCAAATCAAAGACATAGCTGATT
* *
128305675 TGGTTTTCGCGTGCTTACGCTAAAGCAAGTCTAAGATGATTTGGCAACTTTGTATTGTCAGAGAA
66 TGGTTTTCGCGTGCTTACGCTAAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAA
* * * * *
128305740 CAAGTCGAAGTCCGGCATCTCCATTTCGATAGAGAACAGATACATAACAGATCCAAACTTCAGAT
131 CAAATCAAAGTCCGGCATCTCCATTTCAACAGAGAACAGATACATAACAAATCCAAACTTCAGAT
128305805 GTTTATACTG
196 GTTTATACTG
* * * * *
128305815 AAGTAGATCCAAGATGGTTTGGTATCCTTGTGCTTACAAAGAGCAAATCCAAGACATAGCTTATT
1 AAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAGCAAATCAAAGACATAGCTGATT
*
128305880 TGGTTTTCGCGTGCTTACGCTAAAGCAAGTCTAAGATGATTTGGCATCTCTATATTGTCAGAGAA
66 TGGTTTTCGCGTGCTTACGCTAAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAA
* * * * ****
128305945 CAAATCAAAGTCTGGCATCTCCATTTCAACGGAGAGCAGATACATAGCAAATCTGGCCTTCAGAT
131 CAAATCAAAGTCCGGCATCTCCATTTCAACAGAGAACAGATACATAACAAATCCAAACTTCAGAT
128306010 GTTTATACTG
196 GTTTATACTG
*
128306020 AAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAGCAAATCAAAGACATAGCTGAT
1 AAGC-AGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAGCAAATCAAAGACATAGCTGAT
* * * * *
128306085 TTGGCTTTCACGTGCTTACGTTAAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTAAGAGA
65 TTGGTTTTCGCGTGCTTACGCTAAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTCAGAGA
128306150 ACAAATC
130 ACAAATC
128306157 GAAGAAGCAG
Statistics
Matches: 307, Mismatches: 34, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
205 186 0.61
206 121 0.39
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (205 bp):
AAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAGCAAATCAAAGACATAGCTGATT
TGGTTTTCGCGTGCTTACGCTAAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAA
CAAATCAAAGTCCGGCATCTCCATTTCAACAGAGAACAGATACATAACAAATCCAAACTTCAGAT
GTTTATACTG
Found at i:128306315 original size:45 final size:45
Alignment explanation
Indices: 128306251--128306340 Score: 137
Period size: 45 Copynumber: 2.0 Consensus size: 45
128306241 ATTGAAGAAG
*
128306251 CAAATTTGGCGTTTCTGTATTAGACGGGGAGCAGATCGAAGATAA
1 CAAATTTGGCGTTTCTGTATTAGACGGGGAGCAGATCAAAGATAA
* *
128306296 CAAATTTTGCGTCTT-TGTATTAGACGGGGAGTAGATCAAAGATAA
1 CAAATTTGGCGT-TTCTGTATTAGACGGGGAGCAGATCAAAGATAA
128306341 TAGAAATCGC
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
45 39 0.95
46 2 0.05
ACGTcount: A:0.32, C:0.12, G:0.27, T:0.29
Consensus pattern (45 bp):
CAAATTTGGCGTTTCTGTATTAGACGGGGAGCAGATCAAAGATAA
Found at i:128307820 original size:16 final size:16
Alignment explanation
Indices: 128307799--128307831 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
128307789 AAGCTTTTCC
128307799 TGTGTA-TATATTACTT
1 TGTGTATTAT-TTACTT
128307815 TGTGTATTATTTACTT
1 TGTGTATTATTTACTT
128307831 T
1 T
128307832 TAATCTTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 13 0.81
17 3 0.19
ACGTcount: A:0.21, C:0.06, G:0.12, T:0.61
Consensus pattern (16 bp):
TGTGTATTATTTACTT
Found at i:128309564 original size:32 final size:30
Alignment explanation
Indices: 128309508--128309566 Score: 82
Period size: 32 Copynumber: 1.9 Consensus size: 30
128309498 TGAAAAACTA
*
128309508 TATTTTAAAAAATATCTATGACAAAAAGTG
1 TATTTTAAAAAATATCTATAACAAAAAGTG
*
128309538 TATTTTAAATAAAATATTTATAACAAAAA
1 TATTTT-AA-AAAATATCTATAACAAAAA
128309567 AAATACTAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 6 0.24
31 2 0.08
32 17 0.68
ACGTcount: A:0.54, C:0.05, G:0.05, T:0.36
Consensus pattern (30 bp):
TATTTTAAAAAATATCTATAACAAAAAGTG
Found at i:128310356 original size:36 final size:33
Alignment explanation
Indices: 128310316--128310387 Score: 90
Period size: 35 Copynumber: 2.1 Consensus size: 33
128310306 ACTTTTGGTA
*
128310316 TTCCTACTTCAATTTGGAATTAGATTATTCTCTCTT
1 TTCCTACTTCAA-TTGGAATTAAATTATT-T-TCTT
* *
128310352 TTCCTATTTCCATTGGAATTAAATTATTTTCTT
1 TTCCTACTTCAATTGGAATTAAATTATTTTCTT
128310385 TTC
1 TTC
128310388 TCTTTCAATT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
33 7 0.21
34 1 0.03
35 15 0.45
36 10 0.30
ACGTcount: A:0.22, C:0.18, G:0.07, T:0.53
Consensus pattern (33 bp):
TTCCTACTTCAATTGGAATTAAATTATTTTCTT
Found at i:128310832 original size:15 final size:15
Alignment explanation
Indices: 128310797--128310845 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
128310787 TTTGTTTATC
128310797 TATTTATATTTCTACTAT
1 TATTT-TATTTCTA-T-T
128310815 TATTTTATTTCTATT
1 TATTTTATTTCTATT
* *
128310830 TATTATATTTTTATT
1 TATTTTATTTCTATT
128310845 T
1 T
128310846 CTATTTATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
15 15 0.52
16 1 0.03
17 8 0.28
18 5 0.17
ACGTcount: A:0.24, C:0.06, G:0.00, T:0.69
Consensus pattern (15 bp):
TATTTTATTTCTATT
Found at i:128310843 original size:21 final size:20
Alignment explanation
Indices: 128310791--128310858 Score: 79
Period size: 21 Copynumber: 3.5 Consensus size: 20
128310781 CTAATTTTTG
* *
128310791 TTTATCTATTTATATTTCTA
1 TTTATATATTTTTATTTCTA
*
128310811 -CTAT-TA-TTTTATTTCTA
1 TTTATATATTTTTATTTCTA
128310828 TTTATTATATTTTTATTTCTA
1 TTTA-TATATTTTTATTTCTA
128310849 TTTATATATT
1 TTTATATATT
128310859 AATACTATTT
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
17 10 0.24
18 4 0.10
19 4 0.10
20 8 0.20
21 15 0.37
ACGTcount: A:0.25, C:0.07, G:0.00, T:0.68
Consensus pattern (20 bp):
TTTATATATTTTTATTTCTA
Found at i:128311876 original size:17 final size:15
Alignment explanation
Indices: 128311854--128311892 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 15
128311844 TACTCAAATG
128311854 TTTTAAAATAAATTGT
1 TTTTAAAATAAATT-T
*
128311870 ATTTTAAAATATATTT
1 -TTTTAAAATAAATTT
128311886 TTTTAAA
1 TTTTAAA
128311893 TTTTAGACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 7 0.33
16 1 0.05
17 13 0.62
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (15 bp):
TTTTAAAATAAATTT
Found at i:128318022 original size:177 final size:177
Alignment explanation
Indices: 128317703--128318471 Score: 1051
Period size: 177 Copynumber: 4.4 Consensus size: 177
128317693 ACGACATCGA
* * *
128317703 AAAATTACAGATCGTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCGAGTCTTATCTCT
1 AAAATTACAGATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCAAAGATGGCGAGTCTTATCTCC
* * * *
128317768 ATGTATTGGCTATGAAGCAGATTTTAGCCACCAGCCTTATCTCTTTGATGTAACAAGAGAGCAAG
66 ATGTATCGACTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGATGTAACAAGAGAGCAAG
*
128317833 TTGAAGATACAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCGGACTG
131 TTGAAGATACAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTG
* * * * *
128317880 AAAATTGCAGATCTTATCTCTCTAAGCAGTAGCAGAGCAAATCAAAGATGGCGACTCTTATCTCC
1 AAAATTACAGATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCAAAGATGGCGAGTCTTATCTCC
* * * * * *
128317945 AAGTATCGACTATGGAGCAGATTTTAGTCACCAACCTTATATCTCTGATGTAGCAAGAGAGCAGG
66 ATGTATCGACTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGATGTAACAAGAGAGCAAG
*
128318010 TTGAAAATACAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTG
131 TTGAAGATACAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTG
* * * * * *
128318057 AAAATTACAGATCTTATCTCCATGTATCAGCTA-TGGAGCAGATCAAAAATGGTGAGTCTTATCT
1 AAAATTACAGATCTTATCTCCCT-AAGCAG-TAGTAGAGCAGATCAAAGATGGCGAGTCTTATCT
* * * * *
128318121 CCATGTATCGGCTATGGAGCAGATTTTAGTCACCAGTCTTATCTCTCTGAGGTAGCAAGAGAGCA
64 CCATGTATCGACTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGATGTAACAAGAGAGCA
* ** * * *
128318186 TGTTG-AGATACATTTCTTATCTTCCTAAGGTAGCAAAGAAACAGACTG
129 AGTTGAAGATACAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTG
* * *
128318234 AAAATTACTGATCTTATCTCCCTAAGCAGTAGTAGAGCAGAT-AAAAATGGCGAGTCTTATCCCC
1 AAAATTACAGATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCAAAGATGGCGAGTCTTATCTCC
* * *
128318298 ATGTATC-AGCAATGGAGTAGATTTTAGCCACCAGCCTTATCTCTCTGATGTAACAAAAGAGCAA
66 ATGTATCGA-CTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGATGTAACAAGAGAGCAA
*
128318362 GTTGAAGATACAAGTCTTATCTTCCTGAGGTAGCAAGGAAGAAGACTG
130 GTTGAAGATACAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTG
* * * *
128318410 AAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAGCCTTATC
1 AAAATTACAGATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCAAAGATGGCGAGTCTTATC
128318472 CCCTAAGCAG
Statistics
Matches: 514, Mismatches: 72, Indels: 12
0.86 0.12 0.02
Matches are distributed among these distances:
175 80 0.16
176 90 0.18
177 250 0.49
178 92 0.18
179 2 0.00
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.27
Consensus pattern (177 bp):
AAAATTACAGATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCAAAGATGGCGAGTCTTATCTCC
ATGTATCGACTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGATGTAACAAGAGAGCAAG
TTGAAGATACAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTG
Found at i:128318052 original size:44 final size:45
Alignment explanation
Indices: 128317989--128318075 Score: 108
Period size: 44 Copynumber: 2.0 Consensus size: 45
128317979 CCTTATATCT
* **
128317989 CTGATGTAGCAAGAGAGCAGGTTGAAAA-TACA-AGTCTTATCTTC
1 CTGAGGTAGCAAGAGAGCAGACTGAAAATTACAGA-TCTTATCTTC
128318033 CTGAGGTAGCAAG-GAAGCAGACTGAAAATTACAGATCTTATCT
