Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 50 of 313
Found at i:16666833 original size:28 final size:29
Alignment explanation
Indices: 16666730--16666839 Score: 136
Period size: 28 Copynumber: 3.9 Consensus size: 29
16666720 GGCTGTAAAT
* *
16666730 GTGATTTGGGCCTAAT-GGCCATATGAAT
1 GTGATTTGGGCCTTATGGGCCATATGAAA
*
16666758 GTGATTTGGGCCTAATGGGCCATAT-AAA
1 GTGATTTGGGCCTTATGGGCCATATGAAA
16666786 TGTGATTTGGGCCTTATGGGCCATATGAAA
1 -GTGATTTGGGCCTTATGGGCCATATGAAA
* * *
16666816 GAGA-TTGGGCCTTGTGGGCTATAT
1 GTGATTTGGGCCTTATGGGCCATAT
16666840 ACAGGTATGT
Statistics
Matches: 74, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
28 36 0.49
29 35 0.47
30 3 0.04
ACGTcount: A:0.24, C:0.14, G:0.31, T:0.32
Consensus pattern (29 bp):
GTGATTTGGGCCTTATGGGCCATATGAAA
Found at i:16672285 original size:41 final size:41
Alignment explanation
Indices: 16672223--16672393 Score: 215
Period size: 41 Copynumber: 4.2 Consensus size: 41
16672213 ATAAAATTTT
* *
16672223 CTAGGC-ATAAAGCCT-AGTATAATACACCGGCA-AAGAGCTTG
1 CTAGGCAAT-AAGCCTGA-TATAATACACCAGCATAA-AGCCTG
16672264 CTAGGCAATAAGCCTGATATAATACACCAGCATAAAGCCTG
1 CTAGGCAATAAGCCTGATATAATACACCAGCATAAAGCCTG
*
16672305 CTAGGCAATAAGCATGATATAATGA-ACCAGCATAAAGCCTG
1 CTAGGCAATAAGCCTGATATAAT-ACACCAGCATAAAGCCTG
* * * *
16672346 CTAGGCAATAGGCTTGATATTATACACCAGCACAAAGCCTG
1 CTAGGCAATAAGCCTGATATAATACACCAGCATAAAGCCTG
16672387 CTAGGCA
1 CTAGGCA
16672394 TAAAGCCCGA
Statistics
Matches: 118, Mismatches: 7, Indels: 10
0.87 0.05 0.07
Matches are distributed among these distances:
40 1 0.01
41 111 0.94
42 6 0.05
ACGTcount: A:0.37, C:0.23, G:0.20, T:0.20
Consensus pattern (41 bp):
CTAGGCAATAAGCCTGATATAATACACCAGCATAAAGCCTG
Found at i:16675688 original size:80 final size:80
Alignment explanation
Indices: 16675567--16675915 Score: 321
Period size: 80 Copynumber: 4.4 Consensus size: 80
16675557 TTGATTCAAA
* * * * *
16675567 TTACAAATCGAGAGTATTTCAGTAATTTC-ATAATCGAGGGTATTTCGGTAATTTTACAAATCAA
1 TTACAAATCGAGGGTATTTTAGTAATTTCAAAAATTGAGGGTATTTTGGTAATTTTACAAATC-A
* *
16675631 ATGTTTTTTAGTAATT
65 AGGTTTTTTGGTAATT
* * *
16675647 TTACAAATCGAGGGTGTTTTAGTAATTTCAAAAATTG-GGGTATTTGGGTAATTTTACAAATTGA
1 TTACAAATCGAGGGTATTTTAGTAATTTCAAAAATTGAGGGTATTTTGGTAATTTTACAAA-TCA
* * * *
16675711 TGGTATTTCGATAATT
65 AGGTTTTTTGGTAATT
* * ** * * * *
16675727 TCAC-AATCGTGGGTATTTCGGTAATTTTACAAATTGAGGGTATTTTAGTAATTTCAC-AATCGA
1 TTACAAATCGAGGGTATTTTAGTAATTTCAAAAATTGAGGGTATTTTGGTAATTTTACAAATC-A
* **
16675790 GGGTACTTTGGTAATT
65 AGGTTTTTTGGTAATT
* * * * ** *
16675806 TTACAAAGT-AAGGGTATTTTGGTAATTTTACAAATCAAGGGTGTTTTGGTAATTTTACAAATCA
1 TTACAAA-TCGAGGGTATTTTAGTAATTTCAAAAATTGAGGGTATTTTGGTAATTTTACAAATCA
*
16675870 AGGTTGTTTCGGTAATT
65 AGGTT-TTTTGGTAATT
16675887 TTACAAATCGAGGGTATTTTAGTAATTTC
1 TTACAAATCGAGGGTATTTTAGTAATTTC
16675916 TCTTTATTAT
Statistics
Matches: 216, Mismatches: 44, Indels: 17
0.78 0.16 0.06
Matches are distributed among these distances:
78 1 0.00
79 44 0.20
80 127 0.59
81 44 0.20
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.41
Consensus pattern (80 bp):
TTACAAATCGAGGGTATTTTAGTAATTTCAAAAATTGAGGGTATTTTGGTAATTTTACAAATCAA
GGTTTTTTGGTAATT
Found at i:16675697 original size:26 final size:27
Alignment explanation
Indices: 16675571--16675915 Score: 142
Period size: 27 Copynumber: 12.9 Consensus size: 27
16675561 TTCAAATTAC
* * *
16675571 AAATCGAGAGTATTTCAGTAATTTC-A
1 AAATTGAGGGTATTTCGGTAATTTCAA
* * * *
16675597 TAATCGAGGGTATTTCGGTAATTTTAC
1 AAATTGAGGGTATTTCGGTAATTTCAA
** ** * ** * *
16675624 AAATCAAATGTTTTTTAGTAATTTTAC
1 AAATTGAGGGTATTTCGGTAATTTCAA
* * **
16675651 AAATCGAGGGTGTTTTAGTAATTTCAA
1 AAATTGAGGGTATTTCGGTAATTTCAA
* * *
16675678 AAATTG-GGGTATTTGGGTAATTTTAC
1 AAATTGAGGGTATTTCGGTAATTTCAA
* *
16675704 AAATTGATGGTATTTCGATAATTTC-A
1 AAATTGAGGGTATTTCGGTAATTTCAA
* * * * *
16675730 CAATCGTGGGTATTTCGGTAATTTTAC
1 AAATTGAGGGTATTTCGGTAATTTCAA
**
16675757 AAATTGAGGGTATTTTAGTAATTTC-A
1 AAATTGAGGGTATTTCGGTAATTTCAA
* * * *
16675783 CAATCGAGGGTACTTT-GGTAATTTTAC
1 AAATTGAGGGTA-TTTCGGTAATTTCAA
* * * * *
16675810 AAAGTAAGGGTATTTTGGTAATTTTAC
1 AAATTGAGGGTATTTCGGTAATTTCAA
** * * * *
16675837 AAATCAAGGGTGTTTTGGTAATTTTAC
1 AAATTGAGGGTATTTCGGTAATTTCAA
** * * * *
16675864 AAATCAAGGTTGTTTCGGTAATTTTAC
1 AAATTGAGGGTATTTCGGTAATTTCAA
* **
16675891 AAATCGAGGGTATTTTAGTAATTTC
1 AAATTGAGGGTATTTCGGTAATTTC
16675916 TCTTTATTAT
Statistics
Matches: 250, Mismatches: 63, Indels: 11
0.77 0.19 0.03
Matches are distributed among these distances:
26 81 0.32
27 169 0.68
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.41
Consensus pattern (27 bp):
AAATTGAGGGTATTTCGGTAATTTCAA
Found at i:16675726 original size:53 final size:52
Alignment explanation
Indices: 16675641--16675914 Score: 241
Period size: 53 Copynumber: 5.1 Consensus size: 52
16675631 ATGTTTTTTA
* * * *
16675641 GTAATTTTACAAATCGAGGGTGTTTTAGTAATTTCAAAAATTG-GGGTATTTGG
1 GTAATTTTACAAATTGAGGGTATTTGAGTAATTTC-AAAATCGAGGGTATTT-G
* * *
16675694 GTAATTTTACAAATTGATGGTATTTCGA-TAATTTCACAATCGTGGGTATTTCG
1 GTAATTTTACAAATTGAGGGTATTT-GAGTAATTTCAAAATCGAGGGTATTT-G
* *
16675747 GTAATTTTACAAATTGAGGGTATTTTAGTAATTTCACAATCGAGGGTACTTTG
1 GTAATTTTACAAATTGAGGGTATTTGAGTAATTTCAAAATCGAGGGTA-TTTG
* * * * *
16675800 GTAATTTTACAAAGTAAGGGTATTTTG-GTAATTTTACAAATCAAGGGTGTTTTG
1 GTAATTTTACAAATTGAGGGTA-TTTGAGTAATTTCA-AAATCGAGGGT-ATTTG
** * * * *
16675854 GTAATTTTACAAATCAAGGTTGTTTCG-GTAATTTTACAAATCGAGGGTATTTTA
1 GTAATTTTACAAATTGAGGGTATTT-GAGTAATTTCA-AAATCGAGGGTA-TTTG
16675908 GTAATTT
1 GTAATTT
16675915 CTCTTTATTA
Statistics
Matches: 188, Mismatches: 24, Indels: 17
0.82 0.10 0.07
Matches are distributed among these distances:
52 6 0.03
53 113 0.60
54 69 0.37
ACGTcount: A:0.30, C:0.08, G:0.21, T:0.41
Consensus pattern (52 bp):
GTAATTTTACAAATTGAGGGTATTTGAGTAATTTCAAAATCGAGGGTATTTG
Found at i:16676280 original size:28 final size:28
Alignment explanation
Indices: 16676249--16676322 Score: 130
Period size: 28 Copynumber: 2.6 Consensus size: 28
16676239 TCTCGGTCAC
*
16676249 ATGGCCCATCAAGCCCAATCACATTCAT
1 ATGGCCCATCAGGCCCAATCACATTCAT
*
16676277 ATGGCCCATTAGGCCCAATCACATTCAT
1 ATGGCCCATCAGGCCCAATCACATTCAT
16676305 ATGGCCCATCAGGCCCAA
1 ATGGCCCATCAGGCCCAA
16676323 CTACTTCCCA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.30, C:0.35, G:0.15, T:0.20
Consensus pattern (28 bp):
ATGGCCCATCAGGCCCAATCACATTCAT
Found at i:16679194 original size:27 final size:27
Alignment explanation
Indices: 16679149--16679223 Score: 78
Period size: 27 Copynumber: 2.8 Consensus size: 27
16679139 GAAAAACAGT
* * * *
16679149 CATTTTACCCTATAGGGGTATGTCGGC
1 CATTTTACACTACAAGGGTATGTCGAC
* * *
16679176 CATTTTACACTAGAAGGGTATTTCGAT
1 CATTTTACACTACAAGGGTATGTCGAC
*
16679203 AATTTTACACTACAAGGGTAT
1 CATTTTACACTACAAGGGTAT
16679224 TTTGATAATT
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (27 bp):
CATTTTACACTACAAGGGTATGTCGAC
Found at i:16679800 original size:27 final size:27
Alignment explanation
Indices: 16679190--16679799 Score: 585
Period size: 27 Copynumber: 22.7 Consensus size: 27
16679180 TTACACTAGA
* *
16679190 AGGGTATTTCGATAATTTTAC-ACTACA
1 AGGGTATTTCGATAATTTTACAAAT-CG
* *
16679217 AGGGTATTTTGATAATTTTACAAATTTG
1 AGGGTATTTCGATAATTTTACAAA-TCG
* *
16679245 -GGATGTTTCGATAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
*
16679271 AGGGTATTTCGATAATTTTACAAATTG
1 AGGGTATTTCGATAATTTTACAAATCG
*
16679298 AGGGTATTTCGATAATTTTACAAATTG
1 AGGGTATTTCGATAATTTTACAAATCG
*
16679325 AGGGTATTTCGATAATTTTACAAATCA
1 AGGGTATTTCGATAATTTTACAAATCG
* *
16679352 AGGGTGTTTCGGTAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
* *
16679379 AGGGTGTTTTGATAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
* * *
16679406 AGGGTGTTTCGGTAATTTCACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
* * * *
16679433 GGGGTATTTTGATAATTTTAAAAATTG
1 AGGGTATTTCGATAATTTTACAAATCG
* **
16679460 AGGGTATTTCAATAA-TTT-CATAATTA
1 AGGGTATTTCGATAATTTTACA-AATCG
* * *
16679486 AAGGTATTTTGGTAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
* * * *
16679513 AAGGTTTTTC-AGTAATTCTGCAAATCG
1 AGGGTATTTCGA-TAATTTTACAAATCG
* * *
16679540 AAGGTTTTTC-AGTAATTTTACAAATTG
1 AGGGTATTTCGA-TAATTTTACAAATCG
* * * * *
16679567 AGGGTGTTT-TAGTAATTTCACAATTTG
1 AGGGTATTTCGA-TAATTTTACAAATCG
*
16679594 GGGGTATTTCGATAATTTT-CAAATCGAG
1 AGGGTATTTCGATAATTTTACAAATC--G
16679622 AGGGTATTTCGATAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
* * *
16679649 AGGGTATTT-AATAATTTCA-AAATTG
1 AGGGTATTTCGATAATTTTACAAATCG
* * * **
16679674 TA-AGTATTTTGGTAATTTTACAAATTA
1 -AGGGTATTTCGATAATTTTACAAATCG
*
16679701 AGGGTATTTCAATAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
*
16679728 AGGGTGTTTCGATAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
* * *
16679755 AGGGTGTTTCGGTAATTTCACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
*
16679782 AGGGTATTTCAATAATTT
1 AGGGTATTTCGATAATTT
16679800 CTCTTTATTA
Statistics
Matches: 488, Mismatches: 79, Indels: 32
0.81 0.13 0.05
Matches are distributed among these distances:
25 12 0.02
26 41 0.08
27 405 0.83
28 23 0.05
29 7 0.01
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.40
Consensus pattern (27 bp):
AGGGTATTTCGATAATTTTACAAATCG
Found at i:16680146 original size:28 final size:28
Alignment explanation
Indices: 16680109--16680200 Score: 139
Period size: 28 Copynumber: 3.3 Consensus size: 28
16680099 TGGCCCCTTT
* * *
16680109 AGGCCCAATCTCATTCACATGGCTCATC
1 AGGCCCAATCACATTCATATGGCCCATC
*
16680137 CGGCCCAATCACATTCATATGGCCCATC
1 AGGCCCAATCACATTCATATGGCCCATC
*
16680165 AGGCCCAATCACATTCTTATGGCCCATC
1 AGGCCCAATCACATTCATATGGCCCATC
16680193 AGGCCCAA
1 AGGCCCAA
16680201 CTACTTCCCA
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 58 1.00
ACGTcount: A:0.26, C:0.37, G:0.15, T:0.22
Consensus pattern (28 bp):
AGGCCCAATCACATTCATATGGCCCATC
Found at i:16687165 original size:39 final size:40
Alignment explanation
Indices: 16687122--16687289 Score: 148
Period size: 40 Copynumber: 4.2 Consensus size: 40
16687112 CTCGTTCAAG
* * * *
16687122 TGCCTTCGGGACATAGCCCGG-TTATAGTAACTCATAC-AA
1 TGCCTTCGGGACTTAACCCGGATTATA-AAACTCACACGAA
* *
16687161 TGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAA
1 TGCCTTCGGGACTTAACCCGGATTATAAAACTCACACGAA
* * *
16687201 TGCCTTCGGGACTTAACCCGGAATTAGT--ATCTCGCACAAA
1 TGCCTTCGGGACTTAACCCGG-ATTA-TAAAACTCACACGAA
* * * *
16687241 GGCCTTCGGGACTTAACCCGGAATTA-ATAACTCGCACAAA
1 TGCCTTCGGGACTTAACCCGG-ATTATAAAACTCACACGAA
16687281 TGCCTTCGG
1 TGCCTTCGG
16687290 ATCTTAGTCC
Statistics
Matches: 111, Mismatches: 12, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
39 26 0.23
40 81 0.73
41 3 0.03
42 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
TGCCTTCGGGACTTAACCCGGATTATAAAACTCACACGAA
Found at i:16687273 original size:80 final size:80
Alignment explanation
Indices: 16687157--16687342 Score: 229
Period size: 80 Copynumber: 2.3 Consensus size: 80
16687147 AGTAACTCAT
* * *
16687157 ACAATGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGGGA-CTTAACCCG
1 ACAAAGCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATGCCTTC-GGATCTTAACCCG
*
16687221 GA-ATTAGT-A-TCTCGC
65 GATA-TAGTCACT-TAGC
**
16687236 ACAAAGGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATGCCTTCGGATCTTAGTCC
1 ACAAA-GCCTTCGGGACTTAACCCGGATATTAA-AACTCGCACAAATGCCTTCGGATCTTAACCC
16687300 GGATATAGTCACTTAGC
64 GGATATAGTCACTTAGC
*
16687317 ACAAAGCCTTCGGGACTTAGCCCGGA
1 ACAAAGCCTTCGGGACTTAACCCGGA
16687343 CAGCATTCAA
Statistics
Matches: 94, Mismatches: 7, Indels: 11
0.84 0.06 0.10
Matches are distributed among these distances:
79 11 0.12
80 72 0.77
81 10 0.11
82 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (80 bp):
ACAAAGCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTCACTTAGC
Found at i:16687302 original size:40 final size:40
Alignment explanation
Indices: 16687159--16687342 Score: 205
Period size: 40 Copynumber: 4.6 Consensus size: 40
16687149 TAACTCATAC
* *
16687159 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
16687199 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
16687239 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
** * * *
16687279 AATGCCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
16687320 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
16687343 CAGCATTCAA
Statistics
Matches: 124, Mismatches: 14, Indels: 11
0.83 0.09 0.07
Matches are distributed among these distances:
39 8 0.06
40 105 0.85
41 11 0.09
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:16688565 original size:56 final size:56
Alignment explanation
Indices: 16688495--16688667 Score: 310
Period size: 56 Copynumber: 3.1 Consensus size: 56
