Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
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: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 246 of 279
Found at i:80094012 original size:15 final size:17
Alignment explanation
Indices: 80093982--80094013 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
80093972 TTGATACTTG
80093982 TGAATGTGAGTTTGGTA
1 TGAATGTGAGTTTGGTA
80093999 TGAAT-TGA-TTTGGTA
1 TGAATGTGAGTTTGGTA
80094014 AAATTATGCT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.25, C:0.00, G:0.31, T:0.44
Consensus pattern (17 bp):
TGAATGTGAGTTTGGTA
Found at i:80095721 original size:17 final size:17
Alignment explanation
Indices: 80095675--80095721 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
80095665 TTTTTATCAT
*
80095675 TTATCATTTGTCGGGCA
1 TTATCATTTATCGGGCA
* *
80095692 TTATAATTGATCGGGCA
1 TTATCATTTATCGGGCA
80095709 CTT-TCATTTATCG
1 -TTATCATTTATCG
80095722 AGCTTTAGTG
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
17 22 0.92
18 2 0.08
ACGTcount: A:0.21, C:0.17, G:0.19, T:0.43
Consensus pattern (17 bp):
TTATCATTTATCGGGCA
Found at i:80095833 original size:21 final size:21
Alignment explanation
Indices: 80095809--80095853 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
80095799 TAAAAACATA
*
80095809 TACAATTTAGTTACACGAACT
1 TACAATTTAGTTACAAGAACT
80095830 TACAATTTAGTTACAAGAACT
1 TACAATTTAGTTACAAGAACT
80095851 TAC
1 TAC
80095854 CTCGACAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.40, C:0.18, G:0.09, T:0.33
Consensus pattern (21 bp):
TACAATTTAGTTACAAGAACT
Found at i:80099226 original size:32 final size:32
Alignment explanation
Indices: 80099188--80099255 Score: 136
Period size: 32 Copynumber: 2.1 Consensus size: 32
80099178 AATCCAAAAC
80099188 ATGTTAAAAGATTCAACCTAAATGCCTAACCA
1 ATGTTAAAAGATTCAACCTAAATGCCTAACCA
80099220 ATGTTAAAAGATTCAACCTAAATGCCTAACCA
1 ATGTTAAAAGATTCAACCTAAATGCCTAACCA
80099252 ATGT
1 ATGT
80099256 GCCCTTATTC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.43, C:0.21, G:0.10, T:0.26
Consensus pattern (32 bp):
ATGTTAAAAGATTCAACCTAAATGCCTAACCA
Found at i:80101254 original size:31 final size:31
Alignment explanation
Indices: 80101211--80101356 Score: 240
Period size: 31 Copynumber: 4.7 Consensus size: 31
80101201 TTAGTCTTGA
*
80101211 CATAT-ACTGGGCCGAAGCCTTTCCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
80101241 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
*
80101272 CATATCACTGGGCTGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
* *
80101303 CATATCACTAGGCCGAAACCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
*
80101334 CATATCACTGGGACGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
80101357 ACTGTAAACG
Statistics
Matches: 107, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
30 5 0.05
31 102 0.95
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATAAAT
Found at i:80101598 original size:25 final size:25
Alignment explanation
Indices: 80101577--80101646 Score: 122
Period size: 25 Copynumber: 2.8 Consensus size: 25
80101567 CTCTTTGAAT
80101577 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTTGATA
* *
80101602 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTTGATA
80101627 AACTGGGGCAAAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
80101647 AGCACTTCCT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 43 1.00
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTTGATA
Found at i:80101903 original size:27 final size:27
Alignment explanation
Indices: 80101863--80101983 Score: 179
Period size: 27 Copynumber: 4.5 Consensus size: 27
80101853 TAATTTTACC
* *
80101863 CAAGGGTATCTCGGTATTTCTACCCTA
1 CAAGGGTATTTCGGTAATTCTACCCTA
*
80101890 CAACGGTATTTCGGTAATTCTACCCTA
1 CAAGGGTATTTCGGTAATTCTACCCTA
* *
80101917 CAGGGGTATTTCAGTAATTCTACCCTA
1 CAAGGGTATTTCGGTAATTCTACCCTA
* *
80101944 TAGGGGTATTTCGGTAATTCTACCCTA
1 CAAGGGTATTTCGGTAATTCTACCCTA
80101971 CAAGGGTATTTCG
1 CAAGGGTATTTCG
80101984 ATATTTTAAA
Statistics
Matches: 84, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 84 1.00
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.34
Consensus pattern (27 bp):
CAAGGGTATTTCGGTAATTCTACCCTA
Found at i:80102032 original size:27 final size:26
Alignment explanation
Indices: 80102000--80102069 Score: 86
Period size: 26 Copynumber: 2.6 Consensus size: 26
80101990 TAAAAATTGA
* *
80102000 GAGTATTTCGATAATTTCACAAATCAG
1 GAGTATTTTG-TAATTTCACAAACCAG
* *
80102027 GGGTATTTTGTAATTTTACAAACCAG
1 GAGTATTTTGTAATTTCACAAACCAG
80102053 GAGTATTTTGGTAATTT
1 GAGTATTTT-GTAATTT
80102070 TACTGATCGA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 22 0.59
27 15 0.41
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.40
Consensus pattern (26 bp):
GAGTATTTTGTAATTTCACAAACCAG
Found at i:80102047 original size:26 final size:27
Alignment explanation
Indices: 80102002--80102097 Score: 106
Period size: 27 Copynumber: 3.6 Consensus size: 27
80101992 AAAATTGAGA
* * *
80102002 GTATTTCGATAATTTCACAAATCAGGG
1 GTATTTTGGTAATTTTACAAATCAGGG
* *
80102029 GTATTTT-GTAATTTTACAAACCAGGA
1 GTATTTTGGTAATTTTACAAATCAGGG
**
80102055 GTATTTTGGTAATTTTACTGATC-GAGG
1 GTATTTTGGTAATTTTACAAATCAG-GG
80102082 GTATTTTGGTAATTTT
1 GTATTTTGGTAATTTT
80102098 GTAAACCAAT
Statistics
Matches: 58, Mismatches: 9, Indels: 4
0.82 0.13 0.06
Matches are distributed among these distances:
26 23 0.40
27 35 0.60
ACGTcount: A:0.28, C:0.09, G:0.20, T:0.43
Consensus pattern (27 bp):
GTATTTTGGTAATTTTACAAATCAGGG
Found at i:80102085 original size:27 final size:26
Alignment explanation
Indices: 80102002--80102124 Score: 95
Period size: 27 Copynumber: 4.6 Consensus size: 26
80101992 AAAATTGAGA
* * * *
80102002 GTATTTCGATAATTTCACAAATCAGGG
1 GTATTTTGGTAATTTTACAAACCA-GG
80102029 GTATTTT-GTAATTTTACAAACCAGG
1 GTATTTTGGTAATTTTACAAACCAGG
* * *
80102054 AGTATTTTGGTAATTTTACTGATCGAGG
1 -GTATTTTGGTAATTTTAC-AAACCAGG
** *
80102082 GTATTTTGGTAATTTTGTAAACCAATG
1 GTATTTTGGTAATTTTACAAACC-AGG
**
80102109 GTATTTCAGTAATTTT
1 GTATTTTGGTAATTTT
80102125 GTAAATCAAG
Statistics
Matches: 77, Mismatches: 15, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
25 2 0.03
26 22 0.29
27 48 0.62
28 5 0.06
ACGTcount: A:0.29, C:0.10, G:0.19, T:0.42
Consensus pattern (26 bp):
GTATTTTGGTAATTTTACAAACCAGG
Found at i:80102125 original size:27 final size:27
Alignment explanation
Indices: 80102079--80102138 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
80102069 TTACTGATCG
**
80102079 AGGGTATTTTGGTAATTTTGTAAACCA
1 AGGGTATTTCAGTAATTTTGTAAACCA
* *
80102106 ATGGTATTTCAGTAATTTTGTAAATCA
1 AGGGTATTTCAGTAATTTTGTAAACCA
80102133 AGGGTA
1 AGGGTA
80102139 AAATGGTAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.32, C:0.07, G:0.22, T:0.40
Consensus pattern (27 bp):
AGGGTATTTCAGTAATTTTGTAAACCA
Found at i:80102147 original size:27 final size:27
Alignment explanation
Indices: 80102117--80102295 Score: 259
Period size: 27 Copynumber: 6.6 Consensus size: 27
80102107 TGGTATTTCA
* *
80102117 GTAATTTTGTAAATCAAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATG
*
80102144 GTAATTCTGTAAATTGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATG
* * **
80102171 ATAATTCTGTAAATCGAGGGTGAAACA
1 GTAATTCTGTAAATCGAGGGTAAAATG
*
80102198 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATG
* *
80102225 GTAATTCTATAAATCGAGAGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATG
*
80102252 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAATG
80102279 GTAATTCTGTAAATCGA
1 GTAATTCTGTAAATCGA
80102296 TTGTACTTTG
Statistics
Matches: 135, Mismatches: 17, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 135 1.00
ACGTcount: A:0.40, C:0.08, G:0.22, T:0.30
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAATG
Found at i:80104519 original size:31 final size:31
Alignment explanation
Indices: 80104481--80104561 Score: 162
Period size: 31 Copynumber: 2.6 Consensus size: 31
80104471 TTTAACGGTT
80104481 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
80104512 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
80104543 ACTGGGCCGAAGCCTTTTC
1 ACTGGGCCGAAGCCTTTTC
80104562 TGTAAACGGT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 50 1.00
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCATATC
Found at i:80104812 original size:25 final size:25
Alignment explanation
Indices: 80104780--80104833 Score: 90
Period size: 25 Copynumber: 2.2 Consensus size: 25
80104770 CTCTGTTAAT
*
80104780 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
80104805 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
80104830 AACT
1 AACT
80104834 AAACAATCAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:80105017 original size:27 final size:27
Alignment explanation
Indices: 80104973--80105204 Score: 281
Period size: 27 Copynumber: 8.6 Consensus size: 27
80104963 TAATTTTACC
* *
80104973 CAAGGGTATCTCGGTAATTCTACCCTA
1 CAAGGGTATTTCGATAATTCTACCCTA
80105000 CAAGGGTATTTCGATAATTCTACCCTA
1 CAAGGGTATTTCGATAATTCTACCCTA
*
80105027 CAGGGGTATTTC-AGTAATTCTACCCTA
1 CAAGGGTATTTCGA-TAATTCTACCCTA
* * *
80105054 TAGGGGTATTTCGGTAATTCTACCCTA
1 CAAGGGTATTTCGATAATTCTACCCTA
*
80105081 CAAGGTTATTTC-AGTAATTCTACCCTA
1 CAAGGGTATTTCGA-TAATTCTACCCTA
* * *
80105108 TAGGGGTATTTCGGTAATTCTACCCTA
1 CAAGGGTATTTCGATAATTCTACCCTA
* *
80105135 CAAGGTTATTTC-AGTAATTTTACCCTA
1 CAAGGGTATTTCGA-TAATTCTACCCTA
* *
80105162 CAGGGGTATTTCGGTAATTCTACCCTA
1 CAAGGGTATTTCGATAATTCTACCCTA
*
80105189 CAAGGGTATTTTGATA
1 CAAGGGTATTTCGATA
80105205 TTTTACAAAT
Statistics
Matches: 174, Mismatches: 25, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
26 1 0.01
27 173 0.99
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.35
Consensus pattern (27 bp):
CAAGGGTATTTCGATAATTCTACCCTA
Found at i:80105044 original size:54 final size:54
Alignment explanation
Indices: 80104973--80105199 Score: 364
Period size: 54 Copynumber: 4.2 Consensus size: 54
80104963 TAATTTTACC
* * * *
80104973 CAAGGGTATCTCGGTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTA
1 CAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTA
* *
80105027 CAGGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTCGGTAATTCTACCCTA
1 CAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTA
* *
80105081 CAAGGTTATTTCAGTAATTCTACCCTATAGGGGTATTTCGGTAATTCTACCCTA
1 CAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTA
* *
80105135 CAAGGTTATTTCAGTAATTTTACCCTACAGGGGTATTTCGGTAATTCTACCCTA
1 CAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTA
80105189 CAAGGGTATTT
1 CAAGGGTATTT
80105200 TGATATTTTA
Statistics
Matches: 162, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 162 1.00