1 CTGAGGTAGCAAGAG-AGCAGACTGAAAATTACAGATCTTATCT
128318076 CCATGTATCA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
43 1 0.03
44 23 0.62
45 12 0.32
46 1 0.03
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (45 bp):
CTGAGGTAGCAAGAGAGCAGACTGAAAATTACAGATCTTATCTTC
Found at i:128318097 original size:45 final size:45
Alignment explanation
Indices: 128318048--128318144 Score: 124
Period size: 45 Copynumber: 2.2 Consensus size: 45
128318038 GTAGCAAGGA
* *
128318048 AGCAGACTGAAAATTACAGA-TCTTATCTCCATGTATCAGCTATGG
1 AGCAGA-TCAAAAATACAGAGTCTTATCTCCATGTATCAGCTATGG
*** *
128318093 AGCAGATCAAAAATGGTGAGTCTTATCTCCATGTATCGGCTATGG
1 AGCAGATCAAAAATACAGAGTCTTATCTCCATGTATCAGCTATGG
128318138 AGCAGAT
1 AGCAGAT
128318145 TTTAGTCACC
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
44 8 0.18
45 37 0.82
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.28
Consensus pattern (45 bp):
AGCAGATCAAAAATACAGAGTCTTATCTCCATGTATCAGCTATGG
Found at i:128318659 original size:88 final size:87
Alignment explanation
Indices: 128318407--128319589 Score: 929
Period size: 88 Copynumber: 13.5 Consensus size: 87
128318397 AGGAAGAAGA
*
128318407 CTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAGCCTTATC
1 CTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAGCCTTATC
*
128318472 CCCTAAGCAGTAGGGAAATAGG
66 CCCTAAGCAGTAGGGAAACAGG
* * * *
128318494 CTGAAAATTATAGATCTTATCTCTCTAAGCAGTA---GAGTAGATCGAAGACGGTGAGCCTTGTC
1 CTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAGCCTTAT-
128318556 CCCCTAAGCAGTAGGGAAACAGG
65 CCCCTAAGCAGTAGGGAAACAGG
* * *
128318579 TTGGAAATTACAGATCTTATCTCCCTAAGCAGTAATGGAGCAGATCGAAGACGGTGAGCCTTAAT
1 CTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAGCCTT-AT
*
128318644 CCCCTAAGCAGTAGGGTAACAGG
65 CCCCTAAGCAGTAGGGAAACAGG
* * ** * * *** *
128318667 CTGAAAATTATAGATCTTAGCCTTAAACCCTTAAGCAGTAG-GGTAATAG-GCTAA-AAATTACA
1 CTGAAAATTACAGATCTTA-TC-T---CCC-TAAGCAGTAGTGG-AGCAGATCGAAGACGGT--G
** * * * *
128318729 AATCTTATCTCCTTAAGTAGTAGTGG-AGCAGA
57 AGCCTTATC-CCCTAAGCAGTAG-GGAAACAGG
* ** * * * * * ** *
128318761 TTGAAGACGGT-GAG-CCTTAAC-CCCTAAGCAGT--TGGATAACA-AGCTGAA-A-ATTACAGA
1 CTGAA-A-ATTACAGATCTTATCTCCCTAAGCAGTAGTGG--AGCAGATC-GAAGACGGT-GAG-
* * * *
128318818 TCTTATCTTCCTAAGCAGTAGGGTAACAGA
59 CCTTATC-CCCTAAGCAGTAGGGAAACAGG
* *
128318848 CTGAAAATTACAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGT-AGCCTTAAC
1 CTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAGCCTT-AT
* *
128318912 CCCCTAAGCAGTAGGGTAACAGA
65 CCCCTAAGCAGTAGGGAAACAGG
* * *
128318935 CTAAAAATTACAGATCTTATCTCCTTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAGCCTTAAC
1 CTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAGCCTT-AT
*
128319000 CCCCTAAGCAGTA-AGATAACAGG
65 CCCCTAAGCAGTAGGGA-AACAGG
* * * * * *
128319023 CT-AGAAATTATAGATCATATCTCCCTAAGCAATAGTAGAGCAAATCGAAGATGGTGAGCCTTAT
1 CTGA-AAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAGCCTTAT
*
128319087 CCCCCTAAGTAGTAGGGAAACAGG
65 -CCCCTAAGCAGTAGGGAAACAGG
* * * * * * * * *
128319111 CTGAAAATTATAAATTTTATCTCCCAAAGTAGTAGTGGAGTAAATCGAAGACGGTGAGTCTTAAC
1 CTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAGCCTTATC
* * *
128319176 CCCTTAAGTAGTAGGGTAGCAGG
66 CCC-TAAGCAGTAGGGAAACAGG
* * * * * * *
128319199 CTGGAAATTATAGATCTTATCTCCCTAAGCAGTAGTGGAACATATCAAATATGGTGAGCCTTATC
1 CTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAGCCTTAT-
128319264 CCCCTAAGCAGTAGGGAAACAGG
65 CCCCTAAGCAGTAGGGAAACAGG
* * * * * ** *
128319287 ATGGAAATTATC-GATCTTATCTCCTTAAGAAGTAGTGGAGCGGATAAAAAACGGTGAGCCTTAT
1 CTGAAAATTA-CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAGCCTTAT
*
128319351 CCTCCTAAGCAGTAGGGAAATAGG
65 CC-CCTAAGCAGTAGGGAAACAGG
* * * * *
128319375 CT-AAAGATT-CAGATATTATCTCTCTAAGCAGAAGTAGAGCGGATC-AGAGACGGTGAGCCTTA
1 CTGAAA-ATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGA-AGACGGTGAGCCTTA
** *
128319437 TCCCCCTAAGCAGTAAAGAAATAGG
64 T-CCCCTAAGCAGTAGGGAAACAGG
* * * * *
128319462 CTGGAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGATGACAGTAAGCCTTGTC
1 CTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAGCCTTATC
* * * *
128319527 TCCCTGAGCAGCAACGG-AGCAGG
66 -CCCTAAGCAG-TAGGGAAACAGG
* * * *
128319550 CT-AAAGATTACAAATCATATCTCCCTAACCAGTAGCGGAG
1 CTGAAA-ATTACAGATCTTATCTCCCTAAGCAGTAGTGGAG
128319590 AAAATTGAAA
Statistics
Matches: 893, Mismatches: 150, Indels: 105
0.78 0.13 0.09
Matches are distributed among these distances:
84 24 0.03
85 53 0.06
86 9 0.01
87 237 0.27
88 491 0.55
89 15 0.02
90 5 0.01
92 2 0.00
93 12 0.01
94 39 0.04
95 5 0.01
96 1 0.00
ACGTcount: A:0.34, C:0.20, G:0.23, T:0.24
Consensus pattern (87 bp):
CTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAGCCTTATC
CCCTAAGCAGTAGGGAAACAGG
Found at i:128318710 original size:50 final size:50
Alignment explanation
Indices: 128318635--128318735 Score: 148
Period size: 50 Copynumber: 2.0 Consensus size: 50
128318625 GAAGACGGTG
* * * *
128318635 AGCCTTAATCCCCTAAGCAGTAGGGTAACAGGCTGAAAATTATAGATCTT
1 AGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTAAAAATTACAAATCTT
* *
128318685 AGCCTTAAACCCTTAAGCAGTAGGGTAATAGGCTAAAAATTACAAATCTT
1 AGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTAAAAATTACAAATCTT
128318735 A
1 A
128318736 TCTCCTTAAG
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
50 45 1.00
ACGTcount: A:0.38, C:0.19, G:0.18, T:0.26
Consensus pattern (50 bp):
AGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTAAAAATTACAAATCTT
Found at i:128318882 original size:131 final size:133
Alignment explanation
Indices: 128318560--128318969 Score: 569
Period size: 131 Copynumber: 3.1 Consensus size: 133
128318550 CTTGTCCCCC
* * * * *
128318560 TAAGCAGTAGGGAAACAGGTTGGAAATTACAGATCTTATCTCCCTAAGCAGTAATGGAGCAGATC
1 TAAGCAGTAGGGTAACAGGCTGAAAATTACAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
* * * *
128318625 GAAGACGGTGAGCCTTAATCCCCTAAGCAGTAGGGTAACAGGCTGAAAATTATAGATCTTAGCCT
66 GAAGACGGTGAGCCTTAACCCCCTAAGCAGTAGGGTAACAAGCTGAAAATTACAGATCTTA-TCT
128318690 TAAACCCT
130 T----CCT
* * * * *
128318698 TAAGCAGTAGGGTAATAGGCTAAAAATTACAAATCTTATCTCCTTAAGTAGTAGTGGAGCAGATT
1 TAAGCAGTAGGGTAACAGGCTGAAAATTACAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
* *
128318763 GAAGACGGTGAGCCTTAA-CCCCTAAGCAGTTGGATAACAAGCTGAAAATTACAGATCTTATCTT
66 GAAGACGGTGAGCCTTAACCCCCTAAGCAGTAGGGTAACAAGCTGAAAATTACAGATCTTATCTT
128318827 CC-
131 CCT
*
128318829 TAAGCAGTAGGGTAACAGACTGAAAATTACAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
1 TAAGCAGTAGGGTAACAGGCTGAAAATTACAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
*
128318894 GAAGACGGT-AGCCTTAACCCCCTAAGCAGTAGGGTAAC-AGACTAAAAATTACAGATCTTATC-
66 GAAGACGGTGAGCCTTAACCCCCTAAGCAGTAGGGTAACAAG-CTGAAAATTACAGATCTTATCT
128318956 TCCT
130 TCCT
128318960 TAAGCAGTAG
1 TAAGCAGTAG
128318970 TGGAGCAGAT
Statistics
Matches: 245, Mismatches: 24, Indels: 13
0.87 0.09 0.05
Matches are distributed among these distances:
130 13 0.05
131 116 0.47
132 2 0.01
136 3 0.01
137 38 0.16
138 73 0.30
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.24
Consensus pattern (133 bp):
TAAGCAGTAGGGTAACAGGCTGAAAATTACAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
GAAGACGGTGAGCCTTAACCCCCTAAGCAGTAGGGTAACAAGCTGAAAATTACAGATCTTATCTT
CCT
Found at i:128319233 original size:44 final size:44
Alignment explanation
Indices: 128318411--128319321 Score: 178
Period size: 44 Copynumber: 20.7 Consensus size: 44
128318401 AGAAGACTGA
* * *
128318411 AAATTACAGATCTTATCTCCCTAAGCAGTAGTGG-AGCA-GATCG
1 AAATTATAGATCTTATCTCCCTAAGCAGTAG-GGTAACAGGCTCG
** * * *
128318454 AAGATGGT-GAGCCTTATC-CCCTAAGCAGTAGGGAAATAGGCT-G
1 AA-ATTATAGA-TCTTATCTCCCTAAGCAGTAGGGTAACAGGCTCG
* * *
128318497 AAAATTATAGATCTTATCTCTCTAAGCAGTAGAGT---A-GATCG
1 -AAATTATAGATCTTATCTCCCTAAGCAGTAGGGTAACAGGCTCG
*** * * * * * *
128318538 AAGACGGT-GAGCCTTGTCCCCCTAAGCAGTAGGGAAACAGGTTGG
1 AA-ATTATAGA-TCTTATCTCCCTAAGCAGTAGGGTAACAGGCTCG
* * * *
128318583 AAATTACAGATCTTATCTCCCTAAGCAGTAATGG-AGCA-GATCG
1 AAATTATAGATCTTATCTCCCTAAGCAGT-AGGGTAACAGGCTCG
*** *
128318626 AAGACGGT-GAGCCTTAATC-CCCTAAGCAGTAGGGTAACAGGCT-G
1 AA-ATTATAGA-TCTT-ATCTCCCTAAGCAGTAGGGTAACAGGCTCG
* * **
128318670 AAAATTATAGATCTTAGCCTTAAACCCTTAAGCAGTAGGGTAATAGGCTAA
1 -AAATTATAGATCTTA-TC-T---CCC-TAAGCAGTAGGGTAACAGGCTCG
* * * * * * *
128318721 AAATTACAAATCTTATCTCCTTAAGTAGTAGTGG-AGCA-GATTG
1 AAATTATAGATCTTATCTCCCTAAGCAGTAG-GGTAACAGGCTCG
*** * * * * *
128318764 AAGACGGT-GAGCCTTAAC-CCCTAAGCAGTTGGATAACAAGCT-G
1 AA-ATTATAGA-TCTTATCTCCCTAAGCAGTAGGGTAACAGGCTCG
* * *
128318807 AAAATTACAGATCTTATCTTCCTAAGCAGTAGGGTAACAGACT-G
1 -AAATTATAGATCTTATCTCCCTAAGCAGTAGGGTAACAGGCTCG
* * * *
128318851 AAAATTACAAATCTTATCTCCCTAAGCAGTAGTGG-AGCA-GATCG
1 -AAATTATAGATCTTATCTCCCTAAGCAGTAG-GGTAACAGGCTCG
*** * * * * **
128318895 AAGACGGTAG-CCTTAACCCCCTAAGCAGTAGGGTAACAGACTAA
1 AA-ATTATAGATCTTATCTCCCTAAGCAGTAGGGTAACAGGCTCG
* * * *
128318939 AAATTACAGATCTTATCTCCTTAAGCAGTAGTGG-AGCA-GATCG
1 AAATTATAGATCTTATCTCCCTAAGCAGTAG-GGTAACAGGCTCG