16688485 TTCTTTATTA
* * * *
16688495 CCCATACTCCTTATTTTATTCTTCCATTAACAAAACATGTTTCATGACATGTTTTG
1 CCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTTTTG
16688551 CCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTTTTG
1 CCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTTTTG
16688607 CCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTTTTG
1 CCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTTTTG
16688663 CCCAT
1 CCCAT
16688668 CATTCCTTGT
Statistics
Matches: 113, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 113 1.00
ACGTcount: A:0.24, C:0.23, G:0.08, T:0.45
Consensus pattern (56 bp):
CCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTTTTG
Found at i:16695246 original size:40 final size:39
Alignment explanation
Indices: 16695148--16695410 Score: 278
Period size: 40 Copynumber: 6.6 Consensus size: 39
16695138 TCCTCGTTCA
* * * *
16695148 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
16695187 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
16695226 GAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
16695266 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
16695306 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
16695346 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
16695387 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
16695411 CAGCATTCAA
Statistics
Matches: 197, Mismatches: 21, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
39 40 0.20
40 145 0.74
41 12 0.06
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:16695370 original size:120 final size:119
Alignment explanation
Indices: 16695148--16695410 Score: 307
Period size: 120 Copynumber: 2.2 Consensus size: 119
16695138 TCCTCGTTCA
* * *
16695148 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
* * *
16695213 TAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAAC-TCGCAC
66 TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
* * * * *
16695266 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGA
1 -AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGACATAACCCGG-
* * ** * *
16695331 ATTT-GTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
63 ATTTAATAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATATAATAACTTAGCAC
*
16695387 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
16695411 CAGCATTCAA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 37 0.31
120 75 0.62
121 9 0.07
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
Found at i:16695419 original size:41 final size:41
Alignment explanation
Indices: 16695342--16695419 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
16695332 TTTGTATCTC
* * *
16695342 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
16695383 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
16695420 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:16702810 original size:40 final size:40
Alignment explanation
Indices: 16702749--16702893 Score: 175
Period size: 40 Copynumber: 3.6 Consensus size: 40
16702739 CATTTGAATG
* * *
16702749 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATT
1 ATATCTGGGCTAAGACCCGAAGGCATTTATGCGAGTTGA-T
* *
16702789 TTATCTGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
1 ATATCTGGGCTAAGACCCGAAGGCATTTATGCGAGTTGAT
* *
16702829 ATATCTGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCTGGGCTAAGACCCGAAGGCATTTATGCGAGTTGAT
* * * *
16702869 ATACCCGTGTTAAGACCCGAAGGCA
1 ATATCTGGGCTAAGACCCGAAGGCA
16702894 ATTGTGCTTG
Statistics
Matches: 93, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
40 90 0.97
41 3 0.03
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
ATATCTGGGCTAAGACCCGAAGGCATTTATGCGAGTTGAT
Found at i:16713272 original size:25 final size:27
Alignment explanation
Indices: 16713235--16713287 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
16713225 TCAAACGTGC
16713235 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
16713261 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
16713287 A
1 A
16713288 AAACTGTAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:16714799 original size:32 final size:33
Alignment explanation
Indices: 16714762--16714827 Score: 125
Period size: 32 Copynumber: 2.0 Consensus size: 33
16714752 AATGCTTACC
16714762 ATGCCCATCATCCATTAACTATT-AAAATGCTA
1 ATGCCCATCATCCATTAACTATTAAAAATGCTA
16714794 ATGCCCATCATCCATTAACTATTAAAAATGCTA
1 ATGCCCATCATCCATTAACTATTAAAAATGCTA
16714827 A
1 A
16714828 AATGCATACA
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 23 0.70
33 10 0.30
ACGTcount: A:0.39, C:0.24, G:0.06, T:0.30
Consensus pattern (33 bp):
ATGCCCATCATCCATTAACTATTAAAAATGCTA
Found at i:16716677 original size:14 final size:14
Alignment explanation
Indices: 16716658--16716686 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
16716648 AAAAAACCTG
16716658 TTGTACTTTCATAT
1 TTGTACTTTCATAT
16716672 TTGTACTTTCATAT
1 TTGTACTTTCATAT
16716686 T
1 T
16716687 CTGAGAGAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.14, G:0.07, T:0.59
Consensus pattern (14 bp):
TTGTACTTTCATAT
Found at i:16720512 original size:40 final size:40
Alignment explanation
Indices: 16720459--16720611 Score: 243
Period size: 40 Copynumber: 3.8 Consensus size: 40
16720449 CAGCCGCAAA
* * *
16720459 CATATTTGCCTTCGGGTCTTAACCCGGACATATGAACTCG
1 CATAATTGCCTTCGGGTCTTAACCCGGATATATCAACTCG
*
16720499 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
1 CATAATTGCCTTCGGGTCTTAACCCGGATATATCAACTCG
* *
16720539 CATAATTGCCTTCGGGTCTTAGCCCGGATATGTCAACTCG
1 CATAATTGCCTTCGGGTCTTAACCCGGATATATCAACTCG
*
16720579 CATAATTGCCTTCGGGTCATAACCCGGATATAT
1 CATAATTGCCTTCGGGTCTTAACCCGGATATAT
16720612 TCCAATGTTC
Statistics
Matches: 105, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 105 1.00
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.30
Consensus pattern (40 bp):
CATAATTGCCTTCGGGTCTTAACCCGGATATATCAACTCG
Found at i:16729268 original size:40 final size:40
Alignment explanation
Indices: 16729215--16730085 Score: 1661
Period size: 40 Copynumber: 21.8 Consensus size: 40
16729205 CAGCCGCAAA
* * * * *
16729215 CATATTTGCCTTCGGGTCTTAACCCGGACATATGAACTCG
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATGTCAACTCG
*
16729255 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATGTCAACTCG
16729295 CATAATTGCCTTCGGGTCTTAGCCCGGATATGTCAACTCG
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATGTCAACTCG
16729335 CATAATTGCCTTCGGGTCTTAGCCCGGATATGTCAACTCG
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATGTCAACTCG
16729375 CATAATTGCCTTCGGGTCTTAGCCCGGATATGTCAACTCG
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATGTCAACTCG
16729415 CATAATTGCCTTCGGGTCTTAGCCCGGATATGTCAACTCG
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATGTCAACTCG
16729455 CATAATTGCCTTCGGGTCTTAGCCCGGATATGTCAACTCG
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATGTCAACTCG
16729495 CATAATTGCCTTCGGGTCTTAGCCCGGATATGTCAACTCG
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATGTCAACTCG
16729535 CATAATTGCCTTCGGGTCTTAGCCCGGATATGTCAACTCG
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATGTCAACTCG
16729575 CATAATTGCCTTCGGGTCTTAGCCCGGATATGTCAACTCG
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATGTCAACTCG
16729615 CATAATTGCCTTCGGGTCTTAGCCCGGATATGTCAACTCG
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATGTCAACTCG
16729655 CATAATTGCCTTCGGGTCTTAGCCCGGATATGTCAACTCG
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATGTCAACTCG
16729695 CATAATTGCCTTCGGGTCTTAGCCCGGATATGTCAACTCG
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATGTCAACTCG
16729735 CATAATTGCCTTCGGGTCTTAGCCCGGATATGTCAACTCG
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATGTCAACTCG
16729775 CATAATTGCCTTCGGGTCTTAGCCCGGATATGTCAACTCG
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATGTCAACTCG
16729815 CATAATTGCCTTCGGGTCTTAGCCCGGATATGTCAACTCG
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATGTCAACTCG
16729855 CATAATTGCCTTCGGGTCTTAGCCCGGATATGTCAACTCG
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATGTCAACTCG
16729895 CATAATTGCCTTCGGGTCTTAGCCCGGATATGTCAACTCG
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATGTCAACTCG
16729935 CATAATTGCCTTCGGGTCTTAGCCCGGATATGTCAACTCG
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATGTCAACTCG
*
16729975 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATGTCAACTCG
16730015 CATAATTGCCTTCGGGTCTTAGCCCGGATATGTCAACTCG
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATGTCAACTCG
* *
16730055 CATAATTGCCTTCGGGTCATAACCCGGATAT
1 CATAATTGCCTTCGGGTCTTAGCCCGGATAT
16730086 ATTCCAATGT
Statistics
Matches: 822, Mismatches: 9, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
40 822 1.00
ACGTcount: A:0.21, C:0.27, G:0.22, T:0.30
Consensus pattern (40 bp):
CATAATTGCCTTCGGGTCTTAGCCCGGATATGTCAACTCG
Found at i:16731178 original size:99 final size:99
Alignment explanation
Indices: 16731053--16731249 Score: 385
Period size: 99 Copynumber: 2.0 Consensus size: 99
16731043 CTCTTCAAGA
*
16731053 TTTAATGACATAATTCACTCAGCTTCTAATTCAACTCCTATAATTTATGGCGATTTTTCGAAAAT
1 TTTAATGACATAATTCACTCAGCTTCTAATTCAACTCCTATAATTTATGGCGATTTTTCCAAAAT
16731118 CACCTTACTGCTGCTGTCCCCAAACAGATTATCC
66 CACCTTACTGCTGCTGTCCCCAAACAGATTATCC
16731152 TTTAATGACATAATTCACTCAGCTTCTAATTCAACTCCTATAATTTATGGCGATTTTTCCAAAAT
1 TTTAATGACATAATTCACTCAGCTTCTAATTCAACTCCTATAATTTATGGCGATTTTTCCAAAAT
16731217 CACCTTACTGCTGCTGTCCCCAAACAGATTATC
66 CACCTTACTGCTGCTGTCCCCAAACAGATTATC
16731250 ACCAAATCAA
Statistics
Matches: 97, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
99 97 1.00
ACGTcount: A:0.29, C:0.25, G:0.10, T:0.36
Consensus pattern (99 bp):
TTTAATGACATAATTCACTCAGCTTCTAATTCAACTCCTATAATTTATGGCGATTTTTCCAAAAT
CACCTTACTGCTGCTGTCCCCAAACAGATTATCC
Found at i:16739788 original size:40 final size:40
Alignment explanation
Indices: 16739701--16739776 Score: 100
Period size: 40 Copynumber: 1.9 Consensus size: 40
16739691 GTTTGGACAA
* *
16739701 AAAACGCCGCTAAAAATCAAGCATTAGTGGCGCTTTATGG
1 AAAACGCCGCTAAAAATCAAGCATTAGCGGCACTTTATGG
* *
16739741 AAAACGCCGCTAAAGATCGAGCATTTA-CGGCACTTT
1 AAAACGCCGCTAAAAATCAAGCA-TTAGCGGCACTTT
16739777 TCGGAACACG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
40 28 0.90
41 3 0.10
ACGTcount: A:0.34, C:0.22, G:0.21, T:0.22
Consensus pattern (40 bp):
AAAACGCCGCTAAAAATCAAGCATTAGCGGCACTTTATGG
Found at i:16739930 original size:41 final size:41
Alignment explanation
Indices: 16739873--16740147 Score: 244
Period size: 41 Copynumber: 6.7 Consensus size: 41
16739863 CCTTTCGGGG
** *
16739873 CTTTAGCGGCATTTTTGAAAAAGTACCACTAATGCTCGGTA
1 CTTTAGCGGCATTTTTGAAAAAGCGCCGCTAATGCTCGGTA
* *
16739914 CTTTAGGGGCATTTTTGGAAAAGCGCCGCTAATGCTCGGTA
1 CTTTAGCGGCATTTTTGAAAAAGCGCCGCTAATGCTCGGTA
** * * * *
16739955 CTTTAGCAACGTTTTTGAAGAAGCGCCGCTAATGCTCGATG
1 CTTTAGCGGCATTTTTGAAAAAGCGCCGCTAATGCTCGGTA
* * * * *
16739996 CTTTAGCGGTATTTTCGAAGAAGCGCCGCGAATGCTCGGTG
1 CTTTAGCGGCATTTTTGAAAAAGCGCCGCTAATGCTCGGTA
* * * * *
16740037 CTTTAGCGGCTTTTTTGAAAAAGCGTCGGTAATGCTCAGTG
1 CTTTAGCGGCATTTTTGAAAAAGCGCCGCTAATGCTCGGTA
* * * * * * * **
16740078 CTTTAGCGACGTTTTTGAAGAAGTGCTGGTAATTCTCGGGG
1 CTTTAGCGGCATTTTTGAAAAAGCGCCGCTAATGCTCGGTA
* * * *
16740119 CTTTATCGGCGTTTTTAAAAAAGCTCCGC
1 CTTTAGCGGCATTTTTGAAAAAGCGCCGC
16740148 AAAAAACATT
Statistics
Matches: 189, Mismatches: 45, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
41 189 1.00
ACGTcount: A:0.23, C:0.20, G:0.26, T:0.31
Consensus pattern (41 bp):
CTTTAGCGGCATTTTTGAAAAAGCGCCGCTAATGCTCGGTA
Found at i:16740122 original size:123 final size:123
Alignment explanation
Indices: 16739867--16740142 Score: 318
Period size: 123 Copynumber: 2.2 Consensus size: 123
16739857 TTCTTACCTT
* * * * *
16739867 TCGGGGCTTTAGCGGCATTTTTGAAAAAGTACCACTAATGCTCGGTACTTTAGGGGCATTTTTGG
1 TCGGGGCTTTAGCGGCATTTTCGAAAAAGCACCACGAATGCTCGGTACTTTAGCGGCATTTTTGA
*
16739932 AAAAGCGCCGCTAATGCTCGGTACTTTAGCAACGTTTTTGAAGAAGCGCCGCTAATGC
66 AAAAGCGCCGCTAATGCTCAGTACTTTAGCAACGTTTTTGAAGAAGCGCCGCTAATGC
** * * * * * *
16739990 TCGATGCTTTAGCGGTATTTTCGAAGAAGCGCCGCGAATGCTCGGTGCTTTAGCGGCTTTTTTGA
1 TCGGGGCTTTAGCGGCATTTTCGAAAAAGCACCACGAATGCTCGGTACTTTAGCGGCATTTTTGA
* * * * * * * *
16740055 AAAAGCGTCGGTAATGCTCAGTGCTTTAGCGACGTTTTTGAAGAAGTGCTGGTAATTC
66 AAAAGCGCCGCTAATGCTCAGTACTTTAGCAACGTTTTTGAAGAAGCGCCGCTAATGC
* * **
16740113 TCGGGGCTTTATCGGCGTTTTTAAAAAAGC
1 TCGGGGCTTTAGCGGCATTTTCGAAAAAGC
16740143 TCCGCAAAAA
Statistics
Matches: 123, Mismatches: 30, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
123 123 1.00
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.31
