Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A07
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: 92880876
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2857347 characters in sequence are not A, C, G, or T
File 59 of 290
Found at i:18200536 original size:24 final size:23
Alignment explanation
Indices: 18200500--18200608 Score: 155
Period size: 24 Copynumber: 4.5 Consensus size: 23
18200490 TTGGCCGGCC
18200500 AAATCTTTCTCCTTGATCAGCTCCT
1 AAATC-TTCTCCTT-ATCAGCTCCT
18200525 AAATCTTCTCCTTTATCAGCTCCT
1 AAATCTTCTCC-TTATCAGCTCCT
*
18200549 AAATCCTCTCCCTTATCAGCTCCT
1 AAATCTTCT-CCTTATCAGCTCCT
*
18200573 AAATCCTCTCCCTTATCAGCTCCT
1 AAATCTTCT-CCTTATCAGCTCCT
18200597 AAATCTTCTCCT
1 AAATCTTCTCCT
18200609 AACAGTCTTT
Statistics
Matches: 80, Mismatches: 2, Indels: 6
0.91 0.02 0.07
Matches are distributed among these distances:
23 3 0.04
24 68 0.85
25 9 0.11
ACGTcount: A:0.21, C:0.37, G:0.05, T:0.38
Consensus pattern (23 bp):
AAATCTTCTCCTTATCAGCTCCT
Found at i:18204144 original size:26 final size:27
Alignment explanation
Indices: 18204095--18204182 Score: 83
Period size: 27 Copynumber: 3.3 Consensus size: 27
18204085 GGAGGGGAGG
18204095 AGAAAA-GGAAGAGAGAAGGAAAGAGAA
1 AGAAAAGGGAAGAGAGAAGGAAAGA-AA
*
18204122 AGAAAAGGGGAGAGA-AAGG-AAGAAA
1 AGAAAAGGGAAGAGAGAAGGAAAGAAA
* * * *
18204147 ATAAAAGAGAAAGAGAGGAGAAAAGAGAA
1 AGAAAAG-GGAAGAGAGAAGGAAAGA-AA
18204176 AGAAAAG
1 AGAAAAG
18204183 AAAGAAAAAT
Statistics
Matches: 49, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
25 8 0.16
26 10 0.20
27 12 0.24
28 11 0.22
29 8 0.16
ACGTcount: A:0.64, C:0.00, G:0.35, T:0.01
Consensus pattern (27 bp):
AGAAAAGGGAAGAGAGAAGGAAAGAAA
Found at i:18204171 original size:12 final size:11
Alignment explanation
Indices: 18204103--18204183 Score: 53
Period size: 11 Copynumber: 7.4 Consensus size: 11
18204093 GGAGAAAAGG
*
18204103 AAGAGAGAAGGA
1 AAGAGA-AAGAA
18204115 AAGAGAAAGAA
1 AAGAGAAAGAA
**
18204126 AAG-GGGAGAGA
1 AAGAGAAAGA-A
18204137 AAG-G-AAGAA
1 AAGAGAAAGAA
*
18204146 AATA-AAAGAGA
1 AAGAGAAAGA-A
*
18204157 AAGAGAGGAGAA
1 AAGAGA-AAGAA
18204169 AAGAGAAAGAA
1 AAGAGAAAGAA
18204180 AAGA
1 AAGA
18204184 AAGAAAAATG
Statistics
Matches: 55, Mismatches: 8, Indels: 13
0.72 0.11 0.17
Matches are distributed among these distances:
9 3 0.05
10 11 0.20
11 24 0.44
12 14 0.25
13 3 0.05
ACGTcount: A:0.64, C:0.00, G:0.35, T:0.01
Consensus pattern (11 bp):
AAGAGAAAGAA
Found at i:18204197 original size:30 final size:30
Alignment explanation
Indices: 18204106--18204198 Score: 73
Period size: 30 Copynumber: 3.0 Consensus size: 30
18204096 GAAAAGGAAG
* **
18204106 AGAGAAGGAAAGAGAAAGAAAAGGGGAGAGAA
1 AGAGAAAGAAA-AGAAAGAAAAAAGGAGA-AA
*
18204138 AG-G-AAGAAAATAAAAGAGAAAGAGAGGAGAAA
1 AGAGAAAGAAAA-GAAAGA-AAA-A-AGGAGAAA
*
18204170 AGAGAAAGAAAAGAAAGAAAAATGGAGAA
1 AGAGAAAGAAAAGAAAGAAAAAAGGAGAA
18204199 GAATAAAAGG
Statistics
Matches: 49, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
29 1 0.02
30 16 0.33
31 5 0.10
32 9 0.18
33 11 0.22
34 7 0.14
ACGTcount: A:0.65, C:0.00, G:0.33, T:0.02
Consensus pattern (30 bp):
AGAGAAAGAAAAGAAAGAAAAAAGGAGAAA
Found at i:18204204 original size:54 final size:54
Alignment explanation
Indices: 18204103--18204207 Score: 133
Period size: 54 Copynumber: 1.9 Consensus size: 54
18204093 GGAGAAAAGG
* ** *
18204103 AAGAGAGAAGGAAAGAGAAAGAAAAGGGGAGAGAAAGGAAGAAAATAAAAGAGA
1 AAGAGAGAAGAAAAGAGAAAGAAAAGGAAAGAAAAAGGAAGAAAATAAAAGAGA
*
18204157 AAGAGAGGAGAAAAGAGAAAGAAAA-GAAAGAAAAATGG-AGAAGAATAAAAG
1 AAGAGAGAAGAAAAGAGAAAGAAAAGGAAAGAAAAA-GGAAGAA-AATAAAAG
18204208 GTGGCTGGTT
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
53 11 0.25
54 33 0.75
ACGTcount: A:0.65, C:0.00, G:0.32, T:0.03
Consensus pattern (54 bp):
AAGAGAGAAGAAAAGAGAAAGAAAAGGAAAGAAAAAGGAAGAAAATAAAAGAGA
Found at i:18218112 original size:81 final size:81
Alignment explanation
Indices: 18217977--18218125 Score: 235
Period size: 81 Copynumber: 1.8 Consensus size: 81
18217967 CGGGCCCTCG
*
18217977 ATTTATAGAATTACCATTTTACCCTCGACTTACAGAATTACCATTTTACCCTCGATTTACAGAAT
1 ATTTATAGAATTACCATTTTACCCTCGACTTACAGAATTACCATTTTACCCTCGATTTACAAAAT
18218042 TACCGTTTTACCCTTA
66 TACCGTTTTACCCTTA
** * * **
18218058 ATTTATAGAATTACTGTTTTACCCTTGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAAT
1 ATTTATAGAATTACCATTTTACCCTCGACTTACAGAATTACCATTTTACCCTCGATTTACAAAAT
18218123 TAC
66 TAC
18218126 TAAAATACAT
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
81 61 1.00
ACGTcount: A:0.30, C:0.21, G:0.08, T:0.40
Consensus pattern (81 bp):
ATTTATAGAATTACCATTTTACCCTCGACTTACAGAATTACCATTTTACCCTCGATTTACAAAAT
TACCGTTTTACCCTTA
Found at i:18218126 original size:27 final size:27
Alignment explanation
Indices: 18217971--18218125 Score: 211
Period size: 27 Copynumber: 5.7 Consensus size: 27
18217961 GCCACACGGG
* *
18217971 CCCTCGATTTATAGAATTACCATTTTA
1 CCCTCGATTTACAGAATTACCGTTTTA
* *
18217998 CCCTCGACTTACAGAATTACCATTTTA
1 CCCTCGATTTACAGAATTACCGTTTTA
18218025 CCCTCGATTTACAGAATTACCGTTTTA
1 CCCTCGATTTACAGAATTACCGTTTTA
** * *
18218052 CCCTTAATTTATAGAATTACTGTTTTA
1 CCCTCGATTTACAGAATTACCGTTTTA
* *
18218079 CCCTTGATTTACAGAATTACTGTTTTA
1 CCCTCGATTTACAGAATTACCGTTTTA
*
18218106 CCCTCGATTTACAAAATTAC
1 CCCTCGATTTACAGAATTAC
18218126 TAAAATACAT
Statistics
Matches: 116, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 116 1.00
ACGTcount: A:0.29, C:0.23, G:0.08, T:0.39
Consensus pattern (27 bp):
CCCTCGATTTACAGAATTACCGTTTTA
Found at i:18218144 original size:54 final size:54
Alignment explanation
Indices: 18217976--18218153 Score: 140
Period size: 54 Copynumber: 3.3 Consensus size: 54
18217966 ACGGGCCCTC
* * * * * * *** * *
18217976 GATTTATAGAATTACCATTTTACCCTCGACTTACAGAATTACCATTTTACCCTC
1 GATTTACAGAATTACCGTTTTACCCTCAATTTACAAAATTACTAAAATACACTT
* * * **** *
18218030 GATTTACAGAATTACCGTTTTACCCTTAATTTATAGAATTACTGTTTTACCCTT
1 GATTTACAGAATTACCGTTTTACCCTCAATTTACAAAATTACTAAAATACACTT
* * *
18218084 GATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACTAAAATACATTT
1 GATTTACAGAATTACCGTTTTACCCTCAATTTACAAAATTACTAAAATACACTT
* *
18218138 GGTTTACAAAATTACC
1 GATTTACAGAATTACC
18218154 AAAATACCCT
Statistics
Matches: 101, Mismatches: 23, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
54 101 1.00
ACGTcount: A:0.32, C:0.20, G:0.08, T:0.39
Consensus pattern (54 bp):
GATTTACAGAATTACCGTTTTACCCTCAATTTACAAAATTACTAAAATACACTT
Found at i:18218151 original size:81 final size:81
Alignment explanation
Indices: 18217993--18218152 Score: 176
Period size: 81 Copynumber: 2.0 Consensus size: 81
18217983 AGAATTACCA
* **** *
18217993 TTTTACCCTCGACTTACAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTTA
1 TTTTACCCTCGACTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACCAAAATACACTTA
* *
18218058 ATTTATAGAATTACTG
66 ATTTACAAAATTACTG
* * ** * * *
18218074 TTTTACCCTTGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACTAAAATACATTTG
1 TTTTACCCTCGACTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACCAAAATACACTTA
*
18218139 GTTTACAAAATTAC
66 ATTTACAAAATTAC
18218153 CAAAATACCC
Statistics
Matches: 63, Mismatches: 16, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
81 63 1.00
ACGTcount: A:0.31, C:0.21, G:0.08, T:0.40
Consensus pattern (81 bp):
TTTTACCCTCGACTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACCAAAATACACTTA
ATTTACAAAATTACTG
Found at i:18218175 original size:27 final size:26
Alignment explanation
Indices: 18218145--18218322 Score: 221
Period size: 27 Copynumber: 6.7 Consensus size: 26
18218135 TTTGGTTTAC
* **
18218145 AAAATTACCAAAATACCCTCGATCAGT
1 AAAATTACCAAAATACCCTAG-TTTGT
* *
18218172 AAAATTATCAAAATACCCTAGTCTGT
1 AAAATTACCAAAATACCCTAGTTTGT
*
18218198 AAAATTACTAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATA-CCCTAGTTTGT
18218225 AAAATTACCAAAATACCCATAGTTTGT
1 AAAATTACCAAAATACCC-TAGTTTGT
18218252 AAAATTACCAAAATACCACTAGTTTGT
1 AAAATTACCAAAATACC-CTAGTTTGT
* * * *
18218279 GAAATTACCGAAATACCCTTAATTTAT
1 AAAATTACCAAAATACCC-TAGTTTGT
18218306 AAAATTACCAAAATACC
1 AAAATTACCAAAATACC
18218323 ATTGATTTAC
Statistics
Matches: 134, Mismatches: 13, Indels: 8
0.86 0.08 0.05
Matches are distributed among these distances:
26 21 0.16
27 112 0.84
28 1 0.01
ACGTcount: A:0.44, C:0.20, G:0.07, T:0.29
Consensus pattern (26 bp):
AAAATTACCAAAATACCCTAGTTTGT
Found at i:18218231 original size:80 final size:81
Alignment explanation
Indices: 18218118--18218322 Score: 252
Period size: 80 Copynumber: 2.5 Consensus size: 81
18218108 CTCGATTTAC
** * * * *
18218118 AAAATTACTAAAATACATTTGGTTTACAAAATTACCAAAATACCC-TCGATCAGTAAAATTATCA
1 AAAATTACTAAAATACCCTTAGTTTATAAAATTACCAAAATACCCATAG-TCAGTAAAATTACCA
18218182 AAATACC-CTAGTCTGT
65 AAATACCACTAGTCTGT
* * **
18218198 AAAATTACTAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCATAGTTTGTAAAATTACCAA
1 AAAATTACTAAAATACCCTTAGTTTATAAAATTACCAAAATACCCATAGTCAGTAAAATTACCAA
*
18218263 AATACCACTAGTTTGT
66 AATACCACTAGTCTGT
* ** *
18218279 GAAATTACCGAAATACCCTTAATTTATAAAATTACCAAAATACC
1 AAAATTACTAAAATACCCTTAGTTTATAAAATTACCAAAATACC
18218323 ATTGATTTAC
Statistics
Matches: 106, Mismatches: 17, Indels: 3
0.84 0.13 0.02
Matches are distributed among these distances:
80 58 0.55
81 48 0.45
ACGTcount: A:0.44, C:0.19, G:0.07, T:0.30
Consensus pattern (81 bp):
AAAATTACTAAAATACCCTTAGTTTATAAAATTACCAAAATACCCATAGTCAGTAAAATTACCAA
AATACCACTAGTCTGT
Found at i:18218330 original size:27 final size:27
Alignment explanation
Indices: 18218111--18218405 Score: 156
Period size: 27 Copynumber: 10.9 Consensus size: 27
18218101 TTTTACCCTC
* *
18218111 GATTTACAAAATTACTAAAATA-CATTT
1 GATTTATAAAATTACCAAAATACCA-TT
* * * *
18218138 GGTTTACAAAATTACCAAAATACCCTC
1 GATTTATAAAATTACCAAAATACCATT
* * * *
18218165 GA-TCAGTAAAATTATCAAAATACCCTA
1 GATTTA-TAAAATTACCAAAATACCATT
* * * **
18218192 G-TCTGTAAAATTACTAAAATACCCCT
1 GATTTATAAAATTACCAAAATACCATT
* *
18218218 -AGTTTGTAAAATTACCAAAATACCCATA
1 GA-TTTATAAAATTACCAAAATA-CCATT
* *
18218246 G-TTTGTAAAATTACCAAAATACCACT
1 GATTTATAAAATTACCAAAATACCATT
* * * *
18218272 -AGTTTGTGAAATTACCGAAATACCCTT
1 GA-TTTATAAAATTACCAAAATACCATT
*
18218299 AATTTATAAAATTACCAAAATACCATT
1 GATTTATAAAATTACCAAAATACCATT
* *
18218326 GATTTACAAAGTTA-CAGAAATACCATT
1 GATTTATAAAATTACCA-AAATACCATT
* * *
18218353 AACTTTCTAAAAATTA-TAGAAATACCATT
1 GA-TTTAT-AAAATTACCA-AAATACCATT
* * **
18218382 GGTTTACAAAATTACTGAAATACC
1 GATTTATAAAATTACCAAAATACC
18218406 CCTAGTTTGT
Statistics
Matches: 210, Mismatches: 44, Indels: 28
0.74 0.16 0.10
Matches are distributed among these distances:
26 24 0.11
27 157 0.75
28 11 0.05
