Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D11
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: 73211361
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1690000 characters in sequence are not A, C, G, or T
File 159 of 240
Found at i:50089516 original size:26 final size:26
Alignment explanation
Indices: 50089484--50089559 Score: 109
Period size: 26 Copynumber: 3.0 Consensus size: 26
50089474 ACAAATTTTC
*
50089484 TCAAAATTTTATTAGGGGTAAAATTG
1 TCAAAATTTTACTAGGGGTAAAATTG
* *
50089510 TTAAAATTTTACTAGAGGTAAAATTG
1 TCAAAATTTTACTAGGGGTAAAATTG
*
50089536 TCAAAATTATACT-GGGGTAAAATT
1 TCAAAATTTTACTAGGGGTAAAATT
50089560 AGGGTGAAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
25 10 0.23
26 34 0.77
ACGTcount: A:0.41, C:0.05, G:0.17, T:0.37
Consensus pattern (26 bp):
TCAAAATTTTACTAGGGGTAAAATTG
Found at i:50092388 original size:55 final size:55
Alignment explanation
Indices: 50092327--50092574 Score: 168
Period size: 56 Copynumber: 4.5 Consensus size: 55
50092317 GTCCCATTTT
50092327 TTTTTCAAAATGTACAATTTTTCCCT-TGTATTACAAATTTTACAATTTTGCGA-CTA
1 TTTTTCAAAATGTACAATTTTTCCCTAT-T-TTACAAATTTTACAATTTTGC-ACCTA
* * * * *
50092383 -TTTTCAAAATTTTAC-ACTTTGCCTCTATTTTACCAAA-TTTATATTTTTGCACCTA
1 TTTTTCAAAA-TGTACAATTTTTCC-CTATTTTA-CAAATTTTACAATTTTGCACCTA
* * * *
50092438 TTTTTCAAAATGTATAATTTTGTCTCTATTTTACAAATTTTACAATTCT-C-CCCA
1 TTTTTCAAAATGTACAATTTT-TCCCTATTTTACAAATTTTACAATTTTGCACCTA
* * * * * ** * * *
50092492 TTTTTTAAATTTTATAATTTTACCCATATTTTTTAGATTTTTCAATTTTGCCCCTA
1 TTTTTCAAAATGTACAATTTTTCCC-TATTTTACAAATTTTACAATTTTGCACCTA
* * * *
50092548 TTTTACAAATTTTACAATTTTACCCTA
1 TTTTTCAAAATGTACAATTTTTCCCTA
50092575 AAATTATGAT
Statistics
Matches: 152, Mismatches: 28, Indels: 25
0.74 0.14 0.12
Matches are distributed among these distances:
53 2 0.01
54 40 0.26
55 43 0.28
56 65 0.43
57 2 0.01
ACGTcount: A:0.29, C:0.17, G:0.04, T:0.50
Consensus pattern (55 bp):
TTTTTCAAAATGTACAATTTTTCCCTATTTTACAAATTTTACAATTTTGCACCTA
Found at i:50092392 original size:28 final size:27
Alignment explanation
Indices: 50092361--50092568 Score: 95
Period size: 28 Copynumber: 7.6 Consensus size: 27
50092351 CTTGTATTAC
50092361 AAATTTTACAATTTTGCGACTATTTTCA
1 AAATTTTACAATTTTGC-ACTATTTTCA
* * *
50092389 AAATTTTAC-ACTTTGCCTCTATTTTACC
1 AAATTTTACAATTTTG-CACTATTTT-CA
* *
50092417 AAA-TTTATATTTTTGCACCTATTTTTCA
1 AAATTTTACAATTTTGCA-CTA-TTTTCA
* * *
50092445 AAA-TGTATAATTTTGTCTCTATTTT-A
1 AAATTTTACAATTTTG-CACTATTTTCA
* * * **
50092471 CAAATTTTACAATTCT-CCCCATTTTTT
1 -AAATTTTACAATTTTGCACTATTTTCA
* * * **
50092498 AAATTTTATAATTTTACCCATATTTTTT
1 AAATTTTACAATTTTGCAC-TATTTTCA
* * *
50092526 AGATTTTTCAATTTTGCCCCTATTTT-A
1 AAATTTTACAATTTTG-CACTATTTTCA
50092553 CAAATTTTACAATTTT
1 -AAATTTTACAATTTT
50092569 ACCCTAAAAT
Statistics
Matches: 140, Mismatches: 27, Indels: 26
0.73 0.14 0.13
Matches are distributed among these distances:
26 21 0.15
27 27 0.19
28 84 0.60
29 8 0.06