Consensus pattern (123 bp):
TCGGGGCTTTAGCGGCATTTTCGAAAAAGCACCACGAATGCTCGGTACTTTAGCGGCATTTTTGA
AAAAGCGCCGCTAATGCTCAGTACTTTAGCAACGTTTTTGAAGAAGCGCCGCTAATGC
Found at i:16740763 original size:15 final size:15
Alignment explanation
Indices: 16740743--16740790 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
16740733 ACTATCTTAA
16740743 GGTTTATGGATTATG
1 GGTTTATGGATTATG
*
16740758 GGTTTAGGGATTAT-
1 GGTTTATGGATTATG
* *
16740772 GGTTTATGGTTTAAG
1 GGTTTATGGATTATG
16740787 GGTT
1 GGTT
16740791 GGGGTTTAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
14 11 0.39
15 17 0.61
ACGTcount: A:0.19, C:0.00, G:0.35, T:0.46
Consensus pattern (15 bp):
GGTTTATGGATTATG
Found at i:16740936 original size:271 final size:272
Alignment explanation
Indices: 16740548--16741085 Score: 891
Period size: 271 Copynumber: 2.0 Consensus size: 272
16740538 GATTTAAGGT
* * * *
16740548 TTAAGAGTTAGGAGTTTCTGATTTATGGTTTAGGGGATAGGGGATAAGGGTTTAAAGGTTAGATT
1 TTAAGAGTTAGGAGCTTATGATTTAGGGTTTAGGGGATAGGGGATAAGGGTTTAAAGGTTAAATT
16740613 AATTAGTGTTATTTAATTTATATATTAAATAATTTCTTACATAATCGTAAAAGAGATAGTATTAA
66 AATTAGTGTTATTTAATTTATATATTAAATAATTTCTTACATAATCGTAAAAGAGATAGTATTAA
* *
16740678 TTTTAAAATATTAAATTAATTGTCATTATAGTTTAGGGTTTAAGGTTTAGGAGTTACTATCTTAA
131 TTTTAAAATATTAAATTAATTATCATTATAGTTTAAGGTTTAAGGTTTAGGAGTTACTATCTTAA
*
16740743 GGTTTATGGATTATGGGTTTAGGGATTATGGTTTATGGTTTAAGGGTTGGGGTTTAAAGTTTAAG
196 GGTTTATGGATTATGGGTTTAGGGATTATGGTTTATGGTTTAAGGGTTGGGATTTAAAGTTTAAG
*
16740808 GGTTAGGGGTAC
261 AGTTAGGGGTAC
* * * *
16740820 TTAAGGGTTAGGGGCTTATGATTTAGGGTTTA-GGGATAGGGGTTAAGGGTTT-AGGGTTTAAAT
1 TTAAGAGTTAGGAGCTTATGATTTAGGGTTTAGGGGATAGGGGATAAGGGTTTAAAGG-TTAAAT
* * * *
16740883 TAATTAGTGTTTTTTAATTTATATATTAAATAATTTCTTATATAATTGTAAAAGAGATTGTATTA
65 TAATTAGTGTTATTTAATTTATATATTAAATAATTTCTTACATAATCGTAAAAGAGATAGTATTA
*
16740948 ATTTTAAAATATTGAATTAATTATCATTATAGTTTAAGGTTTAAGGTTTAGGAGTTACTATCTTA
130 ATTTTAAAATATTAAATTAATTATCATTATAGTTTAAGGTTTAAGGTTTAGGAGTTACTATCTTA
*
16741013 AGGTTTATGGATTATGGGTTTAGGGATTATGGTTTATGGTTTAAGGGTTGGGATTTAAGGTTTAA
195 AGGTTTATGGATTATGGGTTTAGGGATTATGGTTTATGGTTTAAGGGTTGGGATTTAAAGTTTAA
16741078 GAGTTAGG
260 GAGTTAGG
16741086 TTTACTTGAG
Statistics
Matches: 247, Mismatches: 18, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
270 3 0.01
271 217 0.88
272 27 0.11
ACGTcount: A:0.30, C:0.02, G:0.25, T:0.43
Consensus pattern (272 bp):
TTAAGAGTTAGGAGCTTATGATTTAGGGTTTAGGGGATAGGGGATAAGGGTTTAAAGGTTAAATT
AATTAGTGTTATTTAATTTATATATTAAATAATTTCTTACATAATCGTAAAAGAGATAGTATTAA
TTTTAAAATATTAAATTAATTATCATTATAGTTTAAGGTTTAAGGTTTAGGAGTTACTATCTTAA
GGTTTATGGATTATGGGTTTAGGGATTATGGTTTATGGTTTAAGGGTTGGGATTTAAAGTTTAAG
AGTTAGGGGTAC
Found at i:16741034 original size:15 final size:15
Alignment explanation
Indices: 16741014--16741061 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
16741004 ACTATCTTAA
16741014 GGTTTATGGATTATG
1 GGTTTATGGATTATG
*
16741029 GGTTTAGGGATTAT-
1 GGTTTATGGATTATG
* *
16741043 GGTTTATGGTTTAAG
1 GGTTTATGGATTATG
16741058 GGTT
1 GGTT
16741062 GGGATTTAAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
14 11 0.39
15 17 0.61
ACGTcount: A:0.19, C:0.00, G:0.35, T:0.46
Consensus pattern (15 bp):
GGTTTATGGATTATG
Found at i:16743382 original size:168 final size:168
Alignment explanation
Indices: 16743103--16743424 Score: 450
Period size: 168 Copynumber: 1.9 Consensus size: 168
16743093 TCTCAGGTAA
* *
16743103 TTTAAAACTCTTATTTACTTAATGGTGTAATTTTGAATTTCATTGGAAACTTTAATTTGTTAGAA
1 TTTAAAACTCTTATTTACTTAATGGTGTAAGTCTGAATTTCATTGGAAACTTTAATTTGTTAGAA
** * * * *
16743168 TTTGATCCTCTTAATTTGCAAAAATTGGAAATTTGATCCTGTTTTTGGTGCATACATGCACTTGA
66 TTCCATCCTCTTAATTTACAAAAATTGAAAATTTGATCCTGTTTTTGGTGAATACATGAACTTGA
** *
16743233 ACGGTTGGTTTTTGCTAATTTGTTTTGATCTTCAATAG
131 ACGGTTAATTTGTGCTAATTTGTTTTGATCTTCAATAG
* *
16743271 TTTAAAACTCTTATTTACTTAATGGTGTAAGTCTGAGTTTCATTGGAAACTTTAATTTGTTAGAC
1 TTTAAAACTCTTATTTACTTAATGGTGTAAGTCTGAATTTCATTGGAAACTTTAATTTGTTAGAA
* * *
16743336 TTCCATCCTCTTATTTTATAAAAATTGAAAATTT-AGT-CTGGTTTTTGGTGAATATATGAACTT
66 TTCCATCCTCTTAATTTACAAAAATTGAAAATTTGA-TCCT-GTTTTTGGTGAATACATGAACTT
**
16743399 GAATTGTTAATTTGTGCTAATTTGTT
129 GAACGGTTAATTTGTGCTAATTTGTT
16743425 GCATTTAAAA
Statistics
Matches: 134, Mismatches: 18, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
167 3 0.02
168 131 0.98
ACGTcount: A:0.28, C:0.11, G:0.16, T:0.46
Consensus pattern (168 bp):
TTTAAAACTCTTATTTACTTAATGGTGTAAGTCTGAATTTCATTGGAAACTTTAATTTGTTAGAA
TTCCATCCTCTTAATTTACAAAAATTGAAAATTTGATCCTGTTTTTGGTGAATACATGAACTTGA
ACGGTTAATTTGTGCTAATTTGTTTTGATCTTCAATAG
Found at i:16743466 original size:86 final size:90
Alignment explanation
Indices: 16743351--16743531 Score: 210
Period size: 93 Copynumber: 2.0 Consensus size: 90
16743341 TCCTCTTATT
* *
16743351 TTATAAAAATTGAAAATTTAGTCTGGTTTTTGGT-GA-A-TAT-ATGAACTTGAATTGTTAATTT
1 TTATAAAAATTGAAAAGTTAGTCTGGTTTTTGGTAGACATTATAATGAACTTGAACTGTTAATTT
*
16743412 GTGCTAATTTGTTGCATTTAAAATG
66 GTGCTAATTTGTTGCATGTAAAATG
* * *
16743437 TTATAAAAATTGACAAGTTGGTCCT-GTTTTTGGTAAATACATTATACATGAACTTGAACTGTTA
1 TTATAAAAATTGAAAAGTTAGT-CTGGTTTTTGGT--AGACATTATA-ATGAACTTGAACTGTTA
* * *
16743501 ATTTTTGCTAATTTTTTGCATGTAAATTG
62 ATTTGTGCTAATTTGTTGCATGTAAAATG
16743530 TT
1 TT
16743532 GAAATGATGA
Statistics
Matches: 78, Mismatches: 9, Indels: 9
0.81 0.09 0.09
Matches are distributed among these distances:
86 28 0.36
87 2 0.03
89 1 0.01
90 1 0.01
91 3 0.04
93 43 0.55
ACGTcount: A:0.31, C:0.07, G:0.16, T:0.45
Consensus pattern (90 bp):
TTATAAAAATTGAAAAGTTAGTCTGGTTTTTGGTAGACATTATAATGAACTTGAACTGTTAATTT
GTGCTAATTTGTTGCATGTAAAATG
Found at i:16743547 original size:30 final size:30
Alignment explanation
Indices: 16743511--16743577 Score: 116
Period size: 30 Copynumber: 2.2 Consensus size: 30
16743501 ATTTTTGCTA
*
16743511 ATTTTTTGCATGTAAATTGTTGAAATGATG
1 ATTTTTTACATGTAAATTGTTGAAATGATG
*
16743541 ATTTTTTATATGTAAATTGTTGAAATGATG
1 ATTTTTTACATGTAAATTGTTGAAATGATG
16743571 ATTTTTT
1 ATTTTTT
16743578 TATCTCCTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.30, C:0.01, G:0.16, T:0.52
Consensus pattern (30 bp):
ATTTTTTACATGTAAATTGTTGAAATGATG
Found at i:16743801 original size:86 final size:86
Alignment explanation
Indices: 16743654--16743901 Score: 259
Period size: 86 Copynumber: 2.9 Consensus size: 86
16743644 AAAATTGAAA
* ** * *
16743654 ATTGAAAATTTAGTCTGGTTGTTGGTAAACGCATGAACTTGAACCATTTATTTTTGCTAATTTGT
1 ATTGAAAAATTAGTCTAATTGTTGGTAAACACATGAACTTGAACCATTGATTTTTGCTAATTTGT
* *
16743719 TGCATATAAGTTGTTATAAAT
66 TGCATATAAATCGTTATAAAT
* * *
16743740 ATTGAAAAATTAGTCTAATTTTTGGTAAATACATGAACTTGAACCATTGATTTTTGTTAATTTGT
1 ATTGAAAAATTAGTCTAATTGTTGGTAAACACATGAACTTGAACCATTGATTTTTGCTAATTTGT
*
16743805 TGCATATAAATCGTTATAAAA
66 TGCATATAAATCGTTATAAAT
* * ** * * *
16743826 ATT-AAAGATTTAGCCCT-ATTGCCGGTAAATATATGAACTATGAA-TAGTTGATTTTTGCTAAT
1 ATTGAAA-AATTAG-TCTAATTGTTGGTAAACACATGAACT-TGAACCA-TTGATTTTTGCTAAT
* *
16743888 TTGTTTCACATAAA
62 TTGTTGCATATAAA
16743902 CTGTTGTAAG
Statistics
Matches: 137, Mismatches: 21, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
85 3 0.02
86 102 0.74
87 32 0.23
ACGTcount: A:0.34, C:0.10, G:0.15, T:0.42
Consensus pattern (86 bp):
ATTGAAAAATTAGTCTAATTGTTGGTAAACACATGAACTTGAACCATTGATTTTTGCTAATTTGT
TGCATATAAATCGTTATAAAT
Found at i:16746157 original size:128 final size:128
Alignment explanation
Indices: 16745937--16746233 Score: 389
Period size: 128 Copynumber: 2.3 Consensus size: 128
16745927 GAACCATACT
* * * *
16745937 TTTAGCGGCGTTTGTGATAAAAGTGCCGCTAAAGATCATGTTCTTTAGCGGCATTTGTGGGTAAA
1 TTTAGCGGCGTTTGTGGT-AAAGCGCCGCTAAAGATCATGTTCTATAGCGGCATTTGTGGGAAAA
** * * * * * *
16746002 GTGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTGTTGGTAAAGCGACGCTAAAGGTCATGTTC
65 GCACCGCTAAAGATCATGATCTATAGCGGCGTTTGTGGGAAAAGCGACGCTAAAAGTCATGATC
* *
16746066 TTTAGCGGCGTTTGTGGTAAAGCGCCGCTAAAGCTCATGTTCTATAGCGGCGTTTGTGGGAAAAG
1 TTTAGCGGCGTTTGTGGTAAAGCGCCGCTAAAGATCATGTTCTATAGCGGCATTTGTGGGAAAAG
*
16746131 CACCGCTAAA-AGTCATGATCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCATGATC
66 CACCGCTAAAGA-TCATGATCTATAGCGGCGTTTGTGGGAAAAGCGACGCTAAAAGTCATGATC
* * * *
16746194 TATAGCGGCGTTTGTGGGAGAAGCACCGCTAAAGGTCATG
1 TTTAGCGGCGTTTGTGGTA-AAGCGCCGCTAAAGATCATG
16746234 ACTTTTAGCT
Statistics
Matches: 147, Mismatches: 19, Indels: 4
0.86 0.11 0.02
Matches are distributed among these distances:
127 1 0.01
128 111 0.76
129 35 0.24
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.28
Consensus pattern (128 bp):
TTTAGCGGCGTTTGTGGTAAAGCGCCGCTAAAGATCATGTTCTATAGCGGCATTTGTGGGAAAAG
CACCGCTAAAGATCATGATCTATAGCGGCGTTTGTGGGAAAAGCGACGCTAAAAGTCATGATC
Found at i:16746234 original size:43 final size:42
Alignment explanation
Indices: 16745939--16746233 Score: 356
Period size: 43 Copynumber: 6.9 Consensus size: 42
16745929 ACCATACTTT
** * * *
16745939 TAGCGGCGTTTGTGATAAAAGTGCCGCTAAAGATCATGTTCTT
1 TAGCGGCGTTTGTG-GGAAAGCGCCGCTAAAGGTCATGTTCTA
* * * *
16745982 TAGCGGCATTTGTGGGTAAAGTGCCGCTAAAGATCATGTTCTT
1 TAGCGGCGTTTGTGGG-AAAGCGCCGCTAAAGGTCATGTTCTA
* * *
16746025 TAGCGGCGTTTGTTGGTAAAGCGACGCTAAAGGTCATGTTCTT
1 TAGCGGCGTTTG-TGGGAAAGCGCCGCTAAAGGTCATGTTCTA
* *
16746068 TAGCGGCGTTTGTGGTAAAGCGCCGCTAAAGCTCATGTTCTA
1 TAGCGGCGTTTGTGGGAAAGCGCCGCTAAAGGTCATGTTCTA
* * *
16746110 TAGCGGCGTTTGTGGGAAAAGCACCGCTAAAAGTCATGATCTA
1 TAGCGGCGTTTGTGGG-AAAGCGCCGCTAAAGGTCATGTTCTA
* *
16746153 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCATGATCTA
1 TAGCGGCGTTTGTGGG-AAAGCGCCGCTAAAGGTCATGTTCTA
*
16746196 TAGCGGCGTTTGTGGGAGAAGCACCGCTAAAGGTCATG
1 TAGCGGCGTTTGTGGGA-AAGCGCCGCTAAAGGTCATG
16746234 ACTTTTAGCT
Statistics
Matches: 229, Mismatches: 19, Indels: 8
0.89 0.07 0.03
Matches are distributed among these distances:
42 43 0.19
43 183 0.80
44 3 0.01
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.28
Consensus pattern (42 bp):
TAGCGGCGTTTGTGGGAAAGCGCCGCTAAAGGTCATGTTCTA
Found at i:16746234 original size:86 final size:86
Alignment explanation
Indices: 16745939--16746249 Score: 396
Period size: 86 Copynumber: 3.6 Consensus size: 86
16745929 ACCATACTTT
** ** * * * *
16745939 TAGCGGCGTTTGTGATAAAAGTGCCGCTAAAGATCATGTTCTTTAGCGGCATTTGTGGGTAAAGT
1 TAGCGGCGTTTGTGGGAAAAGCACCGCTAAAGGTCATGATCTTTAGCGGCGTTTGTGGGTAAAGC
*
16746004 GCCGCTAAAGATCATGTTCTT
66 GCCGCTAAAGATCATGTTCTA
* * *
16746025 TAGCGGCGTTTGTTGGTAAAGCGA-CGCTAAAGGTCATGTTCTTTAGCGGCGTTTGT-GGTAAAG
1 TAGCGGCGTTTGTGGGAAAAGC-ACCGCTAAAGGTCATGATCTTTAGCGGCGTTTGTGGGTAAAG
*
16746088 CGCCGCTAAAGCTCATGTTCTA
65 CGCCGCTAAAGATCATGTTCTA
* * *
16746110 TAGCGGCGTTTGTGGGAAAAGCACCGCTAAAAGTCATGATCTATAGCGGCGTTTGTGGGAAAAGC
1 TAGCGGCGTTTGTGGGAAAAGCACCGCTAAAGGTCATGATCTTTAGCGGCGTTTGTGGGTAAAGC
*
16746175 GCCGCTAAA-AGTCATGATCTA
66 GCCGCTAAAGA-TCATGTTCTA
* *
16746196 TAGCGGCGTTTGTGGGAGAAGCACCGCTAAAGGTCATGA-CTTTTAGCTGCGTTT
1 TAGCGGCGTTTGTGGGAAAAGCACCGCTAAAGGTCATGATC-TTTAGCGGCGTTT
16746250 ATTTCTAAAA
Statistics
Matches: 197, Mismatches: 23, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
84 1 0.01
85 76 0.39
86 120 0.61
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.29
Consensus pattern (86 bp):
TAGCGGCGTTTGTGGGAAAAGCACCGCTAAAGGTCATGATCTTTAGCGGCGTTTGTGGGTAAAGC
GCCGCTAAAGATCATGTTCTA
Found at i:16748995 original size:54 final size:54
Alignment explanation
Indices: 16748910--16749138 Score: 223
Period size: 54 Copynumber: 4.2 Consensus size: 54
16748900 GCAAAAGACC
16748910 GAAATA-CCCTGAGAGGGTAAAATGA-TCGAAATACCCCTAGAGGGTAAAATGATT
1 GAAATACCCCT-AGAGGGTAAAATGACT-GAAATACCCCTAGAGGGTAAAATGATT
* * *
16748964 GAAATACCCCTAGAGGGTCAAATGACTGAAATACCCC-CGTAGGGTAAAATAATT
1 GAAATACCCCTAGAGGGTAAAATGACTGAAATACCCCTAG-AGGGTAAAATGATT
** * * * * *
16749018 GAAATACCCCCGGATGGTAAAATGACCGAAAT-GCCCTAAAAGGGTAAAATGATC
1 GAAATACCCCTAGAGGGTAAAATGACTGAAATACCCCT-AGAGGGTAAAATGATT
* * * * * * *
16749072 GAAATACCCCCAAAAGGTAAAATGACTGAAATACCCCCATAAGGTAAAATGACT
1 GAAATACCCCTAGAGGGTAAAATGACTGAAATACCCCTAGAGGGTAAAATGATT
**
16749126 GTTATACCCCTAG
1 GAAATACCCCTAG
16749139 GAGATGAAAT
Statistics
Matches: 142, Mismatches: 27, Indels: 12
0.78 0.15 0.07
Matches are distributed among these distances:
53 4 0.03
54 130 0.92
55 8 0.06
ACGTcount: A:0.41, C:0.20, G:0.20, T:0.19
Consensus pattern (54 bp):
GAAATACCCCTAGAGGGTAAAATGACTGAAATACCCCTAGAGGGTAAAATGATT
Found at i:16749049 original size:81 final size:81
Alignment explanation
Indices: 16748909--16749138 Score: 239
Period size: 81 Copynumber: 2.8 Consensus size: 81
16748899 GGCAAAAGAC
** * * * * *
16748909 CGAAATACCCTGAGAGGGTAAAATGATCGAAATACCCCTAGAGGGTAAAATGATTGAAATACCCC
1 CGAAATACCCCCAAAGGGTAAAATGATTGAAATACCCCCAGAAGGTAAAATGACTGAAATACCCC
*
16748974 TAGAGGGTCAAATGA-