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.35
Consensus pattern (54 bp):
CAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTA
Found at i:80105075 original size:81 final size:81
Alignment explanation
Indices: 80104973--80105199 Score: 330
Period size: 81 Copynumber: 2.8 Consensus size: 81
80104963 TAATTTTACC
*
80104973 CAAGGGTATCTCGGTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTT
1 CAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTT
80105038 CAGTAATTCTACCCTA
66 CAGTAATTCTACCCTA
* * * *
80105054 TAGGGGTATTTCGGTAATTCTACCCTACAAGGTTATTTC-AGTAATTCTACCCTATAGGGGTATT
1 CAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCGA-TAATTCTACCCTACAGGGGTATT
*
80105118 TCGGTAATTCTACCCTA
65 TCAGTAATTCTACCCTA
* * * * * *
80105135 CAAGGTTATTTCAGTAATTTTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAAGGGTATTT
1 CAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTT
80105200 TGATATTTTA
Statistics
Matches: 128, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
80 1 0.01
81 127 0.99
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.35
Consensus pattern (81 bp):
CAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTT
CAGTAATTCTACCCTA
Found at i:80105250 original size:27 final size:27
Alignment explanation
Indices: 80105220--80105369 Score: 169
Period size: 27 Copynumber: 5.6 Consensus size: 27
80105210 CAAATTGAGA
* * * *
80105220 GTATTTCGATAATTTCACAAATCAGGG
1 GTATTTTGGTAATTTTACAAACCAGGG
*
80105247 GTATTTTGGTAATTTTACAAGCCAGGG
1 GTATTTTGGTAATTTTACAAACCAGGG
*
80105274 GTA-TTTGGTAATTTTACAAGCCAGGG
1 GTATTTTGGTAATTTTACAAACCAGGG
* *
80105300 GTATTTTGGTAATTTTACTAATC-GAGG
1 GTATTTTGGTAATTTTACAAACCAG-GG
** *
80105327 GTATTTTGGTAATTTTGTAAACCAAGG
1 GTATTTTGGTAATTTTACAAACCAGGG
*
80105354 GTATTTTAGTAATTTT
1 GTATTTTGGTAATTTT
80105370 GTAAATTGAA
Statistics
Matches: 106, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
26 27 0.25
27 79 0.75
ACGTcount: A:0.28, C:0.09, G:0.22, T:0.41
Consensus pattern (27 bp):
GTATTTTGGTAATTTTACAAACCAGGG
Found at i:80105287 original size:26 final size:27
Alignment explanation
Indices: 80105242--80105369 Score: 170
Period size: 27 Copynumber: 4.8 Consensus size: 27
80105232 TTTCACAAAT
80105242 CAGGGGTATTTTGGTAATTTTACAAGC
1 CAGGGGTATTTTGGTAATTTTACAAGC
80105269 CAGGGGTA-TTTGGTAATTTTACAAGC
1 CAGGGGTATTTTGGTAATTTTACAAGC
*
80105295 CAGGGGTATTTTGGTAATTTTACTAATC
1 CAGGGGTATTTTGGTAATTTTAC-AAGC
* ** *
80105323 GA-GGGTATTTTGGTAATTTTGTAAAC
1 CAGGGGTATTTTGGTAATTTTACAAGC
* *
80105349 CAAGGGTATTTTAGTAATTTT
1 CAGGGGTATTTTGGTAATTTT
80105370 GTAAATTGAA
Statistics
Matches: 91, Mismatches: 7, Indels: 6
0.88 0.07 0.06
Matches are distributed among these distances:
26 30 0.33
27 57 0.63
28 4 0.04
ACGTcount: A:0.27, C:0.09, G:0.24, T:0.41
Consensus pattern (27 bp):
CAGGGGTATTTTGGTAATTTTACAAGC
Found at i:80105304 original size:80 final size:81
Alignment explanation
Indices: 80105220--80105369 Score: 196
Period size: 80 Copynumber: 1.9 Consensus size: 81
80105210 CAAATTGAGA
* * *
80105220 GTATTTCGATAATTTCACAAATC-AGGGGTATTTTGGTAATTTTACAAGCCAGGGGTA-TTTGGT
1 GTATTTCGATAATTTCACAAATCGA-GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGT
80105283 AATTTTACAAGCCAGGG
65 AATTTTACAAGCCAGGG
* * * * **
80105300 GTATTTTGGTAATTTTACTAATCGAGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTAGTA
1 GTATTTCGATAATTTCACAAATCGAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTA
80105365 ATTTT
66 ATTTT
80105370 GTAAATTGAA
Statistics
Matches: 59, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
80 47 0.80
81 12 0.20
ACGTcount: A:0.28, C:0.09, G:0.22, T:0.41
Consensus pattern (81 bp):
GTATTTCGATAATTTCACAAATCGAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTA
ATTTTACAAGCCAGGG
Found at i:80105383 original size:27 final size:27
Alignment explanation
Indices: 80105299--80105410 Score: 93
Period size: 27 Copynumber: 4.1 Consensus size: 27
80105289 ACAAGCCAGG
* *
80105299 GGTATTTTGGTAATTTTACT-AATCGAG
1 GGTATTTTGGTAATTTT-GTAAATCGAA
*
80105326 GGTATTTTGGTAATTTTGTAAA-CCAA
1 GGTATTTTGGTAATTTTGTAAATCGAA
* *
80105352 GGGTATTTTAGTAATTTTGTAAATTGAA
1 -GGTATTTTGGTAATTTTGTAAATCGAA
**** * *
80105380 GGTAAAACGGTAATTCTGTAAATCGAG
1 GGTATTTTGGTAATTTTGTAAATCGAA
80105407 GGTA
1 GGTA
80105411 AAACAGTAAT
Statistics
Matches: 68, Mismatches: 14, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
26 3 0.04
27 63 0.93
28 2 0.03
ACGTcount: A:0.31, C:0.06, G:0.23, T:0.39
Consensus pattern (27 bp):
GGTATTTTGGTAATTTTGTAAATCGAA
Found at i:80105411 original size:27 final size:27
Alignment explanation
Indices: 80105362--80105594 Score: 270
Period size: 27 Copynumber: 8.7 Consensus size: 27
80105352 GGGTATTTTA
* * * *
80105362 GTAATTTTGTAAATTGAAGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
* *
80105389 GTAATTCTGTAAATCGAGGGTAAAACA
1 GTAATTCTATAAATCGAGGGTAAAACG
* *
80105416 GTAATTCTTTAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAACG
*
80105443 GTAATTCTATAAATCGA-GGTAAAACA
1 GTAATTCTATAAATCGAGGGTAAAACG
* * * * *
80105469 ATAATTTTGTAAATCGAGGGTGAGACG
1 GTAATTCTATAAATCGAGGGTAAAACG
*
80105496 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAACG
* * *
80105523 GTAATTTTATAAATCGAAGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAACG
*
80105550 GTAATTCTTTAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
* *
80105577 ATAATTTTATAAATCGAG
1 GTAATTCTATAAATCGAG
80105595 AGTACTTTGG
Statistics
Matches: 174, Mismatches: 31, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
26 21 0.12
27 153 0.88
ACGTcount: A:0.40, C:0.08, G:0.21, T:0.31
Consensus pattern (27 bp):
GTAATTCTATAAATCGAGGGTAAAACG
Found at i:80105419 original size:54 final size:54
Alignment explanation
Indices: 80105361--80105593 Score: 301
Period size: 54 Copynumber: 4.3 Consensus size: 54
80105351 AGGGTATTTT
* * *
80105361 AGTAATTTTGTAAATTGAAGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTTTATAAATCGAAGGTAAAACGGTAATTCTATAAATCGAGGGTAAAAC
* *
80105415 AGTAATTCTT-TAAATCGAGGGTAAAATGGTAATTCTATAAATCGA-GGTAAAAC
1 AGTAATT-TTATAAATCGAAGGTAAAACGGTAATTCTATAAATCGAGGGTAAAAC
* * * * * *
80105468 AATAATTTTGTAAATCGAGGGTGAGACGGTAATTCTATAAATCGAGGGTAAAAT
1 AGTAATTTTATAAATCGAAGGTAAAACGGTAATTCTATAAATCGAGGGTAAAAC
* * *
80105522 GGTAATTTTATAAATCGAAGGTAAAATGGTAATTCTTTAAATCGAGGGTAAAAC
1 AGTAATTTTATAAATCGAAGGTAAAACGGTAATTCTATAAATCGAGGGTAAAAC
80105576 -GATAATTTTATAAATCGA
1 AG-TAATTTTATAAATCGA
80105594 GAGTACTTTG
Statistics
Matches: 157, Mismatches: 18, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
52 2 0.01
53 47 0.30
54 106 0.68
55 2 0.01
ACGTcount: A:0.41, C:0.08, G:0.21, T:0.31
Consensus pattern (54 bp):
AGTAATTTTATAAATCGAAGGTAAAACGGTAATTCTATAAATCGAGGGTAAAAC
Found at i:80105474 original size:134 final size:134
Alignment explanation
Indices: 80105336--80105594 Score: 331
Period size: 134 Copynumber: 1.9 Consensus size: 134
80105326 GGTATTTTGG
*** * * * *
80105336 TAATTTTGTAAACCAAGGGT-ATTTTAGTAATTTTGTAAATTGAAGGTAAAACGGTAATTCTGTA
1 TAATTTTGTAAACCAAGGGTGA-GACAGTAATTCTATAAATCGAAGGTAAAACGGTAATTCTATA
* * *
80105400 AATCGAGGGTAAAACAGTAATTCTTTAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGTAA
65 AATCGAAGGTAAAACAGTAATTCTTTAAATCGAGGGTAAAACGATAATTCTATAAATCGAGGTAA
80105465 AACAA
130 AACAA
* * * * * *
80105470 TAATTTTGTAAATCGAGGGTGAGACGGTAATTCTATAAATCGAGGGTAAAATGGTAATTTTATAA
1 TAATTTTGTAAACCAAGGGTGAGACAGTAATTCTATAAATCGAAGGTAAAACGGTAATTCTATAA
** *
80105535 ATCGAAGGTAAAATGGTAATTCTTTAAATCGAGGGTAAAACGATAATTTTATAAATCGAG
66 ATCGAAGGTAAAACAGTAATTCTTTAAATCGAGGGTAAAACGATAATTCTATAAATCGAG
80105595 AGTACTTTGG
Statistics
Matches: 105, Mismatches: 19, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
134 104 0.99
135 1 0.01
ACGTcount: A:0.40, C:0.08, G:0.20, T:0.32
Consensus pattern (134 bp):
TAATTTTGTAAACCAAGGGTGAGACAGTAATTCTATAAATCGAAGGTAAAACGGTAATTCTATAA
ATCGAAGGTAAAACAGTAATTCTTTAAATCGAGGGTAAAACGATAATTCTATAAATCGAGGTAAA
ACAA
Found at i:80105510 original size:107 final size:108
Alignment explanation
Indices: 80105363--80105594 Score: 342
Period size: 107 Copynumber: 2.2 Consensus size: 108
80105353 GGTATTTTAG
* * *
80105363 TAATTTTGTAAATTGAAGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTT-TA
1 TAATTTTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATT-TTATA
*
80105427 AATCGAGGGTAAAATGGTAATTCTATAAATCGA-GGTAAAACAA
65 AATCGAAGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACAA
* * **
80105470 TAATTTTGTAAATCGAGGGTGAGACGGTAATTCTATAAATCGAGGGTAAAATGGTAATTTTATAA
1 TAATTTTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATTTTATAA
* *
80105535 ATCGAAGGTAAAATGGTAATTCTTTAAATCGAGGGTAAAACGA
66 ATCGAAGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACAA
*
80105578 TAATTTTATAAATCGAG
1 TAATTTTGTAAATCGAG
80105595 AGTACTTTGG
Statistics
Matches: 112, Mismatches: 11, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
106 2 0.02
107 85 0.76
108 25 0.22
ACGTcount: A:0.41, C:0.08, G:0.21, T:0.31
Consensus pattern (108 bp):
TAATTTTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATTTTATAA
ATCGAAGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACAA
Found at i:80105636 original size:81 final size:81
Alignment explanation
Indices: 80105362--80105623 Score: 268
Period size: 81 Copynumber: 3.2 Consensus size: 81
80105352 GGGTATTTTA
* * * *
80105362 GTAATTTTGTAAATTGAAGGTAAAA-CGGTAATTCTGTAAATCGAGGGTAAAAC-AGTAATTCTT
1 GTAATTTTATAAATCGAAGG-AAAATCAGTAATTCTTTAAATCGAGGGTAAAACGA-TAATT-TT
80105425 -TAAATCGAGGGTAAAATG
63 ATAAATCGAGGGTAAAATG
* * * * * *
80105443 GTAATTCTATAAATCG-AGGTAAAA-CAATAATT-TTGTAAATCGAGGGTGAGACGGTAATTCTA
1 GTAATTTTATAAATCGAAGG-AAAATCAGTAATTCTT-TAAATCGAGGGTAAAACGATAATTTTA
80105505 TAAATCGAGGGTAAAATG
64 TAAATCGAGGGTAAAATG
*
80105523 GTAATTTTATAAATCGAAGGTAAAAT-GGTAATTCTTTAAATCGAGGGTAAAACGATAATTTTAT
1 GTAATTTTATAAATCGAAGG-AAAATCAGTAATTCTTTAAATCGAGGGTAAAACGATAATTTTAT
* ***
80105587 AAATCGAGAGTACTTTG
65 AAATCGAGGGTAAAATG
* *
80105604 GTAATTTTACAAATTGAAGG
1 GTAATTTTATAAATCGAAGG
80105624 CATTTCAGTA
Statistics
Matches: 152, Mismatches: 23, Indels: 12
0.81 0.12 0.06
Matches are distributed among these distances:
79 2 0.01
80 67 0.44
81 81 0.53
82 2 0.01
ACGTcount: A:0.40, C:0.08, G:0.21, T:0.32
Consensus pattern (81 bp):
GTAATTTTATAAATCGAAGGAAAATCAGTAATTCTTTAAATCGAGGGTAAAACGATAATTTTATA
AATCGAGGGTAAAATG
Found at i:80107703 original size:55 final size:54
Alignment explanation
Indices: 80107616--80107869 Score: 235
Period size: 55 Copynumber: 4.8 Consensus size: 54
80107606 ATTAGGGTTT
*
80107616 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAAGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAA-GTTTCTAAAGC
* * *