*** * * * * * *
128318982 AAGACGGT-GAGCCTTAACCCCCTAAGCAGTAAGATAACAGGCTAG
1 AA-ATTATAGA-TCTTATCTCCCTAAGCAGTAGGGTAACAGGCTCG
* * **
128319027 AAATTATAGATCATATCTCCCTAAGCAATA--GTAGAGCA-AATCG
1 AAATTATAGATCTTATCTCCCTAAGCAGTAGGGTA-A-CAGGCTCG
** * * * *
128319070 AAGATGGT-GAGCCTTATCCCCCTAAGTAGTAGGGAAACAGGCT-G
1 AA-ATTATAGA-TCTTATCTCCCTAAGCAGTAGGGTAACAGGCTCG
* * * *
128319114 AAAATTATAAATTTTATCTCCCAAAGTAGTAGTGGAGTAA-A---TCG
1 -AAATTATAGATCTTATCTCCCTAAGCAGTA--GG-GTAACAGGCTCG
*** * * * *
128319158 AAGACGGT-GAGTCTTAAC-CCCTTAAGTAGTAGGGTAGCAGGCTGG
1 AA-ATTATAGA-TCTTATCTCCC-TAAGCAGTAGGGTAACAGGCTCG
**
128319203 AAATTATAGATCTTATCTCCCTAAGCAGTAGTGG-AACA-TATC-
1 AAATTATAGATCTTATCTCCCTAAGCAGTAG-GGTAACAGGCTCG
* * * * * *
128319245 AAA-TATGGTGAGCCTTATCCCCCTAAGCAGTAGGGAAACAGGATGG
1 AAATTAT--AGA-TCTTATCTCCCTAAGCAGTAGGGTAACAGGCTCG
* * *
128319291 AAATTATCGATCTTATCTCCTTAAGAAGTAG
1 AAATTATAGATCTTATCTCCCTAAGCAGTAG
128319322 TGGAGCGGAT
Statistics
Matches: 600, Mismatches: 187, Indels: 161
0.63 0.20 0.17
Matches are distributed among these distances:
40 6 0.01
41 28 0.05
42 13 0.02
43 117 0.19
44 330 0.55
45 54 0.09
46 8 0.01
47 6 0.01
48 1 0.00
49 4 0.01
50 33 0.05
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.24
Consensus pattern (44 bp):
AAATTATAGATCTTATCTCCCTAAGCAGTAGGGTAACAGGCTCG
Found at i:128322780 original size:18 final size:18
Alignment explanation
Indices: 128322749--128322783 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
128322739 ACTAGTGTTT
128322749 TATTTCTGTTTTGGGCTA
1 TATTTCTGTTTTGGGCTA
128322767 TATTT-TGTTATTGGGCT
1 TATTTCTGTT-TTGGGCT
128322784 TGAAGGGATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.11, C:0.09, G:0.23, T:0.57
Consensus pattern (18 bp):
TATTTCTGTTTTGGGCTA
Found at i:128325624 original size:26 final size:26
Alignment explanation
Indices: 128325588--128325697 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
128325578 CATGAAATTC
128325588 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
128325614 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
128325640 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
128325666 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
128325692 TTATCA
1 TTATCA
128325698 ATTTGTATCA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:128326641 original size:24 final size:24
Alignment explanation
Indices: 128326609--128326657 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
128326599 CCGGCTGAAT
128326609 TAACACAAGTGCTTCAGTCAGAAC
1 TAACACAAGTGCTTCAGTCAGAAC
128326633 TAACACAAGTGCTTCAGTCAGAAC
1 TAACACAAGTGCTTCAGTCAGAAC
128326657 T
1 T
128326658 TTCTTCAACT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.37, C:0.24, G:0.16, T:0.22
Consensus pattern (24 bp):
TAACACAAGTGCTTCAGTCAGAAC
Found at i:128331377 original size:26 final size:26
Alignment explanation
Indices: 128331341--128331450 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
128331331 CATGAAATTC
128331341 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
128331367 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
128331393 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
128331419 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
128331445 TTATCA
1 TTATCA
128331451 ATTTGTATCA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:128332252 original size:29 final size:28
Alignment explanation
Indices: 128332210--128332283 Score: 78
Period size: 29 Copynumber: 2.6 Consensus size: 28
128332200 TTTCTATTTA
* *
128332210 TATTTATTTTTTTATTCTAATACTATTAT
1 TATTTATCTATTTATT-TAATACTATTAT
**
128332239 TATTTATCTATTTATATTTCTACTATTAT
1 TATTTATCTATTTAT-TTAATACTATTAT
128332268 TATATT-TCTATTTATT
1 TAT-TTATCTATTTATT
128332284 ATATTTTATT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
28 1 0.03
29 35 0.90
30 3 0.08
ACGTcount: A:0.27, C:0.08, G:0.00, T:0.65
Consensus pattern (28 bp):
TATTTATCTATTTATTTAATACTATTAT
Found at i:128332279 original size:43 final size:43
Alignment explanation
Indices: 128332190--128332333 Score: 125
Period size: 43 Copynumber: 3.3 Consensus size: 43
128332180 TTATTGCTAT
* ** * * * *
128332190 TATTATTATGTTTCTATTTATATTTATTTTTTTATTCTAATAC
1 TATTATTATATTTCTATTTATATTTATACTATTATTATATTTC
*
128332233 TATTATTAT-TTATCTATTTATATTTCTACTATTATTATATTTC
1 TATTATTATATT-TCTATTTATATTTATACTATTATTATATTTC
* *
128332276 TATTTATTATATTT-TATTTCTATTTATATACTAATATTAT-TTTC
1 TA-TTATTATATTTCTATTTATA-TT-TATACTATTATTATATTTC
*
128332320 -ATTATTATTTTTCT
1 TATTATTATATTTCT
128332334 TATATATGTT
Statistics
Matches: 84, Mismatches: 11, Indels: 12
0.79 0.10 0.11
Matches are distributed among these distances:
42 12 0.14
43 44 0.52
44 14 0.17
45 14 0.17
ACGTcount: A:0.27, C:0.08, G:0.01, T:0.65
Consensus pattern (43 bp):
TATTATTATATTTCTATTTATATTTATACTATTATTATATTTC
Found at i:128332293 original size:14 final size:15
Alignment explanation
Indices: 128332192--128332294 Score: 69
Period size: 14 Copynumber: 7.1 Consensus size: 15
128332182 ATTGCTATTA
*
128332192 TTATTATGTTTCTAT
1 TTATTATATTTCTAT
*
128332207 TTATATTTATTT-T-T
1 TTAT-TATATTTCTAT
* * *
128332221 TTATTCTAATACTA-
1 TTATTATATTTCTAT
128332235 TTATTAT-TTATCTA-
1 TTATTATATT-TCTAT
128332249 -T-TTATATTTCTACT
1 TTATTATATTTCTA-T
128332263 ATTATTATATTTCTAT
1 -TTATTATATTTCTAT
128332279 TTATTATATTT-TAT
1 TTATTATATTTCTAT
128332293 TT
1 TT
128332295 CTATTTATAT
Statistics
Matches: 70, Mismatches: 8, Indels: 21
0.71 0.08 0.21
Matches are distributed among these distances:
12 8 0.11
13 8 0.11
14 20 0.29
15 16 0.23
16 7 0.10
17 11 0.16
ACGTcount: A:0.26, C:0.07, G:0.01, T:0.66
Consensus pattern (15 bp):
TTATTATATTTCTAT
Found at i:128332293 original size:20 final size:20
Alignment explanation
Indices: 128332187--128332302 Score: 74
Period size: 20 Copynumber: 6.2 Consensus size: 20
128332177 ATATTATTGC
*
128332187 TATTATTATTATGTTTCTA--
1 TATTA-TATTATATTTCTATT
128332206 T-TTATATT-TATTT-T-TT
1 TATTATATTATATTTCTATT
* *
128332222 TATTCTAATACTATTAT-TATT
1 TATTATATTA-TATT-TCTATT
*
128332243 TATCTAT-TTATATTTCTA-C
1 TAT-TATATTATATTTCTATT
128332262 TA-T-TATTATATTTCTATT
1 TATTATATTATATTTCTATT
*
128332280 TATTATATTTTATTTCTATT
1 TATTATATTATATTTCTATT
128332300 TAT
1 TAT
128332303 ATACTAATAT
Statistics
Matches: 76, Mismatches: 8, Indels: 25
0.70 0.07 0.23
Matches are distributed among these distances:
15 1 0.01
16 6 0.08
17 21 0.28
18 5 0.07
19 9 0.12
20 25 0.33
21 7 0.09
22 2 0.03
ACGTcount: A:0.27, C:0.07, G:0.01, T:0.66
Consensus pattern (20 bp):
TATTATATTATATTTCTATT
Found at i:128332304 original size:17 final size:16
Alignment explanation
Indices: 128332250--128332304 Score: 60
Period size: 17 Copynumber: 3.4 Consensus size: 16
128332240 ATTTATCTAT
*
128332250 TTATATTTCTACTATTA
1 TTATATTTCTA-TTTTA
128332267 TTATATTTCTA-TTTA
1 TTATATTTCTATTTTA
128332282 TTATATTT-TATTTCTA
1 TTATATTTCTATTT-TA
128332298 TTTATAT
1 -TTATAT
128332305 ACTAATATTA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
14 2 0.06
15 13 0.38
16 2 0.06
17 17 0.50
ACGTcount: A:0.27, C:0.07, G:0.00, T:0.65
Consensus pattern (16 bp):
TTATATTTCTATTTTA
Found at i:128332313 original size:20 final size:20
Alignment explanation
Indices: 128332239--128332313 Score: 61
Period size: 20 Copynumber: 3.9 Consensus size: 20
128332229 ATACTATTAT
*
128332239 TATTTATCTAT-TTATATTTC
1 TATTTAT-TATATAATATTTC
*
128332259 TA-CTATTAT-T-ATATTTC
1 TATTTATTATATAATATTTC
**
128332276 TATTTATTATATTTTATTTC
1 TATTTATTATATAATATTTC
128332296 TATTTA-TATACTAATATT
1 TATTTATTATA-TAATATT
128332314 ATTTTCATTA
Statistics
Matches: 46, Mismatches: 5, Indels: 8
0.78 0.08 0.14
Matches are distributed among these distances:
17 9 0.20
18 10 0.22
19 8 0.17
20 19 0.41
ACGTcount: A:0.29, C:0.08, G:0.00, T:0.63
Consensus pattern (20 bp):
TATTTATTATATAATATTTC
Found at i:128332317 original size:37 final size:37
Alignment explanation
Indices: 128332207--128332317 Score: 88
Period size: 37 Copynumber: 3.0 Consensus size: 37
128332197 ATGTTTCTAT
* * *
128332207 TTATATTTATTTTTTTATTCTA-ATACTATTATTATTTA
1 TTATATTT-TATTTCTATT-TATATACTAATATTATTTA
* *
128332245 TCTAT-TTATATTTCTACTATTAT-TA-T-ATTTCTATTTA
1 T-TATATTTTATTTCTA-T-TTATATACTAATAT-TATTTA
128332282 TTATATTTTATTTCTATTTATATACTAATATTATTT
1 TTATATTTTATTTCTATTTATATACTAATATTATTT
128332318 TCATTATTAT
Statistics
Matches: 57, Mismatches: 7, Indels: 19
0.69 0.08 0.23
Matches are distributed among these distances:
35 4 0.07
36 8 0.14
37 30 0.53
38 11 0.19
39 4 0.07
ACGTcount: A:0.29, C:0.07, G:0.00, T:0.64
Consensus pattern (37 bp):
TTATATTTTATTTCTATTTATATACTAATATTATTTA
Found at i:128335559 original size:31 final size:31
Alignment explanation
Indices: 128335521--128335587 Score: 100
Period size: 31 Copynumber: 2.2 Consensus size: 31
128335511 GTTACAAAAT
128335521 AGTCACTGAACCATTTGAAAATT-TTCATTTA
1 AGTCACTGAACCATTTGAAAATTATT-ATTTA
* *
128335552 AGTCACTGAACTATTTGAAAGTTATTATTTA
1 AGTCACTGAACCATTTGAAAATTATTATTTA
128335583 AGTCA
1 AGTCA
128335588 TTGGGTTGTT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
31 31 0.94
32 2 0.06