29 18 0.09
ACGTcount: A:0.44, C:0.18, G:0.07, T:0.31
Consensus pattern (27 bp):
GATTTATAAAATTACCAAAATACCATT
Found at i:18218347 original size:81 final size:79
Alignment explanation
Indices: 18218140--18218350 Score: 219
Period size: 81 Copynumber: 2.6 Consensus size: 79
18218130 ATACATTTGG
* * * * *
18218140 TTTACAAAATTACCAAAATACCCTCGATCAGTAAAATTATCAAAATACC-CTAGTCTGTAAAATT
1 TTTATAAAATTACCAAAATACCATAGAT--TTAAAATTACCAAAATACCACTAGTCTGTAAAATT
* *
18218204 ACTAAAATACCCCTAG
64 ACCAAAATACCCCTAA
* * * *
18218220 TTTGTAAAATTACCAAAATACCCATAGTTTGTAAAATTACCAAAATACCACTAGTTTGTGAAATT
1 TTTATAAAATTACCAAAATA-CCATAGATT-TAAAATTACCAAAATACCACTAGTCTGTAAAATT
* *
18218285 ACCGAAATACCCTTAA
64 ACCAAAATACCCCTAA
*
18218301 TTTATAAAATTACCAAAATACCATTGATTTACAAAGTTA-CAGAAATACCA
1 TTTATAAAATTACCAAAATACCATAGATTTA-AAA-TTACCA-AAATACCA
18218351 TTAACTTTCT
Statistics
Matches: 109, Mismatches: 16, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
79 2 0.02
80 47 0.43
81 60 0.55
ACGTcount: A:0.44, C:0.19, G:0.07, T:0.29
Consensus pattern (79 bp):
TTTATAAAATTACCAAAATACCATAGATTTAAAATTACCAAAATACCACTAGTCTGTAAAATTAC
CAAAATACCCCTAA
Found at i:18218497 original size:27 final size:27
Alignment explanation
Indices: 18218467--18218557 Score: 121
Period size: 27 Copynumber: 3.4 Consensus size: 27
18218457 ACCCCTATTA
*
18218467 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
*
18218494 GGTAAAGTGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* * *
18218521 AGTAAAGTGACCGTAATA-CCCCTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
18218548 GGTAAAATGA
1 GGTAAAATGA
18218558 TGAATATGCC
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
27 56 0.98
28 1 0.02
ACGTcount: A:0.35, C:0.20, G:0.25, T:0.20
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:18219289 original size:20 final size:21
Alignment explanation
Indices: 18219263--18219329 Score: 104
Period size: 20 Copynumber: 3.3 Consensus size: 21
18219253 ATTTTGATAT
18219263 ACATGAT-TGATATGATATGC
1 ACATGATATGATATGATATGC
*
18219283 TCATGATATG-TATGATATGC
1 ACATGATATGATATGATATGC
18219303 ACATGATAT-ATATGATATGC
1 ACATGATATGATATGATATGC
18219323 ACATGAT
1 ACATGAT
18219330 GTATTCATAA
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
20 41 0.95
21 2 0.05
ACGTcount: A:0.36, C:0.10, G:0.18, T:0.36
Consensus pattern (21 bp):
ACATGATATGATATGATATGC
Found at i:18219290 original size:11 final size:11
Alignment explanation
Indices: 18219274--18219329 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
18219264 CATGATTGAT
18219274 ATGATATGCTC
1 ATGATATGCTC
18219285 ATGATATG-T-
1 ATGATATGCTC
*
18219294 ATGATATGCAC
1 ATGATATGCTC
*
18219305 ATGATAT-AT-
1 ATGATATGCTC
*
18219314 ATGATATGCAC
1 ATGATATGCTC
18219325 ATGAT
1 ATGAT
18219330 GTATTCATAA
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
9 15 0.42
10 1 0.03
11 20 0.56
ACGTcount: A:0.36, C:0.11, G:0.18, T:0.36
Consensus pattern (11 bp):
ATGATATGCTC
Found at i:18219297 original size:9 final size:10
Alignment explanation
Indices: 18219273--18219322 Score: 50
Period size: 9 Copynumber: 5.0 Consensus size: 10
18219263 ACATGATTGA
18219273 TATGATATGC
1 TATGATATGC
18219283 TCATGATATG-
1 T-ATGATATGC
18219293 TATGATATGC
1 TATGATATGC
* *
18219303 ACATGATAT-A
1 -TATGATATGC
18219313 TATGATATGC
1 TATGATATGC
18219323 ACATGATGTA
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
9 15 0.47
10 2 0.06
11 15 0.47
ACGTcount: A:0.34, C:0.10, G:0.18, T:0.38
Consensus pattern (10 bp):
TATGATATGC
Found at i:18219477 original size:25 final size:26
Alignment explanation
Indices: 18219379--18219515 Score: 192
Period size: 26 Copynumber: 5.3 Consensus size: 26
18219369 GAGGAAGTGC
18219379 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
18219405 AAAAAGGGCTTATGCCTCAGTTTATTG
1 -AAAAGGGCTTATGCCCCAGTTTATTG
*
18219432 AAAAGGGCTTATGCCCTAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
**
18219458 AAAAGGGCTT-TGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
18219483 AAAAGGGCTT-TGCCCCAG-TTATT-
1 AAAAGGGCTTATGCCCCAGTTTATTG
18219506 AAAAGAGGCT
1 AAAAG-GGCT
18219516 AGGCCTCCAG
Statistics
Matches: 101, Mismatches: 8, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
23 5 0.05
24 7 0.07
25 30 0.30
26 34 0.34
27 25 0.25
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.29
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:18221898 original size:22 final size:22
Alignment explanation
Indices: 18221851--18221895 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
18221841 AAATGGTCAT
18221851 TTTGGTATGTTCATAGCTGTGAA
1 TTTGGTATGTT-ATAGCTGTGAA
18221874 TTTGGTAATGTT-TAGCATGTGA
1 TTTGGT-ATGTTATAGC-TGTGA
18221896 TTTTAATATG
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 4 0.20
23 11 0.55
24 5 0.25
ACGTcount: A:0.22, C:0.07, G:0.27, T:0.44
Consensus pattern (22 bp):
TTTGGTATGTTATAGCTGTGAA
Found at i:18223899 original size:10 final size:10
Alignment explanation
Indices: 18223867--18223900 Score: 59
Period size: 10 Copynumber: 3.3 Consensus size: 10
18223857 CGCTTTGTCC
18223867 CTTTTTGGCT
1 CTTTTTGGCT
18223877 CGTTTTTGGCT
1 C-TTTTTGGCT
18223888 CTTTTTGGCT
1 CTTTTTGGCT
18223898 CTT
1 CTT
18223901 GGTGCTCTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 13 0.57
11 10 0.43
ACGTcount: A:0.00, C:0.21, G:0.21, T:0.59
Consensus pattern (10 bp):
CTTTTTGGCT
Found at i:18224648 original size:14 final size:14
Alignment explanation
Indices: 18224631--18224657 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
18224621 TGTTTGTTTG
18224631 TTTTATTTTTTTAT
1 TTTTATTTTTTTAT
18224645 TTTTATTTTTTTA
1 TTTTATTTTTTTA
18224658 AGAACAAGTT
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:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (14 bp):
TTTTATTTTTTTAT
Found at i:18242746 original size:43 final size:41
Alignment explanation
Indices: 18242645--18242764 Score: 125
Period size: 42 Copynumber: 2.9 Consensus size: 41
18242635 GTAATTCAAT
* *
18242645 ATCGATGCCTCTGTCCCAGACAGGGTCTTACACGAAATCAG
1 ATCGATGCCTATGTCCCAGACACGGTCTTACACGAAATCAG
* * *
18242686 ATACGATGCCAATGTCCCAGACATGGTCTTATACGTAAATCTCA-
1 AT-CGATGCCTATGTCCCAGACACGGTCTTACACG-AAA--TCAG
* * *
18242730 ATCGAGGCCTGTGTCCCAAACACGGTCTTACACGA
1 ATCGATGCCTATGTCCCAGACACGGTCTTACACGA
18242765 TATTTTAGAT
Statistics
Matches: 65, Mismatches: 10, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
41 2 0.03
42 29 0.45
43 29 0.45
44 2 0.03
45 3 0.05
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.23
Consensus pattern (41 bp):
ATCGATGCCTATGTCCCAGACACGGTCTTACACGAAATCAG
Found at i:18245372 original size:33 final size:33
Alignment explanation
Indices: 18245290--18245513 Score: 134
Period size: 33 Copynumber: 6.7 Consensus size: 33
18245280 TTCTTTGTGT
* * *
18245290 CATAGTCCAACTATGGTCTTACA--CATGCATTTC
1 CATAGCCCAACTATGGTCTTACATTCAT--AGTGC
* * * *
18245323 CATGGCCCTACCATGGTCTTACATTCGTAGTGC
1 CATAGCCCAACTATGGTCTTACATTCATAGTGC
* ** * * *
18245356 CATAACCCAGTTATGGTCTTATC-GTCAGAATGC
1 CATAGCCCAACTATGGTCTTA-CATTCATAGTGC
* *
18245389 CATAGCCCAACTATGGTCTTACATATAATTACTGC
1 CATAGCCCAACTATGGTCTTACAT-TCA-TAGTGC
* * * * *
18245424 CATAGTCCAACCATGGTTTTACGTTCAAAGTGC
1 CATAGCCCAACTATGGTCTTACATTCATAGTGC
* * * *
18245457 CATAACCCAATTATGGTCTTTTCATTAATA-TGC
1 CATAGCCCAACTATGGTC-TTACATTCATAGTGC
18245490 CATAGCCCAGA-TATGGTCTTACAT
1 CATAGCCCA-ACTATGGTCTTACAT
18245514 ATAAACACTT
Statistics
Matches: 141, Mismatches: 42, Indels: 17
0.70 0.21 0.09
Matches are distributed among these distances:
32 6 0.04
33 96 0.68
34 13 0.09
35 26 0.18
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.32
Consensus pattern (33 bp):
CATAGCCCAACTATGGTCTTACATTCATAGTGC
Found at i:18245434 original size:35 final size:33
Alignment explanation
Indices: 18245386--18245545 Score: 128
Period size: 35 Copynumber: 4.7 Consensus size: 33
18245376 ATCGTCAGAA
18245386 TGCCATAGCCCAACTATGGTCTTACATATAATTAC
1 TGCCATAGCCCAACTATGGTCTTACAT-TAA-TAC
* * * * *
18245421 TGCCATAGTCCAACCATGGTTTTACGTTCAA-AG
1 TGCCATAGCCCAACTATGGTCTTACATT-AATAC
* * *
18245454 TGCCATAACCCAATTATGGTCTTTTCATTAATA-
1 TGCCATAGCCCAACTATGGTC-TTACATTAATAC
*
18245487 TGCCATAGCCCAGA-TATGGTCTTACATATAAACAC
1 TGCCATAGCCCA-ACTATGGTCTTACAT-T-AATAC
* * *
18245522 TTCCATAGTCCAACCATGGTCTTA
1 TGCCATAGCCCAACTATGGTCTTA
18245546 TCCGTCAATT
Statistics
Matches: 99, Mismatches: 18, Indels: 16
0.74 0.14 0.12
Matches are distributed among these distances:
32 5 0.05
33 38 0.38
34 12 0.12
35 44 0.44
ACGTcount: A:0.30, C:0.25, G:0.13, T:0.32
Consensus pattern (33 bp):
TGCCATAGCCCAACTATGGTCTTACATTAATAC
Found at i:18245465 original size:101 final size:100
Alignment explanation
Indices: 18245290--18245545 Score: 295
Period size: 101 Copynumber: 2.5 Consensus size: 100
18245280 TTCTTTGTGT
* * * * * * **
18245290 CATAGTCCAACTATGGTCTTACACATGCATT--TCCATGGCCCTACCATGGTCTTACATTCGTAG
1 CATAGCCCAACTATGGTCTTACATAT-AATTACTCCATAGTCCAACCATGGTCTTACATTCAAAG
* *
18245353 TGCCATAACCCAGTTATGGTCTTATCGTCAGA-ATGC
65 TGCCATAACCCAATTATGGTCTTATCATCA-ATATGC
* *
18245389 CATAGCCCAACTATGGTCTTACATATAATTACTGCCATAGTCCAACCATGGTTTTACGTTCAAAG
1 CATAGCCCAACTATGGTCTTACATATAATTACT-CCATAGTCCAACCATGGTCTTACATTCAAAG
* *
18245454 TGCCATAACCCAATTATGGTCTTTTCATTAATATGC
65 TGCCATAACCCAATTATGGTCTTATCATCAATATGC
**
18245490 CATAGCCCAGA-TATGGTCTTACATATAAACACTTCCATAGTCCAACCATGGTCTTA
1 CATAGCCCA-ACTATGGTCTTACATATAATTAC-TCCATAGTCCAACCATGGTCTTA
18245546 TCCGTCAATT
Statistics
Matches: 134, Mismatches: 17, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
98 3 0.02
99 24 0.18
100 2 0.01
101 103 0.77
102 2 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (100 bp):
CATAGCCCAACTATGGTCTTACATATAATTACTCCATAGTCCAACCATGGTCTTACATTCAAAGT
GCCATAACCCAATTATGGTCTTATCATCAATATGC
Found at i:18252168 original size:38 final size:38
Alignment explanation
Indices: 18252117--18252289 Score: 247
Period size: 38 Copynumber: 4.5 Consensus size: 38
18252107 GACTTAAGGT
18252117 CCGCAGGCTTAGTGCTGGTATTATATCCGGGTTAAATC
1 CCGCAGGCTTAGTGCTGGTATTATATCCGGGTTAAATC
18252155 CCGCAGGCTTAGTGCTGGTATTATATCCGGGTTAAATC
1 CCGCAGGCTTAGTGCTGGTATTATATCCGGGTTAAATC
* * *
18252193 CCACAAGCTTAGTGCTGGTATTATATCCGAGTTAAATC
1 CCGCAGGCTTAGTGCTGGTATTATATCCGGGTTAAATC
* ** *
18252231 CCGCAGGCTTAATGCTGGTATTATATTTGAGCTTAAAGTC
1 CCGCAGGCTTAGTGCTGGTATTATATCCG-GGTTAAA-TC
* *
18252271 CCGCAGGTTTTGTGCTGGT
1 CCGCAGGCTTAGTGCTGGT
18252290 GATTGGATTC
Statistics
Matches: 120, Mismatches: 13, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
38 97 0.81
39 5 0.04
40 18 0.15
ACGTcount: A:0.22, C:0.20, G:0.25, T:0.33