80107671 AAGGATACCATGTAAGACCATGTCAAGACATGGC-ATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTA-AA-GC
* * * *
80107726 AA--ATGTCTCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGAG-TTCATAAGGC
1 AAGGAT-AC-CATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTC-TAAAGC
* * * *
80107779 AA-GATATCATGTAAGACCATGTCGAGACATGACAA-TGGTAAGTTTC--AA--
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAAGC
* * *
80107827 AAGGATGCCATGTAAGACCATGACAAGTCATGGCAA-TGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAG
80107870 GTACCCGTGT
Statistics
Matches: 165, Mismatches: 25, Indels: 24
0.77 0.12 0.11
Matches are distributed among these distances:
48 2 0.01
49 34 0.21
50 1 0.01
52 28 0.17
53 16 0.10
54 15 0.09
55 69 0.42
ACGTcount: A:0.36, C:0.17, G:0.24, T:0.23
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAAGC
Found at i:80107821 original size:107 final size:103
Alignment explanation
Indices: 80107616--80107871 Score: 302
Period size: 107 Copynumber: 2.4 Consensus size: 103
80107606 ATTAGGGTTT
*
80107616 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAAGCAAGGATACCA
1 AAGGATGCCATGTAAGACCATGCCAAGGCATGGC-ATTGGTAAGGTTTCTAAAGCAAGGATACCA
* * *
80107681 TGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTAT
65 TGTAAGACCATGTCAAGACATGACAATGATAAGTTAC-AA
* *
80107721 AAGGCAAATGTCTCATGTAAGACCATGCCAAGGCATGGCATTGGTGA-G-TTCATAAGGCAA-GA
1 AAGG---ATG-C-CATGTAAGACCATGCCAAGGCATGGCATTGGTAAGGTTTC-TAAAGCAAGGA
* * * *
80107783 TATCATGTAAGACCATGTCGAGACATGACAATGGTAAGTTTCAA
60 TACCATGTAAGACCATGTCAAGACATGACAATGATAAGTTACAA
* * *
80107827 AAGGATGCCATGTAAGACCATGACAAGTCATGGCAATGGTAAGGT
1 AAGGATGCCATGTAAGACCATGCCAAGGCATGGCATTGGTAAGGT
80107872 ACCCGTGTAT
Statistics
Matches: 129, Mismatches: 14, Indels: 18
0.80 0.09 0.11
Matches are distributed among these distances:
101 30 0.23
102 2 0.02
103 3 0.02
105 4 0.03
106 5 0.04
107 41 0.32
108 10 0.08
109 8 0.06
110 26 0.20
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.23
Consensus pattern (103 bp):
AAGGATGCCATGTAAGACCATGCCAAGGCATGGCATTGGTAAGGTTTCTAAAGCAAGGATACCAT
GTAAGACCATGTCAAGACATGACAATGATAAGTTACAA
Found at i:80110037 original size:79 final size:78
Alignment explanation
Indices: 80109935--80110157 Score: 265
Period size: 79 Copynumber: 2.8 Consensus size: 78
80109925 GCTCCTCGTT
* *
80109935 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGG-TATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
80110000 ATTTAGTAACTCGCA
64 AATTAGTAACTCGCA
*
80110015 CAAATGCCTTCGGGCTTAGCCCGGAATTAGT-ATCTCGCACAAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGCTTAGCCCGGTA-TAGTAAT-TCGCACAAATGCCTTCGGGACTTAGCCCGG
*
80110078 AATTAGTATCTCGCA
64 AATTAGTAACTCGCA
* * * * *
80110093 CAAATGCCTTCGGATCTTAGTCCGGATATTGTCACTTAGCAC-AA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGG-TATAGT-AATTCGCACAAATGCCTTCGGGACTTAGCCCG
80110156 GA
63 GA
80110158 CATCATTCAA
Statistics
Matches: 125, Mismatches: 11, Indels: 15
0.83 0.07 0.10
Matches are distributed among these distances:
78 47 0.38
79 57 0.46
80 20 0.16
81 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (78 bp):
CAAATGCCTTCGGGCTTAGCCCGGTATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGGAA
TTAGTAACTCGCA
Found at i:80110052 original size:39 final size:40
Alignment explanation
Indices: 80109935--80110157 Score: 266
Period size: 39 Copynumber: 5.7 Consensus size: 40
80109925 GCTCCTCGTT
* *
80109935 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
80109975 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
80110015 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
80110054 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
80110093 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
80110134 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
80110158 CATCATTCAA
Statistics
Matches: 166, Mismatches: 9, Indels: 17
0.86 0.05 0.09
Matches are distributed among these distances:
38 2 0.01
39 89 0.54
40 64 0.39
41 11 0.07
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:80119155 original size:22 final size:20
Alignment explanation
Indices: 80119096--80119156 Score: 52
Period size: 22 Copynumber: 2.9 Consensus size: 20
80119086 TTGTCGTTTA
* *
80119096 CTACTTTTTTATGTTGTTTG
1 CTACTATTTTATGTTATTTG
*
80119116 CT-CTCATTTTACTATTATATTG
1 CTACT-ATTTTA-TGTTAT-TTG
80119138 CTACTATTTTATTGTTATT
1 CTACTATTTTA-TGTTATT
80119157 GTTTGGATAT
Statistics
Matches: 32, Mismatches: 5, Indels: 7
0.73 0.11 0.16
Matches are distributed among these distances:
19 2 0.06
20 7 0.22
21 5 0.16
22 16 0.50
23 2 0.06
ACGTcount: A:0.18, C:0.13, G:0.08, T:0.61
Consensus pattern (20 bp):
CTACTATTTTATGTTATTTG
Found at i:80119353 original size:213 final size:213
Alignment explanation
Indices: 80118986--80119412 Score: 836
Period size: 213 Copynumber: 2.0 Consensus size: 213
80118976 ATATAGGTCC
80118986 AAAAAATAGGTCTGGACACAAAAATAAAGCCCATTTTCTAAACTGGTCGGGCCTCAGGTAAGATT
1 AAAAAATAGGTCTGGACACAAAAATAAAGCCCATTTTCTAAACTGGTCGGGCCTCAGGTAAGATT
80119051 TTTTGGCCTTGCCCAAATTTGCCTAAATTTTTTCATTGTCGTTTACTACTTTTTTATGTTGTTTG
66 TTTTGGCCTTGCCCAAATTTGCCTAAATTTTTTCATTGTCGTTTACTACTTTTTTATGTTGTTTG
80119116 CTCTCATTTTACTATTATATTGCTACTATTTTATTGTTATTGTTTGGATATTGTATAACTATTGT
131 CTCTCATTTTACTATTATATTGCTACTATTTTATTGTTATTGTTTGGATATTGTATAACTATTGT
80119181 TTTATTATTAATTTTGCT
196 TTTATTATTAATTTTGCT
80119199 AAAAAATAGGTCTGGACACAAAAATAAAGCCCATTTTCTAAACTGGTCGGGCCTCAGGTAAGATT
1 AAAAAATAGGTCTGGACACAAAAATAAAGCCCATTTTCTAAACTGGTCGGGCCTCAGGTAAGATT
80119264 TTTTGGCCTTGCCCAAATTTGCCTAAATTTTTTCATTGTCGTTTACTACTTTTTTATGTTGTTTG
66 TTTTGGCCTTGCCCAAATTTGCCTAAATTTTTTCATTGTCGTTTACTACTTTTTTATGTTGTTTG
* *
80119329 CTGTCATTTTACTATTATATTGCTACTATTTTGTTGTTATTGTTTGGATATTGTATAACTATTGT
131 CTCTCATTTTACTATTATATTGCTACTATTTTATTGTTATTGTTTGGATATTGTATAACTATTGT
80119394 TTTATTATTAATTTTGCT
196 TTTATTATTAATTTTGCT
80119412 A
1 A
80119413 CTATTTTAGA
Statistics
Matches: 212, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
213 212 1.00
ACGTcount: A:0.25, C:0.14, G:0.15, T:0.46
Consensus pattern (213 bp):
AAAAAATAGGTCTGGACACAAAAATAAAGCCCATTTTCTAAACTGGTCGGGCCTCAGGTAAGATT
TTTTGGCCTTGCCCAAATTTGCCTAAATTTTTTCATTGTCGTTTACTACTTTTTTATGTTGTTTG
CTCTCATTTTACTATTATATTGCTACTATTTTATTGTTATTGTTTGGATATTGTATAACTATTGT
TTTATTATTAATTTTGCT
Found at i:80132798 original size:43 final size:43
Alignment explanation
Indices: 80132698--80132798 Score: 107
Period size: 43 Copynumber: 2.3 Consensus size: 43
80132688 ACGATGTTTG
* * * *
80132698 GGACGTTGGCATCGATATATGATTACGTATAAGACCCTGTCTG
1 GGACGTTGGCATTGTTATATGATTACATATAAGACCCTGTCTA
* * *
80132741 GGACAG-TGGTATTGTTATGTGATTACATGTAAGACCAC-GTCTA
1 GGAC-GTTGGCATTGTTATATGATTACATATAAGACC-CTGTCTA
80132784 GGACGTTGGCATTGT
1 GGACGTTGGCATTGT
80132799 ATGATATGTG
Statistics
Matches: 47, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
42 1 0.02
43 44 0.94
44 2 0.04
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.32
Consensus pattern (43 bp):
GGACGTTGGCATTGTTATATGATTACATATAAGACCCTGTCTA
Found at i:80135461 original size:29 final size:30
Alignment explanation
Indices: 80135394--80135461 Score: 95
Period size: 30 Copynumber: 2.3 Consensus size: 30
80135384 TTAATAAGAC
*
80135394 AGTGATCAACTTGTAACTTTTGTACAATTT
1 AGTGATCAACTTGTAACTTTTGTACAATTA
*
80135424 AGTGATCAATTTGTAACTTTT-TGA-AATTA
1 AGTGATCAACTTGTAACTTTTGT-ACAATTA
80135453 AGTGATCAA
1 AGTGATCAA
80135462 AATGTAAACA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
29 14 0.40
30 21 0.60
ACGTcount: A:0.34, C:0.10, G:0.15, T:0.41
Consensus pattern (30 bp):
AGTGATCAACTTGTAACTTTTGTACAATTA
Found at i:80135744 original size:84 final size:83
Alignment explanation
Indices: 80135565--80135786 Score: 225
Period size: 84 Copynumber: 2.6 Consensus size: 83
80135555 AAAATGAAAC
* * * * * *
80135565 ATTTCAATTTAGTCCTCTTATAAATAGAGAAACTATAAATTAATATGTAGTGAAATTACACTTTG
1 ATTT-AATTTAATCCTCTTATAAATAAAGAAATTATAAATTAATATATAGTAAAATTAAACTTTG
*
80135630 GCCCCTTAAAAATAAAAGA
65 GCCCCTTAAAAATAAAAAA
*
80135649 ATTTCAATTTAATCCTCTTATAAATAAAGAAATTATACATTAATATATAGTAAAATTAAACTTTA
1 ATTT-AATTTAATCCTCTTATAAATAAAGAAATTATAAATTAATATATAGTAAAATTAAACTTT-
* *
80135714 GATCTCC-TAAAAATGAAAAAA
64 G-GCCCCTTAAAAAT-AAAAAA
* * * * * *
80135735 ATTT-GTTTAAGTCCT-TCAAAAATAATGAAATTATAAATTAATACATAATAAA
1 ATTTAATTTAA-TCCTCTTATAAATAAAGAAATTATAAATTAATATATAGTAAA
80135787 CTTATATTTT
Statistics
Matches: 117, Mismatches: 17, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
84 93 0.79
85 12 0.10
86 12 0.10
ACGTcount: A:0.47, C:0.11, G:0.07, T:0.35
Consensus pattern (83 bp):
ATTTAATTTAATCCTCTTATAAATAAAGAAATTATAAATTAATATATAGTAAAATTAAACTTTGG
CCCCTTAAAAATAAAAAA
Found at i:80138719 original size:22 final size:23
Alignment explanation
Indices: 80138688--80138732 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 23
80138678 AAATATGTGT
*
80138688 AAAATAATTAGTAATTCTTCAAA
1 AAAATAATTAGTAATTCATCAAA
80138711 AAAAT-ATTAGTAATTCATCAAA
1 AAAATAATTAGTAATTCATCAAA
80138733 TTACATTGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 16 0.76
23 5 0.24
ACGTcount: A:0.53, C:0.09, G:0.04, T:0.33
Consensus pattern (23 bp):
AAAATAATTAGTAATTCATCAAA
Found at i:80140821 original size:46 final size:46
Alignment explanation
Indices: 80140623--80140894 Score: 180
Period size: 47 Copynumber: 5.8 Consensus size: 46
80140613 GGGATAAGTT
* * * *
80140623 GCCGATGTTATGTCCCAGACAGGGTCTTACACTGGCTA-TCATCATCAAG
1 GCCGATG-CATGTCCCAGACA-TGTCTTACACTGGC-ACTCATC-TCGAC
* * * * * *
80140672 GCCGATGTCATGTCCTAGACATGGTCCTACACTAGCTCTCGTATATACG-T
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCACTC--ATCT-CGAC
* * ** *
80140722 GCTGATGTATGTCCCAGACATGTCTTACACTATCAC-AACTCTC-A-
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCACTCA-TCTCGAC
* * * *
80140766 ACCGATGCATGTCCCATACA-CTCTTACACTGGCTA-TCATCGTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGC-ACTCATC-TCGAC
*
80140812 GCCGATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCTAC
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCGAC
* *
80140858 GTCGATGCCATGTCCCAGACATGTCTTACACTAGCAC
1 GCCGATG-CATGTCCCAGACATGTCTTACACTGGCAC
80140895 ATAAGTAATT
Statistics
Matches: 176, Mismatches: 32, Indels: 32
0.73 0.13 0.13
Matches are distributed among these distances:
43 12 0.07
44 20 0.11
45 3 0.02
46 30 0.17
47 45 0.26
48 12 0.07
49 44 0.25
50 7 0.04
51 3 0.02
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCGAC
Found at i:80140840 original size:47 final size:47
Alignment explanation
Indices: 80140623--80140889 Score: 203
Period size: 49 Copynumber: 5.7 Consensus size: 47
80140613 GGGATAAGTT
* * *
80140623 GCCGATGTTATGTCCCAGACAGGGTCTTACACTGGCTATCATCATCAAG
1 GCCGATGTCATGTCCCAGACA-TGTCTTACACTGGCTATCATC-TCGAG