ACGTcount: A:0.29, C:0.16, G:0.04, T:0.51
Consensus pattern (27 bp):
AAATTTTACAATTTTGCACTATTTTCA
Found at i:50092501 original size:26 final size:27
Alignment explanation
Indices: 50092472--50092572 Score: 105
Period size: 28 Copynumber: 3.7 Consensus size: 27
50092462 TCTATTTTAC
*
50092472 AAATTTTACAATTCT-CCCCATTTTTT
1 AAATTTTACAATTTTACCCCATTTTTT
* *
50092498 AAATTTTATAATTTTACCCATATTTTTT
1 AAATTTTACAATTTTACCC-CATTTTTT
* * * **
50092526 AGATTTTTCAATTTTGCCCCTATTTTAC
1 AAATTTTACAATTTTACCCC-ATTTTTT
50092554 AAATTTTACAATTTTACCC
1 AAATTTTACAATTTTACCC
50092573 TAAAATTATG
Statistics
Matches: 59, Mismatches: 13, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
26 13 0.22
27 3 0.05
28 43 0.73
ACGTcount: A:0.29, C:0.19, G:0.02, T:0.50
Consensus pattern (27 bp):
AAATTTTACAATTTTACCCCATTTTTT
Found at i:50111019 original size:22 final size:22
Alignment explanation
Indices: 50110994--50111036 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
50110984 AATAAGATTT
*
50110994 AATATTAAATTTAATCTAATAA
1 AATATTAAATTAAATCTAATAA
* *
50111016 AATATTAGATTAAATTTAATA
1 AATATTAAATTAAATCTAATA
50111037 TTAAAGTGAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (22 bp):
AATATTAAATTAAATCTAATAA
Found at i:50111175 original size:26 final size:22
Alignment explanation
Indices: 50111146--50111193 Score: 60
Period size: 26 Copynumber: 2.0 Consensus size: 22
50111136 AGTTGTAGAG
50111146 AGAAAATTCTCTGAAGAGATTATTTT
1 AGAAAATT-TCT--AGAGA-TATTTT
50111172 AGAAAATTTCTAGAGATATTTT
1 AGAAAATTTCTAGAGATATTTT
50111194 TTTGATTTAC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 6 0.27
23 5 0.23
25 3 0.14
26 8 0.36
ACGTcount: A:0.40, C:0.06, G:0.15, T:0.40
Consensus pattern (22 bp):
AGAAAATTTCTAGAGATATTTT
Found at i:50112230 original size:47 final size:47
Alignment explanation
Indices: 50112177--50112272 Score: 192
Period size: 47 Copynumber: 2.0 Consensus size: 47
50112167 GCAGTCAATT
50112177 TTGACTCACCTCCCTTTTCTAGGACCCTACCTGGTGCACGGTTCACA
1 TTGACTCACCTCCCTTTTCTAGGACCCTACCTGGTGCACGGTTCACA
50112224 TTGACTCACCTCCCTTTTCTAGGACCCTACCTGGTGCACGGTTCACA
1 TTGACTCACCTCCCTTTTCTAGGACCCTACCTGGTGCACGGTTCACA
50112271 TT
1 TT
50112273 CCCTTCTTCA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 49 1.00
ACGTcount: A:0.17, C:0.35, G:0.17, T:0.31
Consensus pattern (47 bp):
TTGACTCACCTCCCTTTTCTAGGACCCTACCTGGTGCACGGTTCACA
Found at i:50118830 original size:12 final size:12
Alignment explanation
Indices: 50118806--50118837 Score: 55
Period size: 12 Copynumber: 2.6 Consensus size: 12
50118796 TCTATTATTT
50118806 TATTAAGATTTAA
1 TATTAA-ATTTAA
50118819 TATTAAATTTAA
1 TATTAAATTTAA
50118831 TATTAAA
1 TATTAAA
50118838 ATGATTAAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 13 0.68
13 6 0.32
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (12 bp):
TATTAAATTTAA
Found at i:50120171 original size:16 final size:16
Alignment explanation
Indices: 50120123--50120171 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