Consensus pattern (38 bp):
CCGCAGGCTTAGTGCTGGTATTATATCCGGGTTAAATC
Found at i:18259937 original size:19 final size:19
Alignment explanation
Indices: 18259901--18259939 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
18259891 TTTTCATCAT
* *
18259901 AGTAAAATAAAATAATAAA
1 AGTAAAACAAAACAATAAA
*
18259920 AGTAAAACAAAACCATAAA
1 AGTAAAACAAAACAATAAA
18259939 A
1 A
18259940 ATAATTAAAA
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:0.72, C:0.08, G:0.05, T:0.15
Consensus pattern (19 bp):
AGTAAAACAAAACAATAAA
Found at i:18260451 original size:28 final size:29
Alignment explanation
Indices: 18260378--18260465 Score: 94
Period size: 28 Copynumber: 3.1 Consensus size: 29
18260368 AGCATGGCTG
* * * *
18260378 CCAGATACAGA-AA-ATGTGACAGAGTCA
1 CCAGATACAGATAATTTGTGGCATAGCCA
*
18260405 CCAGATACAGATATTTTGTGGCAGT-GCCA
1 CCAGATACAGATAATTTGTGGCA-TAGCCA
18260434 CCAGA-ACAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAATTTGTGGCATAGCCA
18260462 CCAG
1 CCAG
18260466 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
27 12 0.24
28 25 0.49
29 14 0.27
ACGTcount: A:0.35, C:0.22, G:0.23, T:0.20
Consensus pattern (29 bp):
CCAGATACAGATAATTTGTGGCATAGCCA
Found at i:18265078 original size:40 final size:38
Alignment explanation
Indices: 18264997--18265086 Score: 99
Period size: 40 Copynumber: 2.3 Consensus size: 38
18264987 GCAGGCTATA
*
18264997 TGCTGGAATTATATCCGGGTTAAATCCCGTAGGCCTAG
1 TGCTGGTATTATATCCGGGTTAAATCCCGTAGGCCTAG
* * * * *
18265035 TGCTGGTATTATATCTGAGTTTAAAGTCTCGTAGGCTTCG
1 TGCTGGTATTATATCCG-GGTTAAA-TCCCGTAGGCCTAG
*
18265075 TGCTGGTGTTAT
1 TGCTGGTATTAT
18265087 GTTCAGGTTT
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
38 15 0.35
39 6 0.14
40 22 0.51
ACGTcount: A:0.20, C:0.17, G:0.27, T:0.37
Consensus pattern (38 bp):
TGCTGGTATTATATCCGGGTTAAATCCCGTAGGCCTAG
Found at i:18266470 original size:40 final size:38
Alignment explanation
Indices: 18266336--18266437 Score: 186
Period size: 38 Copynumber: 2.7 Consensus size: 38
18266326 GACTTAAGGT
*
18266336 CCGCAGGCTAAGTGCTGGTATTATATCCGGGTTAAATC
1 CCGCAGGCTTAGTGCTGGTATTATATCCGGGTTAAATC
18266374 CCGCAGGCTTAGTGCTGGTATTATATCCGGGTTAAATC
1 CCGCAGGCTTAGTGCTGGTATTATATCCGGGTTAAATC
*
18266412 CCGCAGGCTTAATGCTGGTATTATAT
1 CCGCAGGCTTAGTGCTGGTATTATAT
18266438 TTGAGCTTAA
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 62 1.00
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.31
Consensus pattern (38 bp):
CCGCAGGCTTAGTGCTGGTATTATATCCGGGTTAAATC
Found at i:18270058 original size:25 final size:25
Alignment explanation
Indices: 18269980--18270123 Score: 114
Period size: 25 Copynumber: 5.8 Consensus size: 25
18269970 TCTTGTACAT
* *
18269980 GTATGCTCAAACGAGCTGTGAATCG
1 GTATGCTCTAACGAGCTGTAAATCG
* * * * * *
18270005 GTATGCTC-ACTCAAGTTTTAGATCA
1 GTATGCTCTA-ACGAGCTGTAAATCG
* *
18270030 GTATGCTCTAACCAGCTGTAAATTG
1 GTATGCTCTAACGAGCTGTAAATCG
*
18270055 GTATGCTC-ACACGAGCTGTAGATCG
1 GTATGCTCTA-ACGAGCTGTAAATCG
** *
18270080 GTATGCTCTCGCGACCTGTAAATCG
1 GTATGCTCTAACGAGCTGTAAATCG
18270105 GTATGCTC-ACACGAGCTGT
1 GTATGCTCTA-ACGAGCTGT
18270124 GGAGTATCTG
Statistics
Matches: 90, Mismatches: 24, Indels: 10
0.73 0.19 0.08
Matches are distributed among these distances:
24 2 0.02
25 87 0.97
26 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.24, T:0.28
Consensus pattern (25 bp):
GTATGCTCTAACGAGCTGTAAATCG
Found at i:18270058 original size:50 final size:50
Alignment explanation
Indices: 18269980--18270123 Score: 171
Period size: 50 Copynumber: 2.9 Consensus size: 50
18269970 TCTTGTACAT
* * * * *
18269980 GTATGCTCAAACGAGCTGTGAATCGGTATGCTCACTCAAGTTTTAGATCA
1 GTATGCTCTAACGAGCTGTAAATCGGTATGCTCACACAAGCTGTAGATCA
* * * *
18270030 GTATGCTCTAACCAGCTGTAAATTGGTATGCTCACACGAGCTGTAGATCG
1 GTATGCTCTAACGAGCTGTAAATCGGTATGCTCACACAAGCTGTAGATCA
** * *
18270080 GTATGCTCTCGCGACCTGTAAATCGGTATGCTCACACGAGCTGT
1 GTATGCTCTAACGAGCTGTAAATCGGTATGCTCACACAAGCTGT
18270124 GGAGTATCTG
Statistics
Matches: 80, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
50 80 1.00
ACGTcount: A:0.25, C:0.23, G:0.24, T:0.28
Consensus pattern (50 bp):
GTATGCTCTAACGAGCTGTAAATCGGTATGCTCACACAAGCTGTAGATCA
Found at i:18274092 original size:24 final size:23
Alignment explanation
Indices: 18274053--18274099 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
18274043 ATTTGGTACT
*
18274053 TTTATTATATTTTTATATTTTGG
1 TTTATTATATTATTATATTTTGG
*
18274076 TTTATTATTATTATTATCTTTTGG
1 TTTATTA-TATTATTATATTTTGG
18274100 GTTCATAGTG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 7 0.33
24 14 0.67
ACGTcount: A:0.21, C:0.02, G:0.09, T:0.68
Consensus pattern (23 bp):
TTTATTATATTATTATATTTTGG
Found at i:18274597 original size:177 final size:177
Alignment explanation
Indices: 18274326--18275128 Score: 1076
Period size: 177 Copynumber: 4.5 Consensus size: 177
18274316 GAACTTCAGG
* * * * **
18274326 GAGACAAGGCTGGTGACTTAAATCTGCTCCATTACCGATACATGGAGATAAGATTCGCTGTCTTC
1 GAGATAAGGCTGGTGGCTAAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCGCCATCTTC
* * * * ** *
18274391 GATCTGTTCTACTATTGCTTAAAGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTACTACCTC
66 GATCTGCTCCACTACTACTTAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTC
18274456 AGGAAGATAAGACTACAATCGCCAACCTGCTCTCTTGCTACCTCAAA
131 AGGAAGATAAGACTACAATCGCCAACCTGCTCTCTTGCTACCTCAAA
* *
18274503 GACATAAGGCTGGTGGCTAAAATCTACTCCATTGCCGATACATGGAGATAAGATTCGCCATCTTC
1 GAGATAAGGCTGGTGGCTAAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCGCCATCTTC
* * * * *
18274568 GATCTACTCCACTACTGCTTAGGGAGATAAGATCTTCCATCTTCAGTCTGTTTCCTTGCTACTTC
66 GATCTGCTCCACTACTACTTAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTC
* *
18274633 -GAGAAGATAAGACTACAATCACTAACCTGCTCTCTTGCTACCTCAAA
131 AG-GAAGATAAGACTACAATCGCCAACCTGCTCTCTTGCTACCTCAAA
* * *
18274680 GAGATAAGGCTAGTGGCTAAAATCTGCTCCATTGCCGATACATGCAGATAAGATTCGCC-GCATT
1 GAGATAAGGCTGGTGGCTAAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCGCCATC-TT
* * * *
18274744 CGATCTGCTCCACCACTACTTAGGGAGATAAGATCCTCAATCTTCAGTCTGTTTCC-TGCAACCT
65 CGATCTGCTCCACTACTACTTAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCT
* * *** *
18274808 CTGGAAGATAAGACTACCATCTTTAACCTGCTCTCTTGCTACCTCAGA
130 CAGGAAGATAAGACTACAATCGCCAACCTGCTCTCTTGCTACCTCAAA
* *
18274856 GAGATAAGGCTAGTGGCTAAAATCTGCTCCATTACCGATACATGGAGATAAGATTCGCCATCTTC
1 GAGATAAGGCTGGTGGCTAAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCGCCATCTTC
* * * * *
18274921 AATCTGCTCTACTACTACTTAGGAAGATAAGATCTTCAATCCTCAGTCTGCTTCCTTGCTACATC
66 GATCTGCTCCACTACTACTTAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTC
* * **
18274986 AGAAAGATAAGACCACAATCGCCAACCTGCTCTCTTGCTACCTCGGA
131 AGGAAGATAAGACTACAATCGCCAACCTGCTCTCTTGCTACCTCAAA
* * *
18275033 GAGATAAGGCTGGTGGCTTAAATCTACTCCATTGCCGATACATGGAGATAAGATTCACCATCTTC
1 GAGATAAGGCTGGTGGCTAAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCGCCATCTTC
*
18275098 -AGTCTGCTCCACT-GTAACTTTAGGGAGATAA
66 GA-TCTGCTCCACTACT-AC-TTAGGGAGATAA
18275129 AACATGTCAC
Statistics
Matches: 554, Mismatches: 64, Indels: 15
0.88 0.10 0.02
Matches are distributed among these distances:
176 160 0.29
177 383 0.69
178 11 0.02
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.29
Consensus pattern (177 bp):
GAGATAAGGCTGGTGGCTAAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCGCCATCTTC
GATCTGCTCCACTACTACTTAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTC
AGGAAGATAAGACTACAATCGCCAACCTGCTCTCTTGCTACCTCAAA
Found at i:18274951 original size:353 final size:354
Alignment explanation
Indices: 18274326--18275109 Score: 1108
Period size: 353 Copynumber: 2.2 Consensus size: 354
18274316 GAACTTCAGG
* * * *
18274326 GAGACAAGGCTGGTGACTTAAATCTGCTCCATTACCGATACATGGAGATAAGATTCGCTGTCTTC
1 GAGATAAGGCTGGTGGCTTAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCGCCGTCTTC
* * * * * * *
18274391 GATCTGTTCTACTATTGCTTAAAGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTACTACCTC
66 GATCTGCTCCACCACTACTTAAAGAGATAAGATCCTCAATCTTCAGTCTGCTTCCTTACAACCTC
*
18274456 AGGAAGATAAGACTACAATCGCCAACCTGCTCTCTTGCTACCTCAAAGACATAAGGCTGGTGGCT
131 AGGAAGATAAGACTACAATCGCCAACCTGCTCTCTTGCTACCTCAAAGACATAAGGCTAGTGGCT
* * *
18274521 AAAATCTACTCCATTGCCGATACATGGAGATAAGATTCGCCATCTTCGATCTACTCCACTACTGC
196 AAAATCTACTCCATTACCGATACATGGAGATAAGATTCGCCATCTTCAATCTACTCCACTACTAC
* * * * * *
18274586 TTAGGGAGATAAGATCTTCCATCTTCAGTCTGTTTCCTTGCTACTTC-GAGAAGATAAGACTACA
261 TTAGGAAGATAAGATCTTCAATCCTCAGTCTGCTTCCTTGCTACATCAGA-AAGATAAGACCACA
*
18274650 ATCACTAACCTGCTCTCTTGCTACCTCAAA
325 ATCACCAACCTGCTCTCTTGCTACCTCAAA
* * *
18274680 GAGATAAGGCTAGTGGCTAAAATCTGCTCCATTGCCGATACATGCAGATAAGATTCGCCG-CATT
1 GAGATAAGGCTGGTGGCTTAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCGCCGTC-TT
** * *
18274744 CGATCTGCTCCACCACTACTTAGGGAGATAAGATCCTCAATCTTCAGTCTGTTTCC-TGCAACCT
65 CGATCTGCTCCACCACTACTTAAAGAGATAAGATCCTCAATCTTCAGTCTGCTTCCTTACAACCT
* * *** * *
18274808 CTGGAAGATAAGACTACCATCTTTAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTAGTGGC
130 CAGGAAGATAAGACTACAATCGCCAACCTGCTCTCTTGCTACCTCAAAGACATAAGGCTAGTGGC
* * *
18274873 TAAAATCTGCTCCATTACCGATACATGGAGATAAGATTCGCCATCTTCAATCTGCTCTACTACTA
195 TAAAATCTACTCCATTACCGATACATGGAGATAAGATTCGCCATCTTCAATCTACTCCACTACTA
18274938 CTTAGGAAGATAAGATCTTCAATCCTCAGTCTGCTTCCTTGCTACATCAGAAAGATAAGACCACA
260 CTTAGGAAGATAAGATCTTCAATCCTCAGTCTGCTTCCTTGCTACATCAGAAAGATAAGACCACA
* **
18275003 ATCGCCAACCTGCTCTCTTGCTACCTCGGA
325 ATCACCAACCTGCTCTCTTGCTACCTCAAA
* * *
18275033 GAGATAAGGCTGGTGGCTTAAATCTACTCCATTGCCGATACATGGAGATAAGATTCACCATCTTC
1 GAGATAAGGCTGGTGGCTTAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCGCCGTCTTC
18275098 -AGTCTGCTCCAC
66 GA-TCTGCTCCAC
18275110 TGTAACTTTA
Statistics
Matches: 378, Mismatches: 48, Indels: 9
0.87 0.11 0.02
Matches are distributed among these distances:
352 1 0.00
353 272 0.72
354 105 0.28
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (354 bp):
GAGATAAGGCTGGTGGCTTAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCGCCGTCTTC
GATCTGCTCCACCACTACTTAAAGAGATAAGATCCTCAATCTTCAGTCTGCTTCCTTACAACCTC
AGGAAGATAAGACTACAATCGCCAACCTGCTCTCTTGCTACCTCAAAGACATAAGGCTAGTGGCT
AAAATCTACTCCATTACCGATACATGGAGATAAGATTCGCCATCTTCAATCTACTCCACTACTAC
TTAGGAAGATAAGATCTTCAATCCTCAGTCTGCTTCCTTGCTACATCAGAAAGATAAGACCACAA
TCACCAACCTGCTCTCTTGCTACCTCAAA
Found at i:18275481 original size:64 final size:64
Alignment explanation
Indices: 18275380--18275507 Score: 184
Period size: 64 Copynumber: 2.0 Consensus size: 64
18275370 TCATGTATCT
* * *
18275380 ATGCTTATGTCAACTAATTAGGACACTATAATTGAAATGAATCAAATGTTCCTAACTACATGTG