* * * * * *
80140672 GCCGATGTCATGTCCTAGACATGGTCCTACACTAGCTCTCGTATATACG-T
1 GCCGATGTCATGTCCCAGACAT-GTCTTACACTGGCTATC--ATCT-CGAG
* **
80140722 GCTGATGT-ATGTCCCAGACATGTCTTACACTATC-A-CAACTCTC-A-
1 GCCGATGTCATGTCCCAGACATGTCTTACACTGGCTATC-A-TCTCGAG
* * *
80140766 ACCGATG-CATGTCCCATACA-CTCTTACACTGGCTATCATCGTCGAG
1 GCCGATGTCATGTCCCAGACATGTCTTACACTGGCTATCATC-TCGAG
* *
80140812 GCCGATG-CATGTCCCAGACATGTCTTACACTGGC-ACTCATCTCTAC
1 GCCGATGTCATGTCCCAGACATGTCTTACACTGGCTA-TCATCTCGAG
* *
80140858 GTCGATGCCATGTCCCAGACATGTCTTACACT
1 GCCGATGTCATGTCCCAGACATGTCTTACACT
80140890 AGCACATAAG
Statistics
Matches: 175, Mismatches: 28, Indels: 32
0.74 0.12 0.14
Matches are distributed among these distances:
43 12 0.07
44 20 0.11
45 4 0.02
46 31 0.18
47 41 0.23
48 11 0.06
49 45 0.26
50 8 0.05
51 3 0.02
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (47 bp):
GCCGATGTCATGTCCCAGACATGTCTTACACTGGCTATCATCTCGAG
Found at i:80141612 original size:12 final size:12
Alignment explanation
Indices: 80141595--80141619 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
80141585 CAAAAATATA
80141595 AAAATCATCAAG
1 AAAATCATCAAG
80141607 AAAATCATCAAG
1 AAAATCATCAAG
80141619 A
1 A
80141620 TCACTTACAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.16, G:0.08, T:0.16
Consensus pattern (12 bp):
AAAATCATCAAG
Found at i:80146730 original size:10 final size:10
Alignment explanation
Indices: 80146715--80146739 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
80146705 TCCGAGGTTG
80146715 AAAAAAATTA
1 AAAAAAATTA
80146725 AAAAAAATTA
1 AAAAAAATTA
80146735 AAAAA
1 AAAAA
80146740 TTAAAATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (10 bp):
AAAAAAATTA
Found at i:80148020 original size:16 final size:16
Alignment explanation
Indices: 80147999--80148037 Score: 78
Period size: 16 Copynumber: 2.4 Consensus size: 16
80147989 TTATATACTT
80147999 GCTTACTAAGCTATAA
1 GCTTACTAAGCTATAA
80148015 GCTTACTAAGCTATAA
1 GCTTACTAAGCTATAA
80148031 GCTTACT
1 GCTTACT
80148038 TTCTTTTCTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.33, C:0.21, G:0.13, T:0.33
Consensus pattern (16 bp):
GCTTACTAAGCTATAA
Found at i:80154294 original size:27 final size:27
Alignment explanation
Indices: 80154263--80154440 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
80154253 TAAATTGTAC
80154263 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
80154290 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
80154316 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
80154344 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
80154372 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
80154399 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
80154426 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
80154441 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:80154377 original size:82 final size:81
Alignment explanation
Indices: 80154264--80154419 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
80154254 AAATTGTACA
* *
80154264 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
80154328 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
80154345 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
80154410 TGCGAGTTGA
65 TGCGAATTGA
80154420 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:80154431 original size:82 final size:81
Alignment explanation
Indices: 80154260--80154440 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
80154250 GATTAAATTG
* *
80154260 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
80154325 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
80154341 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
80154405 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
80154423 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
80154441 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:80157771 original size:8 final size:8
Alignment explanation
Indices: 80157758--80157788 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
80157748 ATATTATTAT
80157758 TTTTATAA
1 TTTTATAA
80157766 TTTTATAA
1 TTTTATAA
*
80157774 TTTTATAT
1 TTTTATAA
80157782 TTTTATA
1 TTTTATA
80157789 TAATTTTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (8 bp):
TTTTATAA
Found at i:80157789 original size:8 final size:8
Alignment explanation
Indices: 80157755--80157789 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
80157745 CCTATATTAT
80157755 TATTTTTA
1 TATTTTTA
*
80157763 TAATTTTA
1 TATTTTTA
*
80157771 TAATTTTA
1 TATTTTTA
80157779 TATTTTTA
1 TATTTTTA
80157787 TAT
1 TAT
80157790 AATTTTTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (8 bp):
TATTTTTA
Found at i:80161796 original size:21 final size:21
Alignment explanation
Indices: 80161753--80161796 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
80161743 TACACTATAT
* ** *
80161753 TTTATATTTTTTTACTTAGAG
1 TTTAAATTTTTTTACAAAAAG
80161774 TTTAAATTTTTTTACAAAAAG
1 TTTAAATTTTTTTACAAAAAG
80161795 TT
1 TT
80161797 AACATTTATT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.32, C:0.05, G:0.07, T:0.57
Consensus pattern (21 bp):
TTTAAATTTTTTTACAAAAAG
Found at i:80164895 original size:40 final size:40
Alignment explanation
Indices: 80164840--80164920 Score: 153
Period size: 40 Copynumber: 2.0 Consensus size: 40
80164830 TTATGAAACA
*
80164840 ATCCCTCCTTTAGTTCTTCATGATCTTCTACGGATATCAT
1 ATCCCTCCTTTAGTTCGTCATGATCTTCTACGGATATCAT
80164880 ATCCCTCCTTTAGTTCGTCATGATCTTCTACGGATATCAT
1 ATCCCTCCTTTAGTTCGTCATGATCTTCTACGGATATCAT
80164920 A
1 A
80164921 CTTCCACTCA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.21, C:0.27, G:0.11, T:0.41
Consensus pattern (40 bp):
ATCCCTCCTTTAGTTCGTCATGATCTTCTACGGATATCAT
Found at i:80169773 original size:9 final size:9
Alignment explanation
Indices: 80169755--80169785 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
80169745 ATTCGAGTTG
80169755 ACTCGAATA
1 ACTCGAATA
*
80169764 ACTTGAATA
1 ACTCGAATA
80169773 ACTCGAATA
1 ACTCGAATA
80169782 ACTC
1 ACTC
80169786 AATTCATTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.42, C:0.23, G:0.10, T:0.26
Consensus pattern (9 bp):
ACTCGAATA
Found at i:80172534 original size:2 final size:2
Alignment explanation
Indices: 80172527--80172554 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
80172517 TAATTGATTC
80172527 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
80172555 CTCAATTCGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:80183104 original size:75 final size:75
Alignment explanation
Indices: 80182980--80183129 Score: 185
Period size: 75 Copynumber: 2.0 Consensus size: 75
80182970 TGGTACTTGA
* * * * ** *
80182980 AATTGTATTCTGTCACATCTTTGCACTAATATTGTTAATTTGTGTTGATGAGGAGTTGATAATCA
1 AATTGAATTATGTCACATCTTCGCACTAATATTGTTAATTTATGTTGATGAGGAACTAATAATCA
80183045 ATATGGTGGT
66 ATATGGTGGT
* * * *
80183055 AATTGAATTATGTTACATCTTCGCACTAATATTGTTAGTTTATAG-TGATGGGGAACTAATAATT
1 AATTGAATTATGTCACATCTTCGCACTAATATTGTTAATTTAT-GTTGATGAGGAACTAATAATC
80183119 AATATGGTGGT
65 AATATGGTGGT
80183130 GTCACGTGAC
Statistics
Matches: 63, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
75 62 0.98
76 1 0.02
ACGTcount: A:0.29, C:0.09, G:0.21, T:0.41
Consensus pattern (75 bp):
AATTGAATTATGTCACATCTTCGCACTAATATTGTTAATTTATGTTGATGAGGAACTAATAATCA
ATATGGTGGT
Found at i:80183814 original size:7 final size:7
Alignment explanation
Indices: 80183799--80183852 Score: 56
Period size: 7 Copynumber: 7.6 Consensus size: 7
80183789 TATTTAGATC
*
80183799 AAATAAT
1 AAATTAT
80183806 AAATTAT
1 AAATTAT
80183813 AAATTAT
1 AAATTAT
80183820 AAA-TAT
1 AAATTAT
80183826 AAATTAT
1 AAATTAT
**
80183833 ATATATGCT
1 A-A-ATTAT
80183842 AAATTAT
1 AAATTAT
80183849 AAAT
1 AAAT
80183853 AAAATTTATA
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
6 6 0.15
7 27 0.69
8 2 0.05
9 4 0.10
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (7 bp):
AAATTAT
Found at i:80185650 original size:9 final size:9
Alignment explanation
Indices: 80185636--80185708 Score: 61
Period size: 9 Copynumber: 8.6 Consensus size: 9
80185626 GACACCTGCA
80185636 ATTAAACAC
1 ATTAAACAC
80185645 ATTAAA-AC
1 ATTAAACAC
*
80185653 ---AAACAT
1 ATTAAACAC
80185659 ATTAAACAC
1 ATTAAACAC
80185668 ATTTAAACAC
1 A-TTAAACAC
80185678 TTATTAAACAC
1 --ATTAAACAC
80185689 A--AAACAC
1 ATTAAACAC
80185696 ATTAAACAC
1 ATTAAACAC
80185705 -TTAA
1 ATTAA
80185709 CTTAAATAAA
Statistics
Matches: 53, Mismatches: 2, Indels: 19
0.72 0.03 0.26
Matches are distributed among these distances:
5 3 0.06
6 1 0.02
7 7 0.13
8 6 0.11
9 19 0.36
10 8 0.15
11 8 0.15
12 1 0.02
ACGTcount: A:0.56, C:0.19, G:0.00, T:0.25
Consensus pattern (9 bp):
ATTAAACAC
Found at i:80185684 original size:11 final size:11
Alignment explanation
Indices: 80185636--80185689 Score: 58
Period size: 10 Copynumber: 4.9 Consensus size: 11
80185626 GACACCTGCA
80185636 ATTAAACACAT
1 ATTAAACACAT
*
80185647 -TAAAACAAACAT
1 ATTAAAC--ACAT
80185659 ATTAAACACAT
1 ATTAAACACAT
*
80185670 -TTAAACACTT
1 ATTAAACACAT
80185680 ATTAAACACA
1 ATTAAACACA
80185690 AAACACATTA
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
10 14 0.40
11 12 0.34
12 4 0.11
13 5 0.14
ACGTcount: A:0.56, C:0.19, G:0.00, T:0.26
Consensus pattern (11 bp):
ATTAAACACAT
Found at i:80185684 original size:21 final size:22
Alignment explanation
Indices: 80185636--80185689 Score: 74
Period size: 23 Copynumber: 2.5 Consensus size: 22
80185626 GACACCTGCA
80185636 ATTAAACACATTAAAACAAACAT
1 ATTAAACACATTAAAAC-AACAT
* *
80185659 ATTAAACACATTTAAAC-ACTT
1 ATTAAACACATTAAAACAACAT
80185680 ATTAAACACA
1 ATTAAACACA
80185690 AAACACATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 13 0.45
23 16 0.55
ACGTcount: A:0.56, C:0.19, G:0.00, T:0.26
Consensus pattern (22 bp):
ATTAAACACATTAAAACAACAT
Found at i:80185974 original size:50 final size:52
Alignment explanation
Indices: 80185856--80185979 Score: 128
Period size: 50 Copynumber: 2.4 Consensus size: 52
80185846 ATGAGTTATT
* * * *
80185856 TAATGCAAGACTTAATTTAATGATGTAGACTTAAGCTAACATGAGAGTTACA
1 TAATGCAATACTTTATTTAATGATGCAGACTTAAGCTAACATGAAAGTTACA
** * *
80185908 TAATAAAAGT-CATTATTT-ATGATGCATACTTAA-CTAACATGAAAGTTACA
1 TAATGCAA-TACTTTATTTAATGATGCAGACTTAAGCTAACATGAAAGTTACA
* *
80185958 TAATGCATTACTTTATTAAATG
1 TAATGCAATACTTTATTTAATG
80185980 CAGAACACAC
Statistics
Matches: 56, Mismatches: 13, Indels: 7
0.74 0.17 0.09
Matches are distributed among these distances:
49 1 0.02
50 27 0.48
51 16 0.29
52 12 0.21
ACGTcount: A:0.41, C:0.11, G:0.13, T:0.35
Consensus pattern (52 bp):
TAATGCAATACTTTATTTAATGATGCAGACTTAAGCTAACATGAAAGTTACA
Found at i:80187351 original size:20 final size:20
Alignment explanation