50120113 CCATATTTTC
50120123 GTATATCTGTTAATAT
1 GTATATCTGTTAATAT
* * *
50120139 GATAAATCCG-TATTAT
1 G-TATATCTGTTAATAT
50120155 GTATATCTGTTAATAT
1 GTATATCTGTTAATAT
50120171 G
1 G
50120172 ATTGTATGCA
Statistics
Matches: 25, Mismatches: 6, Indels: 4
0.71 0.17 0.11
Matches are distributed among these distances:
15 6 0.24
16 13 0.52
17 6 0.24
ACGTcount: A:0.33, C:0.08, G:0.14, T:0.45
Consensus pattern (16 bp):
GTATATCTGTTAATAT
Found at i:50124082 original size:49 final size:52
Alignment explanation
Indices: 50124028--50124136 Score: 134
Period size: 49 Copynumber: 2.2 Consensus size: 52
50124018 CCGATCGAGC
* * * *
50124028 ACACACTTGGGCACCAGGTGCCAAGCCCATAGGC-TAACA-TC-CCTCTAAA
1 ACACACCTCGGCACCAAGTGCCAAGCCCATAGGCTTAACATTCGCCCCTAAA
* * *
50124077 ACACACCTCGGCACCAAGTGTCAAGCCCGTAGGCTTTACATTCGCCCCTAAA
1 ACACACCTCGGCACCAAGTGCCAAGCCCATAGGCTTAACATTCGCCCCTAAA
50124129 ACACACCT
1 ACACACCT
50124137 GAAATACTAT
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
49 29 0.58
50 4 0.08
51 2 0.04
52 15 0.30
ACGTcount: A:0.29, C:0.37, G:0.17, T:0.17
Consensus pattern (52 bp):
ACACACCTCGGCACCAAGTGCCAAGCCCATAGGCTTAACATTCGCCCCTAAA
Found at i:50127251 original size:42 final size:42
Alignment explanation
Indices: 50127168--50127375 Score: 201
Period size: 42 Copynumber: 5.0 Consensus size: 42
50127158 AAGGATCCCA
* * * *
50127168 GTGGAATCAACACTTAGCAACCACC-TTATAATCAATGATAC-
1 GTGGAATCAGCACATAGCAACC-CCTTTACAATCAAGGATACG
* * *
50127209 GAGGAATCAGCGCATAACAACCCCTTTAACAATCAAGGATACG
1 GTGGAATCAGCACATAGCAACCCCTTT-ACAATCAAGGATACG
* * *
50127252 GTGGAATCAGCACTTAGCAACCACC-TTATAATCAATGATACG
1 GTGGAATCAGCACATAGCAACC-CCTTTACAATCAAGGATACG
*
50127294 G-GGAATTAGCACATAGCAACCCCTTTCACAATCAAGGATACG
1 GTGGAATCAGCACATAGCAACCCCTTT-ACAATCAAGGATACG
* * * *
50127336 GTGGAATCAACACTTAGCAACCACC-TTATAATCAATGATA
1 GTGGAATCAGCACATAGCAACC-CCTTTACAATCAAGGATA
50127376 TGAGTTCACA
Statistics
Matches: 137, Mismatches: 22, Indels: 15
0.79 0.13 0.09
Matches are distributed among these distances:
40 4 0.03
41 39 0.28
42 51 0.37
43 39 0.28
44 4 0.03
ACGTcount: A:0.38, C:0.25, G:0.16, T:0.22
Consensus pattern (42 bp):
GTGGAATCAGCACATAGCAACCCCTTTACAATCAAGGATACG
Found at i:50127272 original size:84 final size:84
Alignment explanation
Indices: 50127168--50127375 Score: 362
Period size: 84 Copynumber: 2.5 Consensus size: 84
50127158 AAGGATCCCA
*
50127168 GTGGAATCAACACTTAGCAACCACCTTATAATCAATGATACGAGGAATCAGCGCATAACAACCCC
1 GTGGAATCAACACTTAGCAACCACCTTATAATCAATGATACGAGGAATCAGCACATAACAACCCC
50127233 TTTAACAATCAAGGATACG
66 TTTAACAATCAAGGATACG
* * * *
50127252 GTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATTAGCACATAGCAACCCC
1 GTGGAATCAACACTTAGCAACCACCTTATAATCAATGATACGAGGAATCAGCACATAACAACCCC
*
50127317 TTTCACAATCAAGGATACG
66 TTTAACAATCAAGGATACG
50127336 GTGGAATCAACACTTAGCAACCACCTTATAATCAATGATA
1 GTGGAATCAACACTTAGCAACCACCTTATAATCAATGATA
50127376 TGAGTTCACA