1 ATGCTTATGTCAACTAATTAGGACACTATAATCGAAATGAAACAAATGCTCCTAACTACATGTG
* ** * *
18275444 ATGCTTATGTCAAGTAATTAGGATGCTATGATCGAAATGAAACAAATGCTCCTAACTAGATGTG
1 ATGCTTATGTCAACTAATTAGGACACTATAATCGAAATGAAACAAATGCTCCTAACTACATGTG
18275508 TTATGAATGA
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
64 56 1.00
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.31
Consensus pattern (64 bp):
ATGCTTATGTCAACTAATTAGGACACTATAATCGAAATGAAACAAATGCTCCTAACTACATGTG
Found at i:18275559 original size:16 final size:16
Alignment explanation
Indices: 18275538--18275573 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
18275528 CAAAAATGAG
18275538 AATGAT-TTTTTTTCTA
1 AATGATCTTTTTTT-TA
18275554 AATGATCTTTTTTTTA
1 AATGATCTTTTTTTTA
18275570 AATG
1 AATG
18275574 CTTAAGGTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 12 0.63
17 7 0.37
ACGTcount: A:0.28, C:0.06, G:0.08, T:0.58
Consensus pattern (16 bp):
AATGATCTTTTTTTTA
Found at i:18276621 original size:6 final size:6
Alignment explanation
Indices: 18276612--18276665 Score: 65
Period size: 6 Copynumber: 8.7 Consensus size: 6
18276602 TCCTTTTCTT
*
18276612 TTTTTA TTTTTA TTTTTAA TTTTT- TTCCTTA TTTTTA TTTTTA TTTTTTA
1 TTTTTA TTTTTA TTTTT-A TTTTTA TT-TTTA TTTTTA TTTTTA -TTTTTA
18276662 TTTT
1 TTTT
18276666 GATCCTTTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
5 2 0.05
6 26 0.62
7 14 0.33
ACGTcount: A:0.15, C:0.04, G:0.00, T:0.81
Consensus pattern (6 bp):
TTTTTA
Found at i:18276627 original size:19 final size:18
Alignment explanation
Indices: 18276611--18276665 Score: 65
Period size: 19 Copynumber: 2.9 Consensus size: 18
18276601 CTCCTTTTCT
18276611 TTTTTTATTTTTATTTTTAA
1 TTTTTT-TTTTTATTTTT-A
**
18276631 TTTTTTTCCTTATTTTTA
1 TTTTTTTTTTTATTTTTA
18276649 TTTTTATTTTTTATTTT
1 TTTTT-TTTTTTATTTT
18276666 GATCCTTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
18 6 0.20
19 18 0.60
20 6 0.20
ACGTcount: A:0.15, C:0.04, G:0.00, T:0.82
Consensus pattern (18 bp):
TTTTTTTTTTTATTTTTA
Found at i:18276672 original size:31 final size:30
Alignment explanation
Indices: 18276609--18276676 Score: 100
Period size: 31 Copynumber: 2.2 Consensus size: 30
18276599 TTCTCCTTTT
**
18276609 CTTTTTTTATTTTTATTTTTAATTTTTTTC
1 CTTTTTTTATTTTTATTTTTAATTTTGATC
*
18276639 CTTATTTTTATTTTTATTTTTTATTTTGATC
1 CTT-TTTTTATTTTTATTTTTAATTTTGATC
18276670 CTTTTTT
1 CTTTTTT
18276677 AAGGTCCCAA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
30 7 0.21
31 27 0.79
ACGTcount: A:0.13, C:0.07, G:0.01, T:0.78
Consensus pattern (30 bp):
CTTTTTTTATTTTTATTTTTAATTTTGATC
Found at i:18289240 original size:13 final size:13
Alignment explanation
Indices: 18289222--18289247 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
18289212 GCTCGACAGG
18289222 GACACGCCCGTGT
1 GACACGCCCGTGT
18289235 GACACGCCCGTGT
1 GACACGCCCGTGT
18289248 TTGATTTCTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.38, G:0.31, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:18294564 original size:56 final size:56
Alignment explanation
Indices: 18294504--18294637 Score: 214
Period size: 56 Copynumber: 2.4 Consensus size: 56
18294494 CTAGACACGA
18294504 TCTTACTCGCACACATATATCGGAGTCACATATCGATGCCAACATATAAAACGTGG
1 TCTTACTCGCACACATATATCGGAGTCACATATCGATGCCAACATATAAAACGTGG
** * **
18294560 TCTTACTCGGGCACATATATCAGAGTCACATATCGATGCCAATGTATAAAACGTGG
1 TCTTACTCGCACACATATATCGGAGTCACATATCGATGCCAACATATAAAACGTGG
*
18294616 TCTTACTTGCACACATATATCG
1 TCTTACTCGCACACATATATCG
18294638 AAGCCATGGT
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
56 69 1.00
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.28
Consensus pattern (56 bp):
TCTTACTCGCACACATATATCGGAGTCACATATCGATGCCAACATATAAAACGTGG
Found at i:18299473 original size:27 final size:27
Alignment explanation
Indices: 18299443--18299591 Score: 199
Period size: 27 Copynumber: 5.5 Consensus size: 27
18299433 AAGTATCCTT
18299443 GATTTACAGAATTATCGTTTTACCCTC
1 GATTTACAGAATTATCGTTTTACCCTC
18299470 GATTTACAGAATTATCGTTTTACCCTC
1 GATTTACAGAATTATCGTTTTACCCTC
* * * *
18299497 GATTTATAGAACTACCATTTTACCCTC
1 GATTTACAGAATTATCGTTTTACCCTC
* *
18299524 AATTTACAGAATTATCGTTTTACCCTT
1 GATTTACAGAATTATCGTTTTACCCTC
* * *
18299551 TATTTATAGAATTACCGTTTTACCCTC
1 GATTTACAGAATTATCGTTTTACCCTC
* *
18299578 AATTTACAAAATTA
1 GATTTACAGAATTA
18299592 CTAAAATACC
Statistics
Matches: 105, Mismatches: 17, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 105 1.00
ACGTcount: A:0.30, C:0.21, G:0.08, T:0.41
Consensus pattern (27 bp):
GATTTACAGAATTATCGTTTTACCCTC
Found at i:18299501 original size:54 final size:54
Alignment explanation
Indices: 18299443--18299591 Score: 226
Period size: 54 Copynumber: 2.8 Consensus size: 54
18299433 AAGTATCCTT
* * *
18299443 GATTTACAGAATTATCGTTTTACCCTCGATTTACAGAATTATCGTTTTACCCTC
1 GATTTATAGAATTACCGTTTTACCCTCAATTTACAGAATTATCGTTTTACCCTC
* * *
18299497 GATTTATAGAACTACCATTTTACCCTCAATTTACAGAATTATCGTTTTACCCTT
1 GATTTATAGAATTACCGTTTTACCCTCAATTTACAGAATTATCGTTTTACCCTC
* *
18299551 TATTTATAGAATTACCGTTTTACCCTCAATTTACAAAATTA
1 GATTTATAGAATTACCGTTTTACCCTCAATTTACAGAATTA
18299592 CTAAAATACC
Statistics
Matches: 85, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 85 1.00
ACGTcount: A:0.30, C:0.21, G:0.08, T:0.41
Consensus pattern (54 bp):
GATTTATAGAATTACCGTTTTACCCTCAATTTACAGAATTATCGTTTTACCCTC
Found at i:18299611 original size:81 final size:81
Alignment explanation
Indices: 18299412--18299618 Score: 243
Period size: 81 Copynumber: 2.6 Consensus size: 81
18299402 ACTAAAATGT
* * *
18299412 CCTCAATTTGTAAAATTACCAAAGTATCCTTGATTTACAGAATTATCGTTTTACCCTCGATTTAC
1 CCTCAATTTATAAAATTACCAAAATACCCTTGATTTACAGAATTATCGTTTTACCCTCGATTTAC
*
18299477 AGAATTATCGTTTTAC
66 AGAATTACCGTTTTAC
* * * *** ** ** *
18299493 CCTCGATTTATAGAACTACCATTTTACCCTCAATTTACAGAATTATCGTTTTACCCTTTATTTAT
1 CCTCAATTTATAAAATTACCAAAATACCCTTGATTTACAGAATTATCGTTTTACCCTCGATTTAC
18299558 AGAATTACCGTTTTAC
66 AGAATTACCGTTTTAC
* * * *
18299574 CCTCAATTTACAAAATTACTAAAATACCCTTGGTTTACAAAATTA
1 CCTCAATTTATAAAATTACCAAAATACCCTTGATTTACAGAATTA
18299619 CCAAAATACC
Statistics
Matches: 100, Mismatches: 26, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
81 100 1.00
ACGTcount: A:0.32, C:0.21, G:0.08, T:0.39
Consensus pattern (81 bp):
CCTCAATTTATAAAATTACCAAAATACCCTTGATTTACAGAATTATCGTTTTACCCTCGATTTAC
AGAATTACCGTTTTAC
Found at i:18299618 original size:54 final size:54
Alignment explanation
Indices: 18299412--18299727 Score: 186
Period size: 54 Copynumber: 5.9 Consensus size: 54
18299402 ACTAAAATGT
** * * * *
18299412 CCTCAATTTGTAAAATTACCAAAGTATCCTTGATTTACAGAATTATCGTTTTAC
1 CCTCAATTTACAAAATTACCAAAATACCCTTGATTTACAAAATTACCGTTTTAC
* * * **** * * * * *
18299466 CCTCGATTTACAGAATTATCGTTTTACCCTCGATTTATAGAACTACCATTTTAC
1 CCTCAATTTACAAAATTACCAAAATACCCTTGATTTACAAAATTACCGTTTTAC
* * **** * * *
18299520 CCTCAATTTACAGAATTATCGTTTTACCCTTTATTTATAGAATTACCGTTTTAC
1 CCTCAATTTACAAAATTACCAAAATACCCTTGATTTACAAAATTACCGTTTTAC
* * ****
18299574 CCTCAATTTACAAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATAC
1 CCTCAATTTACAAAATTACCAAAATACCCTTGATTTACAAAATTACCGTTTTAC
* ** * ** ***
18299628 CC-CTAGTTTGTAAAATTACCAAAATACCAC-TGGTTTATGAAATTACCGAAATAC
1 CCTC-AATTTACAAAATTACCAAAATACC-CTTGATTTACAAAATTACCGTTTTAC
* ** *
18299682 CTTCAATTTGTAAAATTACCAAAATACCCCTGATTTACAAAATTAC
1 CCTCAATTTACAAAATTACCAAAATACCCTTGATTTACAAAATTAC
18299728 AGAAATACCC
Statistics
Matches: 211, Mismatches: 47, Indels: 8
0.79 0.18 0.03
Matches are distributed among these distances:
53 2 0.01
54 207 0.98
55 2 0.01
ACGTcount: A:0.35, C:0.21, G:0.08, T:0.36
Consensus pattern (54 bp):
CCTCAATTTACAAAATTACCAAAATACCCTTGATTTACAAAATTACCGTTTTAC
Found at i:18299733 original size:54 final size:54
Alignment explanation
Indices: 18299571--18299792 Score: 209
Period size: 54 Copynumber: 4.1 Consensus size: 54
18299561 ATTACCGTTT
* ** *
18299571 TACCCTCAATTTACAAAATTACTAAAATACC-CTTGGTTTACAAAATTACCA-AAA
1 TACCTTCAATTTGTAAAATTACCAAAATACCAC-TGGTTTACAAAATTA-CAGAAA
* * ** *
18299625 TACC-CCTAGTTTGTAAAATTACCAAAATACCACTGGTTTATGAAATTACCGAAA
1 TACCTTC-AATTTGTAAAATTACCAAAATACCACTGGTTTACAAAATTACAGAAA
* *
18299679 TACCTTCAATTTGTAAAATTACCAAAATACCCCTGATTTACAAAATTACAGAAA
1 TACCTTCAATTTGTAAAATTACCAAAATACCACTGGTTTACAAAATTACAGAAA
* * * * * *
18299733 TACCCTTGACTTTCTAAAAATTA-TAGAAATACCATTGGTTTACAAAATTACTGAAA
1 TA-CCTTCAATTTGT-AAAATTACCA-AAATACCACTGGTTTACAAAATTACAGAAA
18299789 TACC
1 TACC
18299793 CTTGGTTTGT
Statistics
Matches: 138, Mismatches: 23, Indels: 13
0.79 0.13 0.07
Matches are distributed among these distances:
53 2 0.01
54 87 0.63
55 14 0.10
56 35 0.25
ACGTcount: A:0.42, C:0.20, G:0.07, T:0.31
Consensus pattern (54 bp):
TACCTTCAATTTGTAAAATTACCAAAATACCACTGGTTTACAAAATTACAGAAA
Found at i:18299788 original size:27 final size:27
Alignment explanation
Indices: 18299580--18299823 Score: 174
Period size: 27 Copynumber: 9.0 Consensus size: 27
18299570 TTACCCTCAA
*
18299580 TTTACAAAATTACTAAAATACCCTTGG
1 TTTACAAAATTACCAAAATACCCTTGG
* *
18299607 TTTACAAAATTACCAAAATACCCCTAG
1 TTTACAAAATTACCAAAATACCCTTGG
**
18299634 TTTGTAAAATTACCAAAATACCAC-TGG
1 TTTACAAAATTACCAAAATACC-CTTGG
** * **
18299661 TTTATGAAATTACCGAAATA-CCTTCAA
1 TTTACAAAATTACCAAAATACCCTT-GG
** * *
18299688 TTTGTAAAATTACCAAAATACCCCTGA
1 TTTACAAAATTACCAAAATACCCTTGG
*
18299715 TTTACAAAATTA-CAGAAATACCCTTGAC
1 TTTACAAAATTACCA-AAATACCCTTG-G
* *
18299743 TTT-CTAAAAATTA-TAGAAATACCATTGG
1 TTTAC--AAAATTACCA-AAATACCCTTGG
**
18299771 TTTACAAAATTACTGAAATACCCTTGG
1 TTTACAAAATTACCAAAATACCCTTGG
** * * *
18299798 TTTGTAGATTTACCAAAACACCCTTG
1 TTTACAAAATTACCAAAATACCCTTG
18299824 TAGAATGAAA
Statistics
Matches: 175, Mismatches: 32, Indels: 20
0.77 0.14 0.09
Matches are distributed among these distances:
25 1 0.01
26 4 0.02
27 139 0.79
28 11 0.06
29 20 0.11
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.32
Consensus pattern (27 bp):
TTTACAAAATTACCAAAATACCCTTGG
Found at i:18300802 original size:24 final size:25
Alignment explanation
Indices: 18300726--18300802 Score: 102
Period size: 25 Copynumber: 3.1 Consensus size: 25
18300716 AAGAAGTGCT
* * *
18300726 AAAAGGGCTATGCCCCAGTTTACTG
1 AAAAGGGCTTTGCCCCAGTTTATTA
*
18300751 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTATTA
*
18300776 AAAAGGGCTTTGTCCCAG-TTATTA
1 AAAAGGGCTTTGCCCCAGTTTATTA
18300800 AAA
1 AAA
18300803 GAGGCTAGGC
Statistics
Matches: 46, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
24 8 0.17
25 38 0.83
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTATTA
Found at i:18300819 original size:50 final size:50