ACGTcount: A:0.36, C:0.13, G:0.12, T:0.39
Consensus pattern (31 bp):
AGTCACTGAACCATTTGAAAATTATTATTTA
Found at i:128343951 original size:29 final size:30
Alignment explanation
Indices: 128343919--128343980 Score: 101
Period size: 29 Copynumber: 2.1 Consensus size: 30
128343909 ACTTAACAAG
128343919 CAAATG-CTTCTAAAATAATAA-AAAATTAA
1 CAAATGCCTT-TAAAATAATAAGAAAATTAA
128343948 CAAATGCCTTTAAAATAATAAGAAAATTAA
1 CAAATGCCTTTAAAATAATAAGAAAATTAA
128343978 CAA
1 CAA
128343981 TAAAATAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
29 17 0.55
30 14 0.45
ACGTcount: A:0.58, C:0.11, G:0.05, T:0.26
Consensus pattern (30 bp):
CAAATGCCTTTAAAATAATAAGAAAATTAA
Found at i:128344043 original size:22 final size:22
Alignment explanation
Indices: 128344018--128344078 Score: 54
Period size: 22 Copynumber: 2.8 Consensus size: 22
128344008 CAATAACAAC
* *
128344018 AAAATAATAGCAACATA-ATAG
1 AAAATAATAGCAAAATAGAGAG
**
128344039 TAAAATGGTAGCAAAATAGAGAG
1 -AAAATAATAGCAAAATAGAGAG
128344062 AAAATAATAAG-AAAATA
1 AAAATAAT-AGCAAAATA
128344079 ACATTCAAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
22 26 0.84
23 5 0.16
ACGTcount: A:0.62, C:0.05, G:0.15, T:0.18
Consensus pattern (22 bp):
AAAATAATAGCAAAATAGAGAG
Found at i:128344783 original size:35 final size:35
Alignment explanation
Indices: 128344734--128345016 Score: 100
Period size: 35 Copynumber: 7.7 Consensus size: 35
128344724 TATAACCGTC
* **
128344734 GGTTTATCCGACTAGCGCTGGGCGCAATTATCGTT
1 GGTTTATCCAACTAGAACTGGGCGCAATTATCGTT
*
128344769 GGTTTATCCAACTAGAACTGGGCTCACAATTACTATC-TT
1 GGTTTATCCAACTAGAACTGGG--CGCAA-T--TATCGTT
* * * * * *
128344808 CGGTATACCCAACTAGCACTAGGTGCAAATATCGTT
1 -GGTTTATCCAACTAGAACTGGGCGCAATTATCGTT
* * * * *
128344844 GGTTTGTCCAACTAGAGCTAGGCTCACAATTACTATCGTC
1 GGTTTATCCAACTAGAACT-GG-GCGCAA-T--TATCGTT
* * * * * * *
128344884 GGTATACCCGACTAGCACTGGGTGCAAATATCATT
1 GGTTTATCCAACTAGAACTGGGCGCAATTATCGTT
* * * * *
128344919 GTTTTATCCAACTAGAGCTGGGCTCACAATTACTATCATC
1 GGTTTATCCAACTAGAACTGGG--CGCAA-T--TATCGTT
* * * * * * *
128344959 GGTATACCCGACTAGCACTAGGTGCAAATATCGTT
1 GGTTTATCCAACTAGAACTGGGCGCAATTATCGTT
*
128344994 GGTTTATCCAACTAGAGCTGGGC
1 GGTTTATCCAACTAGAACTGGGC
128345017 TCACATTTAA
Statistics
Matches: 168, Mismatches: 63, Indels: 34
0.63 0.24 0.13
Matches are distributed among these distances:
35 79 0.47
36 3 0.02
37 10 0.06
38 10 0.06
39 4 0.02
40 62 0.37
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (35 bp):
GGTTTATCCAACTAGAACTGGGCGCAATTATCGTT
Found at i:128344821 original size:40 final size:40
Alignment explanation
Indices: 128344776--128344973 Score: 132
Period size: 40 Copynumber: 5.2 Consensus size: 40
128344766 GTTGGTTTAT
128344776 CCAACTAGAACTGGGCTCACAATTACTATCTTCGGTATAC
1 CCAACTAGAACTGGGCTCACAATTACTATCTTCGGTATAC
* * * * **
128344816 CCAACTAGCACTAGG-T-GCAA--A-TATCGTT-GGTTTGT
1 CCAACTAGAACTGGGCTCACAATTACTATC-TTCGGTATAC
* * *
128344851 CCAACTAGAGCTAGGCTCACAATTACTATCGTCGGTATAC
1 CCAACTAGAACTGGGCTCACAATTACTATCTTCGGTATAC
* * * * * *
128344891 CCGACTAGCACTGGG-T-GCAA--A-TATCATT-GTTTTAT
1 CCAACTAGAACTGGGCTCACAATTACTATC-TTCGGTATAC
* *
128344926 CCAACTAGAGCTGGGCTCACAATTACTATCATCGGTATAC
1 CCAACTAGAACTGGGCTCACAATTACTATCTTCGGTATAC
*
128344966 CCGACTAG
1 CCAACTAG
128344974 CACTAGGTGC
Statistics
Matches: 113, Mismatches: 31, Indels: 28
0.66 0.18 0.16
Matches are distributed among these distances:
35 41 0.36
36 7 0.06
37 6 0.05
38 6 0.05
39 6 0.05
40 47 0.42
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (40 bp):
CCAACTAGAACTGGGCTCACAATTACTATCTTCGGTATAC
Found at i:128345049 original size:75 final size:75
Alignment explanation
Indices: 128344730--128345021 Score: 449
Period size: 75 Copynumber: 3.9 Consensus size: 75
128344720 ATTGTATAAC
* * * * * * *
128344730 CGTCGGTTTATCCGACTAGCGCTGGGCGCAATTATCGTTGGTTTATCCAACTAGAACTGGGCTCA
1 CGTCGGTATACCCGACTAGCACTAGGTGCAAATATCGTTGGTTTATCCAACTAGAGCTGGGCTCA
128344795 CAATTACTAT
66 CAATTACTAT
* * * *
128344805 CTTCGGTATACCCAACTAGCACTAGGTGCAAATATCGTTGGTTTGTCCAACTAGAGCTAGGCTCA
1 CGTCGGTATACCCGACTAGCACTAGGTGCAAATATCGTTGGTTTATCCAACTAGAGCTGGGCTCA
128344870 CAATTACTAT
66 CAATTACTAT
* * *
128344880 CGTCGGTATACCCGACTAGCACTGGGTGCAAATATCATTGTTTTATCCAACTAGAGCTGGGCTCA
1 CGTCGGTATACCCGACTAGCACTAGGTGCAAATATCGTTGGTTTATCCAACTAGAGCTGGGCTCA
128344945 CAATTACTAT
66 CAATTACTAT
*
128344955 CATCGGTATACCCGACTAGCACTAGGTGCAAATATCGTTGGTTTATCCAACTAGAGCTGGGCTCA
1 CGTCGGTATACCCGACTAGCACTAGGTGCAAATATCGTTGGTTTATCCAACTAGAGCTGGGCTCA
128345020 CA
66 CA
128345022 TTTAATATTG
Statistics
Matches: 195, Mismatches: 22, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
75 195 1.00
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (75 bp):
CGTCGGTATACCCGACTAGCACTAGGTGCAAATATCGTTGGTTTATCCAACTAGAGCTGGGCTCA
CAATTACTAT
Found at i:128354695 original size:1 final size:1
Alignment explanation
Indices: 128354689--128354795 Score: 61
Period size: 1 Copynumber: 107.0 Consensus size: 1
128354679 CATGTTCCAC
* * * * * * * **** *
128354689 AAAAAAAAAAGAAAAAAAAAACAAAAAAAACAAAAAAAAGAAGAAGAAATAATTCGAAAAAAAAG
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * ***
128354754 AAAAAAGAAAAAAAGAAAAAAGTTAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
128354796 GTTTGATGAT
Statistics
Matches: 79, Mismatches: 27, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 79 1.00
ACGTcount: A:0.84, C:0.03, G:0.08, T:0.05
Consensus pattern (1 bp):
A
Found at i:128355559 original size:34 final size:34
Alignment explanation
Indices: 128355516--128355584 Score: 113
Period size: 34 Copynumber: 2.0 Consensus size: 34
128355506 TTTTCTTCTT
128355516 TTATTCTGTCACGGCTGGA-TCGTGGGCACGACGC
1 TTATTCTGTCACGGCTGGAGTCGT-GGCACGACGC
*
128355550 TTATTCTGTCGCGGCTGGAGTCGTGGCACGACGC
1 TTATTCTGTCACGGCTGGAGTCGTGGCACGACGC
128355584 T
1 T
128355585 GGGCACGACG
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
34 29 0.88
35 4 0.12
ACGTcount: A:0.13, C:0.26, G:0.33, T:0.28
Consensus pattern (34 bp):
TTATTCTGTCACGGCTGGAGTCGTGGCACGACGC
Found at i:128358133 original size:25 final size:25
Alignment explanation
Indices: 128358086--128358133 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
128358076 TTATACCATG
* * * *
128358086 AAAATGACCGTTTTGCCCTTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
128358111 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
128358134 GTTTATGTAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.27
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:128358202 original size:20 final size:20
Alignment explanation
Indices: 128358177--128358235 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
128358167 TAAATATGGT
128358177 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
*
128358197 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAA
*
128358217 ATGTATGATAAGCACATGA
1 ATGTATGATATGCACATGA
128358236 GGTAATCATA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.39, C:0.10, G:0.20, T:0.31
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:128358352 original size:46 final size:48
Alignment explanation
Indices: 128358285--128358401 Score: 170
Period size: 46 Copynumber: 2.5 Consensus size: 48
128358275 GGAGAAGTGA
128358285 AAAAGGGCTTATGCCCCAGTTATCGAAA-GGCTTAT-GCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATCGAAAGGGCTT-TGGCCCCAGTTATT
*
128358331 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTGGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATCGAAAGGGCTTTGGCCCCAGTTATT
*
128358379 AAAAGAGGC-TAGGCCCCAGTTAT
1 AAAAG-GGCTTATGCCCCAGTTAT
128358402 ATGATAAAGC
Statistics
Matches: 65, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
46 28 0.43
47 15 0.23
48 19 0.29
49 3 0.05
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (48 bp):
AAAAGGGCTTATGCCCCAGTTATCGAAAGGGCTTTGGCCCCAGTTATT
Found at i:128358364 original size:24 final size:24
Alignment explanation
Indices: 128358285--128358401 Score: 152
Period size: 24 Copynumber: 5.0 Consensus size: 24
128358275 GGAGAAGTGA
*
128358285 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
*
128358309 GAAA-GGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATT
128358331 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
128358355 GAAAGGGCTT-TGGCCCCAGTTATT
1 AAAAGGGCTTAT-GCCCCAGTTATT
*
128358379 AAAAGAGGC-TAGGCCCCAGTTAT
1 AAAAG-GGCTTATGCCCCAGTTAT
128358402 ATGATAAAGC
Statistics
Matches: 82, Mismatches: 6, Indels: 10
0.84 0.06 0.10
Matches are distributed among these distances:
22 3 0.04
23 35 0.43
24 41 0.50
25 3 0.04
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:128358648 original size:36 final size:35
Alignment explanation
Indices: 128358593--128358663 Score: 97
Period size: 36 Copynumber: 2.0 Consensus size: 35
128358583 TACAGTAAAG
*
128358593 GCTTCGGCCCAATAATATGAAATATGAAACATGAAA
1 GCTTCAGCCCAATAATATG-AATATGAAACATGAAA
* * *
128358629 GCTTCAGCCCAGTATTATGAATATGAAATATGAAA
1 GCTTCAGCCCAATAATATGAATATGAAACATGAAA
128358664 AGGGCTACGG
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
35 15 0.48
36 16 0.52