Statistics
Matches: 117, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
84 117 1.00
ACGTcount: A:0.38, C:0.25, G:0.16, T:0.22
Consensus pattern (84 bp):
GTGGAATCAACACTTAGCAACCACCTTATAATCAATGATACGAGGAATCAGCACATAACAACCCC
TTTAACAATCAAGGATACG
Found at i:50134633 original size:12 final size:13
Alignment explanation
Indices: 50134611--50134653 Score: 59
Period size: 13 Copynumber: 3.2 Consensus size: 13
50134601 GTATTACGAG
*
50134611 TTTGTAAAAAAAA
1 TTTGAAAAAAAAA
50134624 TTTGAAAAAAAAA
1 TTTGAAAAAAAAA
*
50134637 TTCTAAAAAAAAAA
1 TT-TGAAAAAAAAA
50134651 TTT
1 TTT
50134654 ATTTTGCGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
13 15 0.56
14 12 0.44
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.30
Consensus pattern (13 bp):
TTTGAAAAAAAAA
Found at i:50134635 original size:14 final size:12
Alignment explanation
Indices: 50134616--50134654 Score: 51
Period size: 14 Copynumber: 3.0 Consensus size: 12
50134606 ACGAGTTTGT
50134616 AAAAAAAATTTGA
1 AAAAAAAATTT-A
50134629 AAAAAAAATTCTAA
1 AAAAAAAATT-T-A
50134643 AAAAAAAATTTA
1 AAAAAAAATTTA
50134655 TTTTGCGTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
12 1 0.04
13 11 0.46
14 12 0.50
ACGTcount: A:0.72, C:0.03, G:0.03, T:0.23
Consensus pattern (12 bp):
AAAAAAAATTTA
Found at i:50146760 original size:18 final size:18
Alignment explanation
Indices: 50146723--50146764 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
50146713 TTTTAACTAG
50146723 TATAATAATAAACAATAA
1 TATAATAATAAACAATAA
*
50146741 TATATATAATAAGCAA-AA
1 TATA-ATAATAAACAATAA
50146759 TATAAT
1 TATAAT
50146765 GTACTACTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 2 0.09
18 10 0.45
19 10 0.45
ACGTcount: A:0.62, C:0.05, G:0.02, T:0.31
Consensus pattern (18 bp):
TATAATAATAAACAATAA
Found at i:50146808 original size:249 final size:249
Alignment explanation
Indices: 50146527--50147192 Score: 768
Period size: 239 Copynumber: 2.6 Consensus size: 249
50146517 ATATTAATGC
* *
50146527 ATATATAATTATTATAATATAGATTATAATAAAAGATTTAATATTACATGATATTATAATGTTTA
1 ATATATAA-TATTATTATATAGATTATAATAAAAGATATAATATTACATGATATTATAATGTTTA
50146592 ATCATCTATGCATATATATAAATTATAAATATATGATATGATATGATATGATATAGCATTATAAA
65 ATCAT-TATGCATATATATAAATTATAAATATAT-ATAT-ATATGATATGATATAGCATTATAAA
* * *
50146657 ATATAGTAGGAGGGCTAACTTTTAAATGTACGAAGAGTAT-AGAGA-TTCAAAGCATATTTTAAC
127 ATATAGTAGGAGGGCTAACTTTCAAATGTACGAAGAGTATAAG-GACTT-AAAACATATTTCAAC
50146720 TAGTATAATAATAAACAAT-AAT-ATATATAAT-AA-GCAAAATATAATGTACTACTATT
190 TAGTATAATAATAAACAATAAATAATATATAATAAATGCAAAATATAATGTACTACTATT
* * * *
50146776 ATATATAACTATTATTATATAGATTGTAATAAAAGATATAGTTTTACATGATATTATTATGTTTA
1 ATATATAA-TATTATTATATAGATTATAATAAAAGATATAATATTACATGATATTATAATGTTTA
*
50146841 ATCATTTATGC--ATATAT--A-TA-AACTAT-TA-ATATATGATATGATATAGCATTATAAAAT
65 ATCA-TTATGCATATATATAAATTATAAATATATATATATATGATATGATATAGCATTATAAAAT
** * *
50146898 ATAGTAGGAGGGCTAACTTTCAAATGCGCAAAGAGTATAAGGACTTAAAACATATTTCAATTAGT