Indices: 80187307--80187351 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
80187297 ACAATGTTTT
*
80187307 AGTTGTGAAAGACTATGGTG
1 AGTTGTGAAAGACTATGGTA
* * *
80187327 TGTTGTGAAAGATTATGTTA
1 AGTTGTGAAAGACTATGGTA
80187347 AGTTG
1 AGTTG
80187352 CAAGTTGGTA
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.29, C:0.02, G:0.31, T:0.38
Consensus pattern (20 bp):
AGTTGTGAAAGACTATGGTA
Found at i:80187969 original size:15 final size:15
Alignment explanation
Indices: 80187941--80187974 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
80187931 GTAATTGATG
*
80187941 TGTGGATGACTTGGT
1 TGTGGATGAATTGGT
*
80187956 TGTGGTTGAATTGGT
1 TGTGGATGAATTGGT
80187971 TGTG
1 TGTG
80187975 TGTATATGCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.12, C:0.03, G:0.41, T:0.44
Consensus pattern (15 bp):
TGTGGATGAATTGGT
Found at i:80191729 original size:3 final size:3
Alignment explanation
Indices: 80191721--80191752 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
80191711 AGCTCTCTGT
80191721 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
80191753 TTAATTTTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:80191809 original size:16 final size:16
Alignment explanation
Indices: 80191790--80191821 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
80191780 AAAAATTAGA
80191790 AAATTCTATTATTATT
1 AAATTCTATTATTATT
*
80191806 AAATTCTATTCTTATT
1 AAATTCTATTATTATT
80191822 GTATTTAATT
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:0.34, C:0.09, G:0.00, T:0.56
Consensus pattern (16 bp):
AAATTCTATTATTATT
Found at i:80205521 original size:21 final size:21
Alignment explanation
Indices: 80205486--80205529 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
80205476 TCTTGATCTA
80205486 TAATATCAAATTTAA-CATATT
1 TAATATCAAATTTAATCA-ATT
80205507 TAATCATCAAA-TTAATCAATT
1 TAAT-ATCAAATTTAATCAATT
80205528 TA
1 TA
80205530 GCCCAAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.48, C:0.11, G:0.00, T:0.41
Consensus pattern (21 bp):
TAATATCAAATTTAATCAATT
Found at i:80207468 original size:20 final size:20
Alignment explanation
Indices: 80207419--80207471 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 20
80207409 GTTCATCCGT
80207419 ATAACCAGTAATTTATTAGTA
1 ATAA-CAGTAATTTATTAGTA
*
80207440 ATAATAGTAATTTATCTA-T-
1 ATAACAGTAATTTAT-TAGTA
80207459 ATCAACAGTAATT
1 AT-AACAGTAATT
80207472 CATTCATTTC
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
19 2 0.07
20 20 0.71
21 6 0.21
ACGTcount: A:0.43, C:0.09, G:0.08, T:0.40
Consensus pattern (20 bp):
ATAACAGTAATTTATTAGTA
Found at i:80207701 original size:23 final size:23
Alignment explanation
Indices: 80207670--80207785 Score: 89
Period size: 23 Copynumber: 5.0 Consensus size: 23
80207660 CTAAGCTGAT
*
80207670 AAATAGTAAGCTCTATTGAGCTG
1 AAATAGTAAGCTCTATCGAGCTG
* *
80207693 AAATGGTAAGCTCTATCAAGCT-
1 AAATAGTAAGCTCTATCGAGCTG
*
80207715 AAACAGTAAGCTC-ATACGAGCTG
1 AAATAGTAAGCTCTAT-CGAGCTG
* *
80207738 -AATCGGTAAGCTCCAAT-GAGCTG
1 AAAT-AGTAAGCT-CTATCGAGCTG
*
80207761 AAAACAGTAAGCTCT-TACGAGCTG
1 -AAATAGTAAGCTCTAT-CGAGCTG
80207785 A
1 A
80207786 TATATTGGTA
Statistics
Matches: 73, Mismatches: 11, Indels: 18
0.72 0.11 0.18
Matches are distributed among these distances:
21 2 0.03
22 19 0.26
23 34 0.47
24 14 0.19
25 4 0.05
ACGTcount: A:0.36, C:0.19, G:0.22, T:0.23
Consensus pattern (23 bp):
AAATAGTAAGCTCTATCGAGCTG
Found at i:80214503 original size:47 final size:47
Alignment explanation
Indices: 80214345--80214538 Score: 343
Period size: 49 Copynumber: 4.0 Consensus size: 47
80214335 TACTAATTCC
80214345 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTGTATATATGT
1 GATAAGGCCTAATGGCCGATGTGATGAATGTG-AAA-GTGTATATATGT
80214394 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGT
1 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGT
80214443 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGT
1 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGT
*
80214490 GATAAGGCCTAATGACCGATGTGATGAATGTGAAAGTGTATATATGT
1 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGT
80214537 GA
1 GA
80214539 AAGTGTACAT
Statistics
Matches: 142, Mismatches: 1, Indels: 6
0.95 0.01 0.04
Matches are distributed among these distances:
47 60 0.42
48 3 0.02
49 79 0.56
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (47 bp):
GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGT
Found at i:80214518 original size:96 final size:98
Alignment explanation
Indices: 80214345--80214534 Score: 357
Period size: 96 Copynumber: 2.0 Consensus size: 98
80214335 TACTAATTCC
*
80214345 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTGTATATATGTGATAAGGCCTAATGGC
1 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTGTATATATGTGATAAGGCCTAATGAC
80214410 CGATGTGATGAATGTGAAAGTGTATATATATGT
66 CGATGTGATGAATGTGAAAGTGTATATATATGT
80214443 GATAAGGCCTAATGGCCGATGTGATGAATGTG-AAA-GTGTATATATGTGATAAGGCCTAATGAC
1 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTGTATATATGTGATAAGGCCTAATGAC
80214506 CGATGTGATGAATGTGAAAGTGTATATAT
66 CGATGTGATGAATGTGAAAGTGTATATAT
80214535 GTGAAAGTGT
Statistics
Matches: 91, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
96 56 0.62
97 3 0.03
98 32 0.35
ACGTcount: A:0.33, C:0.08, G:0.28, T:0.30
Consensus pattern (98 bp):
GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTGTATATATGTGATAAGGCCTAATGAC
CGATGTGATGAATGTGAAAGTGTATATATATGT
Found at i:80217749 original size:24 final size:24
Alignment explanation
Indices: 80217414--80217751 Score: 538
Period size: 24 Copynumber: 14.1 Consensus size: 24
80217404 ACCTCTATTA
* *
80217414 ATAACTGGGGCAAAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTG
80217438 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
80217462 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
80217486 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTG
*
80217509 AGTAACTGGGGCATAAGCCCTTTTT
1 A-TAACTGGGGCATAAGCCCTTTTG
* * *
80217534 ATAATTGGAGCATAAGCCCTTTTT
1 ATAACTGGGGCATAAGCCCTTTTG
80217558 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
80217582 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTG
* *
80217605 AGTAACTGAGGCATAAGCCCTTTTT
1 A-TAACTGGGGCATAAGCCCTTTTG
80217630 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
80217654 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTG
* *
80217677 AGTAACTGAGGCATAAGCCCTTTTT
1 A-TAACTGGGGCATAAGCCCTTTTG
80217702 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
80217726 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
80217750 AT
1 AT
80217752 TTATAACTAG
Statistics
Matches: 295, Mismatches: 13, Indels: 12
0.92 0.04 0.04
Matches are distributed among these distances:
23 3 0.01
24 289 0.98
25 3 0.01
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.30
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTG
Found at i:80228665 original size:16 final size:16
Alignment explanation
Indices: 80228644--80228675 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
80228634 ATCGAGAACG
*
80228644 ATGGAAACGGTTAGAA
1 ATGGAAACGGTAAGAA
80228660 ATGGAAACGGTAAGAA
1 ATGGAAACGGTAAGAA
80228676 TGTGATTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.06, G:0.31, T:0.16
Consensus pattern (16 bp):
ATGGAAACGGTAAGAA
Found at i:80229034 original size:14 final size:14
Alignment explanation
Indices: 80229015--80229041 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
80229005 AAAATGACCG
80229015 TTTTACCCCTAGGA
1 TTTTACCCCTAGGA
80229029 TTTTACCCCTAGG
1 TTTTACCCCTAGG
80229042 TAAAAATGAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.19, C:0.30, G:0.15, T:0.37
Consensus pattern (14 bp):
TTTTACCCCTAGGA
Found at i:80229128 original size:20 final size:20
Alignment explanation
Indices: 80229103--80229165 Score: 99
Period size: 20 Copynumber: 3.1 Consensus size: 20
80229093 ATTTTGATAA
*
80229103 ACATGATATATATGATATGC
1 ACATGATATGTATGATATGC
*
80229123 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
*
80229143 ACCTGATATGTATGATATGC
1 ACATGATATGTATGATATGC
80229163 ACA
1 ACA
80229166 CGAGATGTTC
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:80229173 original size:20 final size:20
Alignment explanation
Indices: 80229113--80229173 Score: 79
Period size: 20 Copynumber: 3.0 Consensus size: 20
80229103 ACATGATATA
*
80229113 TATGATATGCACATGACATG
1 TATGATATGCACACGACATG
*
80229133 TATGATATGCAC-CTGATATG
1 TATGATATGCACAC-GACATG
*
80229153 TATGATATGCACACGAGATG
1 TATGATATGCACACGACATG
80229173 T
1 T
80229174 TCATAAATGC
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 35 0.97
21 1 0.03
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.31
Consensus pattern (20 bp):
TATGATATGCACACGACATG
Found at i:80229250 original size:23 final size:23
Alignment explanation
Indices: 80229220--80229268 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
80229210 AGGAAGTGCA
80229220 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
80229243 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
80229266 AAA
1 AAA
80229269 NNNNNNNNNN
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.29
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:80230290 original size:41 final size:41
Alignment explanation
Indices: 80230233--80230312 Score: 142
Period size: 41 Copynumber: 2.0 Consensus size: 41
80230223 AGGGGTTTTC
* *
80230233 GGCCCGTGTCCTTCACATGGCCATGACACGCTCGTGTCCCT
1 GGCCCGTGTCCTTCACATGGCCATGACACACCCGTGTCCCT
80230274 GGCCCGTGTCCTTCACATGGCCATGACACACCCGTGTCC
1 GGCCCGTGTCCTTCACATGGCCATGACACACCCGTGTCC
80230313 TAACCCGTGT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.14, C:0.40, G:0.24, T:0.23
Consensus pattern (41 bp):
GGCCCGTGTCCTTCACATGGCCATGACACACCCGTGTCCCT
Found at i:80230930 original size:20 final size:21
Alignment explanation
Indices: 80230896--80230949 Score: 67
Period size: 20 Copynumber: 2.6 Consensus size: 21
80230886 TGATGATATT
*
80230896 TTATGATTA-TTTAATTAGATA
1 TTAT-ATTATTTTAATAAGATA
80230917 -TATATTATTTTAATAAGATA
1 TTATATTATTTTAATAAGATA
*
80230937 TTTTATTATTTTA
1 TTATATTATTTTA
80230950 TTATTATTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 4 0.14
20 14 0.48
21 11 0.38
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.57
Consensus pattern (21 bp):
TTATATTATTTTAATAAGATA
Found at i:80230948 original size:8 final size:8
Alignment explanation
Indices: 80230935--80231014 Score: 60
Period size: 8 Copynumber: 9.6 Consensus size: 8
80230925 TTTAATAAGA
80230935 TATTTTAT
1 TATTTTAT
80230943 TATTTTAT
1 TATTTTAT
80230951 TA--TTAT
1 TATTTTAT
*
80230957 T-TCATTAT
1 TAT-TTTAT
80230965 TATTTTTAT
1 TA-TTTTAT
80230974 TATTTTAT
1 TATTTTAT
80230982 TATATTTCAT
1 TAT-TTT-AT
80230992 TATTATT-T