ACGTcount: A:0.42, C:0.15, G:0.17, T:0.25
Consensus pattern (35 bp):
GCTTCAGCCCAATAATATGAATATGAAACATGAAA
Found at i:128366505 original size:27 final size:28
Alignment explanation
Indices: 128366474--128366527 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
128366464 GGCTACCAAA
*
128366474 ACAGATAAT-GTGACAGAGTCACCAGAT
1 ACAGATAATCGTGACAGAGCCACCAGAT
*
128366501 ACAGATAATCGTGGCAGAGCCACCAGA
1 ACAGATAATCGTGACAGAGCCACCAGA
128366528 ACCACCAGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 9 0.38
28 15 0.62
ACGTcount: A:0.39, C:0.22, G:0.24, T:0.15
Consensus pattern (28 bp):
ACAGATAATCGTGACAGAGCCACCAGAT
Found at i:128366551 original size:36 final size:37
Alignment explanation
Indices: 128366493--128366565 Score: 112
Period size: 36 Copynumber: 2.0 Consensus size: 37
128366483 GTGACAGAGT
128366493 CACCAGATACAGATAATCGTGGCAGAGCCACCAGAAC
1 CACCAGATACAGATAATCGTGGCAGAGCCACCAGAAC
* * *
128366530 CACCAGAT-CAGATATTTGTGGCATAGCCACCAGAAC
1 CACCAGATACAGATAATCGTGGCAGAGCCACCAGAAC
128366566 GCTTCCTCCA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
36 25 0.76
37 8 0.24
ACGTcount: A:0.36, C:0.29, G:0.21, T:0.15
Consensus pattern (37 bp):
CACCAGATACAGATAATCGTGGCAGAGCCACCAGAAC
Found at i:128368221 original size:26 final size:26
Alignment explanation
Indices: 128368185--128368318 Score: 232
Period size: 26 Copynumber: 5.2 Consensus size: 26
128368175 CATGAAATTC
*
128368185 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
128368211 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
128368237 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
128368263 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
128368289 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
128368315 TTAT
1 TTAT
128368319 AAATTTGTAT
Statistics
Matches: 105, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 105 1.00
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:128371783 original size:46 final size:44
Alignment explanation
Indices: 128371724--128371838 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
128371714 ACAGGACAGA
* *
128371724 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
128371770 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
128371814 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
128371839 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:128371819 original size:44 final size:45
Alignment explanation
Indices: 128371724--128371857 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
128371714 ACAGGACAGA
* *
128371724 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
128371770 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
128371814 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
128371858 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:128377926 original size:46 final size:44
Alignment explanation
Indices: 128377867--128377981 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
128377857 ACAGGACAGA
* *
128377867 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
128377913 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
128377957 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
128377982 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:128377962 original size:44 final size:45
Alignment explanation
Indices: 128377867--128378000 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
128377857 ACAGGACAGA
* *
128377867 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
128377913 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
128377957 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
128378001 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:128380672 original size:3 final size:3
Alignment explanation
Indices: 128380666--128380720 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
128380656 TTACTACTGC
128380666 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
128380714 TAA TAA T
1 TAA TAA T
128380721 GATGATGATA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:128383913 original size:27 final size:26
Alignment explanation
Indices: 128383876--128383990 Score: 149
Period size: 27 Copynumber: 4.3 Consensus size: 26
128383866 AGCATGTCTG
* *
128383876 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
128383902 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
128383930 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
128383957 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
128383984 CCAGAAC
1 CCAGAAC
128383991 GCTTCCTCCA
Statistics
Matches: 80, Mismatches: 6, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
26 5 0.06
27 58 0.73
28 17 0.21
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:128383935 original size:54 final size:54
Alignment explanation
Indices: 128383876--128383990 Score: 169
Period size: 54 Copynumber: 2.1 Consensus size: 54
128383866 AGCATGTCTG
*
128383876 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * * *
128383930 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
128383984 CCAGAAC
1 CCAGAAC
128383991 GCTTCCTCCA
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
54 37 0.67
55 18 0.33
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:128385641 original size:26 final size:26
Alignment explanation
Indices: 128385604--128385763 Score: 266
Period size: 26 Copynumber: 6.2 Consensus size: 26
128385594 CATGAAATTC
*
128385604 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
* *
128385630 TTATCATAAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
128385656 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
128385682 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
128385708 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
128385734 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
128385760 TTAT
1 TTAT
128385764 AAATTTGTAT
Statistics
Matches: 129, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 129 1.00
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:128386241 original size:3 final size:3
Alignment explanation
Indices: 128386233--128386275 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
128386223 CTACTTTAAT
128386233 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
128386276 GTGCCCATAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:128387436 original size:360 final size:359
Alignment explanation
Indices: 128386744--128387471 Score: 1404
Period size: 360 Copynumber: 2.0 Consensus size: 359
128386734 ATTTTAATAT
128386744 TATATTATATGTACATATTCATATTATAGTGTTTTAGTTACATATTTTTGTACTATATTATTTTA
1 TATATTATATGTACATATTCATATTATAGTGTTTTAGTTACATATTTTTGTACTATATTATTTTA
128386809 TTATTTTGCTATTATTAGTATTAGTTTTAGTTTCAATAAATATTCTAATACGTATATACATATAT
66 TTATTTTGCTATTATTAGTATTAGTTTTAGTTTCAATAAATATTCTAATACGTATATACATATAT
128386874 ACTTTAGTATCATAGTTGTATACTTTTATACGGTCTTATGTACATATATTTACATGCATATTTTC
131 ACTTTAGTATCATAGTTGTATACTTTTATACGGTCTTATGTACATATATTTACATGCATATTTTC
128386939 TTTTATATACATTTTTAATACCATATATGTATATGCATTTTTACTATATTAGTTAGTCTTTTTCC
196 TTTTATATACATTTTTAATACCATATATGTATATGCATTTTTACTATATTAGTTAGTCTTTTTCC
128387004 CTATTTTATATATATATTTTAATTACTATGTATAGTATATTTATGACTCTATTACTATATATATT
261 CTATTTTATATATATATTTTAATTACTATGTATAGTATATTTATGACTCTATTACTATATATATT
128387069 TTATGTACACACTTTTAATATTATAATTACTATG
326 TTATGTACACACTTTTAATATTATAATTACTATG
*
128387103 TATATTTTATGTACATATTCATATTATAGTGTTTTTAGTTACATATTTTTGTACTATATTATTTT
1 TATATTATATGTACATATTCATATTATAGTG-TTTTAGTTACATATTTTTGTACTATATTATTTT
*
128387168 ATTATTTTGCTATTATTAGTATTAGTTTTAGTTTCAATAAATATTCTAATATGTATATACATATA
65 ATTATTTTGCTATTATTAGTATTAGTTTTAGTTTCAATAAATATTCTAATACGTATATACATATA
128387233 TACTTTAGTATCATAGTTGTATACTTTTATACGGTCTTATGTACATATATTTACATGCATATTTT
130 TACTTTAGTATCATAGTTGTATACTTTTATACGGTCTTATGTACATATATTTACATGCATATTTT
128387298 CTTTTATATACATTTTTAATACCATATATGTATATGCATTTTTACTATATTAGTTAGTCTTTTTC
195 CTTTTATATACATTTTTAATACCATATATGTATATGCATTTTTACTATATTAGTTAGTCTTTTTC
128387363 CCTATTTTATATATATATTTTAATTACTATGTATAGTATATTTATGACTCTATTACTATATATAT
260 CCTATTTTATATATATATTTTAATTACTATGTATAGTATATTTATGACTCTATTACTATATATAT
* *
128387428 TTTATGTACACACTTTTAATATTATTATTATTATG
325 TTTATGTACACACTTTTAATATTATAATTACTATG
128387463 TATA-TATAT
1 TATATTATAT
128387472 TCGTTGTTTT
Statistics
Matches: 363, Mismatches: 5, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
359 34 0.09
360 329 0.91
ACGTcount: A:0.31, C:0.09, G:0.07, T:0.52
Consensus pattern (359 bp):
TATATTATATGTACATATTCATATTATAGTGTTTTAGTTACATATTTTTGTACTATATTATTTTA
TTATTTTGCTATTATTAGTATTAGTTTTAGTTTCAATAAATATTCTAATACGTATATACATATAT
ACTTTAGTATCATAGTTGTATACTTTTATACGGTCTTATGTACATATATTTACATGCATATTTTC
TTTTATATACATTTTTAATACCATATATGTATATGCATTTTTACTATATTAGTTAGTCTTTTTCC
CTATTTTATATATATATTTTAATTACTATGTATAGTATATTTATGACTCTATTACTATATATATT
TTATGTACACACTTTTAATATTATAATTACTATG
Found at i:128389375 original size:3 final size:3
Alignment explanation
Indices: 128389367--128389411 Score: 83
Period size: 3 Copynumber: 15.3 Consensus size: 3
128389357 ATGAAGAATA