129 ATAGTAGGAGGGCTAACTTTCAAATGTACGAAGAGTATAAGGACTTAAAACATATTTCAACTAGT
* * *
50146963 ATAATAATAAACAATAAACAATAATATATAATAAAATGTAATATATAATGTATTACTATT
194 ATAATAATAAACAAT--A-AATAATATATAAT-AAATGCAAAATATAATGTACTACTATT
* *
50147023 ATATATCAATATTATTATATTATATATTATAATAAAAGATATAATATTACATAATATTATAATGT
1 ATATAT-AATATTA-T-TA-TATAGATTATAATAAAAGATATAATATTACATGATATTATAATGT
* * * *
50147088 TTAA-CATTGATGCATATATATATAAACTTTTCATATATTATATACTATATGATATGATATAACG
62 TTAATCATT-ATGC--ATATATATAAA-TTAT-AAATA-TATATA-TATATGATATGATATAGCA
* * ** *
50147152 TTATATAATATAGTAGAATAGTTAACTTTCAAATGTACGAA
120 TTATAAAATATAGTAGGAGGGCTAACTTTCAAATGTACGAA
50147193 AAATAAAGAG
Statistics
Matches: 350, Mismatches: 37, Indels: 46
0.81 0.09 0.11
Matches are distributed among these distances:
239 94 0.27
240 6 0.02
241 1 0.00
242 1 0.00
243 8 0.02
244 11 0.03
245 1 0.00
246 2 0.01
247 37 0.11
248 5 0.01
249 75 0.21
250 44 0.13
253 6 0.02
255 1 0.00
257 1 0.00
259 3 0.01
260 1 0.00
261 2 0.01
262 1 0.00
263 50 0.14
ACGTcount: A:0.46, C:0.06, G:0.09, T:0.38
Consensus pattern (249 bp):
ATATATAATATTATTATATAGATTATAATAAAAGATATAATATTACATGATATTATAATGTTTAA
TCATTATGCATATATATAAATTATAAATATATATATATATGATATGATATAGCATTATAAAATAT
AGTAGGAGGGCTAACTTTCAAATGTACGAAGAGTATAAGGACTTAAAACATATTTCAACTAGTAT
AATAATAAACAATAAATAATATATAATAAATGCAAAATATAATGTACTACTATT
Found at i:50147890 original size:72 final size:73
Alignment explanation
Indices: 50147755--50147927 Score: 249
Period size: 72 Copynumber: 2.4 Consensus size: 73
50147745 TGCTCAGGAC
* ** * * *
50147755 TTTAGCGGCGTTTTTAAGAAAGTACTGCAAAAAAACCTAAGCCCAACTACGCTGTTTTCTGAGCA
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCA
50147820 TTCGGGGA
66 TTCGGGGA
* * *
50147828 TTTAGCGGCGTTTCTGAGAAAGCGCCGC-AAAAACCCTAAGCCCAACGACGCCGTTTTTTGAGCA
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCA
50147892 TTCGGGGA
66 TTCGGGGA
*
50147900 TTTAGCGGCGTTTTTGAGGAAGCGCCGC
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGC
50147928 TAATGCTCAG
Statistics
Matches: 89, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
72 66 0.74
73 23 0.26
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.25
Consensus pattern (73 bp):
TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCA
TTCGGGGA
Found at i:50147973 original size:186 final size:185
Alignment explanation
Indices: 50147654--50148041 Score: 584
Period size: 186 Copynumber: 2.1 Consensus size: 185
50147644 TTAGCGGCAT
* *
50147654 TTTC-CAGAAAACGCCGCAAAAAACCTAAGCCCAACGACGCTGTTTTCTTAGCATTAAGGGATTA
1 TTTCTCAGAAAGCGCCGCAAAAAACCTAAGCCCAACGACGCCGTTTTCTTAGCATTAAGGGATTA
* *
50147718 GCGGCGTTTTTGAGGAAGCGCCGCTAATGCTCAGGACTTTAGCGGCGTTTTTAAGAAAGTACTGC
66 GCGGCGTTTTTGAGGAAGCGCCGCTAATGCTCAGGACTTTAGCGGCGTTTTTAAGAAAGCACCGC
* * *
50147783 AAAAAAACCTAAGCCCAACT-ACGCTGTTTTCTGAGCATTCGGGGATTTAGCGGCG
131 AAAAAAACCTAAACCCAA-TGACGCTATTTTCTGAGCATTCGGGGATTTAGCGACG
* * **
50147838 TTTCTGAGAAAGCGCCGCAAAAACCCTAAGCCCAACGACGCCGTTTT-TTGAGCATTCGGGGATT