Alignment explanation
Indices: 18300726--18300820 Score: 113
Period size: 50 Copynumber: 1.9 Consensus size: 50
18300716 AAGAAGTGCT
**
18300726 AAAAGGGCTATGCCCCAGTTTACTGAAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTATGCCCCAGTTTACTGAAAAGGGCTAGGCCCCAGTTTATCA
* * *
18300776 AAAAGGGCTTTGTCCCAG-TTA-TTAAAAGAGGCTAGGCCTCCAGTT
1 AAAAGGGCTATGCCCCAGTTTACTGAAAAG-GGCTAGGCC-CCAGTT
18300821 ATATGATAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
48 6 0.16
49 10 0.26
50 22 0.58
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.26
Consensus pattern (50 bp):
AAAAGGGCTATGCCCCAGTTTACTGAAAAGGGCTAGGCCCCAGTTTATCA
Found at i:18302323 original size:28 final size:27
Alignment explanation
Indices: 18302269--18302380 Score: 138
Period size: 27 Copynumber: 4.1 Consensus size: 27
18302259 AGCATGGCTG
* *
18302269 CCAGAACAGATAA-TGTGACAGAGTCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
* *
18302295 CCAGATACAGATAATCGTGGCAGAGTCA
1 CCAGA-ACAGATAATTGTGGCAGAGCCA
18302323 CCAGAACAGA-AATATGTGGCAGAGCCA
1 CCAGAACAGATAAT-TGTGGCAGAGCCA
* *
18302350 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
18302377 CCAG
1 CCAG
18302381 GACGCTTCCT
Statistics
Matches: 76, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
26 8 0.11
27 49 0.64
28 19 0.25
ACGTcount: A:0.38, C:0.22, G:0.24, T:0.16
Consensus pattern (27 bp):
CCAGAACAGATAATTGTGGCAGAGCCA
Found at i:18302328 original size:54 final size:54
Alignment explanation
Indices: 18302269--18302380 Score: 154
Period size: 54 Copynumber: 2.1 Consensus size: 54
18302259 AGCATGGCTG
* * *
18302269 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGTCA
1 CCAGAACAGAAATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * *
18302323 CCAGAACAGAAATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGAAATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
18302377 CCAG
1 CCAG
18302381 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
54 33 0.65
55 18 0.35
ACGTcount: A:0.38, C:0.22, G:0.24, T:0.16
Consensus pattern (54 bp):
CCAGAACAGAAATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:18310169 original size:27 final size:26
Alignment explanation
Indices: 18310134--18310245 Score: 143
Period size: 27 Copynumber: 4.2 Consensus size: 26
18310124 AGCATGGCTG
* *
18310134 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
18310160 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
*
18310188 CCAGAACAGAAATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
18310215 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
18310242 CCAG
1 CCAG
18310246 GACGCTTCCT
Statistics
Matches: 76, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
26 6 0.08
27 53 0.70
28 17 0.22
ACGTcount: A:0.38, C:0.23, G:0.24, T:0.15
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:18310226 original size:54 final size:54
Alignment explanation
Indices: 18310134--18310245 Score: 163
Period size: 54 Copynumber: 2.1 Consensus size: 54
18310124 AGCATGGCTG
* *
18310134 CCAGAACAGATAATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
* * *
18310188 CCAGAACAGAAATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCA
1 CCAGAACAGAAA-ATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
18310242 CCAG
1 CCAG
18310246 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
54 34 0.65
55 18 0.35
ACGTcount: A:0.38, C:0.23, G:0.24, T:0.15
Consensus pattern (54 bp):
CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
Found at i:18317086 original size:15 final size:14
Alignment explanation
Indices: 18317066--18317099 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
18317056 TTGTTAGTTA
18317066 ATTTTTATTTTTATT
1 ATTTTTA-TTTTATT
18317081 ATTTTTATTTTATT
1 ATTTTTATTTTATT
18317095 -TTTTT
1 ATTTTT
18317100 CAAATTCCCC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.26
14 7 0.37
15 7 0.37
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (14 bp):
ATTTTTATTTTATT
Found at i:18320819 original size:30 final size:29
Alignment explanation
Indices: 18320780--18320840 Score: 104
Period size: 30 Copynumber: 2.1 Consensus size: 29
18320770 GTAGCCGAAG
18320780 CTAGTTAAATCACACACTTAGTGCCAAAA
1 CTAGTTAAATCACACACTTAGTGCCAAAA
*
18320809 CTAGTTTAAATCGCACACTTAGTGCCAAAA
1 CTAG-TTAAATCACACACTTAGTGCCAAAA
18320839 CT
1 CT
18320841 TCCGTTTCAT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 4 0.13
30 26 0.87
ACGTcount: A:0.38, C:0.25, G:0.11, T:0.26
Consensus pattern (29 bp):
CTAGTTAAATCACACACTTAGTGCCAAAA
Found at i:18327430 original size:8 final size:8
Alignment explanation
Indices: 18327375--18327450 Score: 54
Period size: 7 Copynumber: 9.6 Consensus size: 8
18327365 TTTATTTACT
18327375 TATTATAA
1 TATTATAA
18327383 TA-TATAA
1 TATTATAA
*
18327390 TATAAT-A
1 TATTATAA
18327397 TATGTACTTAA
1 TAT-TA--TAA
*
18327408 TAAT-TAA
1 TATTATAA
*
18327415 GA-TATAA
1 TATTATAA
18327422 TATTATAA
1 TATTATAA
18327430 TATTATAA
1 TATTATAA
18327438 TA-TATATA
1 TATTATA-A
18327446 TATTA
1 TATTA
18327451 ACTTTAAGTT
Statistics
Matches: 54, Mismatches: 5, Indels: 17
0.71 0.07 0.22
Matches are distributed among these distances:
6 1 0.02
7 23 0.43
8 23 0.43
9 2 0.04
10 2 0.04
11 3 0.06
ACGTcount: A:0.50, C:0.01, G:0.03, T:0.46
Consensus pattern (8 bp):
TATTATAA
Found at i:18327883 original size:23 final size:23
Alignment explanation
Indices: 18327849--18327892 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
18327839 CGACATGATC
*
18327849 GGTGCAAATGAAAGTGGCACTTT
1 GGTGCAAATGAAAGTGACACTTT
* *
18327872 GGTGCAATTGAATGTGACACT
1 GGTGCAAATGAAAGTGACACT
18327893 AATGGCACTA
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:0.30, C:0.14, G:0.30, T:0.27
Consensus pattern (23 bp):
GGTGCAAATGAAAGTGACACTTT
Found at i:18332274 original size:61 final size:62
Alignment explanation
Indices: 18332132--18332275 Score: 152
Period size: 60 Copynumber: 2.4 Consensus size: 62
18332122 TCAAGCTTTA
* * *
18332132 CTGGGCCGAAGCCCTATT-CAGAAATTAGAGTTAACTGGGCCTTAGCCCATATCAATATTAAT
1 CTGGGCCGTAGCCCTATTACA-AAATCAGAGTTAACTGGGCCTTAGCCCATATCAATATCAAT
* * * * * *
18332194 CTGGGTCATAGCCC-CTTACAATATCAGAG-TATACTGGGCC-TAGCTCATATCAGTATCAAT
1 CTGGGCCGTAGCCCTATTACAAAATCAGAGTTA-ACTGGGCCTTAGCCCATATCAATATCAAT
*
18332254 TTGGGCCGTAGCCCTATTACAA
1 CTGGGCCGTAGCCCTATTACAA
18332276 GTCGAGATAT
Statistics
Matches: 66, Mismatches: 13, Indels: 7
0.77 0.15 0.08
Matches are distributed among these distances:
60 30 0.45
61 23 0.35
62 13 0.20
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.28
Consensus pattern (62 bp):
CTGGGCCGTAGCCCTATTACAAAATCAGAGTTAACTGGGCCTTAGCCCATATCAATATCAAT
Found at i:18334811 original size:44 final size:43
Alignment explanation
Indices: 18334762--18334888 Score: 150
Period size: 43 Copynumber: 2.9 Consensus size: 43
18334752 TTCGGGCCTC
* *
18334762 GGCCTAGCAAGCTTTAA-G-CTGGTGAACAATATTATCGGGCTACG
1 GGCCTAGCAAGCTATAATGTC-GGTG-A-AATAATATCGGGCTACG
* * *
18334806 GGCCTAGCAGGCTATAATGTCGGTGAGATAATATCGGGCTTCG
1 GGCCTAGCAAGCTATAATGTCGGTGAAATAATATCGGGCTACG
* *
18334849 GGCCTAGCAGGCTATAATGTCGGTGAAATGATATCGGGCT
1 GGCCTAGCAAGCTATAATGTCGGTGAAATAATATCGGGCT
18334889 TCAAGCATAG
Statistics
Matches: 74, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
43 52 0.70
44 16 0.22
45 5 0.07
46 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.25
Consensus pattern (43 bp):
GGCCTAGCAAGCTATAATGTCGGTGAAATAATATCGGGCTACG
Found at i:18334889 original size:43 final size:43
Alignment explanation
Indices: 18334789--18334890 Score: 168
Period size: 43 Copynumber: 2.4 Consensus size: 43
18334779 GCTGGTGAAC
* *
18334789 AATATTATCGGGCTACGGGCCTAGCAGGCTATAATGTCGGTGA
1 AATAATATCGGGCTTCGGGCCTAGCAGGCTATAATGTCGGTGA
*
18334832 GATAATATCGGGCTTCGGGCCTAGCAGGCTATAATGTCGGTGA
1 AATAATATCGGGCTTCGGGCCTAGCAGGCTATAATGTCGGTGA
*
18334875 AATGATATCGGGCTTC
1 AATAATATCGGGCTTC
18334891 AAGCATAGCA
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 54 1.00
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.26
Consensus pattern (43 bp):
AATAATATCGGGCTTCGGGCCTAGCAGGCTATAATGTCGGTGA
Found at i:18334900 original size:43 final size:43
Alignment explanation
Indices: 18334810--18334902 Score: 141
Period size: 43 Copynumber: 2.2 Consensus size: 43
18334800 GCTACGGGCC
* ** *
18334810 TAGCAGGCTATAATGTCGGTGAGATAATATCGGGCTTCGGGCC
1 TAGCAGGCTATAATGTCGGTGAAATAATATCGGGCTTCAAGCA
*
18334853 TAGCAGGCTATAATGTCGGTGAAATGATATCGGGCTTCAAGCA
1 TAGCAGGCTATAATGTCGGTGAAATAATATCGGGCTTCAAGCA
18334896 TAGCAGG
1 TAGCAGG
18334903 TGAAATGCCG
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.27, C:0.17, G:0.31, T:0.25
Consensus pattern (43 bp):
TAGCAGGCTATAATGTCGGTGAAATAATATCGGGCTTCAAGCA
Found at i:18339416 original size:61 final size:62
Alignment explanation
Indices: 18339277--18339417 Score: 137
Period size: 60 Copynumber: 2.3 Consensus size: 62
18339267 AGCTTTACTA
* * *
18339277 GGTCGAAGCCCTATT-CAGAAATTAGAGTTAACTAGGCCTTAGCCCATATCAATATTAATCTG
1 GGTCGTAGCCCTATTACA-AAATCAGAGTTAACTAGGCCTTAGCCCATATCAATATCAATCTG
* * * * * * * *
18339339 GGCCATAACCC-CTTACAATATCAGAG-TATACTAGGCC-TAGCTCATATCAGTATCAATTTG
1 GGTCGTAGCCCTATTACAAAATCAGAGTTA-ACTAGGCCTTAGCCCATATCAATATCAATCTG
18339399 GGTCGTAGCCCTATTACAA
1 GGTCGTAGCCCTATTACAA
18339418 GTCGAGATAT
Statistics
Matches: 61, Mismatches: 15, Indels: 7
0.73 0.18 0.08
Matches are distributed among these distances:
60 29 0.48
61 23 0.38
62 9 0.15
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.28
Consensus pattern (62 bp):
GGTCGTAGCCCTATTACAAAATCAGAGTTAACTAGGCCTTAGCCCATATCAATATCAATCTG
Found at i:18346865 original size:19 final size:19
Alignment explanation
Indices: 18346841--18346878 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
18346831 ACCCCTTAAT
* *
18346841 AAATTCGTTGTTATTTTAG
1 AAATTCGTTATTATCTTAG
18346860 AAATTCGTTATTATCTTAG
1 AAATTCGTTATTATCTTAG
18346879 GTTGAGTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.29, C:0.08, G:0.13, T:0.50
Consensus pattern (19 bp):
AAATTCGTTATTATCTTAG
Found at i:18347540 original size:42 final size:41
Alignment explanation
Indices: 18347460--18347545 Score: 129
Period size: 42 Copynumber: 2.1 Consensus size: 41
18347450 TTTTAATTAA
18347460 TTTATGGAAGACATTACTTAAATTATCATTCAATTTTTTTT
1 TTTATGGAAGACATTACTTAAATTATCATTCAATTTTTTTT
**
18347501 TTTATGGAAGACATTAC-TAAGGATTATCATTCGCTTTTTTTT
1 TTTATGGAAGACATTACTTAA--ATTATCATTCAATTTTTTTT
18347543 TTT
1 TTT
18347546 TATTAAGGAT
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
40 3 0.07
41 17 0.41
42 21 0.51
ACGTcount: A:0.28, C:0.10, G:0.10, T:0.51