66 TAGAGGGTAAAATGAT
** * * * * *
16748989 CTGAAATACCCCCGTAGGGTAAAATAATTGAAATACCCCCGGATGGTAAAATGACCGAAAT-GCC
1 C-GAAATACCCCCAAAGGGTAAAATGATTGAAATACCCCCAGAAGGTAAAATGACTGAAATACCC
*
16749053 CTAAAAGGGTAAAATGAT
65 CT-AGAGGGTAAAATGAT
* * * **
16749071 CGAAATACCCCCAAAAGGTAAAATGACTGAAATACCCCCATAAGGTAAAATGACTGTTATACCCC
1 CGAAATACCCCCAAAGGGTAAAATGATTGAAATACCCCCAGAAGGTAAAATGACTGAAATACCCC
16749136 TAG
66 TAG
16749139 GAGATGAAAT
Statistics
Matches: 119, Mismatches: 27, Indels: 7
0.78 0.18 0.05
Matches are distributed among these distances:
80 5 0.04
81 109 0.92
82 5 0.04
ACGTcount: A:0.40, C:0.20, G:0.20, T:0.19
Consensus pattern (81 bp):
CGAAATACCCCCAAAGGGTAAAATGATTGAAATACCCCCAGAAGGTAAAATGACTGAAATACCCC
TAGAGGGTAAAATGAT
Found at i:16749109 original size:27 final size:27
Alignment explanation
Indices: 16748902--16749135 Score: 190
Period size: 27 Copynumber: 8.7 Consensus size: 27
16748892 ATTTGTGGGC
* ** *
16748902 AAAA-GACCGAAATACCCTGAGAGGGT
1 AAAATGACTGAAATACCCCCAGAAGGT
* *
16748928 AAAATGA-TCGAAATACCCCTAGAGGGT
1 AAAATGACT-GAAATACCCCCAGAAGGT
* * *
16748955 AAAATGATTGAAATACCCCTAGAGGGT
1 AAAATGACTGAAATACCCCCAGAAGGT
* *
16748982 CAAATGACTGAAATACCCCC-GTAGGGT
1 AAAATGACTGAAATACCCCCAG-AAGGT
* * * *
16749009 AAAATAATTGAAATACCCCCGGATGGT
1 AAAATGACTGAAATACCCCCAGAAGGT
* * * *
16749036 AAAATGACCGAAAT-GCCCTAAAAGGGT
1 AAAATGACTGAAATACCCCCAGAA-GGT
*
16749063 AAAATGA-TCGAAATACCCCCAAAAGGT
1 AAAATGACT-GAAATACCCCCAGAAGGT
*
16749090 AAAATGACTGAAATACCCCCATAAGGT
1 AAAATGACTGAAATACCCCCAGAAGGT
**
16749117 AAAATGACTGTTATACCCC
1 AAAATGACTGAAATACCCC
16749136 TAGGAGATGA
Statistics
Matches: 175, Mismatches: 24, Indels: 17
0.81 0.11 0.08
Matches are distributed among these distances:
26 9 0.05
27 156 0.89
28 10 0.06
ACGTcount: A:0.41, C:0.21, G:0.20, T:0.18
Consensus pattern (27 bp):
AAAATGACTGAAATACCCCCAGAAGGT
Found at i:16749507 original size:28 final size:28
Alignment explanation
Indices: 16749475--16749548 Score: 94
Period size: 28 Copynumber: 2.6 Consensus size: 28
16749465 TGTACTATAC
16749475 TGGGCTAAGGCCCATACTATTACTGTAT
1 TGGGCTAAGGCCCATACTATTACTGTAT
* * * * *
16749503 TGGGCTAAGGCCCACATTGTTATTGTTT
1 TGGGCTAAGGCCCATACTATTACTGTAT
*
16749531 TGGTCTAAGGCCCATACT
1 TGGGCTAAGGCCCATACT
16749549 GTACTATTAC
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.22, C:0.22, G:0.23, T:0.34
Consensus pattern (28 bp):
TGGGCTAAGGCCCATACTATTACTGTAT
Found at i:16750613 original size:14 final size:14
Alignment explanation
Indices: 16750579--16750616 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
16750569 TTCTAAGTGA
*
16750579 ACAAATAGTTAGGT
1 ACAAATGGTTAGGT
16750593 ACAAATGGTTAGGT
1 ACAAATGGTTAGGT
16750607 ACAAATGGTT
1 ACAAATGGTT
16750617 TGTCCCTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.39, C:0.08, G:0.24, T:0.29
Consensus pattern (14 bp):
ACAAATGGTTAGGT
Found at i:16750955 original size:18 final size:18
Alignment explanation
Indices: 16750932--16750970 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
16750922 TGTTATTATT
*
16750932 AATGAATTAAAA-TTTAAA
1 AATGAA-TAAAACATTAAA
16750950 AATGAATAAAACATTAAA
1 AATGAATAAAACATTAAA
16750968 AAT
1 AAT
16750971 TTAAGGAAGC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.64, C:0.03, G:0.05, T:0.28
Consensus pattern (18 bp):
AATGAATAAAACATTAAA
Found at i:16751008 original size:13 final size:13
Alignment explanation
Indices: 16750990--16751014 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16750980 CCACCATCAT
16750990 TTTTTCATCTTTC
1 TTTTTCATCTTTC
16751003 TTTTTCATCTTT
1 TTTTTCATCTTT
16751015 AGAACCAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.20, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTTTCATCTTTC
Found at i:16751801 original size:13 final size:13
Alignment explanation
Indices: 16751785--16751854 Score: 86
Period size: 13 Copynumber: 5.3 Consensus size: 13
16751775 TATTTAAATC
*
16751785 AAATGGTTATACG
1 AAATGGTTATATG
16751798 AAATGGTTATATG
1 AAATGGTTATATG
* **
16751811 AAATGATTGCATG
1 AAATGGTTATATG
16751824 AAATGGTTATATG
1 AAATGGTTATATG
*
16751837 AATTGGTTATATGG
1 AAATGGTTATAT-G
16751851 AAAT
1 AAAT
16751855 AGATGTATGA
Statistics
Matches: 47, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
13 43 0.91
14 4 0.09
ACGTcount: A:0.39, C:0.03, G:0.23, T:0.36
Consensus pattern (13 bp):
AAATGGTTATATG
Found at i:16751812 original size:39 final size:38
Alignment explanation
Indices: 16751769--16751855 Score: 102
Period size: 39 Copynumber: 2.2 Consensus size: 38
16751759 AATTGTTTAA
16751769 ATGAAATATTTAAATCAAATGGTTATACGAAATGGTTAT
1 ATGAAATA-TTAAATCAAATGGTTATACGAAATGGTTAT
** * * *
16751808 ATGAAATGATTGCATGAAATGGTTATATGAATTGGTTAT
1 ATGAAAT-ATTAAATCAAATGGTTATACGAAATGGTTAT
16751847 ATGGAAATA
1 AT-GAAATA
16751856 GATGTATGAA
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
39 35 0.85
40 6 0.15
ACGTcount: A:0.41, C:0.03, G:0.20, T:0.36
Consensus pattern (38 bp):
ATGAAATATTAAATCAAATGGTTATACGAAATGGTTAT
Found at i:16752945 original size:57 final size:57
Alignment explanation
Indices: 16752876--16752992 Score: 198
Period size: 57 Copynumber: 2.1 Consensus size: 57
16752866 ATAGTTAGTT
*** *
16752876 ACACGGCCTAGGGACACGGTTATGTGACCCTATTTTCGATTTGTACACGGTTTCAGC
1 ACACGGCCTAGGGACACGACCATGTGACCCTATTTTCGATTTGTACACGGTTTAAGC
16752933 ACACGGCCTAGGGACACGACCATGTGACCCTATTTTCGATTTGTACACGGTTTAAGC
1 ACACGGCCTAGGGACACGACCATGTGACCCTATTTTCGATTTGTACACGGTTTAAGC
16752990 ACA
1 ACA
16752993 TGAGCGTGTG
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
57 56 1.00
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (57 bp):
ACACGGCCTAGGGACACGACCATGTGACCCTATTTTCGATTTGTACACGGTTTAAGC
Found at i:16762236 original size:21 final size:21
Alignment explanation
Indices: 16762212--16762275 Score: 59
Period size: 21 Copynumber: 3.3 Consensus size: 21
16762202 TAGATATGAG
16762212 TAAGTAAAGTGTTGTCATAGC
1 TAAGTAAAGTGTTGTCATAGC
*
16762233 TAAGTATAG-GTATG--AT---
1 TAAGTAAAGTGT-TGTCATAGC
*
16762249 TAAGTAAAGTGTTGTCTTAGC
1 TAAGTAAAGTGTTGTCATAGC
16762270 TAAGTA
1 TAAGTA
16762276 TAGAATTATG
Statistics
Matches: 33, Mismatches: 3, Indels: 14
0.66 0.06 0.28
Matches are distributed among these distances:
16 10 0.30
17 2 0.06
18 1 0.03
19 2 0.06
20 2 0.06
21 16 0.48
ACGTcount: A:0.34, C:0.06, G:0.23, T:0.36
Consensus pattern (21 bp):
TAAGTAAAGTGTTGTCATAGC
Found at i:16762247 original size:37 final size:37
Alignment explanation
Indices: 16762197--16762279 Score: 139
Period size: 37 Copynumber: 2.2 Consensus size: 37
16762187 CCATTTGGCA
16762197 AAGTATAGATATGAGTAAGTAAAGTGTTGTCATAGCT
1 AAGTATAGATATGAGTAAGTAAAGTGTTGTCATAGCT
* * *
16762234 AAGTATAGGTATGATTAAGTAAAGTGTTGTCTTAGCT
1 AAGTATAGATATGAGTAAGTAAAGTGTTGTCATAGCT
16762271 AAGTATAGA
1 AAGTATAGA
16762280 ATTATGTGTA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 42 1.00
ACGTcount: A:0.37, C:0.05, G:0.24, T:0.34
Consensus pattern (37 bp):
AAGTATAGATATGAGTAAGTAAAGTGTTGTCATAGCT
Found at i:16767319 original size:22 final size:22
Alignment explanation
Indices: 16767291--16767333 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
16767281 CCCTTTTGTC
**
16767291 TAAATATCTTGGGAAATAAAAT
1 TAAATATCTTGAAAAATAAAAT
16767313 TAAATATCTTGAAAAATAAAA
1 TAAATATCTTGAAAAATAAAA
16767334 GGAAAAGATG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.56, C:0.05, G:0.09, T:0.30
Consensus pattern (22 bp):
TAAATATCTTGAAAAATAAAAT
Found at i:16770419 original size:68 final size:69
Alignment explanation
Indices: 16770337--16770465 Score: 215
Period size: 68 Copynumber: 1.9 Consensus size: 69
16770327 ATTATTAGGA
** *
16770337 ACAAAATACCAAAAAAAGGGACAAATTACACATAAAAAGGGGAGTATTTATA-TTTTTTTTGGGG
1 ACAAAATACCAAAAAAAAAGACAAATTACACATAAAAAGAGGAGTATTTATACTTTTTTTTGGGG
16770401 ACGG
66 ACGG
*
16770405 ACAAAATACCAAAAAAAAAGACAAATTACACATATAAAGAGGAGTATTTATACTTTTTTTT
1 ACAAAATACCAAAAAAAAAGACAAATTACACATAAAAAGAGGAGTATTTATACTTTTTTTT
16770466 TTGGGACCGT
Statistics
Matches: 56, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
68 48 0.86
69 8 0.14
ACGTcount: A:0.47, C:0.11, G:0.15, T:0.27
Consensus pattern (69 bp):
ACAAAATACCAAAAAAAAAGACAAATTACACATAAAAAGAGGAGTATTTATACTTTTTTTTGGGG
ACGG
Found at i:16778199 original size:25 final size:25
Alignment explanation
Indices: 16778167--16778224 Score: 107
Period size: 25 Copynumber: 2.3 Consensus size: 25
16778157 GAGCTTCTTG
16778167 ATATGGCTCGCTTGAACTTCCCAAT
1 ATATGGCTCGCTTGAACTTCCCAAT
*
16778192 ATATGGCTCGCTTGAACTTCCCGAT
1 ATATGGCTCGCTTGAACTTCCCAAT
16778217 ATATGGCT
1 ATATGGCT
16778225 ATCTGGAACT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.22, C:0.26, G:0.19, T:0.33
Consensus pattern (25 bp):
ATATGGCTCGCTTGAACTTCCCAAT
Found at i:16778233 original size:25 final size:25
Alignment explanation
Indices: 16778167--16778236 Score: 86
Period size: 25 Copynumber: 2.8 Consensus size: 25
16778157 GAGCTTCTTG
* *
16778167 ATATGGCTCGCTTGAACTTCCCAAT
1 ATATGGCTAGCTGGAACTTCCCAAT
* * *
16778192 ATATGGCTCGCTTGAACTTCCCGAT
1 ATATGGCTAGCTGGAACTTCCCAAT
*
16778217 ATATGGCTATCTGGAACTTC
1 ATATGGCTAGCTGGAACTTC
16778237 TGATTAATGG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.23, C:0.26, G:0.19, T:0.33
Consensus pattern (25 bp):
ATATGGCTAGCTGGAACTTCCCAAT
Found at i:16781047 original size:11 final size:11
Alignment explanation
Indices: 16781017--16781050 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
16781007 GAAGAGCCAT
16781017 ATGGTGTGAAC
1 ATGGTGTGAAC
*
16781028 ATGG-CTGAAC
1 ATGGTGTGAAC
16781038 ATGGTGTGAAC
1 ATGGTGTGAAC
16781049 AT
1 AT
16781051 CTTTATGCCT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.29, C:0.12, G:0.32, T:0.26
Consensus pattern (11 bp):
ATGGTGTGAAC
Found at i:16783755 original size:25 final size:25
Alignment explanation
Indices: 16783727--16783781 Score: 101
Period size: 25 Copynumber: 2.2 Consensus size: 25
16783717 CTTCTCGATT
*
16783727 TGGCTCGCTTGAACTTCCTAATATA
1 TGGCTCGCTTGAACTTCCCAATATA
16783752 TGGCTCGCTTGAACTTCCCAATATA
1 TGGCTCGCTTGAACTTCCCAATATA
16783777 TGGCT
1 TGGCT
16783782 ATCTGGAACT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (25 bp):
TGGCTCGCTTGAACTTCCCAATATA
Found at i:16783790 original size:25 final size:25
Alignment explanation
Indices: 16783727--16783791 Score: 76
Period size: 25 Copynumber: 2.6 Consensus size: 25
16783717 CTTCTCGATT
* * *
16783727 TGGCTCGCTTGAACTTCCTAATATA
1 TGGCTAGCTGGAACTTCCCAATATA
* *
16783752 TGGCTCGCTTGAACTTCCCAATATA
1 TGGCTAGCTGGAACTTCCCAATATA
*
16783777 TGGCTATCTGGAACT
1 TGGCTAGCTGGAACT
16783792 CTGATTAATG
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.23, C:0.25, G:0.18, T:0.34
Consensus pattern (25 bp):
TGGCTAGCTGGAACTTCCCAATATA
Found at i:16783828 original size:24 final size:24
Alignment explanation
Indices: 16783796--16783871 Score: 64
Period size: 24 Copynumber: 3.1 Consensus size: 24
16783786 GGAACTCTGA
* *
16783796 TTAATGGCTCTTCGGAGCTTCCCG
1 TTAAAGGCTCTTAGGAGCTTCCCG
* * *
16783820 TTAAAGGCTCTTTGTGAACTTCCTG
1 TTAAAGGCTCTTAG-GAGCTTCCCG
* *
16783845 ATT-TAGGCTCTTATGAGCTTCCCG
1 -TTAAAGGCTCTTAGGAGCTTCCCG
16783869 TTA
1 TTA
16783872 TATAGCCCAT
Statistics
Matches: 40, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
23 2 0.05
24 20 0.50
25 16 0.40
26 2 0.05
ACGTcount: A:0.17, C:0.24, G:0.21, T:0.38
Consensus pattern (24 bp):
TTAAAGGCTCTTAGGAGCTTCCCG
Found at i:16790580 original size:20 final size:20
Alignment explanation
Indices: 16790544--16790581 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
16790534 TAGGTCTTAA
*
16790544 TTTAATTAATTGTATTTTGT
1 TTTAATTAATTGAATTTTGT
16790564 TTTAATT-ATGTGAATTTT
1 TTTAATTAAT-TGAATTTT
16790582 TAAATTGTCC
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 2 0.12
20 14 0.88
ACGTcount: A:0.26, C:0.00, G:0.11, T:0.63
Consensus pattern (20 bp):
TTTAATTAATTGAATTTTGT
Found at i:16802428 original size:50 final size:50
Alignment explanation
Indices: 16802317--16802514 Score: 234
Period size: 50 Copynumber: 3.8 Consensus size: 50
16802307 ATATGGGTAA
*
16802317 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAG---ATG
*
16802373 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * * *
16802423 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCTATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * * *
16802473 AGAACTCCCATGTAAGACCATATCTGGGATATGACATTGGCA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
16802515 GTACAAGAAA
Statistics
Matches: 126, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
50 81 0.64
53 3 0.02
55 1 0.01
56 41 0.33
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.23
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:16806261 original size:20 final size:20