128389367 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA- AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
128389412 GTAGCACGAA
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 39 0.95
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:128392367 original size:129 final size:128
Alignment explanation
Indices: 128392100--128392420 Score: 373
Period size: 129 Copynumber: 2.5 Consensus size: 128
128392090 ACCAAAATTT
* * * * * * *
128392100 AGCACGATAGAGCACGATTCCTCGAACTTCCAAACATTGAACATTACCTTG-CTTAGGAATTTAT
1 AGCACGATAGGGCACGATTCCCCGAATTTCTAAACATTGAACATTGCCTTGTTTTAGGAATTTAG
128392164 AAAACACGAGTGAAATACTAAAAGAACATTCAATTATTTGGAACAAACTAGAAATCGAAACCC
66 AAAACACGAGTGAAATACTAAAAGAACATTCAATTATTTGGAACAAACTAGAAATCGAAACCC
* *
128392227 AGCACGATAGGGCACGATTCCCCGAATTTCTAAACATTGAACATTGCCTTGTTTTA-GATTTTGG
1 AGCACGATAGGGCACGATTCCCCGAATTTCTAAACATTGAACATTGCCTTGTTTTAGGAATTT-A
* * * * * *
128392291 GAAAACACGAGTGAAAT-TTTAAAGAAATATTCGATTTATTTTGAACAAA-TGGGAAATCGAAAC
65 GAAAACACGAGTGAAATACTAAAAG-AACATTC-AATTATTTGGAACAAACT-AGAAATCGAAAC
128392354 CC
127 CC
* * **
128392356 AGCACGGTAGGGCACGATTTCCCGAATTT-TCAAACATCAAACATTGCCTTCGTTTTAAGGAATT
1 AGCACGATAGGGCACGATTCCCCGAATTTCT-AAACATTGAACATTGCCTT-GTTTT-AGGAATT
128392420 T
63 T
128392421 TCAGACGAAT
Statistics
Matches: 165, Mismatches: 20, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
127 56 0.34
128 27 0.16
129 71 0.43
130 5 0.03
131 1 0.01
132 5 0.03
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.27
Consensus pattern (128 bp):
AGCACGATAGGGCACGATTCCCCGAATTTCTAAACATTGAACATTGCCTTGTTTTAGGAATTTAG
AAAACACGAGTGAAATACTAAAAGAACATTCAATTATTTGGAACAAACTAGAAATCGAAACCC
Found at i:128395859 original size:26 final size:26
Alignment explanation
Indices: 128395822--128395957 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
128395812 TGATACAAAT
* *
128395822 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
128395848 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
* *
128395874 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
128395900 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
128395926 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
128395952 TGATAA
1 TGATAA
128395958 CAATATCATG
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 104 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:128397437 original size:28 final size:26
Alignment explanation
Indices: 128397406--128397480 Score: 80
Period size: 26 Copynumber: 2.8 Consensus size: 26
128397396 AAAAGCAGCT
128397406 AAATTACTATAATACCCCTATGTATGAA
1 AAATTACTATAATACCCCTA-GT-TGAA
* * *
128397434 AAATTACTGTTATACCCCTAGTTGCA
1 AAATTACTATAATACCCCTAGTTGAA
*
128397460 AAATTACCGA-AATACCCCTAG
1 AAATTA-CTATAATACCCCTAG
128397481 GGTTAAATTG
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
26 19 0.47
27 3 0.08
28 18 0.45
ACGTcount: A:0.39, C:0.23, G:0.09, T:0.29
Consensus pattern (26 bp):
AAATTACTATAATACCCCTAGTTGAA
Found at i:128397907 original size:15 final size:15
Alignment explanation
Indices: 128397887--128397925 Score: 78
Period size: 15 Copynumber: 2.6 Consensus size: 15
128397877 CTGTTACCTG
128397887 AATGGGCTTAGGCCC
1 AATGGGCTTAGGCCC
128397902 AATGGGCTTAGGCCC
1 AATGGGCTTAGGCCC
128397917 AATGGGCTT
1 AATGGGCTT
128397926 GAGCTGACTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.21, C:0.23, G:0.33, T:0.23
Consensus pattern (15 bp):
AATGGGCTTAGGCCC
Found at i:128401945 original size:19 final size:18
Alignment explanation
Indices: 128401912--128401947 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
128401902 GTCATGTTAA
128401912 TTATTGTTGTATATCATT
1 TTATTGTTGTATATCATT
*
128401930 TTATTGATTGTTTATCAT
1 TTATTG-TTGTATATCAT
128401948 CCATGGTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.22, C:0.06, G:0.11, T:0.61
Consensus pattern (18 bp):
TTATTGTTGTATATCATT
Found at i:128405574 original size:25 final size:27
Alignment explanation
Indices: 128405537--128405589 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
128405527 TCAAACATGC
128405537 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
128405563 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
128405589 A
1 A
128405590 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:128407117 original size:26 final size:26
Alignment explanation
Indices: 128407078--128407133 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
128407068 TGAAATTCCG
*
128407078 ATCATGGAATATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
128407104 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
128407130 ATCA
1 ATCA
128407134 ATTTGTATCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.36, C:0.25, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:128407920 original size:14 final size:14
Alignment explanation
Indices: 128407901--128407928 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
128407891 GTCAAAAGTC
128407901 AAAGAATTTTATCT
1 AAAGAATTTTATCT
128407915 AAAGAATTTTATCT
1 AAAGAATTTTATCT
128407929 TATATAATAT
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:0.07, G:0.07, T:0.43
Consensus pattern (14 bp):
AAAGAATTTTATCT
Found at i:128409068 original size:10 final size:10
Alignment explanation
Indices: 128409014--128409191 Score: 62
Period size: 10 Copynumber: 17.4 Consensus size: 10
128409004 AAAAAATATG
128409014 AAAATTTATA
1 AAAATTTATA
* *
128409024 TAAATTTTTAA
1 AAAATTTAT-A
*
128409035 AAGAATTTTTAAA
1 AA-AA--TTTATA
* *
128409048 AAAAATCATA
1 AAAATTTATA
128409058 AAAATTTAT-
1 AAAATTTATA
*
128409067 -AAATGTAATA
1 AAAAT-TTATA
128409077 AAACATATT-TA
1 AAA-AT-TTATA
128409088 AAAATTTATA
1 AAAATTTATA
** *
128409098 AAAACGTATT
1 AAAATTTATA
128409108 AAAATTCTATA
1 AAAATT-TATA
*
128409119 AAAA-TCAT-
1 AAAATTTATA
*
128409127 AAAA-TAATAA
1 AAAATTTAT-A
* *
128409137 AAAATATATT
1 AAAATTTATA
*
128409147 AAAATTGATA
1 AAAATTTATA
* *
128409157 TAAACTTATA
1 AAAATTTATA
*
128409167 AAAATTATAAA
1 AAAATT-TATA
*
128409178 AAAATATATA
1 AAAATTTATA
128409188 AAAA
1 AAAA
128409192 ACTTGAATTG
Statistics
Matches: 119, Mismatches: 35, Indels: 28
0.65 0.19 0.15
Matches are distributed among these distances:
8 11 0.09
9 7 0.06
10 62 0.52
11 26 0.22
12 7 0.06
13 3 0.03
14 3 0.03
ACGTcount: A:0.61, C:0.03, G:0.02, T:0.34
Consensus pattern (10 bp):
AAAATTTATA
Found at i:128409332 original size:19 final size:19
Alignment explanation
Indices: 128409310--128409349 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
128409300 ACTGATTTTG
128409310 TTTTTTT-TTTAATATTTAA
1 TTTTTTTATTT-ATATTTAA
*
128409329 TTTTTTTATTTTTATTTAA
1 TTTTTTTATTTATATTTAA
128409348 TT
1 TT
128409350 GAATTAGACA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 16 0.84
20 3 0.16
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.78
Consensus pattern (19 bp):
TTTTTTTATTTATATTTAA
Found at i:128409748 original size:19 final size:19
Alignment explanation
Indices: 128409671--128409763 Score: 72
Period size: 19 Copynumber: 5.0 Consensus size: 19
128409661 ACTCTAATAC
128409671 ATTTTT-TA-TTTTA-AAT
1 ATTTTTATATTTTTATAAT
* *
128409687 ATTTTAAATACTTTTT-TAAA
1 ATTTT-TATA-TTTTTATAAT
128409707 ATTTTTATA-TTTTATTAGA-
1 ATTTTTATATTTTTA-TA-AT
128409726 ATTTTTATATTTTTATAAT
1 ATTTTTATATTTTTATAAT
* *
128409745 ATTTATATGTTTTTATAAT
1 ATTTTTATATTTTTATAAT
128409764 TTTAATAAGT
Statistics
Matches: 62, Mismatches: 5, Indels: 17
0.74 0.06 0.20
Matches are distributed among these distances:
16 5 0.08
17 4 0.06
18 3 0.05
19 33 0.53
20 17 0.27
ACGTcount: A:0.33, C:0.01, G:0.02, T:0.63
Consensus pattern (19 bp):
ATTTTTATATTTTTATAAT
Found at i:128409775 original size:19 final size:19
Alignment explanation
Indices: 128409735--128409790 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
128409725 AATTTTTATA
*
128409735 TTTTTATAATATTT-ATATG
1 TTTTTATAAT-TTTAATAAG
128409754 TTTTTATAATTTTAATAAG
1 TTTTTATAATTTTAATAAG
*
128409773 TTTATATCAATTTTAATA
1 TTTTTAT-AATTTTAATA
128409791 TTTTTTTATT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
18 3 0.09
19 20 0.61
20 10 0.30
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.59
Consensus pattern (19 bp):
TTTTTATAATTTTAATAAG
Found at i:128409776 original size:27 final size:27
Alignment explanation
Indices: 128409727--128409779 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
128409717 TTTATTAGAA
*
128409727 TTTTTATATTTTTATAATATTTATATG
1 TTTTTATATTTTAATAATATTTATATG
*
128409754 TTTTTATAATTTTAATAA-GTTTATAT
1 TTTTTAT-ATTTTAATAATATTTATAT
128409780 CAATTTTAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 14 0.61
28 9 0.39
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (27 bp):
TTTTTATATTTTAATAATATTTATATG
Found at i:128409777 original size:36 final size:36
Alignment explanation
Indices: 128409701--128409778 Score: 86
Period size: 36 Copynumber: 2.2 Consensus size: 36
128409691 TAAATACTTT
* * * **
128409701 TTTAAAATTTTTATATTTTATTAGAATTTTTATATT
1 TTTATAATATTTATATTTTATTAGAATTTTAATAAG
*
128409737 TTTATAATATTTATATGTTT-TTATAATTTTAATAAG
1 TTTATAATATTTATAT-TTTATTAGAATTTTAATAAG
128409773 TTTATA
1 TTTATA