Consensus pattern (41 bp):
TTTATGGAAGACATTACTTAAATTATCATTCAATTTTTTTT
Found at i:18351826 original size:16 final size:16
Alignment explanation
Indices: 18351807--18351839 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
18351797 AAACGAAATG
18351807 ATGAAAAT-AAAAGAAA
1 ATGAAAATGAAAA-AAA
18351823 ATGAAAATGAAAAAAA
1 ATGAAAATGAAAAAAA
18351839 A
1 A
18351840 AATCTAATCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.76, C:0.00, G:0.12, T:0.12
Consensus pattern (16 bp):
ATGAAAATGAAAAAAA
Found at i:18352074 original size:18 final size:16
Alignment explanation
Indices: 18352027--18352066 Score: 80
Period size: 16 Copynumber: 2.5 Consensus size: 16
18352017 AAAAGAAAAT
18352027 AAAATGAAATTTTTGA
1 AAAATGAAATTTTTGA
18352043 AAAATGAAATTTTTGA
1 AAAATGAAATTTTTGA
18352059 AAAATGAA
1 AAAATGAA
18352067 TAATTTTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.55, C:0.00, G:0.12, T:0.33
Consensus pattern (16 bp):
AAAATGAAATTTTTGA
Found at i:18356552 original size:265 final size:264
Alignment explanation
Indices: 18356079--18356600 Score: 918
Period size: 265 Copynumber: 2.0 Consensus size: 264
18356069 ATGTTAGTGC
* * *
18356079 TAGCTTGGAGTGCAACATGATATCCTAACTTCACATTGTACCAACCATTTTTAGAAAAATGTCAT
1 TAGCTTGGAGTGCAACACGATATCCTAACTTCACATTGTACCAACCATCTTTAGAAAAATGCCAT
* *
18356144 ATAAGTTGGTCTAGTGGCCTAGAATACGAAAGAGGGATACTAAAAATTTTCTTAGCATCTTGAGG
66 ATAAGTTGGTCTAGTGGCCTAGAATACGAAAGAGGAATACTAAAAATTTTCTTAGCATCTTAAGG
*
18356209 TGCTAAGAGACCCTTAATTGTAATGACTCGGTTTCCAACGATGTTGAAAATTGCGATTTTGGAGT
131 TGCTAAGAGACCCTTAATTGTAATGACTCGGTTTCCAACGATGTTGAAAATTGCGATTTCGGAGT
18356274 CTCACTTGCATAAACTGAGTTTGCAAATATAAAATAAGAATATTTACATTAGAAAAATATATTAG
196 CTCACTTGCATAAACTGAGTTTGCAAATATAAAATAAGAATATTTACATTAG-AAAATATATTAG
18356339 AATGT
260 AATGT
* *
18356344 TAGCTTGGAGTGCAACACGATATCCTAACTTTACATTGTCCCAACCATCTTTAGAAAAATGCCAT
1 TAGCTTGGAGTGCAACACGATATCCTAACTTCACATTGTACCAACCATCTTTAGAAAAATGCCAT
18356409 ATAAGTTGGTCTAGTGGCCTAGAATACGAAAGAGGAATACTAAAAATTTTCTTAGCATCTTAAGG
66 ATAAGTTGGTCTAGTGGCCTAGAATACGAAAGAGGAATACTAAAAATTTTCTTAGCATCTTAAGG
* *
18356474 TGCTAAGAGACCCTTAATTGTAATGACTCGGTTTCCAATGATGTTGAAAATTGCTATTTCGGAGT
131 TGCTAAGAGACCCTTAATTGTAATGACTCGGTTTCCAACGATGTTGAAAATTGCGATTTCGGAGT
* **
18356539 CTCACTTGCATAAACTGAGTTTGTAAATATAAAATAATTATATTTACATTAGAAAATATATT
196 CTCACTTGCATAAACTGAGTTTGCAAATATAAAATAAGAATATTTACATTAGAAAATATATT
18356601 GAAGTTCGGT
Statistics
Matches: 244, Mismatches: 13, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
264 10 0.04
265 234 0.96
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (264 bp):
TAGCTTGGAGTGCAACACGATATCCTAACTTCACATTGTACCAACCATCTTTAGAAAAATGCCAT
ATAAGTTGGTCTAGTGGCCTAGAATACGAAAGAGGAATACTAAAAATTTTCTTAGCATCTTAAGG
TGCTAAGAGACCCTTAATTGTAATGACTCGGTTTCCAACGATGTTGAAAATTGCGATTTCGGAGT
CTCACTTGCATAAACTGAGTTTGCAAATATAAAATAAGAATATTTACATTAGAAAATATATTAGA
ATGT
Found at i:18358570 original size:24 final size:23
Alignment explanation
Indices: 18358537--18358583 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
18358527 CTATAAATGC
*
18358537 CAAACAGAATACACTACAAAGGT
1 CAAACAGAATACACCACAAAGGT
*
18358560 CAAACTAGAATACACCATAAAGGT
1 CAAAC-AGAATACACCACAAAGGT
18358584 GACATATATG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 5 0.24
24 16 0.76
ACGTcount: A:0.51, C:0.21, G:0.13, T:0.15
Consensus pattern (23 bp):
CAAACAGAATACACCACAAAGGT
Found at i:18358753 original size:23 final size:23
Alignment explanation
Indices: 18358727--18358771 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
18358717 CACAAAATGC
* *
18358727 CAAACAAAATTTGCCATAAAGGT
1 CAAACAAAATATGCCACAAAGGT
* *
18358750 CAAATAGAATATGCCACAAAGG
1 CAAACAAAATATGCCACAAAGG
18358772 CACATATAGG
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:0.49, C:0.18, G:0.16, T:0.18
Consensus pattern (23 bp):
CAAACAAAATATGCCACAAAGGT
Found at i:18360694 original size:43 final size:43
Alignment explanation
Indices: 18360630--18360801 Score: 135
Period size: 43 Copynumber: 4.0 Consensus size: 43
18360620 CATAGGATTT
18360630 TCGATATGTG-TTCTC-ATGTAAGACCACGTCTAGGACGTTGGCA
1 TCGATATGTGATT-TCGA-GTAAGACCACGTCTAGGACGTTGGCA
* * * * * *
18360673 TCGATATGTAATTTCGAGTAAGACTATGTTTGGGACATTGGCA
1 TCGATATGTGATTTCGAGTAAGACCACGTCTAGGACGTTGGCA
*
18360716 TCG-TAATTGTGA-TTCGTGTAAGACC-CTGTC-AGGACAG-TGGCA
1 TCGAT-A-TGTGATTTCGAGTAAGACCAC-GTCTAGGAC-GTTGGCA
* * *
18360758 TCGACATGTGATTAC-ATGTAAGACCACGTCTGGGACGTTGGCA
1 TCGATATGTGATTTCGA-GTAAGACCACGTCTAGGACGTTGGCA
18360801 T
1 T
18360802 TGTACGATAT
Statistics
Matches: 100, Mismatches: 17, Indels: 24
0.71 0.12 0.17
Matches are distributed among these distances:
41 5 0.05
42 28 0.28
43 60 0.60
44 7 0.07
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (43 bp):
TCGATATGTGATTTCGAGTAAGACCACGTCTAGGACGTTGGCA
Found at i:18370471 original size:53 final size:53
Alignment explanation
Indices: 18370390--18370506 Score: 164
Period size: 53 Copynumber: 2.2 Consensus size: 53
18370380 TATGTGCCAA
* * * *
18370390 CTACTGTTACTGTTTCGGATTTGTTCCGATAAGTTACTCTGTGTACCGTACTG
1 CTACTGTTACTATTTCGAATTTGTTCCGATAAGGTACTCTATGTACCGTACTG
* *
18370443 TTACTGTTACTA-TTCTGAATTTGTTCCGATGAGGTACTCTATGTACCGTACTG
1 CTACTGTTACTATTTC-GAATTTGTTCCGATAAGGTACTCTATGTACCGTACTG
18370496 CTACTGTTACT
1 CTACTGTTACT
18370507 GTTATTGTTA
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
52 3 0.05
53 53 0.95
ACGTcount: A:0.19, C:0.21, G:0.19, T:0.42
Consensus pattern (53 bp):
CTACTGTTACTATTTCGAATTTGTTCCGATAAGGTACTCTATGTACCGTACTG
Found at i:18370697 original size:18 final size:18
Alignment explanation
Indices: 18370635--18370704 Score: 61
Period size: 18 Copynumber: 3.8 Consensus size: 18
18370625 GGAAAGATTG
18370635 ACTGTTACTGAATAATTTA
1 ACTGTTACTGAATAA-TTA
* * *
18370654 ATTGTTACTGTAT-ATCTG
1 ACTGTTACTGAATAAT-TA
* * *
18370672 ATTTTTACTGAATAATTC
1 ACTGTTACTGAATAATTA
18370690 ACTGTTACTGAATAA
1 ACTGTTACTGAATAA
18370705 CCGATCAATT
Statistics
Matches: 41, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
17 1 0.02
18 27 0.66
19 13 0.32
ACGTcount: A:0.33, C:0.11, G:0.11, T:0.44
Consensus pattern (18 bp):
ACTGTTACTGAATAATTA
Found at i:18370745 original size:18 final size:18
Alignment explanation
Indices: 18370724--18370784 Score: 68
Period size: 18 Copynumber: 3.4 Consensus size: 18
18370714 TGATTGATAC
18370724 TGAATAACTGATTATTAT
1 TGAATAACTGATTATTAT
* * *
18370742 TGAATAATTGATTGTTAC
1 TGAATAACTGATTATTAT
* *
18370760 CGAATAACTGACTATTAT
1 TGAATAACTGATTATTAT
*
18370778 TAAATAA
1 TGAATAA
18370785 ATAATTGTTC
Statistics
Matches: 33, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.41, C:0.08, G:0.11, T:0.39
Consensus pattern (18 bp):
TGAATAACTGATTATTAT
Found at i:18370751 original size:36 final size:36
Alignment explanation
Indices: 18370711--18370784 Score: 112
Period size: 36 Copynumber: 2.1 Consensus size: 36
18370701 ATAACCGATC
* * *
18370711 AATTGATTGATACTGAATAACTGATTATTATTGAAT
1 AATTGATTGATACCGAATAACTGACTATTATTAAAT
*
18370747 AATTGATTGTTACCGAATAACTGACTATTATTAAAT
1 AATTGATTGATACCGAATAACTGACTATTATTAAAT
18370783 AA
1 AA
18370785 ATAATTGTTC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.41, C:0.08, G:0.12, T:0.39
Consensus pattern (36 bp):
AATTGATTGATACCGAATAACTGACTATTATTAAAT
Found at i:18370792 original size:36 final size:36
Alignment explanation
Indices: 18370716--18370793 Score: 102
Period size: 36 Copynumber: 2.2 Consensus size: 36
18370706 CGATCAATTG
* * * * * *
18370716 ATTGATACTGAATAACTGATTATTATTGAATAATTG
1 ATTGTTACCGAATAACTGACTATTATTAAATAAATA
18370752 ATTGTTACCGAATAACTGACTATTATTAAATAAATA
1 ATTGTTACCGAATAACTGACTATTATTAAATAAATA
18370788 ATTGTT
1 ATTGTT
18370794 CTGATTGACT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.40, C:0.08, G:0.12, T:0.41
Consensus pattern (36 bp):
ATTGTTACCGAATAACTGACTATTATTAAATAAATA
Found at i:18376460 original size:17 final size:17
Alignment explanation
Indices: 18376438--18376473 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
18376428 GAATTTTAAG
18376438 GTGATTCTTGATTGGAT
1 GTGATTCTTGATTGGAT
18376455 GTGATTCTTGATTGGAT
1 GTGATTCTTGATTGGAT
18376472 GT
1 GT
18376474 AGTTTTCTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.17, C:0.06, G:0.31, T:0.47
Consensus pattern (17 bp):
GTGATTCTTGATTGGAT
Found at i:18376772 original size:4 final size:4
Alignment explanation
Indices: 18376763--18376809 Score: 67
Period size: 4 Copynumber: 11.8 Consensus size: 4
18376753 TATAAACCAA
* * *
18376763 ATAC ATAC ATAC ATAC ATAC ATAC ATCC AGAC ATAC ATAT ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
18376810 TATGAACATC
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
4 37 1.00
ACGTcount: A:0.49, C:0.23, G:0.02, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:18378326 original size:37 final size:37
Alignment explanation
Indices: 18378276--18378354 Score: 158
Period size: 37 Copynumber: 2.1 Consensus size: 37
18378266 TTTAGCAAAA
18378276 TCATGTATCTGACTCAATTATTGGTAATGACAAAGAC
1 TCATGTATCTGACTCAATTATTGGTAATGACAAAGAC
18378313 TCATGTATCTGACTCAATTATTGGTAATGACAAAGAC
1 TCATGTATCTGACTCAATTATTGGTAATGACAAAGAC
18378350 TCATG
1 TCATG
18378355 AGAGACTGTA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 42 1.00
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.33
Consensus pattern (37 bp):
TCATGTATCTGACTCAATTATTGGTAATGACAAAGAC
Found at i:18381436 original size:48 final size:48
Alignment explanation
Indices: 18381357--18381450 Score: 129
Period size: 48 Copynumber: 2.0 Consensus size: 48
18381347 AGGGAATTCT
* * *
18381357 GTTGAATCCTTTATTGTTGCGAGTTGAGCTGACTTAGGCGTTTTTACG
1 GTTGAATCCATTATTGCTGCGAGTTGAGCTGACTTAGGCATTTTTACG
18381405 GTTGAATCCATTATTGCTG-GAAGTT-AGGCTGACTTAGGCATTTTTA
1 GTTGAATCCATTATTGCTGCG-AGTTGA-GCTGACTTAGGCATTTTTA
18381451 AGCCAAGAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
47 2 0.05
48 39 0.95
ACGTcount: A:0.20, C:0.14, G:0.26, T:0.40
Consensus pattern (48 bp):
GTTGAATCCATTATTGCTGCGAGTTGAGCTGACTTAGGCATTTTTACG
Found at i:18383952 original size:48 final size:48
Alignment explanation
Indices: 18383873--18383966 Score: 129
Period size: 48 Copynumber: 2.0 Consensus size: 48
18383863 AGGGAATTCT
* * *
18383873 GTTGAATCCTTTATTGTTGCGAGTTGAGCTGACTTAGGCGTTTTTACG
1 GTTGAATCCATTATTGCTGCGAGTTGAGCTGACTTAGGCATTTTTACG
18383921 GTTGAATCCATTATTGCTG-GAAGTT-AGGCTGACTTAGGCATTTTTA
1 GTTGAATCCATTATTGCTGCG-AGTTGA-GCTGACTTAGGCATTTTTA
18383967 AGCCAAGAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
47 2 0.05
48 39 0.95
ACGTcount: A:0.20, C:0.14, G:0.26, T:0.40
Consensus pattern (48 bp):
GTTGAATCCATTATTGCTGCGAGTTGAGCTGACTTAGGCATTTTTACG