Alignment explanation
Indices: 16806213--16806261 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 20
16806203 TTCCATGTGG
**
16806213 TTTAGCTCATTCGAGCTCAA
1 TTTAGCTCACACGAGCTCAA
* * *
16806233 GTCAACTCACACGAGCTCAA
1 TTTAGCTCACACGAGCTCAA
16806253 TTTAGCTCA
1 TTTAGCTCA
16806262 TTGAGCTCGT
Statistics
Matches: 21, Mismatches: 8, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.29, C:0.29, G:0.14, T:0.29
Consensus pattern (20 bp):
TTTAGCTCACACGAGCTCAA
Found at i:16808968 original size:102 final size:102
Alignment explanation
Indices: 16808817--16809051 Score: 323
Period size: 102 Copynumber: 2.3 Consensus size: 102
16808807 TTTTACAGTT
* * * * *
16808817 CACGTAGTAGCCTTCACATAGTACTACATACGTGACCAAAGCTTTTCGGTATC-CATAGCAGCCT
1 CACGTAGTAGCCTTCACACAGTACTACACACATGACCAAAACTTCTCGGTA-CACATAGCAGCCT
*
16808881 TCACTTAGTACCACACATGTAACCA-TAGTTTACCGATA
65 TCACTTAGTACCACACATGTAACCATTA-TTTACCAATA
* *
16808919 CACGTAGTAGCTTTCACACAGTACTACACACATG-CTCAAAACTTCTCGGTACACATAGTAGCCT
1 CACGTAGTAGCCTTCACACAGTACTACACACATGAC-CAAAACTTCTCGGTACACATAGCAGCCT
* * *
16808983 TCACTTAGTACTACACATGTGACCATTATTTATCAATA
65 TCACTTAGTACCACACATGTAACCATTATTTACCAATA
16809021 CACGTAGTAGCCTTCACACAGTACTACACAC
1 CACGTAGTAGCCTTCACACAGTACTACACAC
16809052 TTGTTCATCG
Statistics
Matches: 118, Mismatches: 12, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
101 2 0.02
102 114 0.97
103 2 0.02
ACGTcount: A:0.31, C:0.28, G:0.13, T:0.27
Consensus pattern (102 bp):
CACGTAGTAGCCTTCACACAGTACTACACACATGACCAAAACTTCTCGGTACACATAGCAGCCTT
CACTTAGTACCACACATGTAACCATTATTTACCAATA
Found at i:16808972 original size:51 final size:51
Alignment explanation
Indices: 16808765--16809051 Score: 172
Period size: 51 Copynumber: 5.7 Consensus size: 51
16808755 TTATCATTCG
* * * ***
16808765 ATACACGTAGTAGCCTTCACATAGTACTACACACGTGATC-AGTTTTA-CA
1 ATACACGTAGTAGCCTTCACACAGTACTACACACATGACCAAAACTTATCA
* * * * * * * *
16808814 GTTCACGTAGTAGCCTTCACATAGTACTACATACGTGACCAAAGCTTTTCG
1 ATACACGTAGTAGCCTTCACACAGTACTACACACATGACCAAAACTTATCA
* * * ** * ** * *
16808865 GTATC-CATAGCAGCCTTCACTTAGTAC--CACACATGTAACCATAGTTTACCG
1 ATA-CACGTAGTAGCCTTCACACAGTACTACACACATG--ACCAAAACTTATCA
* * *
16808916 ATACACGTAGTAGCTTTCACACAGTACTACACACATG-CTCAAAACTTCTCG
1 ATACACGTAGTAGCCTTCACACAGTACTACACACATGAC-CAAAACTTATCA
* * ** ** ** *
16808967 GTACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATTATTTATCA
1 ATACACGTAGTAGCCTTCACACAGTACTACACACATGACCAAAACTTATCA
16809018 ATACACGTAGTAGCCTTCACACAGTACTACACAC
1 ATACACGTAGTAGCCTTCACACAGTACTACACAC
16809052 TTGTTCATCG
Statistics
Matches: 181, Mismatches: 47, Indels: 18
0.74 0.19 0.07
Matches are distributed among these distances:
49 42 0.23
50 5 0.03
51 124 0.69
52 2 0.01
53 8 0.04
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.28
Consensus pattern (51 bp):
ATACACGTAGTAGCCTTCACACAGTACTACACACATGACCAAAACTTATCA
Found at i:16808997 original size:26 final size:26
Alignment explanation
Indices: 16808968--16809050 Score: 66
Period size: 26 Copynumber: 3.2 Consensus size: 26
16808958 AACTTCTCGG
16808968 TACACATAGTAGCCTTCACTTAGTAC
1 TACACATAGTAGCCTTCACTTAGTAC
* *
16808994 TACACAT-GT-GACCATT-ATTTA-TCAA
1 TACACATAGTAG-CC-TTCACTTAGT-AC
* **
16809019 TACACGTAGTAGCCTTCACACAGTAC
1 TACACATAGTAGCCTTCACTTAGTAC
16809045 TACACA
1 TACACA
16809051 CTTGTTCATC
Statistics
Matches: 42, Mismatches: 8, Indels: 14
0.66 0.12 0.22
Matches are distributed among these distances:
24 2 0.05
25 17 0.40
26 21 0.50
27 2 0.05
ACGTcount: A:0.34, C:0.27, G:0.11, T:0.29
Consensus pattern (26 bp):
TACACATAGTAGCCTTCACTTAGTAC
Found at i:16816446 original size:50 final size:49
Alignment explanation
Indices: 16816334--16816667 Score: 230
Period size: 51 Copynumber: 6.6 Consensus size: 49
16816324 TCATTCGATA
*
16816334 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAGTTTTACAGTT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAGTTTTACAGCT
*
16816383 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACGGCT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATC-AGTTTTACAGCT
* * * * *
16816433 CATGTAGTAGCCTTCACATAGTACTACATACGTTACCAAAGCTTTT-CAGTAT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATC--AG-TTTTACAG-CT
* * * * * * * * *
16816485 C-CATAGCAGCCTTCACTTAGTACCACACATGTAACCA-TAGTTTACCGAT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAGT--TTTACAGCT
* * * * * *
16816534 ACACGTAGTAGCTTTCACACAGTACTACACACGTGCTCAAAACTTCT-C-GGT
1 -CACGTAGTAGCCTTCACATAGTACTACACACGTGATC---AGTTTTACAGCT
* * * * * *
16816585 ACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATTATTTATCA-AT
1 -CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAGT-TTTA-CAGCT
*
16816636 ACACGTAGTAGCCTTCACACAGTACTACACAC
1 -CACGTAGTAGCCTTCACATAGTACTACACAC
16816668 TTGTTCATCG
Statistics
Matches: 225, Mismatches: 43, Indels: 32
0.75 0.14 0.11
Matches are distributed among these distances:
47 1 0.00
48 2 0.01
49 45 0.20
50 46 0.20
51 120 0.53
52 7 0.03
53 2 0.01
54 1 0.00
55 1 0.00
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.28
Consensus pattern (49 bp):
CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAGTTTTACAGCT
Found at i:16816592 original size:102 final size:102
Alignment explanation
Indices: 16816329--16816667 Score: 370
Period size: 102 Copynumber: 3.4 Consensus size: 102
16816319 TTTTATCATT
* * * * *
16816329 CGATACACGTAGTAGCCTTCACATAGTACTACACACGTGATC---AGTTTTACAGTTCACGTAGT
1 CGATACACGTAGTAGCCTTCACACAGTACTACACACGTGCTCAAAACTTTT-CAGTACACATAGT
* * *
16816391 AGCCTTCACATAGTACTACACACGTGATCA-AGTTTTAC
65 AGCCTTCACTTAGTACTACACATGTGACCATAG-TTTAC
* * * * * * *
16816429 GGCT-CATGTAGTAGCCTTCACATAGTACTACATACGTTAC-CAAAGCTTTTCAGTATC-CATAG
1 CGATACACGTAGTAGCCTTCACACAGTACTACACACG-TGCTCAAAACTTTTCAGTA-CACATAG
* * *
16816491 CAGCCTTCACTTAGTACCACACATGTAACCATAGTTTAC
64 TAGCCTTCACTTAGTACTACACATGTGACCATAGTTTAC
* * *
16816530 CGATACACGTAGTAGCTTTCACACAGTACTACACACGTGCTCAAAACTTCTCGGTACACATAGTA
1 CGATACACGTAGTAGCCTTCACACAGTACTACACACGTGCTCAAAACTTTTCAGTACACATAGTA
*
16816595 GCCTTCACTTAGTACTACACATGTGACCATTA-TTTAT
66 GCCTTCACTTAGTACTACACATGTGACCA-TAGTTTAC
*
16816632 CAATACACGTAGTAGCCTTCACACAGTACTACACAC
1 CGATACACGTAGTAGCCTTCACACAGTACTACACAC
16816668 TTGTTCATCG
Statistics
Matches: 197, Mismatches: 32, Indels: 18
0.80 0.13 0.07
Matches are distributed among these distances:
99 31 0.16
100 3 0.02
101 43 0.22
102 118 0.60
103 2 0.01
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.28
Consensus pattern (102 bp):
CGATACACGTAGTAGCCTTCACACAGTACTACACACGTGCTCAAAACTTTTCAGTACACATAGTA
GCCTTCACTTAGTACTACACATGTGACCATAGTTTAC
Found at i:16816613 original size:26 final size:26
Alignment explanation
Indices: 16816584--16816666 Score: 66
Period size: 26 Copynumber: 3.2 Consensus size: 26
16816574 AACTTCTCGG
16816584 TACACATAGTAGCCTTCACTTAGTAC
1 TACACATAGTAGCCTTCACTTAGTAC
* *
16816610 TACACAT-GT-GACCATT-ATTTA-TCAA
1 TACACATAGTAG-CC-TTCACTTAGT-AC
* **
16816635 TACACGTAGTAGCCTTCACACAGTAC
1 TACACATAGTAGCCTTCACTTAGTAC
16816661 TACACA
1 TACACA
16816667 CTTGTTCATC
Statistics
Matches: 42, Mismatches: 8, Indels: 14
0.66 0.12 0.22
Matches are distributed among these distances:
24 2 0.05
25 17 0.40
26 21 0.50
27 2 0.05
ACGTcount: A:0.34, C:0.27, G:0.11, T:0.29
Consensus pattern (26 bp):
TACACATAGTAGCCTTCACTTAGTAC
Found at i:16816660 original size:153 final size:149
Alignment explanation
Indices: 16816331--16816667 Score: 342
Period size: 153 Copynumber: 2.2 Consensus size: 149
16816321 TTATCATTCG
* * *
16816331 ATACACGTAGTAGCCTTCACATAGTACTACACACGTGATCAGTTTTACAGTTCACGTAGTAGCCT
1 ATACACGTAGTAGCCTTCACATAGTACTACACACGTAACCAGTTTTACAGTACACGTAGTAGCCT
* * * **
16816396 TCACATAGTACTACACACGTGATCAAGTTTTACGGCTCATGTAGTAGCCTTCACATAGTACTACA
66 TCACACAGTACTACACACGTGATCAACTTCTACGGCTCACATAGTAGCCTTCACATAGTACTACA
* *
16816461 TACGTTACCAAAGCTTTTCA
131 CACGTGACCAAA-CTTTTCA
* * * * * * *
16816481 GTATC-CATAGCAGCCTTCACTTAGTACCACACATGTAACCA-TAGTTTACCGATACACGTAGTA
1 ATA-CACGTAGTAGCCTTCACATAGTACTACACACGTAACCAGT--TTTACAG-TACACGTAGTA
* * *
16816544 GCTTTCACACAGTACTACACACGTGCTCAAAACTTCT-CGG-TACACATAGTAGCCTTCACTTAG
62 GCCTTCACACAGTACTACACACGTGATC--AACTTCTACGGCT-CACATAGTAGCCTTCACATAG
* *
16816607 TACTACACATGTGACCATTA-TTTATCA
124 TACTACACACGTGACCA-AACTTT-TCA
*
16816634 ATACACGTAGTAGCCTTCACACAGTACTACACAC
1 ATACACGTAGTAGCCTTCACATAGTACTACACAC
16816668 TTGTTCATCG
Statistics
Matches: 148, Mismatches: 29, Indels: 17
0.76 0.15 0.09
Matches are distributed among these distances:
149 1 0.01
150 31 0.21
151 7 0.05
152 40 0.27
153 63 0.43
154 6 0.04
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.28
Consensus pattern (149 bp):
ATACACGTAGTAGCCTTCACATAGTACTACACACGTAACCAGTTTTACAGTACACGTAGTAGCCT
TCACACAGTACTACACACGTGATCAACTTCTACGGCTCACATAGTAGCCTTCACATAGTACTACA
CACGTGACCAAACTTTTCA
Found at i:16820000 original size:18 final size:18
Alignment explanation
Indices: 16819977--16820110 Score: 94
Period size: 18 Copynumber: 7.3 Consensus size: 18
16819967 AACGAAAATG
16819977 AAGAAAAAGAAAAAT-AAA
1 AAGAAAAAG-AAAATGAAA
* * *
16819995 AAGAAATAGAAAGTGGAA
1 AAGAAAAAGAAAATGAAA
*
16820013 AAGAAATAGAAAATGAAA
1 AAGAAAAAGAAAATGAAA
**
16820031 AAGAAAAAG-AAATTCAA
1 AAGAAAAAGAAAATGAAA
*
16820048 AAGAACAAG-AAATCGAAA
1 AAGAAAAAGAAAAT-GAAA
** * *
16820066 AAGTGAGAGAAAAAGAAA
1 AAGAAAAAGAAAATGAAA
*
16820084 ACGAAGAAAAGAAAATTGAAA
1 AAG-A-AAAAGAAAA-TGAAA
16820105 AAGAAA
1 AAGAAA
16820111 TTGAGATTGA
Statistics
Matches: 88, Mismatches: 22, Indels: 11
0.73 0.18 0.09
Matches are distributed among these distances:
17 22 0.25
18 47 0.53
19 5 0.06
20 8 0.09
21 6 0.07
ACGTcount: A:0.70, C:0.03, G:0.19, T:0.08
Consensus pattern (18 bp):
AAGAAAAAGAAAATGAAA
Found at i:16820026 original size:7 final size:6
Alignment explanation
Indices: 16819977--16820110 Score: 72
Period size: 6 Copynumber: 22.0 Consensus size: 6
16819967 AACGAAAATG
* * ** * *
16819977 AAGAAA AAGAAA AATAAA AAGAAA TAGAAA GTGGAA AAGAAA TAGAAA
1 AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA
* *** * ** **
16820025 ATGAAA AAGAAA AAG-AA ATTCAA AAGAAC AAGAAA TCGAAA AAGTGA
1 AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA
* * *
16820072 GAGAAA AAGAAA ACGAAGAA AAGAAA ATTGAAA AAGAAA
1 AAGAAA AAGAAA AAG-A-AA AAGAAA A-AGAAA AAGAAA
16820111 TTGAGATTGA
Statistics
Matches: 90, Mismatches: 34, Indels: 8
0.68 0.26 0.06
Matches are distributed among these distances:
5 3 0.03
6 76 0.84
7 7 0.08
8 4 0.04
ACGTcount: A:0.70, C:0.03, G:0.19, T:0.08
Consensus pattern (6 bp):
AAGAAA
Found at i:16820142 original size:17 final size:18
Alignment explanation
Indices: 16820101--16820159 Score: 57
Period size: 18 Copynumber: 3.2 Consensus size: 18
16820091 AAAGAAAATT
**
16820101 GAAAAAGAAATTGAGATTGA
1 GAAAAAGAAATTGA-A-AAA
*
16820121 GAAAAA-AAATTGGAAAA
1 GAAAAAGAAATTGAAAAA
*
16820138 GAAAAAGATATTGAAAAA
1 GAAAAAGAAATTGAAAAA
16820156 GAAA
1 GAAA
16820160 CGAAAGAATA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
17 7 0.21
18 14 0.42
19 6 0.18
20 6 0.18
ACGTcount: A:0.64, C:0.00, G:0.20, T:0.15
Consensus pattern (18 bp):
GAAAAAGAAATTGAAAAA
Found at i:16820151 original size:31 final size:32
Alignment explanation
Indices: 16820088--16820159 Score: 94
Period size: 31 Copynumber: 2.3 Consensus size: 32
16820078 AAGAAAACGA
**
16820088 AGAAAAGAAAATTGAAAAAGAAATTGAGATTG
1 AGAAAAGAAAATTGAAAAAGAAAAAGAGATTG
* *
16820120 AGAAAA-AAAATTGGAAAAGAAAAAGATATTG
1 AGAAAAGAAAATTGAAAAAGAAAAAGAGATTG
16820151 A-AAAAGAAA
1 AGAAAAGAAA
16820160 CGAAAGAATA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
30 4 0.11
31 25 0.71
32 6 0.17
ACGTcount: A:0.65, C:0.00, G:0.19, T:0.15
Consensus pattern (32 bp):
AGAAAAGAAAATTGAAAAAGAAAAAGAGATTG
Found at i:16821963 original size:20 final size:20
Alignment explanation
Indices: 16821935--16821991 Score: 73
Period size: 20 Copynumber: 2.9 Consensus size: 20
16821925 GAAGCTCATT
16821935 TTCAGCTCATTCGAGCTCAA
1 TTCAGCTCATTCGAGCTCAA
**
16821955 GTT-AGCTCACACGAGCTCAA
1 -TTCAGCTCATTCGAGCTCAA
16821975 TTCAGCTCATT-GAGCTC
1 TTCAGCTCATTCGAGCTC
16821992 GTTATTAGAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
19 8 0.26
20 21 0.68
21 2 0.06
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.28
Consensus pattern (20 bp):
TTCAGCTCATTCGAGCTCAA
Found at i:16833694 original size:18 final size:18
Alignment explanation
Indices: 16833673--16833708 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
16833663 AAAGAATAAG
16833673 TCTTCATGAAGTTCCAAT
1 TCTTCATGAAGTTCCAAT
16833691 TCTTCATGAAGTTCCAAT
1 TCTTCATGAAGTTCCAAT
16833709 AATTCAAACC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.22, G:0.11, T:0.39