1 TATT-TTAT
80231000 TATTATTAAT
1 TATT-TT-AT
80231010 TATTT
1 TATTT
80231015 AGTATAAAAG
Statistics
Matches: 61, Mismatches: 1, Indels: 19
0.75 0.01 0.23
Matches are distributed among these distances:
6 5 0.08
8 32 0.52
9 11 0.18
10 13 0.21
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.70
Consensus pattern (8 bp):
TATTTTAT
Found at i:80230953 original size:3 final size:3
Alignment explanation
Indices: 80230935--80231013 Score: 73
Period size: 3 Copynumber: 28.3 Consensus size: 3
80230925 TTTAATAAGA
* *
80230935 TAT T-T TAT TAT T-T TAT TAT TAT T-T CAT TAT TAT TTT TAT TAT T-T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
80230979 TAT TA- TAT T-T CAT TAT TAT T-T TAT TAT TAAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT T
80231014 TAGTATAAAA
Statistics
Matches: 62, Mismatches: 6, Indels: 16
0.74 0.07 0.19
Matches are distributed among these distances:
2 12 0.19
3 47 0.76
4 3 0.05
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.70
Consensus pattern (3 bp):
TAT
Found at i:80230955 original size:11 final size:11
Alignment explanation
Indices: 80230939--80231007 Score: 99
Period size: 11 Copynumber: 6.5 Consensus size: 11
80230929 ATAAGATATT
80230939 TTATTATTTTA
1 TTATTATTTTA
*
80230950 TTATTATTTCA
1 TTATTATTTTA
80230961 TTATTA-TTT-
1 TTATTATTTTA
80230970 TTATTATTTTA
1 TTATTATTTTA
*
80230981 TTA-TATTTCA
1 TTATTATTTTA
80230991 TTATTATTTTA
1 TTATTATTTTA
80231002 TTATTA
1 TTATTA
80231008 ATTATTTAGT
Statistics
Matches: 51, Mismatches: 4, Indels: 6
0.84 0.07 0.10
Matches are distributed among these distances:
9 6 0.12
10 14 0.27
11 31 0.61
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.70
Consensus pattern (11 bp):
TTATTATTTTA
Found at i:80230973 original size:17 final size:17
Alignment explanation
Indices: 80230947--80231000 Score: 62
Period size: 17 Copynumber: 3.4 Consensus size: 17
80230937 TTTTATTATT
*
80230947 TTATTATTATTTCATTA
1 TTATTTTTATTTCATTA
80230964 TTATTTTTA-TT-ATT-
1 TTATTTTTATTTCATTA
*
80230978 TTA-TTATATTTCATTA
1 TTATTTTTATTTCATTA
80230994 TTATTTT
1 TTATTTT
80231001 ATTATTAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
13 4 0.13
14 5 0.17
15 6 0.20
16 5 0.17
17 10 0.33
ACGTcount: A:0.26, C:0.04, G:0.00, T:0.70
Consensus pattern (17 bp):
TTATTTTTATTTCATTA
Found at i:80233260 original size:71 final size:71
Alignment explanation
Indices: 80233139--80233270 Score: 219
Period size: 71 Copynumber: 1.9 Consensus size: 71
80233129 TAGCCCTTAA
* * *
80233139 GAACTTCCCGATATATAGCTATTCGGAGCTTCCCGATAGGTTTTTTGTGAGCTTCCCGATAGTGC
1 GAACTTCCCGATATATAGCTATCCGGAGCTTCCCGATAGGCTTTTCGTGAGCTTCCCGATAGTGC
80233204 TCGTTT
66 TCGTTT
* *
80233210 GAACTTCCCGATATATGGCTATCCGGAGCTTCCCTATAGGCTTTTCGTGAGCTTCCCGATA
1 GAACTTCCCGATATATAGCTATCCGGAGCTTCCCGATAGGCTTTTCGTGAGCTTCCCGATA
80233271 TGGTTCTTTG
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
71 56 1.00
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.34
Consensus pattern (71 bp):
GAACTTCCCGATATATAGCTATCCGGAGCTTCCCGATAGGCTTTTCGTGAGCTTCCCGATAGTGC
TCGTTT
Found at i:80233261 original size:23 final size:23
Alignment explanation
Indices: 80233152--80233266 Score: 69
Period size: 23 Copynumber: 5.0 Consensus size: 23
80233142 CTTCCCGATA
80233152 TATA-GCTATTCG-GAGCTTCCC
1 TATAGGCTATTCGTGAGCTTCCC
* * * *
80233173 GATAGGTTTTTTGTGAGCTTCCC
1 TATAGGCTATTCGTGAGCTTCCC
* * *
80233196 GATAGTGCTCGTT--TGAACTTCCC
1 TATAG-GCT-ATTCGTGAGCTTCCC
*
80233219 GATATATGGCTATCCG-GAGCTTCCC
1 --TATA-GGCTATTCGTGAGCTTCCC
*
80233244 TATAGGCTTTTCGTGAGCTTCCC
1 TATAGGCTATTCGTGAGCTTCCC
80233267 GATATGGTTC
Statistics
Matches: 71, Mismatches: 13, Indels: 18
0.70 0.13 0.18
Matches are distributed among these distances:
21 3 0.04
22 12 0.17
23 36 0.51
24 3 0.04
25 16 0.23
26 1 0.01
ACGTcount: A:0.17, C:0.25, G:0.23, T:0.36
Consensus pattern (23 bp):
TATAGGCTATTCGTGAGCTTCCC
Found at i:80235306 original size:47 final size:45
Alignment explanation
Indices: 80235245--80235366 Score: 149
Period size: 47 Copynumber: 2.6 Consensus size: 45
80235235 CGAGGCTGAA
*
80235245 GCATGTCCCAGACATGCCTTACACTAGCACTCATCTCAA-T-GCCGAT
1 GCATGTCCCAGACATGTCTTACACTAGCACTCA--T-AAGTGGCCGAT
* *
80235291 GCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAATGTGGGCGAT
1 G-CATGTCCCAGACAT-GTCTTACACTAGCACTCATAA-GTGGCCGAT
80235339 GCATGTCCCAGACATGTCTTACACTAGC
1 GCATGTCCCAGACATGTCTTACACTAGC
80235367 TTACACAAAT
Statistics
Matches: 68, Mismatches: 3, Indels: 10
0.84 0.04 0.12
Matches are distributed among these distances:
45 2 0.03
46 15 0.22
47 29 0.43
48 22 0.32
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.25
Consensus pattern (45 bp):
GCATGTCCCAGACATGTCTTACACTAGCACTCATAAGTGGCCGAT
Found at i:80237915 original size:23 final size:23
Alignment explanation
Indices: 80237885--80237986 Score: 102
Period size: 23 Copynumber: 4.4 Consensus size: 23
80237875 CCTGATAAAC
80237885 AGTAAGCTCTATTGAGCTGAAAT
1 AGTAAGCTCTATTGAGCTGAAAT
* * *
80237908 GGTAAGCTTTATTGAGCTG-AAC
1 AGTAAGCTCTATTGAGCTGAAAT
*
80237930 AGTAAGCTC-ATACGAGCTG-AAT
1 AGTAAGCTCTAT-TGAGCTGAAAT
* *
80237952 CAGTAAGCTCCAATGAGCTGAAAAT
1 -AGTAAGCTCTATTGAGCTG-AAAT
80237977 AGTAAGCTCT
1 AGTAAGCTCT
80237987 TACGAGTTGA
Statistics
Matches: 64, Mismatches: 10, Indels: 9
0.77 0.12 0.11
Matches are distributed among these distances:
21 2 0.03
22 17 0.27
23 32 0.50
24 10 0.16
25 3 0.05
ACGTcount: A:0.34, C:0.17, G:0.23, T:0.26
Consensus pattern (23 bp):
AGTAAGCTCTATTGAGCTGAAAT
Found at i:80237958 original size:45 final size:45
Alignment explanation
Indices: 80237881--80237992 Score: 111
Period size: 45 Copynumber: 2.4 Consensus size: 45
80237871 CTCACCTGAT
* * ** *
80237881 AAACAGTAAGCTCTATTGAGCTGAAATGGTAAGCTTTATTGAGCTG
1 AAACAGTAAGCTCTA-CGAGCTGAAATAGTAAGCTCCAATGAGCTG
80237927 -AACAGTAAGCTCATACGAGCTG-AATCAGTAAGCTCCAATGAGCTG
1 AAACAGTAAGCTC-TACGAGCTGAAAT-AGTAAGCTCCAATGAGCTG
*
80237972 AAAATAGTAAGCTCTTACGAG
1 -AAACAGTAAGCTC-TACGAG
80237993 TTGATATATC
Statistics
Matches: 55, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
44 3 0.05
45 33 0.60
46 2 0.04
47 17 0.31
ACGTcount: A:0.36, C:0.17, G:0.22, T:0.25
Consensus pattern (45 bp):
AAACAGTAAGCTCTACGAGCTGAAATAGTAAGCTCCAATGAGCTG
Found at i:80238692 original size:16 final size:16
Alignment explanation
Indices: 80238671--80238706 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
80238661 TCATCCTACC
80238671 CATACTTAGTAGCCAA
1 CATACTTAGTAGCCAA
80238687 CATACTTAGTAGCCAA
1 CATACTTAGTAGCCAA
80238703 CATA
1 CATA
80238707 ATTTGTTGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.39, C:0.25, G:0.11, T:0.25
Consensus pattern (16 bp):
CATACTTAGTAGCCAA
Found at i:80246738 original size:15 final size:13
Alignment explanation
Indices: 80246704--80246733 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
80246694 GCACACGGCC
80246704 GTGTCGCATGGCT
1 GTGTCGCATGGCT
*
80246717 GTGTCGCATGGTT
1 GTGTCGCATGGCT
80246730 GTGT
1 GTGT
80246734 GTCGCTTCGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.07, C:0.17, G:0.40, T:0.37
Consensus pattern (13 bp):
GTGTCGCATGGCT
Found at i:80249358 original size:75 final size:74
Alignment explanation
Indices: 80249189--80249358 Score: 200
Period size: 75 Copynumber: 2.3 Consensus size: 74
80249179 CGGTATAACT
* **
80249189 GACTAGTGCTGGGCACAAACATAATTGGTTTATCCAACTAGAGCTGGGCTCACACTCAATATCGT
1 GACTAGCGCT-GGCACAAACATAATTGGTTTATCCAACTAGAGCTGGGCTCACACTCAATATCAC
80249254 CAGTATAGCC
65 CAGTATAGCC
* * * *
80249264 GACTAGCACTAGGCCCAAACACT-GTTGGTTTATCCAACTAGAGCTGGGCTCACATTCAATATCA
1 GACTAGCGCT-GGCACAAACA-TAATTGGTTTATCCAACTAGAGCTGGGCTCACACTCAATATCA
*
80249328 CCGAGTA-ATCC
64 CC-AGTATAGCC
*
80249339 GACTAGGGCTGGACACAAAC
1 GACTAGCGCTGG-CACAAAC
80249359 TCTTTTGCTG
Statistics
Matches: 80, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
74 2 0.03
75 73 0.91
76 5 0.06
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.23
Consensus pattern (74 bp):
GACTAGCGCTGGCACAAACATAATTGGTTTATCCAACTAGAGCTGGGCTCACACTCAATATCACC
AGTATAGCC
Found at i:80253550 original size:29 final size:29
Alignment explanation
Indices: 80253517--80253576 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
80253507 GTTAAGCGTG
80253517 TTGATTTTAGAAAAACATTGGTTTGTGCT
1 TTGATTTTAGAAAAACATTGGTTTGTGCT
80253546 TTGATTTTAGAAAAACATTGGTTTGTGCT
1 TTGATTTTAGAAAAACATTGGTTTGTGCT
80253575 TT
1 TT
80253577 CTTAAAAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.27, C:0.07, G:0.20, T:0.47
Consensus pattern (29 bp):
TTGATTTTAGAAAAACATTGGTTTGTGCT
Found at i:80253583 original size:24 final size:27
Alignment explanation
Indices: 80253527--80253584 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 27
80253517 TTGATTTTAG
*
80253527 AAAAACATTGGTTTGTGCTTTGATTTTA
1 AAAAACATTGGTTTGTGCTTT-ATCTTA
80253555 GAAAAACATTGGTTTGTGC-TT-TCTTA
1 -AAAAACATTGGTTTGTGCTTTATCTTA
80253581 AAAA
1 AAAA
80253585 TACGGGTCCT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
25 4 0.14
26 4 0.14
28 2 0.07
29 18 0.64
ACGTcount: A:0.33, C:0.09, G:0.17, T:0.41
Consensus pattern (27 bp):
AAAAACATTGGTTTGTGCTTTATCTTA
Found at i:80281675 original size:25 final size:25
Alignment explanation
Indices: 80281634--80281702 Score: 86
Period size: 25 Copynumber: 2.8 Consensus size: 25
80281624 CTCTTTTAAT
* * * *
80281634 AACTGGGGTAAAG-CCTTTTTGTTA
1 AACTAGGGCAAAGCCCTTTTCGGTA
*
80281658 AACTTGGGCAAAGCCCTTTTCGGTA
1 AACTAGGGCAAAGCCCTTTTCGGTA
80281683 AACTAGGGCAAAGCCCTTTT
1 AACTAGGGCAAAGCCCTTTT
80281703 GCACTTCCTC
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
24 11 0.28
25 28 0.72
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.30
Consensus pattern (25 bp):
AACTAGGGCAAAGCCCTTTTCGGTA
Found at i:80281761 original size:10 final size:10
Alignment explanation
Indices: 80281748--80281786 Score: 60
Period size: 10 Copynumber: 3.8 Consensus size: 10
80281738 ATATATGAAT
80281748 ATATCATGGC
1 ATATCATGGC
*
80281758 ATATCATGTAC
1 ATATCATG-GC
80281769 ATATCATGGC
1 ATATCATGGC
80281779 ATATCATG
1 ATATCATG
80281787 TATAAAATAG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
10 17 0.65
11 9 0.35
ACGTcount: A:0.33, C:0.18, G:0.15, T:0.33
Consensus pattern (10 bp):
ATATCATGGC
Found at i:80281774 original size:21 final size:21
Alignment explanation
Indices: 80281748--80281788 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
80281738 ATATATGAAT
80281748 ATATCATGGCATATCATGTAC
1 ATATCATGGCATATCATGTAC
80281769 ATATCATGGCATATCATGTA
1 ATATCATGGCATATCATGTA
80281789 TAAAATAGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.34
Consensus pattern (21 bp):
ATATCATGGCATATCATGTAC
Found at i:80281854 original size:25 final size:25
Alignment explanation