128409779 TCAATTTTAA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
36 32 0.91
37 3 0.09
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.62
Consensus pattern (36 bp):
TTTATAATATTTATATTTTATTAGAATTTTAATAAG
Found at i:128422662 original size:57 final size:58
Alignment explanation
Indices: 128422564--128422679 Score: 144
Period size: 57 Copynumber: 2.0 Consensus size: 58
128422554 TTAATAGGCA
* * * * *
128422564 AAAATGGAGAAATGGGAAACATTTGGAGATGATTATGGTTTTTTCCAAAATAAAAATG
1 AAAATGGAGAAATGAGAAACATTTGGAAATGAATATAGTTTTCTCCAAAATAAAAATG
* * * *
128422622 AAAATGGAGAAAT-AGAATCATTTGGAAATTAATATAGTTTTCTCCTAAATGAAAATG
1 AAAATGGAGAAATGAGAAACATTTGGAAATGAATATAGTTTTCTCCAAAATAAAAATG
128422679 A
1 A
128422680 CCTGAGAATG
Statistics
Matches: 49, Mismatches: 9, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
57 36 0.73
58 13 0.27
ACGTcount: A:0.45, C:0.06, G:0.19, T:0.30
Consensus pattern (58 bp):
AAAATGGAGAAATGAGAAACATTTGGAAATGAATATAGTTTTCTCCAAAATAAAAATG
Found at i:128424986 original size:3 final size:3
Alignment explanation
Indices: 128424971--128425025 Score: 83
Period size: 3 Copynumber: 18.0 Consensus size: 3
128424961 TCCATGTTTT
* *
128424971 TTA TTA TTC TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA CTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
128425019 TATA TTA
1 T-TA TTA
128425026 GTATACGTTT
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
3 44 0.94
4 3 0.06
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:128425089 original size:26 final size:27
Alignment explanation
Indices: 128425060--128425115 Score: 71
Period size: 26 Copynumber: 2.1 Consensus size: 27
128425050 ATGTTGCATA
*
128425060 TATT-TATGTATAATATTATTTTTA-AT
1 TATTGTAT-TATAATATTATTATTATAT
*
128425086 TATTGTATTTTAATATTATTATTATAT
1 TATTGTATTATAATATTATTATTATAT
128425113 TAT
1 TAT
128425116 ATATACTTCT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
26 18 0.69
27 8 0.31
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.62
Consensus pattern (27 bp):
TATTGTATTATAATATTATTATTATAT
Found at i:128425107 original size:3 final size:3
Alignment explanation
Indices: 128425073--128425164 Score: 50
Period size: 3 Copynumber: 31.3 Consensus size: 3
128425063 TTATGTATAA
* * *
128425073 TAT TAT TTT TAAT TAT T-G TAT T-T TAA TAT TAT TAT TA- TAT TA-
1 TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* ** * *
128425115 TAT ATACT TCT TCG TAT T-T TAT TAT TAT TAT TAG TAT TAT TAT CAT
1 TAT -TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
128425161 TAT T
1 TAT T
128425165 CATATTAGCA
Statistics
Matches: 67, Mismatches: 14, Indels: 16
0.69 0.14 0.16
Matches are distributed among these distances:
2 9 0.13
3 52 0.78
4 5 0.07
5 1 0.01
ACGTcount: A:0.30, C:0.04, G:0.03, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:128425171 original size:9 final size:8
Alignment explanation
Indices: 128425133--128425191 Score: 50
Period size: 9 Copynumber: 7.1 Consensus size: 8
128425123 TCTTCGTATT
128425133 TTATTATTA
1 TTATTA-TA
128425142 TTATTAGTA
1 TTATTA-TA
128425151 TTATTATCA
1 TTATTAT-A
128425160 TTATTCATA
1 TTATT-ATA
**
128425169 TTAGCATA
1 TTATTATA
128425177 -TA-TATA
1 TTATTATA
128425183 TTATTATA
1 TTATTATA
128425191 T
1 T
128425192 ATATATATAC
Statistics
Matches: 42, Mismatches: 4, Indels: 9
0.76 0.07 0.16
Matches are distributed among these distances:
6 3 0.07
7 4 0.10
8 9 0.21
9 24 0.57
10 2 0.05
ACGTcount: A:0.36, C:0.05, G:0.03, T:0.56
Consensus pattern (8 bp):
TTATTATA
Found at i:128425266 original size:21 final size:21
Alignment explanation
Indices: 128425239--128425291 Score: 63
Period size: 21 Copynumber: 2.4 Consensus size: 21
128425229 CTATTATATG
128425239 TATTATTATCTTATTTATTTTCAC
1 TATTATTA--TTA-TTATTTTCAC
128425263 TATTATTATTATTATTTTCA-
1 TATTATTATTATTATTTTCAC
128425283 TCATTATTA
1 T-ATTATTA
128425292 CACGTATATG
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
20 1 0.04
21 16 0.57
22 3 0.11
24 8 0.29
ACGTcount: A:0.28, C:0.09, G:0.00, T:0.62
Consensus pattern (21 bp):
TATTATTATTATTATTTTCAC
Found at i:128425290 original size:33 final size:33
Alignment explanation
Indices: 128425223--128425287 Score: 78
Period size: 33 Copynumber: 1.9 Consensus size: 33
128425213 AGTATTATCT
* *
128425223 TTTTTACTATTATATGTATTATTATCTTATTTA
1 TTTTCACTATTATATGTATTATTATCTCATTTA
*
128425256 TTTTCACTATTATTAT-TATTATTTTCATCATT
1 TTTTCACTATTA-TATGTATTATTATC-TCATT
128425288 ATTACACGTA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
33 20 0.74
34 7 0.26
ACGTcount: A:0.26, C:0.09, G:0.02, T:0.63
Consensus pattern (33 bp):
TTTTCACTATTATATGTATTATTATCTCATTTA
Found at i:128436855 original size:12 final size:12
Alignment explanation
Indices: 128436824--128436864 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
128436814 AAGGGCATCT
*
128436824 AAAAAAAAAGCA
1 AAAAAAAAAACA
128436836 AAACAAAAAAACA
1 AAA-AAAAAAACA
*
128436849 AAAAAAAGAACA
1 AAAAAAAAAACA
128436861 AAAA
1 AAAA
128436865 GGAAGAAGAG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
12 15 0.58
13 11 0.42
ACGTcount: A:0.85, C:0.10, G:0.05, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAACA
Found at i:128437915 original size:71 final size:71
Alignment explanation
Indices: 128437816--128437949 Score: 198
Period size: 71 Copynumber: 1.9 Consensus size: 71
128437806 GTTTTCCAAG
* * *
128437816 AAAATCAGCTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGCTAAGGTAATTTCAATTTAT
128437881 GTTTCA
66 GTTTCA
* * *
128437887 AAAATCAACTCATATTGCGAGA-AGTGAGTTGAGCCTCAGGGCACGCTAAGGTATTTTCAATTT
1 AAAATCAACTCATATTGCGAGAGA-TGAGTTGAGCCTCAAGACACGCTAAGGTAATTTCAATTT
128437950 CTGCTTTTTA
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
70 1 0.02
71 55 0.98
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.30
Consensus pattern (71 bp):
AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGCTAAGGTAATTTCAATTTAT
GTTTCA
Found at i:128437989 original size:160 final size:160
Alignment explanation
Indices: 128437725--128438108 Score: 687
Period size: 160 Copynumber: 2.4 Consensus size: 160
128437715 TGTTTTTTTC
*
128437725 CAAAAATCAACCCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTT
1 CAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTT
128437790 CTGCTTTTCAACTCATGTTTTCCAAGAAAATCAGCTCATATTGCGAGAGATGAGTTGAGCCTCAA
66 CTGCTTTTCAACTCATGTTTTCCAAGAAAATCAGCTCATATTGCGAGAGATGAGTTGAGCCTCAA
128437855 GACACGTTGAGGTAATTTCAATTTATGTTT
131 GACACGTTGAGGTAATTTCAATTTATGTTT
*
128437885 CAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTAAGGTATTTTCAATTT
1 CAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTT
* * *
128437950 CTGCTTTTTAATTCATGTTTTCCAAGAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAA
66 CTGCTTTTCAACTCATGTTTTCCAAGAAAATCAGCTCATATTGCGAGAGATGAGTTGAGCCTCAA
128438015 GACACGTTGAGGTAATTTCAATTTATGTTT
131 GACACGTTGAGGTAATTTCAATTTATGTTT
* * * *
128438045 CAAAAATCAACTCATATCGCGAGAAGTGAGTTGAACCTCGGGGCACGCTGAGGTAATTTCAATT
1 CAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATT
128438109 CCTATTAAAT
Statistics
Matches: 214, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
160 214 1.00
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.31
Consensus pattern (160 bp):
CAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTT
CTGCTTTTCAACTCATGTTTTCCAAGAAAATCAGCTCATATTGCGAGAGATGAGTTGAGCCTCAA
GACACGTTGAGGTAATTTCAATTTATGTTT
Found at i:128438097 original size:71 final size:71
Alignment explanation
Indices: 128437976--128438225 Score: 279
Period size: 74 Copynumber: 3.5 Consensus size: 71
128437966 GTTTTCCAAG
* * * * *
128437976 AAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATT-TA
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGAGGCACGCTGAGGTAATTTCAATTCTA
128438040 TGTTTCA
66 T-TTTCA
* * *
128438047 AAAATCAACTCATATCGCGAGAAGTGAGTTGAACCTCGGGGCACGCTGAGGTAATTTCAATTCCT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGAGGCACGCTGAGGTAATTTCAATT-CT
* *
128438112 ATTAAATCT
65 ATT--TTCA
* * * * *
128438121 ATAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGCGGCACGCTAAGGTATTTTCAAATTCT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGAGGCACGCTGAGGTAATTTC-AATTCT
128438186 ATTTTCA
65 ATTTTCA
* *
128438193 AAAGTCAATTCATATTGCGAG-AGATGAGTTGAG
1 AAAATCAACTCATATTGCGAGAAG-TGAGTTGAG
128438226 TCTTTTTAAT
Statistics
Matches: 151, Mismatches: 22, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
71 56 0.37
72 30 0.20
73 3 0.02
74 58 0.38
75 4 0.03
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.30
Consensus pattern (71 bp):
AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGAGGCACGCTGAGGTAATTTCAATTCTA
TTTTCA
Found at i:128438390 original size:13 final size:13
Alignment explanation
Indices: 128438372--128438396 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
128438362 TGAGTTGAGC
128438372 CTTTTAATTTCTG
1 CTTTTAATTTCTG
128438385 CTTTTAATTTCT
1 CTTTTAATTTCT
128438397 ATGTTTCAAA
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:0.16, C:0.16, G:0.04, T:0.64
Consensus pattern (13 bp):
CTTTTAATTTCTG