1 TTTCTCAGAAAGCGCCGCAAAAAACCTAAGCCCAACGACGCCGTTTTCTT-AGCATTAAGGGA-T
* * *
50147902 TAGCGGCGTTTTTGAGGAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGAGAAAGCGCC
64 TAGCGGCGTTTTTGAGGAAGCGCCGCTAATGCTCAGGACTTTAGCGGCGTTTTTAAGAAAGCACC
50147967 GCAAAAAAACCTAAACCCAATGACGCTATTTTCTGAGCATTCGGGGATTTAGCGACG
129 GCAAAAAAACCTAAACCCAATGACGCTATTTTCTGAGCATTCGGGGATTTAGCGACG
* *
50148024 TTTTTCAGGAAGCGCCGC
1 TTTCTCAGAAAGCGCCGC
50148042 TAATGCCCAA
Statistics
Matches: 183, Mismatches: 17, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
184 6 0.03
185 49 0.27
186 128 0.70
ACGTcount: A:0.27, C:0.23, G:0.25, T:0.25
Consensus pattern (185 bp):
TTTCTCAGAAAGCGCCGCAAAAAACCTAAGCCCAACGACGCCGTTTTCTTAGCATTAAGGGATTA
GCGGCGTTTTTGAGGAAGCGCCGCTAATGCTCAGGACTTTAGCGGCGTTTTTAAGAAAGCACCGC
AAAAAAACCTAAACCCAATGACGCTATTTTCTGAGCATTCGGGGATTTAGCGACG
Found at i:50148027 original size:114 final size:114
Alignment explanation
Indices: 50147828--50148446 Score: 657
Period size: 114 Copynumber: 5.3 Consensus size: 114
50147818 CATTCGGGGA
* * * * *
50147828 TTTAGCGGCGTTTCTGAGAAAGCGCCGC-AAAAACCCTAAGCCCAACGACGCCGTTTTTTGAGCA
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGACCT
*
50147892 TTCGGGGATTTAGCGGCGTTTTTGAGGAAGCGCCGCTAATGCTCAGGGC
66 TTCGGGGATTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAGGGC
* * ** * *
50147941 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAACCCAATGACGCTATTTTCTGAGCA
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGACCT
* * * * * *
50148006 TTCGGGGATTTAGCGACGTTTTTCAGGAAGCGCCGCTAATGCCCAAGGA
66 TTCGGGGATTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAGGGC
*
50148055 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAGCAAAAAAACCTAAGCCCAACGATGC
1 TTTAGCGGCGTTTTTGAGAAA--G-CG--------CC--GCAAAAAAACCTAAGCCCAACGACGC
* * * *
50148120 CGTTTTTTGATCTTTTCGGGGATTTAGCGGTGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGC
53 CGTTTTCTGA-CCTTTCGGGGATTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAGGGC
* * * * * *
50148183 TTTAGCGGTGTTTTTAACAAAGCGCCGCAAAAAGACCTAAGCGCAACGATGCCGTTTTCTGACCT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGACCT
*
50148248 TTCGGGGATTTAGTGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAGGGC
66 TTCGGGGATTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAGGGC
** *
50148297 TTTAGCGGCGTTTTTG-GTAAAGCGCCGCAAAAAAATATAAGCCCAACGACGCCATTTTCTGACC
1 TTTAGCGGCGTTTTTGAG-AAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGACC
* * * * * * ** *
50148361 TTTCAGGGGCTTTAGCGGCATTTTTAATACAGCGCCACTAATGCTTTGGGA
65 TTTC-GGGGATTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAGGGC
* * * * *
50148412 TTTAGCAGCATTTTTGGGAAAGCTCTGCAAAAAAA
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAA
50148447 TTATTTGTCT
Statistics
Matches: 427, Mismatches: 61, Indels: 34
0.82 0.12 0.07
Matches are distributed among these distances:
113 27 0.06
114 201 0.47
115 98 0.23
116 2 0.00