Found at i:18391501 original size:34 final size:34
Alignment explanation
Indices: 18391463--18391529 Score: 134
Period size: 34 Copynumber: 2.0 Consensus size: 34
18391453 TTTTCATCTT
18391463 CTTTCTCTCTTTCTCAGGCAAATCTCATTCCTCA
1 CTTTCTCTCTTTCTCAGGCAAATCTCATTCCTCA
18391497 CTTTCTCTCTTTCTCAGGCAAATCTCATTCCTC
1 CTTTCTCTCTTTCTCAGGCAAATCTCATTCCTC
18391530 TTCGCAGGGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.16, C:0.36, G:0.06, T:0.42
Consensus pattern (34 bp):
CTTTCTCTCTTTCTCAGGCAAATCTCATTCCTCA
Found at i:18392757 original size:2 final size:2
Alignment explanation
Indices: 18392750--18392782 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
18392740 TATTTTTGTT
18392750 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
18392783 GTAATAGGCC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:18393000 original size:6 final size:6
Alignment explanation
Indices: 18392989--18393035 Score: 73
Period size: 6 Copynumber: 8.3 Consensus size: 6
18392979 GAAGATATTA
18392989 TTTTAT TTTTAT TTTTAT TTTTA- -TTTAT TTTTA- TTTTAT TTTTAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
18393034 TT
1 TT
18393036 ATTAATTAGG
Statistics
Matches: 38, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
4 4 0.11
5 5 0.13
6 29 0.76
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTAT
Found at i:18393025 original size:21 final size:22
Alignment explanation
Indices: 18392990--18393038 Score: 91
Period size: 21 Copynumber: 2.3 Consensus size: 22
18392980 AAGATATTAT
18392990 TTTATTTTTATTTTTATTTTTA
1 TTTATTTTTATTTTTATTTTTA
18393012 TTTATTTTTA-TTTTATTTTTA
1 TTTATTTTTATTTTTATTTTTA
18393033 TTTATT
1 TTTATT
18393039 AATTAGGCTA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 17 0.63
22 10 0.37
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (22 bp):
TTTATTTTTATTTTTATTTTTA
Found at i:18393038 original size:10 final size:11
Alignment explanation
Indices: 18392986--18393035 Score: 84
Period size: 11 Copynumber: 4.5 Consensus size: 11
18392976 TAGGAAGATA
18392986 TTATTTTATTT
1 TTATTTTATTT
18392997 TTATTTTTATTT
1 TTA-TTTTATTT
18393009 TTA-TTTATTT
1 TTATTTTATTT
18393019 TTATTTTATTT
1 TTATTTTATTT
18393030 TTATTT
1 TTATTT
18393036 ATTAATTAGG
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.27
11 16 0.43
12 11 0.30
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (11 bp):
TTATTTTATTT
Found at i:18393616 original size:29 final size:28
Alignment explanation
Indices: 18393584--18393646 Score: 65
Period size: 29 Copynumber: 2.2 Consensus size: 28
18393574 ATTTATTTTG
18393584 TTATTCTAATAATATTATTAT-TTATCTAT
1 TTATT-TAATAATATTATTATATT-TCTAT
** *
18393613 TTATATTTCTACTATTATTATATTTCTAT
1 TTAT-TTAATAATATTATTATATTTCTAT
18393642 TTATT
1 TTATT
18393647 ATATTTCTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
28 1 0.03
29 25 0.86
30 3 0.10
ACGTcount: A:0.30, C:0.08, G:0.00, T:0.62
Consensus pattern (28 bp):
TTATTTAATAATATTATTATATTTCTAT
Found at i:18393627 original size:15 final size:16
Alignment explanation
Indices: 18393595--18393655 Score: 65
Period size: 15 Copynumber: 3.9 Consensus size: 16
18393585 TATTCTAATA
*
18393595 ATATTATTATTTAT-CT
1 ATATTA-TATTTCTACT
18393611 AT-TTATATTTCTACT
1 ATATTATATTTCTACT
18393626 ATTATTATATTTCTA-T
1 A-TATTATATTTCTACT
*
18393642 TTATTATATTTCTA
1 ATATTATATTTCTA
18393656 TTTCTATTTA
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
14 6 0.15
15 19 0.47
16 4 0.10
17 11 0.28
ACGTcount: A:0.30, C:0.08, G:0.00, T:0.62
Consensus pattern (16 bp):
ATATTATATTTCTACT
Found at i:18393632 original size:32 final size:32
Alignment explanation
Indices: 18393587--18393655 Score: 79
Period size: 32 Copynumber: 2.2 Consensus size: 32
18393577 TATTTTGTTA
18393587 TTCTAATAATATTAT-TATT-TATCTATTTATAT
1 TTCTAATAATATTATAT-TTCTATCTA-TTATAT
* * *
18393619 TTCTACTATTATTATATTTCTATTTATTATAT
1 TTCTAATAATATTATATTTCTATCTATTATAT
18393651 TTCTA
1 TTCTA
18393656 TTTCTATTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
32 26 0.81
33 6 0.19
ACGTcount: A:0.30, C:0.09, G:0.00, T:0.61
Consensus pattern (32 bp):
TTCTAATAATATTATATTTCTATCTATTATAT
Found at i:18393656 original size:15 final size:15
Alignment explanation
Indices: 18393613--18393658 Score: 74
Period size: 15 Copynumber: 2.9 Consensus size: 15
18393603 ATTTATCTAT
18393613 TTATATTTCTACTATTA
1 TTATATTTCTA-T-TTA
18393630 TTATATTTCTATTTA
1 TTATATTTCTATTTA
18393645 TTATATTTCTATTT
1 TTATATTTCTATTT
18393659 CTATTTATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
15 17 0.59
16 1 0.03
17 11 0.38
ACGTcount: A:0.26, C:0.09, G:0.00, T:0.65
Consensus pattern (15 bp):
TTATATTTCTATTTA
Found at i:18393806 original size:3 final size:3
Alignment explanation
Indices: 18393798--18393934 Score: 119
Period size: 3 Copynumber: 46.7 Consensus size: 3
18393788 TTTAAAACTT
18393798 TTA TTA TTA TTA TTA TTA TTA -TA TT- TCTA TGTA TTA -TA TT- TCTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA T-TA TTA TTA TTA T-TA
* * *
18393842 TT- TATA TTA TGTA TTA ATA TCA TTA TT- TTT TTA -TA TTA TTA -TA
1 TTA T-TA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
18393885 TTA TTA TTA TTA TTA CTA TTA GTA CTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
18393933 TT
1 TT
18393935 TATAGTATAT
Statistics
Matches: 111, Mismatches: 11, Indels: 24
0.76 0.08 0.16
Matches are distributed among these distances:
2 13 0.12
3 89 0.80
4 9 0.08
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:18393832 original size:27 final size:26
Alignment explanation
Indices: 18393802--18393921 Score: 99
Period size: 26 Copynumber: 4.7 Consensus size: 26
18393792 AAACTTTTAT
18393802 TATTATTATTATTATTATATTTCTATG
1 TATTA-TATTATTATTATATTTCTATG
*
18393829 TATTATATT-TCTATT-TATAT-TATG
1 TATTATATTAT-TATTATATTTCTATG
* * *
18393853 TATTAATATCATTATT-TTTTTATAT-
1 TATT-ATATTATTATTATATTTCTATG
*
18393878 TATTATATTATTATTATTATTACTAT-
1 TATTATATTATTATTA-TATTTCTATG
*
18393904 TAGTACTATTATTATTAT
1 TATTA-TATTATTATTAT
18393922 TATTATTATT
Statistics
Matches: 77, Mismatches: 9, Indels: 15
0.76 0.09 0.15
Matches are distributed among these distances:
24 18 0.23
25 20 0.26
26 23 0.30
27 16 0.21
ACGTcount: A:0.32, C:0.04, G:0.03, T:0.62
Consensus pattern (26 bp):
TATTATATTATTATTATATTTCTATG
Found at i:18397801 original size:11 final size:11
Alignment explanation
Indices: 18397787--18397814 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
18397777 ATTCTAAATG
18397787 GAATTGGATCA
1 GAATTGGATCA
18397798 GAATTGGATCA
1 GAATTGGATCA
18397809 GAATTG
1 GAATTG
18397815 ACACCTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.36, C:0.07, G:0.29, T:0.29
Consensus pattern (11 bp):
GAATTGGATCA
Found at i:18405265 original size:23 final size:23
Alignment explanation
Indices: 18405235--18405321 Score: 92
Period size: 21 Copynumber: 4.0 Consensus size: 23
18405225 GCTTTACTGA
* *
18405235 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACCTCATGTGTCGTATT
*
18405258 TCAGGCACCTCGTGTGTCGTA--
1 TCAGGCACCTCATGTGTCGTATT
*
18405279 TCAGGCACCTCGTGTGTCGT-TT
1 TCAGGCACCTCATGTGTCGTATT
* *
18405301 T-AGGCACTTTATGTGTCGTAT
1 TCAGGCACCTCATGTGTCGTAT
18405322 ACTGATCAGG
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
21 35 0.64
22 2 0.04
23 18 0.33
ACGTcount: A:0.15, C:0.22, G:0.25, T:0.38
Consensus pattern (23 bp):
TCAGGCACCTCATGTGTCGTATT
Found at i:18417613 original size:131 final size:131
Alignment explanation
Indices: 18417321--18417709 Score: 487
Period size: 132 Copynumber: 2.9 Consensus size: 131
18417311 AGAAAATATT
** * * * *
18417321 AGTGAAATTCCGAAGGGATATTCGATTATTTGATA-CAAACGGGAGATTGCAACCCAGCACGATA
1 AGTGAAATTTTGAAGGGATATTCGATTATTTTA-AGCAAACGAGAAATTGCAACCCAGCACGTTA
* * * * ** * *
18417385 GGGCACTACTCCCCGAATTGCCAAACATCGAGTATTTCCTTTGTTTTAAAGAGTTTTTAGAAGAC
65 GGGCACGATTCCGCGAATTGCCAAATATCGA-TATCGCCTTCGTTTTAAAGAGTTTTTAAAAGAC
18417450 ATG
129 ATG
* *
18417453 AGTGAAATTTTGAAGGGATATTTGATTATTTTAAGCAAACGAGAAATTGCAACCCAGCATGTTAG
1 AGTGAAATTTTGAAGGGATATTCGATTATTTTAAGCAAACGAGAAATTGCAACCCAGCACGTTAG
* *
18417518 GGCACGATTCCGCGAATTGCCAAATATCGCATATCGCCTTCG-TTTAAGGGGTTTTTAAAAGACA
66 GGCACGATTCCGCGAATTGCCAAATATCG-ATATCGCCTTCGTTTTAAAGAGTTTTTAAAAGACA
18417582 TG
130 TG
* * *
18417584 GGTGAAATTTTGAAGGGATATTCGATTATTTTGAGCAAACGCA-AAATTGCAACCCAACACGTTA
1 AGTGAAATTTTGAAGGGATATTCGATTATTTTAAGCAAACG-AGAAATTGCAACCCAGCACGTTA
* * *
18417648 GGGCACGATTCCGCGAATTGCCAAAATATCAAATCTCGTCTTCGTTTTAAAGAGTTTTTAAA
65 GGGCACGATTCCGCGAATTGCC-AAATATC-GATATCGCCTTCGTTTTAAAGAGTTTTTAAA
18417710 TGAATAATTA
Statistics
Matches: 223, Mismatches: 28, Indels: 11
0.85 0.11 0.04
Matches are distributed among these distances:
131 101 0.45
132 106 0.48
133 16 0.07
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.29
Consensus pattern (131 bp):
AGTGAAATTTTGAAGGGATATTCGATTATTTTAAGCAAACGAGAAATTGCAACCCAGCACGTTAG
GGCACGATTCCGCGAATTGCCAAATATCGATATCGCCTTCGTTTTAAAGAGTTTTTAAAAGACAT
G
Found at i:18421635 original size:5 final size:5
Alignment explanation
Indices: 18421625--18421650 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
18421615 TATGAATAGG
18421625 ATGGC ATGGC ATGGC ATGGC ATGGC A
1 ATGGC ATGGC ATGGC ATGGC ATGGC A
18421651 GAAAGGGGCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.23, C:0.19, G:0.38, T:0.19
Consensus pattern (5 bp):
ATGGC
Found at i:18422399 original size:17 final size:16
Alignment explanation
Indices: 18422377--18422414 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 16
18422367 TTTTTTTATA
18422377 TTTAAAATTTAGTTGTT
1 TTTAAAATTTAG-TGTT
18422394 TTTAAAAATTTAGTGTT
1 TTT-AAAATTTAGTGTT
18422411 TTTA
1 TTTA
18422415 TTTTTTTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 1 0.05
17 10 0.50
18 9 0.45
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.58
Consensus pattern (16 bp):
TTTAAAATTTAGTGTT
Found at i:18422401 original size:18 final size:17
Alignment explanation
Indices: 18422380--18422414 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
18422370 TTTTATATTT
18422380 AAAATTTAGTTGTTTTTA
1 AAAATTTAG-TGTTTTTA
18422398 AAAATTTAGTGTTTTTA
1 AAAATTTAGTGTTTTTA
18422415 TTTTTTTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.34, C:0.00, G:0.11, T:0.54
Consensus pattern (17 bp):
AAAATTTAGTGTTTTTA
Found at i:18428095 original size:15 final size:14
Alignment explanation
Indices: 18428071--18428114 Score: 52
Period size: 15 Copynumber: 3.0 Consensus size: 14
18428061 AAGCCTATTC
*
18428071 TTTCTTCTTTGATT
1 TTTCTTCTTTAATT
18428085 TTTCTTTCTTTAATT
1 TTTC-TTCTTTAATT
*
18428100 TTCCTTCTTTTAATT