Consensus pattern (18 bp):
TCTTCATGAAGTTCCAAT
Found at i:16833714 original size:18 final size:18
Alignment explanation
Indices: 16833675--16833714 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
16833665 AGAATAAGTC
**
16833675 TTCATGAAGTTCCAATTC
1 TTCATGAAGTTCCAATAA
16833693 TTCATGAAGTTCCAATAA
1 TTCATGAAGTTCCAATAA
16833711 TTCA
1 TTCA
16833715 AACCCAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.38
Consensus pattern (18 bp):
TTCATGAAGTTCCAATAA
Found at i:16835775 original size:30 final size:30
Alignment explanation
Indices: 16835734--16835792 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
16835724 TAACAAATAA
16835734 ATGTCTCTAAAATAATAACAAAATTAACAG
1 ATGTCTCTAAAATAATAACAAAATTAACAG
*
16835764 ATGTCTTTAAAATAATAACAAAATTAACA
1 ATGTCTCTAAAATAATAACAAAATTAACA
16835793 ATAAAATATG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.54, C:0.12, G:0.05, T:0.29
Consensus pattern (30 bp):
ATGTCTCTAAAATAATAACAAAATTAACAG
Found at i:16836335 original size:9 final size:9
Alignment explanation
Indices: 16836321--16836351 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
16836311 GTTAAACGAA
16836321 TCGAGTTAT
1 TCGAGTTAT
*
16836330 TCGAGTTAA
1 TCGAGTTAT
16836339 TCGAGTTAT
1 TCGAGTTAT
16836348 TCGA
1 TCGA
16836352 ATCAACTCGA
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:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:16836693 original size:30 final size:31
Alignment explanation
Indices: 16836645--16836704 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
16836635 AAACATTTTA
*
16836645 TTTTGCCCCAAAATTTTTACTCCC-TCCCAC
1 TTTTGCCCCAAAACTTTTACTCCCTTCCCAC
*
16836675 TTTT-CCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTGCCCC-AAAACTTTTACTCCCTTCCCA
16836705 TCCCATCATC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 4 0.15
30 17 0.65
31 5 0.19
ACGTcount: A:0.20, C:0.38, G:0.02, T:0.40
Consensus pattern (31 bp):
TTTTGCCCCAAAACTTTTACTCCCTTCCCAC
Found at i:16837053 original size:61 final size:61
Alignment explanation
Indices: 16836987--16837110 Score: 230
Period size: 61 Copynumber: 2.0 Consensus size: 61
16836977 TATTATTGAA
*
16836987 TTTTTAGTCATATTGAATATTTATATTAAAATTGAATTATTAATTATGCCATAAAATATTC
1 TTTTTAGTCATATTGAATATTTATATTAAAATTAAATTATTAATTATGCCATAAAATATTC
*
16837048 TTTTTAGTCATATTGAATATTTATATTAAAATTAAATTATTAATTATGTCATAAAATATTC
1 TTTTTAGTCATATTGAATATTTATATTAAAATTAAATTATTAATTATGCCATAAAATATTC
16837109 TT
1 TT
16837111 ATTAAAATTT
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
61 61 1.00
ACGTcount: A:0.40, C:0.06, G:0.06, T:0.49
Consensus pattern (61 bp):
TTTTTAGTCATATTGAATATTTATATTAAAATTAAATTATTAATTATGCCATAAAATATTC
Found at i:16841819 original size:40 final size:39
Alignment explanation
Indices: 16841735--16841919 Score: 203
Period size: 40 Copynumber: 4.6 Consensus size: 39
16841725 TTGAATGATG
* * * *
16841735 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
16841775 TCCGGACTAAGATTCGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
* *
16841815 TCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
*
16841854 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AA
*
16841895 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGT-CCGAAGGCATTTG
16841920 AACAAGTAGC
Statistics
Matches: 124, Mismatches: 17, Indels: 8
0.83 0.11 0.05
Matches are distributed among these distances:
39 34 0.27
40 80 0.65
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:16841941 original size:79 final size:79
Alignment explanation
Indices: 16841789--16841952 Score: 199
Period size: 79 Copynumber: 2.1 Consensus size: 79
16841779 GACTAAGATT
* ** *
16841789 CGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
1 CGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACAAGTTACTAAA
*
16841854 TCCGGGTTAAGTCC
66 TCCGGGTTAAATCC
* *
16841868 CGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACAAG-TAGCT
1 CGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACAAGTTA-CT
* *
16841931 ATATCC-GGTTAAATTC
63 AAATCCGGGTTAAATCC
16841947 CGAAGG
1 CGAAGG
16841953 TACGTGATTT
Statistics
Matches: 73, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.66
80 23 0.32
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
CGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACAAGTTACTAAA
TCCGGGTTAAATCC
Found at i:16852897 original size:8 final size:8
Alignment explanation
Indices: 16852881--16852912 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
16852871 ATGGTCCAAA
16852881 AACGGGCC
1 AACGGGCC
*
16852889 AATGGGCC
1 AACGGGCC
16852897 AACGGGCC
1 AACGGGCC
16852905 AACGGGCC
1 AACGGGCC
16852913 CACTTTGGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.25, C:0.34, G:0.38, T:0.03
Consensus pattern (8 bp):
AACGGGCC
Found at i:16853205 original size:31 final size:32
Alignment explanation
Indices: 16853167--16853228 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 32
16853157 CTCGCTGCAA
* *
16853167 TCTGGTGGCTTCGCCAC-ATATATATATCTGT
1 TCTGGTGGCCTAGCCACAATATATATATCTGT
*
16853198 TCTGGTGGCCTAGCCACAATATCTATATCTG
1 TCTGGTGGCCTAGCCACAATATATATATCTG
16853229 GTGACTTCAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 15 0.56
32 12 0.44
ACGTcount: A:0.21, C:0.24, G:0.19, T:0.35
Consensus pattern (32 bp):
TCTGGTGGCCTAGCCACAATATATATATCTGT
Found at i:16861476 original size:53 final size:54
Alignment explanation
Indices: 16861413--16861519 Score: 180
Period size: 53 Copynumber: 2.0 Consensus size: 54
16861403 GGCCCCATTT
*
16861413 CCCTACACTTATAGGCAACCCAAAACATAT-AAATTCACACACATAACATGCCA
1 CCCTACACTTATAGGCAAACCAAAACATATCAAATTCACACACATAACATGCCA
* *
16861466 CCCTACACTTATAGGCAAACCAAAACATATCAAATTCACATACATACCATGCCA
1 CCCTACACTTATAGGCAAACCAAAACATATCAAATTCACACACATAACATGCCA
16861520 TCTATCATCA
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
53 29 0.58
54 21 0.42
ACGTcount: A:0.43, C:0.32, G:0.06, T:0.20
Consensus pattern (54 bp):
CCCTACACTTATAGGCAAACCAAAACATATCAAATTCACACACATAACATGCCA
Found at i:16864577 original size:51 final size:51
Alignment explanation
Indices: 16864515--16864616 Score: 195
Period size: 51 Copynumber: 2.0 Consensus size: 51
16864505 GAAATCTAGG
*
16864515 GAAAGATCATTGTAAAGCATTGACATTAATAAGAGAAAAGACATTAGAGCC
1 GAAAGAGCATTGTAAAGCATTGACATTAATAAGAGAAAAGACATTAGAGCC
16864566 GAAAGAGCATTGTAAAGCATTGACATTAATAAGAGAAAAGACATTAGAGCC
1 GAAAGAGCATTGTAAAGCATTGACATTAATAAGAGAAAAGACATTAGAGCC
16864617 CAACACTGTC
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 50 1.00
ACGTcount: A:0.47, C:0.12, G:0.21, T:0.21
Consensus pattern (51 bp):
GAAAGAGCATTGTAAAGCATTGACATTAATAAGAGAAAAGACATTAGAGCC
Found at i:16867352 original size:42 final size:42
Alignment explanation
Indices: 16867303--16867414 Score: 138
Period size: 43 Copynumber: 2.6 Consensus size: 42
16867293 AGACTATGTA
* * *
16867303 TAAGACCATATCTGGGATATGGCATCT-ATATGAGA-CTTCGTG
1 TAAGACCATATCTGGGATATGGCAT-TGATACGAGATC-CCATG
* *
16867345 TAAGACCATAGCTGGGCTATTGGCATTGATACGAGATCCCATG
1 TAAGACCATATCTGGGATA-TGGCATTGATACGAGATCCCATG
16867388 TAAGACCATATCTGGGATATGGCATTG
1 TAAGACCATATCTGGGATATGGCATTG
16867415 GTATGGTACC
Statistics
Matches: 60, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
42 26 0.43
43 33 0.55
44 1 0.02
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.29
Consensus pattern (42 bp):
TAAGACCATATCTGGGATATGGCATTGATACGAGATCCCATG
Found at i:16869571 original size:17 final size:18
Alignment explanation
Indices: 16869530--16869572 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 18
16869520 ACGAAATTTT
*
16869530 AATAGTATTATGAGATAA
1 AATATTATTATGAGATAA
*
16869548 AATTATTATTATTAGA-AA
1 AA-TATTATTATGAGATAA
16869566 AATATTA
1 AATATTA
16869573 CTGCATGTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 5 0.23
18 6 0.27
19 11 0.50
ACGTcount: A:0.51, C:0.00, G:0.09, T:0.40
Consensus pattern (18 bp):
AATATTATTATGAGATAA
Found at i:16870181 original size:74 final size:74
Alignment explanation
Indices: 16870060--16870207 Score: 287
Period size: 74 Copynumber: 2.0 Consensus size: 74
16870050 AACCGGGACT
16870060 ACAGTAGATAAGTATTATAATTAATTGTGAGTAGATTACATCATGAGAAGAGCTTTAGTGCAGTG
1 ACAGTAGATAAGTATTATAATTAATTGTGAGTAGATTACATCATGAGAAGAGCTTTAGTGCAGTG
16870125 GCAGCAGCG
66 GCAGCAGCG
*
16870134 ACAGTAGATAAGTATTATAATTAGTTGTGAGTAGATTACATCATGAGAAGAGCTTTAGTGCAGTG
1 ACAGTAGATAAGTATTATAATTAATTGTGAGTAGATTACATCATGAGAAGAGCTTTAGTGCAGTG
16870199 GCAGCAGCG
66 GCAGCAGCG
16870208 TGCTAGGCTT
Statistics
Matches: 73, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
74 73 1.00
ACGTcount: A:0.34, C:0.11, G:0.26, T:0.28
Consensus pattern (74 bp):
ACAGTAGATAAGTATTATAATTAATTGTGAGTAGATTACATCATGAGAAGAGCTTTAGTGCAGTG
GCAGCAGCG
Found at i:16872020 original size:20 final size:20
Alignment explanation
Indices: 16871977--16872024 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
16871967 GCTGTTTTGT
16871977 TATGGGCCAACTGTATTGAA
1 TATGGGCCAACTGTATTGAA
*
16871997 -ATGGGCCCAACTGTGTT-AA
1 TATGGG-CCAACTGTATTGAA
16872016 TAT-GGCCAA
1 TATGGGCCAA
16872025 GGCCCAATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
18 4 0.16
19 9 0.36
20 12 0.48
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (20 bp):
TATGGGCCAACTGTATTGAA
Found at i:16872091 original size:60 final size:59
Alignment explanation
Indices: 16872015--16872151 Score: 161
Period size: 60 Copynumber: 2.3 Consensus size: 59
16872005 AACTGTGTTA
* * *
16872015 ATATGGCCAAGGCCCAATATA-TCTCGACT-TGTAATAGGGCTACGGCCCAGATTGATACTG
1 ATATGGGCTAGGCCCAATATACTCT-GA-TATGTAA-AGGGCTACGGCCCAGATTAATACTG
* * *
16872075 ATATGGGCTAGGCCCAATATACTCTGATACTGTAAGGGGCTATGGCCCAGATTAATATTG
1 ATATGGGCTAGGCCCAATATACTCTGATA-TGTAAAGGGCTACGGCCCAGATTAATACTG
16872135 ATATGGGCTAAGGCCCA
1 ATATGGGCT-AGGCCCA
16872152 GTTAACACTG
Statistics
Matches: 67, Mismatches: 6, Indels: 7
0.84 0.08 0.09
Matches are distributed among these distances:
59 1 0.01
60 51 0.76
61 15 0.22
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (59 bp):
ATATGGGCTAGGCCCAATATACTCTGATATGTAAAGGGCTACGGCCCAGATTAATACTG
Found at i:16878434 original size:30 final size:31
Alignment explanation
Indices: 16878398--16878455 Score: 100
Period size: 30 Copynumber: 1.9 Consensus size: 31
16878388 TTTTCGAGCC
16878398 TAGGGGCAAAATCATAATTTTG-CAAAGGTT
1 TAGGGGCAAAATCATAATTTTGCCAAAGGTT
*
16878428 TAGGGGCAAAATTATAATTTTGCCAAAG
1 TAGGGGCAAAATCATAATTTTGCCAAAG
16878456 TTTGAGTTAG
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.38, C:0.10, G:0.22, T:0.29
Consensus pattern (31 bp):
TAGGGGCAAAATCATAATTTTGCCAAAGGTT
Found at i:16879276 original size:47 final size:47
Alignment explanation
Indices: 16879217--16879382 Score: 284
Period size: 47 Copynumber: 3.6 Consensus size: 47
16879207 ACATTGGCAC
16879217 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCACTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCACTTGG
16879264 TAAGACAAGGAT---ATGTAAGACCATGTTTGGAACATGGCACTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCACTTGG
*
16879308 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCACTTGG
* *
16879355 TAAGATAAGGATATCATGTAAGACCATG
1 TAAGACAAGGATACCATGTAAGACCATG
16879383 CCAAGGCATG
Statistics
Matches: 113, Mismatches: 3, Indels: 6
0.93 0.02 0.05
Matches are distributed among these distances:
44 44 0.39
47 69 0.61
ACGTcount: A:0.36, C:0.14, G:0.25, T:0.25
Consensus pattern (47 bp):
TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCACTTGG
Found at i:16879425 original size:54 final size:54
Alignment explanation
Indices: 16879361--16879622 Score: 312
Period size: 54 Copynumber: 4.9 Consensus size: 54
16879351 TTGGTAAGAT
16879361 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC
1 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC
* * *
16879415 AAGGAAATCATGTAAGACCATGCCAAGGCATGACATTGATAAGTTCTATACGGC
1 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC
* ** * * *
16879469 AAGGAAATCATGTAAGACCATGTTAAGCCATGGCATTGATGAGTTACTATAAGGAA
1 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTT-CTATAAGG-C
** * *
16879525 AAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGC
1 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC
* * * * * * *
16879577 AAGGATACCACGTAAGACCATGTCAAGACATGACAATGGTAAGTTC
1 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTC
16879623 AAAAAGGAAA
Statistics
Matches: 180, Mismatches: 25, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
52 4 0.02
53 40 0.22
54 92 0.51
55 40 0.22
56 4 0.02
ACGTcount: A:0.36, C:0.18, G:0.24, T:0.23
Consensus pattern (54 bp):
AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC
Found at i:16882618 original size:33 final size:33