117 4 0.01
125 4 0.01
126 1 0.00
127 30 0.07
128 60 0.14
ACGTcount: A:0.26, C:0.22, G:0.25, T:0.26
Consensus pattern (114 bp):
TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGACCT
TTCGGGGATTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAGGGC
Found at i:50148099 original size:13 final size:13
Alignment explanation
Indices: 50148081--50148106 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
50148071 AGAAAGCGCC
50148081 GCAAAAAAACCTA
1 GCAAAAAAACCTA
50148094 GCAAAAAAACCTA
1 GCAAAAAAACCTA
50148107 AGCCCAACGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.23, G:0.08, T:0.08
Consensus pattern (13 bp):
GCAAAAAAACCTA
Found at i:50148281 original size:242 final size:241
Alignment explanation
Indices: 50147856--50148331 Score: 693
Period size: 242 Copynumber: 2.0 Consensus size: 241
50147846 AAAGCGCCGC
* * *
50147856 AAAAACCCTAAGCCCAACGACGCCGTTTTTTGAGCATTCGGGGATTTAGCGGCGTTTTTGAGGAA
1 AAAAAACCTAAGCCCAACGACGCCGTTTTTTGAGCATTCGGGGATTTAGCGGCGTTTTTAAGAAA
* *
50147921 GCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAACCCA
66 GCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTAACAAAGCGCCGCAAAAAAACCTAAACCCA
* * * *
50147986 ATGACGCTATTTTCTGAGCATTCGGGGATTTAGCGACGTTTTTCAGGAAGCGCCGCTAATGCCCA
131 ACGACGCCATTTTCTGACCATTCGGGGATTTAGCGACGTTTTTCAGAAAGCGCCGCTAATGCCCA
50148051 AGGATTTAGCGGCGTTTTTGAG-AAAGCGCCGCAAAAAAACCTAGCA
196 AGGATTTAGCGGCGTTTTTG-GTAAAGCGCCGCAAAAAAACCTAGCA
* * * *
50148097 AAAAAACCTAAGCCCAACGATGCCGTTTTTTGATCTTTTCGGGGATTTAGCGGTGTTTTTAAGAA
1 AAAAAACCTAAGCCCAACGACGCCGTTTTTTGAGC-ATTCGGGGATTTAGCGGCGTTTTTAAGAA
* * * *
50148162 AGCGCCGCTAATGCTCAGGGCTTTAGCGGTGTTTTTAACAAAGCGCCGCAAAAAGACCTAAGCGC
65 AGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTAACAAAGCGCCGCAAAAAAACCTAAACCC
* * * * * * *
50148227 AACGATGCCGTTTTCTGACCTTTCGGGGATTTAGTGGCGTTTTTGAGAAAGCGCCGCTAATGCTC
130 AACGACGCCATTTTCTGACCATTCGGGGATTTAGCGACGTTTTTCAGAAAGCGCCGCTAATGCCC
* *
50148292 AGGGCTTTAGCGGCGTTTTTGGTAAAGCGCCGCAAAAAAA
195 AAGGATTTAGCGGCGTTTTTGGTAAAGCGCCGCAAAAAAA
50148332 TATAAGCCCA
Statistics
Matches: 207, Mismatches: 26, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
241 33 0.16
242 174 0.84
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (241 bp):
AAAAAACCTAAGCCCAACGACGCCGTTTTTTGAGCATTCGGGGATTTAGCGGCGTTTTTAAGAAA
GCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTAACAAAGCGCCGCAAAAAAACCTAAACCCA
ACGACGCCATTTTCTGACCATTCGGGGATTTAGCGACGTTTTTCAGAAAGCGCCGCTAATGCCCA
AGGATTTAGCGGCGTTTTTGGTAAAGCGCCGCAAAAAAACCTAGCA
Found at i:50152022 original size:16 final size:16
Alignment explanation
Indices: 50152001--50152061 Score: 74
Period size: 16 Copynumber: 4.0 Consensus size: 16
50151991 AAGTTCAAAT
50152001 TTCATAACTTACATAA
1 TTCATAACTTACATAA
50152017 TTCATAACTTACATAA
1 TTCATAACTTACATAA
* *
50152033 TT--TAAATT-TATAA
1 TTCATAACTTACATAA
*
50152046 TACATAACTTACATAA
1 TTCATAACTTACATAA
50152062 CTTATTAATA