Found at i:128438404 original size:68 final size:68
Alignment explanation
Indices: 128438276--128438440 Score: 185
Period size: 68 Copynumber: 2.4 Consensus size: 68
128438266 TTCAAAGATC
*
128438276 AACTCATATTGCGAGAGGTGAGTTGAGCCTTTAATTTTCGTTTTTCAAAATCTACTTTTCAAATT
1 AACTCATATTGCGAGAGGTGAGTTGAGCCTTTAATTTTCGCTTTTCAAAATCTACTTTTCAAATT
128438341 ATT
66 ATT
* **
128438344 AACTCATGTTGCGAGAGGTGAGTTGAGCCTTTTAA-TTTCTGCTTTT-AATTTCTA-TGTTTCAA
1 AACTCATATTGCGAGAGGTGAGTTGAGCC-TTTAATTTTC-GCTTTTCAAAATCTACT-TTTCAA
* *
128438406 A-AATC
63 ATTATT
* * **
128438411 AACCCATATGGCGAGAAATGAGTTGAGCCT
1 AACTCATATTGCGAGAGGTGAGTTGAGCCT
128438441 CAGTTCACCT
Statistics
Matches: 83, Mismatches: 11, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
66 1 0.01
67 27 0.33
68 45 0.54
69 10 0.12
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.38
Consensus pattern (68 bp):
AACTCATATTGCGAGAGGTGAGTTGAGCCTTTAATTTTCGCTTTTCAAAATCTACTTTTCAAATT
ATT
Found at i:128440229 original size:3 final size:3
Alignment explanation
Indices: 128440214--128440256 Score: 59
Period size: 3 Copynumber: 14.0 Consensus size: 3
128440204 TCCATGTTTT
* *
128440214 TTA TTA TTC TTA TTA TTA TTA TTA TTA TTA TTA CTA TATA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA
128440257 GTATACGTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
3 32 0.91
4 3 0.09
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:128440321 original size:26 final size:27
Alignment explanation
Indices: 128440292--128440347 Score: 71
Period size: 26 Copynumber: 2.1 Consensus size: 27
128440282 ATGTTACATA
*
128440292 TATT-TATGTATAATATTATTTTTA-AT
1 TATTGTAT-TATAATATTATTATTATAT
*
128440318 TATTGTATTTTAATATTATTATTATAT
1 TATTGTATTATAATATTATTATTATAT
128440345 TAT
1 TAT
128440348 ATATACTTCT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
26 18 0.69
27 8 0.31
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.62
Consensus pattern (27 bp):
TATTGTATTATAATATTATTATTATAT
Found at i:128440339 original size:3 final size:3
Alignment explanation
Indices: 128440305--128440396 Score: 50
Period size: 3 Copynumber: 31.3 Consensus size: 3
128440295 TTATGTATAA
* * *
128440305 TAT TAT TTT TAAT TAT T-G TAT T-T TAA TAT TAT TAT TA- TAT TA-
1 TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* ** * *
128440347 TAT ATACT TCT TCG TAT T-T TAT TAT TAT TAT TAG TAT TAT TAT CAT
1 TAT -TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
128440393 TAT T
1 TAT T
128440397 CATATTAGCA
Statistics
Matches: 67, Mismatches: 14, Indels: 16
0.69 0.14 0.16
Matches are distributed among these distances:
2 9 0.13
3 52 0.78
4 5 0.07
5 1 0.01
ACGTcount: A:0.30, C:0.04, G:0.03, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:128440403 original size:9 final size:8
Alignment explanation
Indices: 128440365--128440423 Score: 50
Period size: 9 Copynumber: 7.1 Consensus size: 8
128440355 TCTTCGTATT
128440365 TTATTATTA
1 TTATTA-TA
128440374 TTATTAGTA
1 TTATTA-TA
128440383 TTATTATCA
1 TTATTAT-A
128440392 TTATTCATA
1 TTATT-ATA
**
128440401 TTAGCATA
1 TTATTATA
128440409 -TA-TATA
1 TTATTATA
128440415 TTATTATA
1 TTATTATA
128440423 T
1 T
128440424 ATATATACAC
Statistics
Matches: 42, Mismatches: 4, Indels: 9
0.76 0.07 0.16
Matches are distributed among these distances:
6 3 0.07
7 4 0.10
8 9 0.21
9 24 0.57
10 2 0.05
ACGTcount: A:0.36, C:0.05, G:0.03, T:0.56
Consensus pattern (8 bp):
TTATTATA
Found at i:128440496 original size:21 final size:21
Alignment explanation
Indices: 128440469--128440521 Score: 63
Period size: 21 Copynumber: 2.4 Consensus size: 21
128440459 CTATTATATG
128440469 TATTATTATCTTATTTATTTTCAC
1 TATTATTA--TTA-TTATTTTCAC
128440493 TATTATTATTATTATTTTCA-
1 TATTATTATTATTATTTTCAC
128440513 TCATTATTA
1 T-ATTATTA
128440522 CACGTATATG
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
20 1 0.04
21 16 0.57
22 3 0.11
24 8 0.29
ACGTcount: A:0.28, C:0.09, G:0.00, T:0.62
Consensus pattern (21 bp):
TATTATTATTATTATTTTCAC
Found at i:128440520 original size:33 final size:33
Alignment explanation
Indices: 128440453--128440517 Score: 78
Period size: 33 Copynumber: 1.9 Consensus size: 33
128440443 AGTATTATCT
* *
128440453 TTTTTACTATTATATGTATTATTATCTTATTTA
1 TTTTCACTATTATATGTATTATTATCTCATTTA
*
128440486 TTTTCACTATTATTAT-TATTATTTTCATCATT
1 TTTTCACTATTA-TATGTATTATTATC-TCATT
128440518 ATTACACGTA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
33 20 0.74
34 7 0.26
ACGTcount: A:0.26, C:0.09, G:0.02, T:0.63
Consensus pattern (33 bp):
TTTTCACTATTATATGTATTATTATCTCATTTA
Found at i:128447354 original size:23 final size:23
Alignment explanation
Indices: 128447321--128447364 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
128447311 CCTTTCAAAA
*
128447321 ATGATAGAATTATATATTAATAT
1 ATGATAAAATTATATATTAATAT
* *
128447344 ATGATAAAATTTTATTTTAAT
1 ATGATAAAATTATATATTAAT
128447365 CTCTCAAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (23 bp):
ATGATAAAATTATATATTAATAT
Found at i:128448315 original size:16 final size:17
Alignment explanation
Indices: 128448282--128448315 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
128448272 ATCATTATTT
*
128448282 ATTAGATTACTTTGAAA
1 ATTAGATTACTTTAAAA
128448299 ATTA-ATTACTTTAAAA
1 ATTAGATTACTTTAAAA
128448315 A
1 A
128448316 CAAAAATTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.41
Consensus pattern (17 bp):
ATTAGATTACTTTAAAA
Found at i:128448959 original size:25 final size:20
Alignment explanation
Indices: 128448909--128448947 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
128448899 AGCTTTTTCA
128448909 TTATAAGAAAAGAAAAAAAT
1 TTATAAGAAAAGAAAAAAAT
128448929 TTATAAGAAAAGAAAAAAA
1 TTATAAGAAAAGAAAAAAA
128448948 ATTAGAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.72, C:0.00, G:0.10, T:0.18
Consensus pattern (20 bp):
TTATAAGAAAAGAAAAAAAT
Found at i:128451846 original size:20 final size:19
Alignment explanation
Indices: 128451821--128451865 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
128451811 TTAATTGTTT
*
128451821 AAAAATTCAAAAAAATGATA
1 AAAAATTCAAAAAAAT-AAA
*
128451841 AAAAATTCTAAAAAATAAA
1 AAAAATTCAAAAAAATAAA
128451860 AAAAAT
1 AAAAAT
128451866 AATTAAAATC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 8 0.35
20 15 0.65
ACGTcount: A:0.73, C:0.04, G:0.02, T:0.20
Consensus pattern (19 bp):
AAAAATTCAAAAAAATAAA
Found at i:128451941 original size:37 final size:36
Alignment explanation
Indices: 128451842--128451941 Score: 85
Period size: 37 Copynumber: 2.6 Consensus size: 36
128451832 AAAATGATAA
*
128451842 AAAATTCTAAAAAATAAAAAAAATAATTAAAATCATTTT
1 AAAATT-TTAAAAAT-AAAAAAAT-ATTAAAATCATTTT
* * * **
128451881 AAAATTTTTGTAAAA-AAACAAATATTATAATTTTTTT
1 AAAA-TTTT-AAAAATAAAAAAATATTAAAATCATTTT
128451918 AAAATTTTAAAAATATAAAAAATA
1 AAAATTTTAAAAATA-AAAAAATA
128451942 CATTTTTATT
Statistics
Matches: 49, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
35 4 0.08
36 5 0.10
37 22 0.45
38 7 0.14
39 5 0.10
40 6 0.12
ACGTcount: A:0.60, C:0.03, G:0.01, T:0.36
Consensus pattern (36 bp):
AAAATTTTAAAAATAAAAAAATATTAAAATCATTTT
Found at i:128456471 original size:20 final size:20
Alignment explanation
Indices: 128456449--128456485 Score: 60
Period size: 18 Copynumber: 1.9 Consensus size: 20
128456439 TTTAGTATAT
128456449 TTTTTTAAT--TTTATTTAA
1 TTTTTTAATAATTTATTTAA
128456467 TTTTTTAATAATTTATTTA
1 TTTTTTAATAATTTATTTA
128456486 GCTAAAATCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.53
20 8 0.47
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (20 bp):
TTTTTTAATAATTTATTTAA
Found at i:128456478 original size:21 final size:18
Alignment explanation
Indices: 128456447--128456485 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 18
128456437 TTTTTAGTAT
128456447 ATTTTTTTAATTTTATTTA
1 ATTTTTTTAA-TTTATTTA
128456466 ATTTTTTAATAATTTATTTA
1 ATTTTTT--TAATTTATTTA
128456486 GCTAAAATCT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.39
20 8 0.44
21 3 0.17
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (18 bp):
ATTTTTTTAATTTATTTA
Found at i:128462315 original size:17 final size:18
Alignment explanation
Indices: 128462293--128462326 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
128462283 AGTCGAATTG
128462293 AAATTGCG-AAATTAAAT
1 AAATTGCGAAAATTAAAT
128462310 AAATTGCGAAAATTAAA
1 AAATTGCGAAAATTAAA
128462327 ATGGAGAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.56, C:0.06, G:0.12, T:0.26
Consensus pattern (18 bp):
AAATTGCGAAAATTAAAT
Found at i:128463072 original size:10 final size:10
Alignment explanation
Indices: 128463053--128463102 Score: 66
Period size: 10 Copynumber: 5.0 Consensus size: 10
128463043 TTAAAATTTA
128463053 AAAGATAAAT
1 AAAGATAAAT
128463063 ACAA-ATAAAT
1 A-AAGATAAAT
*
128463073 AAAGATAATT
1 AAAGATAAAT
128463083 AAAGATAAAT
1 AAAGATAAAT
*
128463093 AAAAATAAAT
1 AAAGATAAAT
128463103 CCTAAATTTA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
9 2 0.06
10 31 0.89
11 2 0.06
ACGTcount: A:0.70, C:0.02, G:0.06, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Done.