Alignment explanation
Indices: 16882581--16882688 Score: 103
Period size: 33 Copynumber: 3.3 Consensus size: 33
16882571 TGGCCCTGAC
16882581 ATGGTCTTACATTCGTAGTGCCATAACCCAATT
1 ATGGTCTTACATTCGTAGTGCCATAACCCAATT
* * * * *
16882614 ATGGTCTTATCA-TCAG-AATGCTATAGCCTAACT
1 ATGGTCTTA-CATTC-GTAGTGCCATAACCCAATT
* * * *
16882647 ATGGTTTTACGTCCATAGTGCCATAACCCAATT
1 ATGGTCTTACATTCGTAGTGCCATAACCCAATT
16882680 ATGGTCTTA
1 ATGGTCTTA
16882689 TCATAAGAAT
Statistics
Matches: 56, Mismatches: 15, Indels: 8
0.71 0.19 0.10
Matches are distributed among these distances:
32 1 0.02
33 52 0.93
34 3 0.05
ACGTcount: A:0.28, C:0.22, G:0.16, T:0.34
Consensus pattern (33 bp):
ATGGTCTTACATTCGTAGTGCCATAACCCAATT
Found at i:16882710 original size:33 final size:32
Alignment explanation
Indices: 16882607--16882715 Score: 105
Period size: 33 Copynumber: 3.3 Consensus size: 32
16882597 AGTGCCATAA
*
16882607 CCCAATTATGGTCTTATCATCAGAATGCTATAG
1 CCCAACTATGGTCTTATCAT-AGAATGCTATAG
* * * *
16882640 CCTAACTATGGTTTTACGTCCATAG--TGCCATAA
1 CCCAACTATGGTCTTA--T-CATAGAATGCTATAG
*
16882673 CCCAATTATGGTCTTATCATAAGAATGCTATAG
1 CCCAACTATGGTCTTATCAT-AGAATGCTATAG
16882706 CCCAACTATG
1 CCCAACTATG
16882716 AACTTACATA
Statistics
Matches: 59, Mismatches: 11, Indels: 12
0.72 0.13 0.15
Matches are distributed among these distances:
30 3 0.05
31 3 0.05
33 47 0.80
35 3 0.05
36 3 0.05
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.32
Consensus pattern (32 bp):
CCCAACTATGGTCTTATCATAGAATGCTATAG
Found at i:16886350 original size:25 final size:24
Alignment explanation
Indices: 16886314--16886384 Score: 79
Period size: 25 Copynumber: 2.8 Consensus size: 24
16886304 TTTTCCTCCT
* *
16886314 AAATTTTAAATTTATTTAATTATTTA
1 AAATTTT-AATTAATTGAATTA-TTA
16886340 AAATTTTAATTAATTGAATTATTA
1 AAATTTTAATTAATTGAATTATTA
* *
16886364 ATATTTTATACTAATTGAATT
1 AAATTTTA-ATTAATTGAATT
16886385 TTTGATAAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
24 10 0.25
25 23 0.57
26 7 0.17
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.54
Consensus pattern (24 bp):
AAATTTTAATTAATTGAATTATTA
Found at i:16890249 original size:31 final size:31
Alignment explanation
Indices: 16890212--16890533 Score: 500
Period size: 31 Copynumber: 10.4 Consensus size: 31
16890202 ACGGTTACTG
* *
16890212 GGCCGAAGCTTTTTCATAAATCATATCACTA
1 GGCCGAAGCCTTATCATAAATCATATCACTA
*
16890243 GGCCGAAGCCTTATCATAAATCATATCACTG
1 GGCCGAAGCCTTATCATAAATCATATCACTA
*
16890274 GGCCGAAGCCTTATCATAAATCATATCACTG
1 GGCCGAAGCCTTATCATAAATCATATCACTA
*
16890305 GGCTGAAGCCTTATCATAAATCATATCACTA
1 GGCCGAAGCCTTATCATAAATCATATCACTA
*
16890336 GGCCGAAGCCTTATCATAAATCATATCTCTA
1 GGCCGAAGCCTTATCATAAATCATATCACTA
* * *
16890367 GGCCGAAGCATTTTCATAAATCATATCACAA
1 GGCCGAAGCCTTATCATAAATCATATCACTA
*
16890398 GGCCGAAGCCTTATCATAAATCATATCACTG
1 GGCCGAAGCCTTATCATAAATCATATCACTA
*
16890429 GGCCGAAGCCTTATCATAAATCATATCACTG
1 GGCCGAAGCCTTATCATAAATCATATCACTA
*
16890460 GGCCGAAGCCTTATCATAAATCATATCTCTA
1 GGCCGAAGCCTTATCATAAATCATATCACTA
* * * *
16890491 GGCCAAAGCCTTCTCATAAATCATATCATTG
1 GGCCGAAGCCTTATCATAAATCATATCACTA
16890522 GGCCGAAGCCTT
1 GGCCGAAGCCTT
16890534 TACTGTAAAT
Statistics
Matches: 268, Mismatches: 23, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 268 1.00
ACGTcount: A:0.33, C:0.25, G:0.15, T:0.27
Consensus pattern (31 bp):
GGCCGAAGCCTTATCATAAATCATATCACTA
Found at i:16890809 original size:25 final size:24
Alignment explanation
Indices: 16890740--16890821 Score: 112
Period size: 24 Copynumber: 3.4 Consensus size: 24
16890730 TTGGAGGCCT
*
16890740 AGCCTCTTTTAAT-AACTGGGGCAA
1 AGCC-CTTTTGATAAACTGGGGCAA
16890764 AGCCCTTTTGATAAACTGGGGCAA
1 AGCCCTTTTGATAAACTGGGGCAA
* *
16890788 AGCCCTTTTCGGTAAACTGGGGCAT
1 AGCCCTTTT-GATAAACTGGGGCAA
16890813 AGCCCTTTT
1 AGCCCTTTT
16890822 AGCACTTCCT
Statistics
Matches: 53, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
23 7 0.13
24 24 0.45
25 22 0.42
ACGTcount: A:0.24, C:0.23, G:0.23, T:0.29
Consensus pattern (24 bp):
AGCCCTTTTGATAAACTGGGGCAA
Found at i:16891744 original size:54 final size:54
Alignment explanation
Indices: 16891419--16892031 Score: 296
Period size: 54 Copynumber: 11.3 Consensus size: 54
16891409 TCACCCTACA
* * * * * * * * * *
16891419 AGGGTGTTTTGGAAAATCTACAAACCAAGGGAATTTCAGTAATTTTGTAAACCA
1 AGGGTATTTTGGTAATTTTACAAATCAAGGGTATTTTAGTAATTTTATAAATCG
* * * * * *
16891473 ATGGTATTTCT-ATAATTTTTAGAAAGTCAAGGGTATTTTTGTAATTTTGTAAAT-T
1 AGGGTATTT-TGGTAA-TTTTACAAA-TCAAGGGTATTTTAGTAATTTTATAAATCG
* * * * *
16891528 AGGGACATTTTGGTAATTTTACAAATTAAGGGTATTTTGGTAATTTCATAAA-CC
1 AGGG-TATTTTGGTAATTTTACAAATCAAGGGTATTTTAGTAATTTTATAAATCG
* * * * * * *
16891582 AGTGGTATTTTGATAATTTTACAAA-CTAGGGGTATTATGGTAATTTTACAAACCA
1 AG-GGTATTTTGGTAATTTTACAAATC-AAGGGTATTTTAGTAATTTTATAAATCG
* * * * * * * *
16891637 ATGGTATTTTAGTAATTTTATAGA-CTAGGGTAATTTGGTAATTTTACT-GATCG
1 AGGGTATTTTGGTAATTTTACAAATCAAGGGTATTTTAGTAATTTTA-TAAATCG
** *
16891690 AGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTATAAATCG
1 AGGGTATTTTGGTAATTTTACAAATCAAGGGTATTTTAGTAATTTTATAAATCG
***** * * *** *
16891744 AGGGTAAAACAGTAATTCTATAAATCAAGGGTAAAATAGTAATTCTATAAATCG
1 AGGGTATTTTGGTAATTTTACAAATCAAGGGTATTTTAGTAATTTTATAAATCG
*** * ** * ** * *
16891798 AGGGTAAAATGGTAATTCTGTAAATCGAGGGTA--AAACGATAATTATGTAAATCG
1 AGGGTATTTTGGTAATTTTACAAATCAAGGGTATTTTA-G-TAATTTTATAAATCG
* * * * * * **
16891852 AGGGTACTTTGGTAATTTTACAAGTCGAGGGTATTTTAATAAGTTTACAGGTCG
1 AGGGTATTTTGGTAATTTTACAAATCAAGGGTATTTTAGTAATTTTATAAATCG
** * * * *
16891906 AGGGTATTTCAGTAATTTTACAAATTAGGGGTATTTTAGTAATTTTACAAA-CTA
1 AGGGTATTTTGGTAATTTTACAAATCAAGGGTATTTTAGTAATTTTATAAATC-G
* * * * * *
16891960 AGGGTATTTTGATAATTTTACAAA-CTAGGGGTATTTTGGTAGTTTTACAAA-CT
1 AGGGTATTTTGGTAATTTTACAAATC-AAGGGTATTTTAGTAATTTTATAAATCG
16892013 AGGGGTATTTAT-GTAATTT
1 A-GGGTATTT-TGGTAATTT
16892032 GGTAAACTAA
Statistics
Matches: 433, Mismatches: 106, Indels: 40
0.75 0.18 0.07
Matches are distributed among these distances:
52 2 0.00
53 43 0.10
54 333 0.77
55 24 0.06
56 31 0.07
ACGTcount: A:0.34, C:0.08, G:0.20, T:0.38
Consensus pattern (54 bp):
AGGGTATTTTGGTAATTTTACAAATCAAGGGTATTTTAGTAATTTTATAAATCG
Found at i:16891747 original size:27 final size:27
Alignment explanation
Indices: 16891444--16892031 Score: 250
Period size: 27 Copynumber: 21.7 Consensus size: 27
16891434 ATCTACAAAC
* * * *
16891444 CAAGGGAATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTTAGTAATTTTATAAAT
* *
16891471 CAATGGTATTTCTA-TAATTTTTAGAAAGT
1 CAAGGGTATTT-TAGTAA-TTTTATAAA-T
* *
16891500 CAAGGGTATTTTTGTAATTTTGTAAAT
1 CAAGGGTATTTTAGTAATTTTATAAAT
* * * *
16891527 -TAGGGACATTTTGGTAATTTTACAAAT
1 CAAGGG-TATTTTAGTAATTTTATAAAT
* * *
16891554 TAAGGGTATTTTGGTAATTTCATAAA-
1 CAAGGGTATTTTAGTAATTTTATAAAT
* *
16891580 CCAGTGGTATTTT-GATAATTTTACAAA-
1 CAAG-GGTATTTTAG-TAATTTTATAAAT
* * * * *
16891607 CTAGGGGTATTATGGTAATTTTACAAAC
1 C-AAGGGTATTTTAGTAATTTTATAAAT
* *
16891635 CAATGGTATTTTAGTAATTTTATAGA-
1 CAAGGGTATTTTAGTAATTTTATAAAT
* * * *
16891661 CTAGGGTAATTTGGTAATTTTACT-GAT
1 CAAGGGTATTTTAGTAATTTTA-TAAAT
* * * *
16891688 CGAGGGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTTAGTAATTTTATAAAT
16891715 CAAGGGTATTTTAGTAATTTTATAAAT
1 CAAGGGTATTTTAGTAATTTTATAAAT
* **** *
16891742 CGAGGGTAAAACAGTAATTCTATAAAT
1 CAAGGGTATTTTAGTAATTTTATAAAT
*** *
16891769 CAAGGGTAAAATAGTAATTCTATAAAT
1 CAAGGGTATTTTAGTAATTTTATAAAT
* *** * * *
16891796 CGAGGGTAAAATGGTAATTCTGTAAAT
1 CAAGGGTATTTTAGTAATTTTATAAAT
* ** * *
16891823 CGAGGGTA--AAACGATAATTATGTAAAT
1 CAAGGGTATTTTA-G-TAATTTTATAAAT
* * * * *
16891850 CGAGGGTACTTTGGTAATTTTACAAGT
1 CAAGGGTATTTTAGTAATTTTATAAAT
* * * * **
16891877 CGAGGGTATTTTAATAAGTTTACAGGT
1 CAAGGGTATTTTAGTAATTTTATAAAT
* * *
16891904 CGAGGGTATTTCAGTAATTTTACAAAT
1 CAAGGGTATTTTAGTAATTTTATAAAT
* * *
16891931 TAGGGGTATTTTAGTAATTTTACAAA-
1 CAAGGGTATTTTAGTAATTTTATAAAT
*
16891957 CTAAGGGTATTTT-GATAATTTTACAAA-
1 C-AAGGGTATTTTAG-TAATTTTATAAAT
* * * *
16891984 CTAGGGGTATTTTGGTAGTTTTACAAA-
1 C-AAGGGTATTTTAGTAATTTTATAAAT
*
16892011 CTAGGGGTA-TTTATGTAATTT
1 C-AAGGGTATTTTA-GTAATTT
16892032 GGTAAACTAA
Statistics
Matches: 453, Mismatches: 86, Indels: 44
0.78 0.15 0.08
Matches are distributed among these distances:
25 1 0.00
26 33 0.07
27 381 0.84
28 25 0.06
29 13 0.03
ACGTcount: A:0.34, C:0.07, G:0.20, T:0.39
Consensus pattern (27 bp):
CAAGGGTATTTTAGTAATTTTATAAAT
Found at i:16891784 original size:134 final size:134
Alignment explanation
Indices: 16891536--16891792 Score: 286
Period size: 134 Copynumber: 1.9 Consensus size: 134
16891526 TTAGGGACAT
*
16891536 TTTGGTAATTTTACAAATTAAGGGTATTTTGGTAATTTCATAAACCAGTGGTATTTTGATAATTT
1 TTTGGTAATTTTACAAATCAAGGGTATTTTGGTAATTTCATAAACCAGTGGTATTTTGATAATTT
* ** ** * * *** *
16891601 TACAAACTAGGGGTATTATGGTAATTTTACAAACCAATGGTATTTTAGTAATTTTATAGACTAGG
66 TACAAACGAGGGGTAAAACAGTAATTCTACAAACCAAGGGTAAAATAGTAATTCTATAGACTAGG
16891666 GTAA
131 GTAA
** * **
16891670 TTTGGTAATTTTACTGATCGAGGGTATTTTGGTAATTTTGTAAACCAAG-GGTATTTT-AGTAAT
1 TTTGGTAATTTTACAAATCAAGGGTATTTTGGTAATTTCATAAACC-AGTGGTATTTTGA-TAAT
* * *
16891733 TTTATAAATCGA-GGGTAAAACAGTAATTCTATAAATCAAGGGTAAAATAGTAATTCTATA
64 TTTACAAA-CGAGGGGTAAAACAGTAATTCTACAAACCAAGGGTAAAATAGTAATTCTATA
16891793 AATCGAGGGT
Statistics
Matches: 100, Mismatches: 20, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
133 1 0.01
134 95 0.95
135 4 0.04
ACGTcount: A:0.35, C:0.07, G:0.18, T:0.40
Consensus pattern (134 bp):
TTTGGTAATTTTACAAATCAAGGGTATTTTGGTAATTTCATAAACCAGTGGTATTTTGATAATTT
TACAAACGAGGGGTAAAACAGTAATTCTACAAACCAAGGGTAAAATAGTAATTCTATAGACTAGG
GTAA
Found at i:16894049 original size:31 final size:31
Alignment explanation
Indices: 16894006--16894213 Score: 391
Period size: 31 Copynumber: 6.7 Consensus size: 31
16893996 TTAGTCTTGA
*
16894006 CATAT-ACTGGGCCGAAGCCTTTCCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
16894036 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
16894067 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
*
16894098 CATATTACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
16894129 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
16894160 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
16894191 CATATCACTGGGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
16894214 ACTGTAAACG
Statistics
Matches: 174, Mismatches: 3, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
30 5 0.03
31 169 0.97
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.29
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATAAAT
Found at i:16894284 original size:42 final size:42
Alignment explanation
Indices: 16894237--16894328 Score: 184
Period size: 42 Copynumber: 2.2 Consensus size: 42
16894227 TGGCCCTTAG
16894237 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
16894279 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
16894321 GCCCATTT
1 GCCCATTT
16894329 GGGGAGACTA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 50 1.00
ACGTcount: A:0.34, C:0.21, G:0.14, T:0.32
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
Found at i:16894504 original size:25 final size:25
Alignment explanation
Indices: 16894476--16894545 Score: 106
Period size: 25 Copynumber: 2.8 Consensus size: 25
16894466 CTCTTTTAAT
16894476 AACTGGGGCAAAGCCC-TTTCTGATA
1 AACTGGGGCAAAGCCCTTTTC-GATA
*
16894501 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
16894526 AACTGGGGCAGAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
16894546 AGCACTTCCT
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
25 38 0.90
26 4 0.10
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.24
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:16895032 original size:17 final size:17
Alignment explanation
Indices: 16894991--16895033 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
16894981 TTTACCCAAA
*
16894991 TGGGCCCAAAAGCCCAT
1 TGGGCCCGAAAGCCCAT
16895008 TGGGCCCGAAAGCCCAT
1 TGGGCCCGAAAGCCCAT
16895025 TGGGCCCGA
1 TGGGCCCGA
16895034 TTTCAGCCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.23, C:0.35, G:0.30, T:0.12
Consensus pattern (17 bp):
TGGGCCCGAAAGCCCAT
Found at i:16895407 original size:27 final size:26
Alignment explanation
Indices: 16895372--16895449 Score: 77
Period size: 27 Copynumber: 2.9 Consensus size: 26
16895362 GGGCATATTC
16895372 GTCATTTTACCATATAGGGGTATTACG
1 GTCATTTTACC-TATAGGGGTATTACG
* *
16895399 GTCACTTTACCCTACAGGGGCT-TTACG
1 GTCATTTTA-CCTATAGGGG-TATTACG
**
16895426 GTTTTTTTACCTAATAGGGGTATT
1 GTCATTTTACCT-ATAGGGGTATT
16895450 TTAGTCATTT
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
26 4 0.10
27 34 0.83
28 3 0.07