1 TTTCTTC-TTTAATT
18428115 CCTTATTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
14 7 0.27
15 19 0.73
ACGTcount: A:0.11, C:0.16, G:0.02, T:0.70
Consensus pattern (14 bp):
TTTCTTCTTTAATT
Found at i:18430615 original size:30 final size:30
Alignment explanation
Indices: 18430581--18430640 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
18430571 TATTTTATTA
*
18430581 TTAATTTTGTTATTATTTTAAAGGTATTTG
1 TTAATTTTATTATTATTTTAAAGGTATTTG
*
18430611 TTAATTTTATTATTATTTTAGAGGTATTTG
1 TTAATTTTATTATTATTTTAAAGGTATTTG
18430641 CTTGTTAAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.27, C:0.00, G:0.13, T:0.60
Consensus pattern (30 bp):
TTAATTTTATTATTATTTTAAAGGTATTTG
Found at i:18430744 original size:11 final size:11
Alignment explanation
Indices: 18430728--18430752 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
18430718 ATTTATTTTG
18430728 ATTTTTTTAGT
1 ATTTTTTTAGT
18430739 ATTTTTTTAGT
1 ATTTTTTTAGT
18430750 ATT
1 ATT
18430753 ATATATATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.20, C:0.00, G:0.08, T:0.72
Consensus pattern (11 bp):
ATTTTTTTAGT
Found at i:18436680 original size:26 final size:26
Alignment explanation
Indices: 18436649--18436702 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
18436639 TAAACAACTT
18436649 GCCCCAAATCCATTAATACCTACTCA
1 GCCCCAAATCCATTAATACCTACTCA
18436675 GCCCCAAATCCATTAATACCTACTCA
1 GCCCCAAATCCATTAATACCTACTCA
18436701 GC
1 GC
18436703 ACATGGCACA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.33, C:0.39, G:0.06, T:0.22
Consensus pattern (26 bp):
GCCCCAAATCCATTAATACCTACTCA
Found at i:18447797 original size:28 final size:27
Alignment explanation
Indices: 18447757--18447813 Score: 96
Period size: 28 Copynumber: 2.1 Consensus size: 27
18447747 CCTAAAAAAT
*
18447757 TAAGTAAGTAACTAGGTAGTTTATATA
1 TAAGCAAGTAACTAGGTAGTTTATATA
18447784 TAAGCAAGCTAACTAGGTAGTTTATATA
1 TAAGCAAG-TAACTAGGTAGTTTATATA
18447812 TA
1 TA
18447814 TTTTATAGTA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
27 7 0.25
28 21 0.75
ACGTcount: A:0.40, C:0.07, G:0.18, T:0.35
Consensus pattern (27 bp):
TAAGCAAGTAACTAGGTAGTTTATATA
Found at i:18450996 original size:29 final size:29
Alignment explanation
Indices: 18450952--18451031 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
18450942 TTTTTAAACC
*
18450952 TAAAAGATAAAGAGATTAAATTCCTGAAAA
1 TAAAA-ATAAAAAGATTAAATTCCTGAAAA
* *
18450982 TAAGAATAAAAAGATTAAATTCTTGAAAA
1 TAAAAATAAAAAGATTAAATTCCTGAAAA
* *
18451011 TAAAAATAAAAAAACTAAATT
1 TAAAAATAAAAAGATTAAATT
18451032 TCAACTATAT
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
29 40 0.91
30 4 0.09
ACGTcount: A:0.61, C:0.05, G:0.09, T:0.25
Consensus pattern (29 bp):
TAAAAATAAAAAGATTAAATTCCTGAAAA
Found at i:18451810 original size:20 final size:20
Alignment explanation
Indices: 18451781--18451830 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
18451771 GTAAAATTTC
*
18451781 TCTTCATCTTATATTTCTTT
1 TCTTCTTCTTATATTTCTTT
* *
18451801 TCTTCTTCTTTTTTTTCTTT
1 TCTTCTTCTTATATTTCTTT
18451821 TCTTCTTCTT
1 TCTTCTTCTT
18451831 TACACCATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.06, C:0.22, G:0.00, T:0.72
Consensus pattern (20 bp):
TCTTCTTCTTATATTTCTTT
Found at i:18451811 original size:11 final size:11
Alignment explanation
Indices: 18451795--18451831 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
18451785 CATCTTATAT
18451795 TTCTTTTCTTC
1 TTCTTTTCTTC
18451806 TTCTTTT-TT-
1 TTCTTTTCTTC
18451815 TTCTTTTCTTC
1 TTCTTTTCTTC
18451826 TTCTTT
1 TTCTTT
18451832 ACACCATATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
9 7 0.29
10 4 0.17
11 13 0.54
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (11 bp):
TTCTTTTCTTC
Found at i:18451831 original size:20 final size:20
Alignment explanation
Indices: 18451794--18451831 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
18451784 TCATCTTATA
18451794 TTTCTTTTCTTCTTCTTTTT
1 TTTCTTTTCTTCTTCTTTTT
18451814 TTTCTTTTCTTCTTCTTT
1 TTTCTTTTCTTCTTCTTT
18451832 ACACCATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (20 bp):
TTTCTTTTCTTCTTCTTTTT
Found at i:18452410 original size:22 final size:22
Alignment explanation
Indices: 18452385--18452428 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
18452375 AATTATTAAC
* *
18452385 ATAATGAATTTTAATTAATTTT
1 ATAATAAATTCTAATTAATTTT
*
18452407 ATAATAAATTCTGATTAATTTT
1 ATAATAAATTCTAATTAATTTT
18452429 GGTCATTTTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.52
Consensus pattern (22 bp):
ATAATAAATTCTAATTAATTTT
Found at i:18452602 original size:21 final size:21
Alignment explanation
Indices: 18452573--18452614 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
18452563 CATTAATTCA
18452573 TAATATAA-TTAATTTTAATTT
1 TAATATAATTTAA-TTTAATTT
*
18452594 TAATCTAATTTAATTTAATTT
1 TAATATAATTTAATTTAATTT
18452615 GGGTTAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (21 bp):
TAATATAATTTAATTTAATTT
Found at i:18460186 original size:22 final size:19
Alignment explanation
Indices: 18460156--18460202 Score: 58
Period size: 22 Copynumber: 2.3 Consensus size: 19
18460146 AAATATGATA
18460156 ATTATTAATATATAATTATATCT
1 ATTA-TAATATAT-ATTA-AT-T
18460179 ATTATAATATATATTAATT
1 ATTATAATATATATTAATT
18460198 ATTAT
1 ATTAT
18460203 CAACTTTACA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.25
20 2 0.08
21 4 0.17
22 8 0.33
23 4 0.17
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (19 bp):
ATTATAATATATATTAATT
Found at i:18460198 original size:16 final size:15
Alignment explanation
Indices: 18460158--18460199 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
18460148 ATATGATAAT
18460158 TATTAATATATAATTA
1 TATTAAT-TATAATTA
18460174 TATCT-ATTATAATATA
1 TAT-TAATTATAAT-TA
18460190 TATTAATTAT
1 TATTAATTAT
18460200 TATCAACTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
15 7 0.30
16 15 0.65
17 1 0.04
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTAATTATAATTA
Found at i:18460863 original size:26 final size:24
Alignment explanation
Indices: 18460834--18460893 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 24
18460824 AATTTTTCTC
* *
18460834 TTAAATTTTGAATTTTATTTAATTA
1 TTAAATTTTCAA-TTTATTGAATTA
*
18460859 TTTAATTTTTCAATTTATTGAATTA
1 -TTAAATTTTCAATTTATTGAATTA
18460884 TTAATATTTT
1 TTAA-ATTTT
18460894 ATATTAATTA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
24 4 0.14
25 15 0.52
26 10 0.34
ACGTcount: A:0.33, C:0.02, G:0.03, T:0.62
Consensus pattern (24 bp):
TTAAATTTTCAATTTATTGAATTA
Found at i:18460907 original size:25 final size:25
Alignment explanation
Indices: 18460854--18460907 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 25
18460844 AATTTTATTT
* *
18460854 AATTATTTAATTTTTCAATTTATTG
1 AATTATTTAATTTTTCAATTAATTA
18460879 AATTA-TTAATATTTT-ATATTAATTA
1 AATTATTTAAT-TTTTCA-ATTAATTA
18460904 AATT
1 AATT
18460908 TTTGAGAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
24 6 0.24
25 19 0.76
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (25 bp):
AATTATTTAATTTTTCAATTAATTA
Found at i:18463738 original size:22 final size:22
Alignment explanation
Indices: 18463713--18463756 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
18463703 AATTATTAAA
* *
18463713 ATAATGAATTTTAATTAGTTTT
1 ATAATAAATTTTAATTAATTTT
*
18463735 ATAATAAATTTTGATTAATTTT
1 ATAATAAATTTTAATTAATTTT
18463757 GGTCATTTTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.39, C:0.00, G:0.07, T:0.55
Consensus pattern (22 bp):
ATAATAAATTTTAATTAATTTT
Found at i:18463921 original size:22 final size:22
Alignment explanation
Indices: 18463893--18463937 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
18463883 TTTATGTGTA
*
18463893 TTAATTTATAATATAA-TTAATT
1 TTAATTT-TAATACAATTTAATT
18463915 TTAATTTTAATACAATTTAATT
1 TTAATTTTAATACAATTTAATT
18463937 T
1 T
18463938 GGGTTAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (22 bp):
TTAATTTTAATACAATTTAATT
Found at i:18474469 original size:25 final size:25
Alignment explanation
Indices: 18474441--18474492 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
18474431 TATGTGAGTA
18474441 AATTCTATGATATTTATTGCATAAG
1 AATTCTATGATATTTATTGCATAAG
18474466 AATTCTATGATATTTATTGCATAAG
1 AATTCTATGATATTTATTGCATAAG
18474491 AA
1 AA
18474493 ATTGACATGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.38, C:0.08, G:0.12, T:0.42
Consensus pattern (25 bp):
AATTCTATGATATTTATTGCATAAG
Found at i:18475633 original size:16 final size:16
Alignment explanation
Indices: 18475612--18475642 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
18475602 AAAATTTCAA
18475612 AAAAAAATAAAAATTT
1 AAAAAAATAAAAATTT
18475628 AAAAAAATAAAAATT
1 AAAAAAATAAAAATT
18475643 GCATTTTGAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (16 bp):
AAAAAAATAAAAATTT
Found at i:18475672 original size:30 final size:30
Alignment explanation
Indices: 18475638--18475739 Score: 127
Period size: 30 Copynumber: 3.4 Consensus size: 30
18475628 AAAAAAATAA
*
18475638 AAATTGCATTTTGACCCCTAAACTTTAC-CT
1 AAATTTCATTTTGACCCCTAAACTTT-CTCT
* *
18475668 AAATTTCATTTTGACCCTTAAACTTTCTTT
1 AAATTTCATTTTGACCCCTAAACTTTCTCT
* *
18475698 AAATTTCACTTAGACCCCTAAACTTTCAT-T
1 AAATTTCATTTTGACCCCTAAACTTTC-TCT
18475728 AAATTTCATTTT
1 AAATTTCATTTT
18475740 AATCCTAAAT
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
29 1 0.02
30 60 0.97
31 1 0.02
ACGTcount: A:0.30, C:0.23, G:0.04, T:0.43
Consensus pattern (30 bp):
AAATTTCATTTTGACCCCTAAACTTTCTCT
Found at i:18476184 original size:12 final size:12
Alignment explanation
Indices: 18476121--18476180 Score: 59
Period size: 12 Copynumber: 4.8 Consensus size: 12
18476111 GGGAAGGAAG
*
18476121 AAGAAGAAAAGA
1 AAGAAAAAAAGA
18476133 AAGAAAAAAA-A
1 AAGAAAAAAAGA
*
18476144 AAGAAAAAAGGGGGA
1 AAGAAAAAA---AGA
*
18476159 AAGAAAAAAATA
1 AAGAAAAAAAGA
18476171 AAGAAAAAAA
1 AAGAAAAAAA
18476181 TAAAAAATAA
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
11 10 0.25
12 20 0.50
15 10 0.25
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (12 bp):
AAGAAAAAAAGA
Found at i:18476322 original size:23 final size:24
Alignment explanation
Indices: 18476285--18476338 Score: 101
Period size: 23 Copynumber: 2.3 Consensus size: 24
18476275 AAGTAAAAAA
18476285 AAGCAGCAAAAAAGAAGAAGAAAG
1 AAGCAGCAAAAAAGAAGAAGAAAG
18476309 AAGCAG-AAAAAAGAAGAAGAAAG
1 AAGCAGCAAAAAAGAAGAAGAAAG
18476332 AAGCAGC
1 AAGCAGC
18476339 CCAAATGCAG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
23 23 0.79
24 6 0.21
ACGTcount: A:0.65, C:0.09, G:0.26, T:0.00
Consensus pattern (24 bp):
AAGCAGCAAAAAAGAAGAAGAAAG
Done.