Indices: 80281826--80281876 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
80281816 ATAACACATC
* *
80281826 CCTAGGGGTATAATGGTCATTTTCA
1 CCTAGGGGCAAAATGGTCATTTTCA
*
80281851 CCTAGGGGCAAAATGGTTATTTTCA
1 CCTAGGGGCAAAATGGTCATTTTCA
80281876 C
1 C
80281877 ATTATAAGTG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAATGGTCATTTTCA
Found at i:80284320 original size:23 final size:23
Alignment explanation
Indices: 80284276--80284320 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
80284266 GTTCACATGT
*
80284276 AACAATATAATATATAATACATC
1 AACAATATAATATATAAGACATC
* * *
80284299 AACAATTTCATATATACGACAT
1 AACAATATAATATATAAGACAT
80284321 TAGCATAGTA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.51, C:0.16, G:0.02, T:0.31
Consensus pattern (23 bp):
AACAATATAATATATAAGACATC
Found at i:80301459 original size:55 final size:56
Alignment explanation
Indices: 80301394--80301508 Score: 146
Period size: 55 Copynumber: 2.1 Consensus size: 56
80301384 AGCATGGCTG
* *
80301394 CCAGATACAGA-AAATGTGACAGAGTCACCAGATACAGATATTTTGTGGCAGT-GCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGA-ACAGATAATTTGTGGCA-TAGCCA
* * *
80301450 CCAGA-ACAGATATATGTGGCAGGGCCACCAGAACAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
80301505 CCAG
1 CCAG
80301509 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
54 1 0.02
55 29 0.56
56 22 0.42
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (56 bp):
CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
Found at i:80301471 original size:27 final size:27
Alignment explanation
Indices: 80301419--80301508 Score: 119
Period size: 27 Copynumber: 3.2 Consensus size: 27
80301409 GTGACAGAGT
80301419 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATA-TTTGTGGCAGTGC
* *
80301448 CACCAGAACAGATATATGTGGCAGGGC
1 CACCAGAACAGATATTTGTGGCAGTGC
80301475 CACCAGAACAGATAATTTGTGGCA-TAGC
1 CACCAGAACAGAT-ATTTGTGGCAGT-GC
80301503 CACCAG
1 CACCAG
80301509 GACGCTTCCT
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
27 24 0.44
28 24 0.44
29 7 0.13
ACGTcount: A:0.32, C:0.23, G:0.24, T:0.20
Consensus pattern (27 bp):
CACCAGAACAGATATTTGTGGCAGTGC
Found at i:80301661 original size:28 final size:28
Alignment explanation
Indices: 80301614--80301678 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
80301604 AAATTAACCC
*
80301614 TAGGGGTATAAAGGTCATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
*
80301642 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
80301670 TAGGGGTAT
1 TAGGGGTAT
80301679 TCTAGTAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.31, C:0.08, G:0.28, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTTGCATACA
Found at i:80307033 original size:46 final size:46
Alignment explanation
Indices: 80306983--80307158 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
80306973 TGGTTGAGCA
80306983 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
80307029 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
80307074 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
80307122 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
80307159 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.04
45 3 0.03
46 64 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:80307139 original size:93 final size:93
Alignment explanation
Indices: 80306980--80307150 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
80306970 GGATGGTTGA
* *
80306980 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
80307045 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
80307073 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
80307138 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
80307151 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:80308710 original size:34 final size:35
Alignment explanation
Indices: 80308639--80308710 Score: 85
Period size: 34 Copynumber: 2.1 Consensus size: 35
80308629 CGTATCCTAG
*
80308639 CTACAGTCTCAGTCTTCTAAAGTTTTCAGTTTTCC
1 CTACAGTCTCAGTCTTCTAAAGTTTTCAGTTTACC
* * *
80308674 CTACTGTCTCAGT-TTTTACAG-TTTCAGTATTACC
1 CTACAGTCTCAGTCTTCTAAAGTTTTCAGT-TTACC
80308708 CTA
1 CTA
80308711 ACTACAGAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
33 7 0.22
34 13 0.41
35 12 0.38
ACGTcount: A:0.21, C:0.25, G:0.11, T:0.43
Consensus pattern (35 bp):
CTACAGTCTCAGTCTTCTAAAGTTTTCAGTTTACC
Found at i:80317112 original size:14 final size:14
Alignment explanation
Indices: 80317093--80317120 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
80317083 TTGTTATACT
80317093 ACTATAGATAGTAC
1 ACTATAGATAGTAC
80317107 ACTATAGATAGTAC
1 ACTATAGATAGTAC
80317121 TGAGACCCTA
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:0.14, G:0.14, T:0.29
Consensus pattern (14 bp):
ACTATAGATAGTAC
Found at i:80319870 original size:22 final size:21
Alignment explanation
Indices: 80319845--80319885 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
80319835 CCTGAATGAC
*
80319845 TGTTACTATTTACTGCATGCCA
1 TGTTACTATTAACTG-ATGCCA
*
80319867 TGTTATTATTAACTGATGC
1 TGTTACTATTAACTGATGC
80319886 ATGGGACTGG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.24, C:0.17, G:0.15, T:0.44
Consensus pattern (21 bp):
TGTTACTATTAACTGATGCCA
Found at i:80322150 original size:26 final size:26
Alignment explanation
Indices: 80322121--80322199 Score: 68
Period size: 26 Copynumber: 2.9 Consensus size: 26
80322111 CAACCTTAAC
*
80322121 CCTAAAGGTATATCAGTAATTTTACT
1 CCTAAAGGTATATCAGTAATTTTACA
** * * *
80322147 CCTAGGGGTAAATCTGTAAATTTTCCA
1 CCTAAAGGTATATCAGT-AATTTTACA
*
80322174 CCTATAAAGGTATTTCAGTAATTTTA
1 CC--TAAAGGTATATCAGTAATTTTA
80322200 TCAGTTTTAA
Statistics
Matches: 38, Mismatches: 12, Indels: 4
0.70 0.22 0.07
Matches are distributed among these distances:
26 13 0.34
27 9 0.24
28 6 0.16
29 10 0.26
ACGTcount: A:0.33, C:0.15, G:0.14, T:0.38
Consensus pattern (26 bp):
CCTAAAGGTATATCAGTAATTTTACA
Found at i:80323688 original size:46 final size:46
Alignment explanation
Indices: 80323621--80323835 Score: 405
Period size: 46 Copynumber: 4.7 Consensus size: 46
80323611 TGTAACCCGC
80323621 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGTGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGTGCGTTCGCAT
80323667 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGTGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGTGCGTTCGCAT
80323713 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGTGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGTGCGTTCGCAT
80323759 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAG-GCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTC-GTGCGTTCGCAT
*
80323805 CCATAAGTGAACTCGGACTCAACTCAACGAG
1 CCATAAGCGAACTCGGACTCAACTCAACGAG
80323836 TTCGGATGCT
Statistics
Matches: 167, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
46 166 0.99
47 1 0.01
ACGTcount: A:0.28, C:0.32, G:0.21, T:0.19
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGTGCGTTCGCAT
Found at i:80334298 original size:65 final size:65
Alignment explanation
Indices: 80334194--80334395 Score: 404
Period size: 65 Copynumber: 3.1 Consensus size: 65
80334184 TATTTTCATT
80334194 CAATTTAATCCAAAAACACATAAATGGAAAAATTACCATTTTACCCCTGACATTTACAATTTTTA
1 CAATTTAATCCAAAAACACATAAATGGAAAAATTACCATTTTACCCCTGACATTTACAATTTTTA
80334259 CAATTTAATCCAAAAACACATAAATGGAAAAATTACCATTTTACCCCTGACATTTACAATTTTTA
1 CAATTTAATCCAAAAACACATAAATGGAAAAATTACCATTTTACCCCTGACATTTACAATTTTTA
80334324 CAATTTAATCCAAAAACACATAAATGGAAAAATTACCATTTTACCCCTGACATTTACAATTTTTA
1 CAATTTAATCCAAAAACACATAAATGGAAAAATTACCATTTTACCCCTGACATTTACAATTTTTA
80334389 CAATTTA
1 CAATTTA
80334396 GTCCCTATTG
Statistics
Matches: 137, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
65 137 1.00
ACGTcount: A:0.43, C:0.20, G:0.04, T:0.33
Consensus pattern (65 bp):
CAATTTAATCCAAAAACACATAAATGGAAAAATTACCATTTTACCCCTGACATTTACAATTTTTA
Found at i:80340070 original size:41 final size:42
Alignment explanation
Indices: 80339980--80340124 Score: 166
Period size: 43 Copynumber: 3.4 Consensus size: 42
80339970 TATCCTGGAT
* ** * * * *
80339980 ATGGTCTTACATGCTATCACATATCGATACCACTGTCCTAGAT
1 ATGGTCTTACATGCAATCTTATA-CGATGCCAATGTCCCAGAC
*
80340023 AGGGTCTTACATG-AATCTTATACGATGCCAATGTCCCAGAC
1 ATGGTCTTACATGCAATCTTATACGATGCCAATGTCCCAGAC
* *
80340064 ATGGTCTTACACGTAATCTTATACTGATGCCAATGTCCCAGAC
1 ATGGTCTTACATGCAATCTTATAC-GATGCCAATGTCCCAGAC
*
80340107 ATGGTCTTACATGAAATC
1 ATGGTCTTACATGCAATC
80340125 ACACTTTGAA
Statistics
Matches: 88, Mismatches: 12, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
41 26 0.30
42 16 0.18
43 46 0.52
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (42 bp):
ATGGTCTTACATGCAATCTTATACGATGCCAATGTCCCAGAC
Found at i:80340662 original size:18 final size:18
Alignment explanation
Indices: 80340639--80340683 Score: 90
Period size: 18 Copynumber: 2.5 Consensus size: 18
80340629 AAAGTGTTTT
80340639 TTGAAAACCATGTTTTCA
1 TTGAAAACCATGTTTTCA
80340657 TTGAAAACCATGTTTTCA
1 TTGAAAACCATGTTTTCA
80340675 TTGAAAACC
1 TTGAAAACC
80340684 CTTCTTATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.36, C:0.18, G:0.11, T:0.36
Consensus pattern (18 bp):
TTGAAAACCATGTTTTCA
Found at i:80342249 original size:27 final size:27
Alignment explanation
Indices: 80342115--80342268 Score: 142
Period size: 27 Copynumber: 5.9 Consensus size: 27
80342105 ATGGGCATTT
* *
80342115 TACCCTACAAGGGTATTTCGGTAATCC
1 TACCCTACAGGGGTATTTCGATAATCC
* *
80342142 TACCCTATAGGGGTATTTTTG-TAATCC
1 TACCCTACAGGGGTA-TTTCGATAATCC
*
80342169 TACCCTAC------ATTTCAATAATCC
1 TACCCTACAGGGGTATTTCGATAATCC
**
80342190 TACCCTACAAAGGTATTTCGATAATCC
1 TACCCTACAGGGGTATTTCGATAATCC
*
80342217 TACCCCACAGGGGTATTTCGATAATCC
1 TACCCTACAGGGGTATTTCGATAATCC
* * * *
80342244 TACCCCATAGAGGTATTTTGATAAT
1 TACCCTACAGGGGTATTTCGATAAT
80342269 TTCACAAATA
Statistics
Matches: 106, Mismatches: 13, Indels: 16
0.79 0.10 0.12
Matches are distributed among these distances:
20 3 0.03
21 15 0.14
27 84 0.79
28 4 0.04
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.32
Consensus pattern (27 bp):
TACCCTACAGGGGTATTTCGATAATCC
Found at i:80342285 original size:27 final size:27
Alignment explanation
Indices: 80342250--80342493 Score: 155
Period size: 27 Copynumber: 9.1 Consensus size: 27
80342240 ATCCTACCCC
*
80342250 ATAGA-GGTATTTTGATAATTTCACAA
1 ATAGAGGGTATTTTGATAATTTTACAA
* *
80342276 ATAGAGGGTATTCT-AGTAATTTCACAA
1 ATAGAGGGTATTTTGA-TAATTTTACAA
*
80342303 ATCAG-GGGTATTTTAATAATTTTACAA
1 AT-AGAGGGTATTTTGATAATTTTACAA
* * * *
80342330 GTCAG-GAGTATTTCGGTAATTTTACAA
1 AT-AGAGGGTATTTTGATAATTTTACAA
80342357 ATCA-AGGGTATTTT-AGTAATTTTACAA
1 AT-AGAGGGTATTTTGA-TAATTTTACAA
* * *
80342384 GTTAGA-GGTATTTCGATAATTTTATAA
1 -ATAGAGGGTATTTTGATAATTTTACAA