ACGTcount: A:0.22, C:0.18, G:0.22, T:0.38
Consensus pattern (26 bp):
GTCATTTTACCTATAGGGGTATTACG
Found at i:16895520 original size:27 final size:27
Alignment explanation
Indices: 16895490--16895826 Score: 200
Period size: 27 Copynumber: 12.4 Consensus size: 27
16895480 GTAAATCTAC
*
16895490 AAACCAAGGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTTAGTAATTTTGT
*
16895517 AAACCAATGGTATTTCTA-TAATTTT-T
1 AAACCAAGGGTATTT-TAGTAATTTTGT
* *
16895543 AGAAAGTCAAGGGTATTTTTGTAATTTTGT
1 --AAA-CCAAGGGTATTTTAGTAATTTTGT
* * * **
16895573 AAATCAGGGGTATTTTGGTAATTTTAC
1 AAACCAAGGGTATTTTAGTAATTTTGT
** * * ***
16895600 AAATTAAGGGTGTTTTGGTAATTTCAC
1 AAACCAAGGGTATTTTAGTAATTTTGT
**
16895627 AAACC-AGTGGTATTTT-GATAATTTTAC
1 AAACCAAG-GGTATTTTAG-TAATTTTGT
* * * * **
16895654 AAACTAGGGGTATTATGGTAATTTTAC
1 AAACCAAGGGTATTTTAGTAATTTTGT
* **
16895681 AAACCAGGGGTATTTTAGTAATTTTAC
1 AAACCAAGGGTATTTTAGTAATTTTGT
* * *
16895708 AAACC-AGGGTAATTTGGTAATTTTACT
1 AAACCAAGGGTATTTTAGTAATTTT-GT
* * * *
16895735 -GATCGAGGGTATTTTGGTAATTTTGT
1 AAACCAAGGGTATTTTAGTAATTTTGT
16895761 AAACCAAGGGTATTTTAGTAATTTTGT
1 AAACCAAGGGTATTTTAGTAATTTTGT
* **** *
16895788 AAATCAAGGGTAAAACAGTAATTCTGT
1 AAACCAAGGGTATTTTAGTAATTTTGT
*
16895815 AAATCAAGGGTA
1 AAACCAAGGGTA
16895827 AAACAGTAAT
Statistics
Matches: 255, Mismatches: 42, Indels: 26
0.79 0.13 0.08
Matches are distributed among these distances:
26 23 0.09
27 204 0.80
28 10 0.04
29 17 0.07
30 1 0.00
ACGTcount: A:0.33, C:0.09, G:0.20, T:0.39
Consensus pattern (27 bp):
AAACCAAGGGTATTTTAGTAATTTTGT
Found at i:16895665 original size:81 final size:79
Alignment explanation
Indices: 16895560--16895784 Score: 263
Period size: 80 Copynumber: 2.8 Consensus size: 79
16895550 CAAGGGTATT
** ** * *
16895560 TTTG-TAATTTTGTAAATCAGGGGTATTTTGGTAATTTTACAAATTAAGGGTGTTTTGGTAATTT
1 TTTGATAATTTTACAAAT-AGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTT
*
16895624 CACAAACCAGTGGTAT
65 CACAAACCAG-GGTAA
* *
16895640 TTTGATAATTTTACAAACTAGGGGTATTATGGTAATTTTACAAACCAGGGGTATTTTAGTAATTT
1 TTTGATAATTTTACAAA-TAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTT
*
16895705 TACAAACCAGGGTAA
65 CACAAACCAGGGTAA
* ** * **
16895720 TTTGGTAATTTTACTGATCGAGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTAGTAATTT
1 TTTGATAATTTTACAAATAG-GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTT
16895785 TGTAAATCAA
Statistics
Matches: 124, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
79 2 0.02
80 62 0.50
81 59 0.48
82 1 0.01
ACGTcount: A:0.30, C:0.08, G:0.20, T:0.41
Consensus pattern (79 bp):
TTTGATAATTTTACAAATAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTC
ACAAACCAGGGTAA
Found at i:16895798 original size:54 final size:54
Alignment explanation
Indices: 16895467--16895799 Score: 278
Period size: 54 Copynumber: 6.1 Consensus size: 54
16895457 TTTCACCCTA
* * * ** *
16895467 CAAGGGTGTTTTGGTAAATCTACAAACCAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTGTAAAT
* * * * *
16895521 CAATGGTATTTCT-ATAATTTTTAGAAAGTCAAGGGTATTTTTGTAATTTTGTAAAT
1 CAAGGGTATTT-TGGTAA-TTTTACAAA-CCAAGGGTATTTTGGTAATTTTGTAAAT
* ** * ***
16895577 CAGGGGTATTTTGGTAATTTTACAAATTAAGGGTGTTTTGGTAATTTCACAAA-
1 CAAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTGTAAAT
* * * * * ** *
16895630 CCAGTGGTATTTTGATAATTTTACAAACTAGGGGTATTATGGTAATTTTACAAAC
1 CAAG-GGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTGTAAAT
* * * * *
16895685 CAGGGGTATTTTAGTAATTTTACAAACC-AGGGTAATTTGGTAATTTTACT-GAT
1 CAAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTT-GTAAAT
* ** *
16895738 CGAGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTGTAAAT
1 CAAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTGTAAAT
16895792 CAAGGGTA
1 CAAGGGTA
16895800 AAACAGTAAT
Statistics
Matches: 220, Mismatches: 50, Indels: 18
0.76 0.17 0.06
Matches are distributed among these distances:
53 43 0.20
54 123 0.56
55 18 0.08
56 36 0.16
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.39
Consensus pattern (54 bp):
CAAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTGTAAAT
Found at i:16895827 original size:27 final size:27
Alignment explanation
Indices: 16895777--16895845 Score: 129
Period size: 27 Copynumber: 2.6 Consensus size: 27
16895767 AGGGTATTTT
*
16895777 AGTAATTTTGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCAAGGGTAAAAC
16895804 AGTAATTCTGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCAAGGGTAAAAC
16895831 AGTAATTCTGTAAAT
1 AGTAATTCTGTAAAT
16895846 AGTAATTCTA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.43, C:0.09, G:0.17, T:0.30
Consensus pattern (27 bp):
AGTAATTCTGTAAATCAAGGGTAAAAC
Found at i:16895915 original size:27 final size:27
Alignment explanation
Indices: 16895858--16895917 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
16895848 TAATTCTATA
* * *
16895858 AAACCAGGGGTATTTTGGTAGTTTTAC
1 AAACTAGGGGTATTTTGGTAATTTGAC
*
16895885 AAACTAGGGGTATTTTGGTAATTTGAT
1 AAACTAGGGGTATTTTGGTAATTTGAC
16895912 AAACTA
1 AAACTA
16895918 AAGTATTATA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.32, C:0.08, G:0.23, T:0.37
Consensus pattern (27 bp):
AAACTAGGGGTATTTTGGTAATTTGAC
Found at i:16909242 original size:29 final size:28
Alignment explanation
Indices: 16909181--16909257 Score: 91
Period size: 29 Copynumber: 2.7 Consensus size: 28
16909171 TAGGGAACAT
** * *
16909181 TGATTTGAATTCGGGCCGTGATATTAAC
1 TGATTTGGCTTCGGGCCATGATATCAAC
*
16909209 TGATTTGGCTTTGGGCCATGAATATCAAC
1 TGATTTGGCTTCGGGCCATG-ATATCAAC
*
16909238 TGATTTGGCTTCAGGCCATG
1 TGATTTGGCTTCGGGCCATG
16909258 TGTAACGGCC
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
28 16 0.39
29 25 0.61
ACGTcount: A:0.22, C:0.17, G:0.26, T:0.35
Consensus pattern (28 bp):
TGATTTGGCTTCGGGCCATGATATCAAC
Found at i:16910673 original size:52 final size:54
Alignment explanation
Indices: 16910572--16910728 Score: 171
Period size: 52 Copynumber: 3.0 Consensus size: 54
16910562 TTGACAGAAA
* * * *
16910572 AGATGTGATATGTGCTTCC-GTATAAGACCATAGCAGAGCTATGGCATCGGTAC
1 AGATATGATATGTGATTCCTGTATAAGACCATAGCTGGGCTATGGCATCGGTAC
* * *
16910625 AG-TATGATTTGTG-TTCCTGTATAAGACCATAGCTGGGCTATGGTATCGGT-G
1 AGATATGATATGTGATTCCTGTATAAGACCATAGCTGGGCTATGGCATCGGTAC
* * * *
16910676 TGATATGATAATGTGATTCCT-TATCAGACCATATCTGGGATATGGCATCGGTA
1 AGATATGAT-ATGTGATTCCTGTATAAGACCATAGCTGGGCTATGGCATCGGTA
16910729 TGATATATGA
Statistics
Matches: 87, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
51 5 0.06
52 44 0.51
53 33 0.38
54 5 0.06
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.32
Consensus pattern (54 bp):
AGATATGATATGTGATTCCTGTATAAGACCATAGCTGGGCTATGGCATCGGTAC
Found at i:16912517 original size:12 final size:12
Alignment explanation
Indices: 16912500--16912525 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
16912490 AAAATAGGGC
16912500 TTTAGCGGCGTT
1 TTTAGCGGCGTT
16912512 TTTAGCGGCGTT
1 TTTAGCGGCGTT
16912524 TT
1 TT
16912526 ATCAAAAAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.15, G:0.31, T:0.46
Consensus pattern (12 bp):
TTTAGCGGCGTT
Found at i:16912642 original size:41 final size:41
Alignment explanation
Indices: 16912558--16912756 Score: 292
Period size: 41 Copynumber: 4.9 Consensus size: 41
16912548 TAAAACACAA
* * * * *
16912558 AGCAATAGCGGCGTTTTTGTAAAAAAAGCCGCTAAAGA-TAG
1 AGCATTAGCGGCGCTTTTG-GAAAAACGCCGCTAAAGACCAG
* * *
16912599 AGCATTAGCGGCGCTTTTGGCAAAACGCCACTAATGACCAG
1 AGCATTAGCGGCGCTTTTGGAAAAACGCCGCTAAAGACCAG
*
16912640 AGCATTAGCGGCGCTTTTGTAAAAACGCCGCTAAAGACCAG
1 AGCATTAGCGGCGCTTTTGGAAAAACGCCGCTAAAGACCAG
*
16912681 AGCATTAGCGGCGCTTTTGTAAAAACGCCGCTAAAGACCAG
1 AGCATTAGCGGCGCTTTTGGAAAAACGCCGCTAAAGACCAG
16912722 AGCATTAGCGGCGCTTTTGGAAAAACGCCGCTAAA
1 AGCATTAGCGGCGCTTTTGGAAAAACGCCGCTAAA
16912757 AGTCATATAA
Statistics
Matches: 144, Mismatches: 13, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
40 13 0.09
41 131 0.91
ACGTcount: A:0.33, C:0.23, G:0.25, T:0.20
Consensus pattern (41 bp):
AGCATTAGCGGCGCTTTTGGAAAAACGCCGCTAAAGACCAG
Found at i:16912929 original size:7 final size:7
Alignment explanation
Indices: 16912914--16913011 Score: 52
Period size: 7 Copynumber: 13.4 Consensus size: 7
16912904 TTAATTATCA
*
16912914 TTATAGT
1 TTATGGT
16912921 TTATGGT
1 TTATGGT
*
16912928 TTATGAT
1 TTATGGT
* *
16912935 TTAAGAT
1 TTATGGT
*
16912942 ATATGGT
1 TTATGGT
*
16912949 TTAGGGT
1 TTATGGT
*
16912956 TTAAGGT
1 TTATGGT
16912963 TTATGAGT
1 TTATG-GT
16912971 TAACTATGGT
1 T---TATGGT
* *
16912981 TTAAGAT
1 TTATGGT
*
16912988 ATATGGT
1 TTATGGT
*
16912995 TTAGGGT
1 TTATGGT
*
16913002 TTAAGGT
1 TTATGGT
16913009 TTA
1 TTA
16913012 GGAGTTAACT
Statistics
Matches: 69, Mismatches: 18, Indels: 8
0.73 0.19 0.08
Matches are distributed among these distances:
7 59 0.86
8 3 0.04
10 3 0.04
11 4 0.06
ACGTcount: A:0.28, C:0.01, G:0.24, T:0.47
Consensus pattern (7 bp):
TTATGGT
Found at i:16912946 original size:21 final size:21
Alignment explanation
Indices: 16912922--16913006 Score: 89
Period size: 21 Copynumber: 3.9 Consensus size: 21
16912912 CATTATAGTT
* *
16912922 TATGGTTTATGATTTAAGATA
1 TATGGTTTAGGGTTTAAGATA
* *
16912943 TATGGTTTAGGGTTTAAGGTT
1 TATGGTTTAGGGTTTAAGATA
*
16912964 TATGAGTTAACTATGGTTTAAGATA
1 TATG-GTT---TAGGGTTTAAGATA
16912989 TATGGTTTAGGGTTTAAG
1 TATGGTTTAGGGTTTAAG
16913007 GTTTAGGAGT
Statistics
Matches: 52, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
21 31 0.60
22 3 0.06
24 3 0.06
25 15 0.29
ACGTcount: A:0.28, C:0.01, G:0.26, T:0.45
Consensus pattern (21 bp):
TATGGTTTAGGGTTTAAGATA
Found at i:16912986 original size:46 final size:46
Alignment explanation
Indices: 16912929--16913022 Score: 170
Period size: 46 Copynumber: 2.0 Consensus size: 46
16912919 GTTTATGGTT
*
16912929 TATGATTTAAGATATATGGTTTAGGGTTTAAGGTTTATGAGTTAAC
1 TATGATTTAAGATATATGGTTTAGGGTTTAAGGTTTAGGAGTTAAC
*
16912975 TATGGTTTAAGATATATGGTTTAGGGTTTAAGGTTTAGGAGTTAAC
1 TATGATTTAAGATATATGGTTTAGGGTTTAAGGTTTAGGAGTTAAC
16913021 TA
1 TA
16913023 GTATTTGAAG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.30, C:0.02, G:0.26, T:0.43
Consensus pattern (46 bp):
TATGATTTAAGATATATGGTTTAGGGTTTAAGGTTTAGGAGTTAAC
Found at i:16913078 original size:7 final size:7
Alignment explanation
Indices: 16913066--16913140 Score: 55
Period size: 7 Copynumber: 10.7 Consensus size: 7
16913056 GGGATTATAA
16913066 TTTAGGG
1 TTTAGGG
16913073 TTTAGGG
1 TTTAGGG
*
16913080 GTTAGGG
1 TTTAGGG
16913087 -TT-GGAG
1 TTTAGG-G
*
16913093 TTTAAGG
1 TTTAGGG
*
16913100 TGTAAGGG
1 T-TTAGGG
*
16913108 TTTGGGG
1 TTTAGGG
*
16913115 TTAAGGG
1 TTTAGGG
*
16913122 TTAAGGG
1 TTTAGGG
*
16913129 TTTAGAG
1 TTTAGGG
16913136 TTTAG
1 TTTAG
16913141 AAAAATAATA
Statistics
Matches: 54, Mismatches: 10, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
5 2 0.04
6 3 0.06
7 43 0.80
8 6 0.11
ACGTcount: A:0.20, C:0.00, G:0.43, T:0.37
Consensus pattern (7 bp):
TTTAGGG
Found at i:16913108 original size:21 final size:22
Alignment explanation
Indices: 16913072--16913139 Score: 72
Period size: 21 Copynumber: 3.2 Consensus size: 22
16913062 ATAATTTAGG
*
16913072 GTTTAGGGGTT-AGGG-TTGGA
1 GTTTAAGGGTTAAGGGTTTGGA
16913092 GTTTAA-GGTGTAAGGGTTTGG-
1 GTTTAAGGGT-TAAGGGTTTGGA
* *
16913113 GGTTAAGGGTTAAGGGTTTAGA
1 GTTTAAGGGTTAAGGGTTTGGA
16913135 GTTTA
1 GTTTA
16913140 GAAAAATAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
19 3 0.08
20 6 0.15
21 19 0.49
22 11 0.28
ACGTcount: A:0.21, C:0.00, G:0.43, T:0.37
Consensus pattern (22 bp):
GTTTAAGGGTTAAGGGTTTGGA
Found at i:16913627 original size:46 final size:46
Alignment explanation
Indices: 16913571--16913660 Score: 121
Period size: 46 Copynumber: 2.0 Consensus size: 46
16913561 TATTTATATT
*
16913571 ATTTTTAATTTA-ATAT-TTAATATCCTATATATGTAATTGTATTAAA
1 ATTTTTAATTTATATATATTAAAAT--TATATATGTAATTGTATTAAA
* *
16913617 ATTTTTAATTTATATTTATTAAAATTTTATATGTAATTGTATTA
1 ATTTTTAATTTATATATATTAAAATTATATATGTAATTGTATTA
16913661 GCATTTTTTA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
46 30 0.77
47 3 0.08
48 6 0.15
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (46 bp):
ATTTTTAATTTATATATATTAAAATTATATATGTAATTGTATTAAA
Found at i:16913667 original size:23 final size:23
Alignment explanation
Indices: 16913598--16913660 Score: 85
Period size: 23 Copynumber: 2.7 Consensus size: 23
16913588 TAATATCCTA
16913598 TATATGTAATTGTATTAAAATTT
1 TATATGTAATTGTATTAAAATTT
*
16913621 T-TAATTTATATT-TATTAAAATTT
1 TAT-ATGTA-ATTGTATTAAAATTT
16913644 TATATGTAATTGTATTA
1 TATATGTAATTGTATTA
16913661 GCATTTTTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
22 4 0.12
23 26 0.76
24 4 0.12
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (23 bp):
TATATGTAATTGTATTAAAATTT
Done.