*** * *
80342411 CCCGGGGGTA-TTTCAGTAATTTTACAA
1 ATAGAGGGTATTTTGA-TAATTTTACAA
* *
80342438 ATTAG-GGGTATTTTGGTAATTTTACAT
1 A-TAGAGGGTATTTTGATAATTTTACAA
* * **
80342465 ATCGAGAGTATTTCAATAATTTTACAA
1 ATAGAGGGTATTTTGATAATTTTACAA
80342492 AT
1 AT
80342494 CAAGGGTCTT
Statistics
Matches: 170, Mismatches: 34, Indels: 27
0.74 0.15 0.12
Matches are distributed among these distances:
26 12 0.07
27 148 0.87
28 10 0.06
ACGTcount: A:0.34, C:0.09, G:0.18, T:0.39
Consensus pattern (27 bp):
ATAGAGGGTATTTTGATAATTTTACAA
Found at i:80342341 original size:81 final size:81
Alignment explanation
Indices: 80342256--80342491 Score: 237
Period size: 81 Copynumber: 2.9 Consensus size: 81
80342246 CCCCATAGAG
* * * *
80342256 GTATTTTGATAATTTCACAAATAGAGGGTATTCTAGTAATTTCACAAATCAGGGGTATTTTAATA
1 GTATTTTGATAATTTTACAAATAGAGGGTATTTTAGTAATTTTACAAATCAGGGGTATTTCAATA
**
80342321 ATTTTACAAGTCAGGA
66 ATTTTACAACCCAGGA
* * * * * *
80342337 GTATTTCGGTAATTTTACAAATCA-AGGGTATTTTAGTAATTTTACAAGTTAGAGGTATTTCGAT
1 GTATTTTGATAATTTTACAAAT-AGAGGGTATTTTAGTAATTTTACAAATCAGGGGTATTTCAAT
* * *
80342401 AATTTTATAACCCGGGG
65 AATTTTACAACCCAGGA
* * * *
80342418 GTA-TTTCAGTAATTTTACAAATTAG-GGGTATTTTGGTAATTTTACATATC-GAGAGTATTTCA
1 GTATTTTGA-TAATTTTACAAA-TAGAGGGTATTTTAGTAATTTTACAAATCAG-GGGTATTTCA
80342480 ATAATTTTACAA
63 ATAATTTTACAA
80342492 ATCAAGGGTC
Statistics
Matches: 124, Mismatches: 26, Indels: 10
0.77 0.16 0.06
Matches are distributed among these distances:
80 3 0.02
81 119 0.96
82 2 0.02
ACGTcount: A:0.33, C:0.09, G:0.17, T:0.40
Consensus pattern (81 bp):
GTATTTTGATAATTTTACAAATAGAGGGTATTTTAGTAATTTTACAAATCAGGGGTATTTCAATA
ATTTTACAACCCAGGA
Found at i:80342741 original size:18 final size:17
Alignment explanation
Indices: 80342708--80342742 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
80342698 CTTATTTGTA
*
80342708 TGGGCCCACGAGCCCAT
1 TGGGCCCACCAGCCCAT
80342725 TGGGCCCACACAGCCCAT
1 TGGGCCCAC-CAGCCCAT
80342743 CGAGGCCCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.20, C:0.43, G:0.26, T:0.11
Consensus pattern (17 bp):
TGGGCCCACCAGCCCAT
Found at i:80346643 original size:27 final size:27
Alignment explanation
Indices: 80346590--80346699 Score: 161
Period size: 26 Copynumber: 4.1 Consensus size: 27
80346580 ACGGGCATTT
80346590 TACCCTACAAGGGTATTT-TGTAATCC
1 TACCCTACAAGGGTATTTCTGTAATCC
* *
80346616 TACCCTACAGGGGTATTTTTGTAATCC
1 TACCCTACAAGGGTATTTCTGTAATCC
*
80346643 TACCCTAC-AGGGTATTTCAGTAATCC
1 TACCCTACAAGGGTATTTCTGTAATCC
* *
80346669 TACCCCACAAGGGTATTTCGGTAATCC
1 TACCCTACAAGGGTATTTCTGTAATCC
80346696 TACC
1 TACC
80346700 TCATAGAGGT
Statistics
Matches: 76, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
26 39 0.51
27 37 0.49
ACGTcount: A:0.25, C:0.26, G:0.16, T:0.32
Consensus pattern (27 bp):
TACCCTACAAGGGTATTTCTGTAATCC
Found at i:80346666 original size:53 final size:53
Alignment explanation
Indices: 80346590--80346699 Score: 159
Period size: 53 Copynumber: 2.1 Consensus size: 53
80346580 ACGGGCATTT
* * * **
80346590 TACCCTACAAGGGTATTTTGTAATCCTACCCTACAGGGGTATTTTTGTAATCC
1 TACCCTACAAGGGTATTTAGTAATCCTACCCCACAAGGGTATTTCGGTAATCC
80346643 TACCCTAC-AGGGTATTTCAGTAATCCTACCCCACAAGGGTATTTCGGTAATCC
1 TACCCTACAAGGGTATTT-AGTAATCCTACCCCACAAGGGTATTTCGGTAATCC
80346696 TACC
1 TACC
80346700 TCATAGAGGT
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
52 9 0.18
53 42 0.82
ACGTcount: A:0.25, C:0.26, G:0.16, T:0.32
Consensus pattern (53 bp):
TACCCTACAAGGGTATTTAGTAATCCTACCCCACAAGGGTATTTCGGTAATCC
Found at i:80346710 original size:27 final size:27
Alignment explanation
Indices: 80346590--80346720 Score: 114
Period size: 27 Copynumber: 4.9 Consensus size: 27
80346580 ACGGGCATTT
*
80346590 TACCCTACA-AGGGTATTT-TGTAATCC
1 TACCC-ACAGAGGGTATTTCGGTAATCC
**
80346616 TACCCTACAG-GGGTATTTTTGTAATCC
1 TACCC-ACAGAGGGTATTTCGGTAATCC
*
80346643 TACCCTAC--AGGGTATTTCAGTAATCC
1 TACCC-ACAGAGGGTATTTCGGTAATCC
80346669 TACCCCACA-AGGGTATTTCGGTAATCC
1 TA-CCCACAGAGGGTATTTCGGTAATCC
* *
80346696 TACCTCATAGA-GGTATTTCGATAAT
1 TACC-CACAGAGGGTATTTCGGTAAT
80346721 TTCACAAATC
Statistics
Matches: 93, Mismatches: 5, Indels: 13
0.84 0.05 0.12
Matches are distributed among these distances:
26 38 0.41
27 54 0.58
28 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.33
Consensus pattern (27 bp):
TACCCACAGAGGGTATTTCGGTAATCC
Found at i:80346737 original size:27 final size:27
Alignment explanation
Indices: 80346707--80346891 Score: 171
Period size: 27 Copynumber: 6.9 Consensus size: 27
80346697 ACCTCATAGA
* * *
80346707 GGTATTTCGATAATTTCACAAATCAAG
1 GGTATTTTGGTAATTTTACAAATCAAG
* *
80346734 GGTATTTCGGTAATTTTATAAATC-AG
1 GGTATTTTGGTAATTTTACAAATCAAG
*** * *
80346760 GTGTATTTAAATAA-TTTACAAGT-TAG
1 G-GTATTTTGGTAATTTTACAAATCAAG
*
80346786 GAGTATTTTGGTAATTTTATAAAT-AAG
1 G-GTATTTTGGTAATTTTACAAATCAAG
* * *
80346813 AGGTATTTTAGTAATTTTACAAGTTAAG
1 -GGTATTTTGGTAATTTTACAAATCAAG
* *
80346841 GGTATTTTGGTAATTTTACAAATTAGG
1 GGTATTTTGGTAATTTTACAAATCAAG
80346868 GGTATTTTGGTAATTTTACAAATC
1 GGTATTTTGGTAATTTTACAAATC
80346892 GGTGGTCTTA
Statistics
Matches: 131, Mismatches: 22, Indels: 10
0.80 0.13 0.06
Matches are distributed among these distances:
26 22 0.17
27 105 0.80
28 4 0.03
ACGTcount: A:0.34, C:0.06, G:0.18, T:0.42
Consensus pattern (27 bp):
GGTATTTTGGTAATTTTACAAATCAAG
Found at i:80346793 original size:107 final size:107
Alignment explanation
Indices: 80346681--80346874 Score: 232
Period size: 107 Copynumber: 1.8 Consensus size: 107
80346671 CCCCACAAGG
*
80346681 GTATTTCGGTAATCCTACCT-CAT-AGAGGTATTTCGA-TAATTTCACAAATCAAGGGTATTTCG
1 GTATTTCGGTAATCCTA--TAAATAAGAGGTATTT-GAGTAATTTCACAAATCAAGGGTATTTCG
* *
80346743 GTAATTTTATAAATCAGGTGTATTTAAATAATTTACAAGTTAGGA
63 GTAATTTTACAAATCAGGGGTATTTAAATAATTTACAAGTTAGGA
* ** * * * * *
80346788 GTATTTTGGTAATTTTATAAATAAGAGGTATTTTAGTAATTTTACAAGTTAAGGGTATTTTGGTA
1 GTATTTCGGTAATCCTATAAATAAGAGGTATTTGAGTAATTTCACAAATCAAGGGTATTTCGGTA
*
80346853 ATTTTACAAATTAGGGGTATTT
66 ATTTTACAAATCAGGGGTATTT
80346875 TGGTAATTTT
Statistics
Matches: 72, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
105 1 0.01
106 3 0.04
107 68 0.94
ACGTcount: A:0.33, C:0.08, G:0.18, T:0.41
Consensus pattern (107 bp):
GTATTTCGGTAATCCTATAAATAAGAGGTATTTGAGTAATTTCACAAATCAAGGGTATTTCGGTA
ATTTTACAAATCAGGGGTATTTAAATAATTTACAAGTTAGGA
Found at i:80347127 original size:17 final size:17
Alignment explanation
Indices: 80347105--80347139 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
80347095 CTTGTCCGTA
**
80347105 TGGGCCCATGAGCCCAT
1 TGGGCCCACAAGCCCAT
80347122 TGGGCCCACAAGCCCAT
1 TGGGCCCACAAGCCCAT
80347139 T
1 T
80347140 TCAGCCCATC
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:0.20, C:0.37, G:0.26, T:0.17
Consensus pattern (17 bp):
TGGGCCCACAAGCCCAT
Found at i:80351188 original size:63 final size:63
Alignment explanation
Indices: 80351115--80351240 Score: 243
Period size: 63 Copynumber: 2.0 Consensus size: 63
80351105 CTTTATATAG
*
80351115 GGAGAGTTTAGAGAGTTCAACTATGATTAAACTTAATCACTTTAATATTAAATTAATATAATA
1 GGAGAATTTAGAGAGTTCAACTATGATTAAACTTAATCACTTTAATATTAAATTAATATAATA
80351178 GGAGAATTTAGAGAGTTCAACTATGATTAAACTTAATCACTTTAATATTAAATTAATATAATA
1 GGAGAATTTAGAGAGTTCAACTATGATTAAACTTAATCACTTTAATATTAAATTAATATAATA
80351241 CTTATCAAGA
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
63 62 1.00
ACGTcount: A:0.44, C:0.08, G:0.12, T:0.37
Consensus pattern (63 bp):
GGAGAATTTAGAGAGTTCAACTATGATTAAACTTAATCACTTTAATATTAAATTAATATAATA
Found at i:80351351 original size:66 final size:66
Alignment explanation
Indices: 80351223--80351353 Score: 160
Period size: 66 Copynumber: 2.0 Consensus size: 66
80351213 ATCACTTTAA
* * *
80351223 TATTAAATTAATATAATACTTATCAAGATAAATATTATTAAGTATTATATTAATTTAATATTAAA
1 TATTAAATTAATAAAATACTTATCAAGATAAATATTATTAAATATTATATTAAATT-ATATTAAA
80351288 TC
65 TC
* *
80351290 TATTAAATTAGTAAAATAC-TATCAAGATAAGTATTAAATTAAAT-TTAATATTAAATT-TATTA
1 TATTAAATTAATAAAATACTTATCAAGATAAATATT--ATTAAATATT-ATATTAAATTATATTA
80351352 AA
63 AA
80351354 ACAATATTAT
Statistics
Matches: 56, Mismatches: 5, Indels: 7
0.82 0.07 0.10
Matches are distributed among these distances:
66 22 0.39
67 19 0.34
68 15 0.27
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.43
Consensus pattern (66 bp):
TATTAAATTAATAAAATACTTATCAAGATAAATATTATTAAATATTATATTAAATTATATTAAAT
C
Found at i:80356785 original size:19 final size:19
Alignment explanation
Indices: 80356747--80356785 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
80356737 CAACGCCATA
*
80356747 GACAGGACGGCTCAACGCC
1 GACAGGACGGCTAAACGCC
* *
80356766 GACAGGGCGGCTAAAGGCC
1 GACAGGACGGCTAAACGCC
80356785 G
1 G
80356786 TAAATATAGC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.26, C:0.31, G:0.38, T:0.05
Consensus pattern (19 bp):
GACAGGACGGCTAAACGCC
Found at i:80358793 original size:52 final size:51
Alignment explanation
Indices: 80358675--80358852 Score: 254
Period size: 51 Copynumber: 3.5 Consensus size: 51
80358665 CGAATACCCC
* * *
80358675 GTGGCCTGCACATAGTACCACCCTTGT-AGTCAAAGCTATCTTCTTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGA-CCAAAGCTATCTTCTTCACAAA
80358726 GTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATCTTTCTTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATC-TTCTTCACAAA
* *
80358778 GTGGCCTTCACATAGTACCACACTTTTGACC-AAGCTATC-TCTTCTCAAA
1 GTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATCTTCTTCACAAA
**
80358827 GTTACCTTCACATAGTACCACACTTG
1 GTGGCCTTCACATAGTACCACACTTG
80358853 AGTCACTAGT
Statistics
Matches: 117, Mismatches: 8, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
49 32 0.27
51 43 0.37
52 42 0.36
ACGTcount: A:0.28, C:0.30, G:0.13, T:0.29
Consensus pattern (51 bp):
GTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATCTTCTTCACAAA
Found at i:80358840 original size:49 final size:50
Alignment explanation
Indices: 80358675--80358851 Score: 239
Period size: 52 Copynumber: 3.5 Consensus size: 50
80358665 CGAATACCCC
* * * * *
80358675 GTGGCCTGCACATAGTACCACCCTTGTAGTCAAAGCTATCTTCTTCACAAA
1 GTGGCCTTCACATAGTACCACACTT-TTGACCAAGCTATCTTCTTCACAAA
*
80358726 GTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATCTTTCTTCACAAA
1 GTGGCCTTCACATAGTACCACACTTTTGACC-AAGCTATC-TTCTTCACAAA
*
80358778 GTGGCCTTCACATAGTACCACACTTTTGACCAAGCTATC-TCTTCTCAAA
1 GTGGCCTTCACATAGTACCACACTTTTGACCAAGCTATCTTCTTCACAAA
**
80358827 GTTACCTTCACATAGTACCACACTT
1 GTGGCCTTCACATAGTACCACACTT
80358852 GAGTCACTAG
Statistics
Matches: 114, Mismatches: 10, Indels: 6
0.88 0.08 0.05
Matches are distributed among these distances:
49 32 0.28
50 2 0.02
51 39 0.34
52 41 0.36
ACGTcount: A:0.28, C:0.30, G:0.13, T:0.29
Consensus pattern (50 bp):
GTGGCCTTCACATAGTACCACACTTTTGACCAAGCTATCTTCTTCACAAA
Done.