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
13 5 0.14
14 5 0.14
15 5 0.14
16 22 0.59
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.39
Consensus pattern (16 bp):
TTCATAACTTACATAA
Found at i:50152031 original size:9 final size:9
Alignment explanation
Indices: 50152003--50152065 Score: 51
Period size: 9 Copynumber: 7.0 Consensus size: 9
50151993 GTTCAAATTT
50152003 CATAACTTA
1 CATAACTTA
50152012 CATAA-TT-
1 CATAACTTA
50152019 CATAACTTA
1 CATAACTTA
*
50152028 CATAATTTA
1 CATAACTTA
* *
50152037 AATTTATA-ATA
1 CA--TA-ACTTA
50152048 CATAACTTA
1 CATAACTTA
50152057 CATAACTTA
1 CATAACTTA
50152066 TTAATATTTA
Statistics
Matches: 43, Mismatches: 5, Indels: 12
0.72 0.08 0.20
Matches are distributed among these distances:
7 5 0.12
8 5 0.12
9 27 0.63
11 5 0.12
12 1 0.02
ACGTcount: A:0.46, C:0.16, G:0.00, T:0.38
Consensus pattern (9 bp):
CATAACTTA
Found at i:50152090 original size:19 final size:18
Alignment explanation
Indices: 50152066--50152119 Score: 69
Period size: 17 Copynumber: 3.1 Consensus size: 18
50152056 ACATAACTTA
50152066 TTAATATTTATATATAGTT
1 TTAATATTTATATATA-TT
50152085 TTAATA--TATATAT-TT
1 TTAATATTTATATATATT
*
50152100 TTAAAATTTATATATATT
1 TTAATATTTATATATATT
50152118 TT
1 TT
50152120 TAAAAATTGA
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
15 7 0.23
17 14 0.45
18 4 0.13
19 6 0.19
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (18 bp):
TTAATATTTATATATATT
Found at i:50152094 original size:15 final size:15
Alignment explanation
Indices: 50152074--50152103 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
50152064 TATTAATATT
50152074 TATATATAGTTTTAA
1 TATATATAGTTTTAA
*
50152089 TATATATATTTTTAA
1 TATATATAGTTTTAA
50152104 AATTTATATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (15 bp):
TATATATAGTTTTAA
Found at i:50152112 original size:21 final size:20
Alignment explanation
Indices: 50152089--50152127 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
50152079 ATAGTTTTAA
50152089 TATATATATTTTT-AAAATT
1 TATATATATTTTTAAAAATT
50152108 TATATATATTTTTAAAAATT
1 TATATATATTTTTAAAAATT
50152128 GATACATTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
TATATATATTTTTAAAAATT
Found at i:50152242 original size:31 final size:31
Alignment explanation
Indices: 50152146--50152255 Score: 107
Period size: 31 Copynumber: 3.4 Consensus size: 31
50152136 ACATAACCTA
* *
50152146 CATAACCTACATACATAAA-CTTACA-CATAAT
1 CATAACTTACATACATAAATATTA-ATCAT-AT
* * *
50152177 ACATAACTTATATAACTTAAATTTATCAATCATAT
1 -CATAACTTACAT-ACATAAA--TATTAATCATAT
50152212 CATAACTTACATACATAAATATTAATCATAT
1 CATAACTTACATACATAAATATTAATCATAT
50152243 CATAACTTACATA
1 CATAACTTACATA
50152256 ACCAACATAA
Statistics
Matches: 65, Mismatches: 8, Indels: 11
0.77 0.10 0.13
Matches are distributed among these distances:
31 24 0.37
32 10 0.15
33 12 0.18
34 11 0.17
35 3 0.05
36 5 0.08
ACGTcount: A:0.47, C:0.19, G:0.00, T:0.34
Consensus pattern (31 bp):
CATAACTTACATACATAAATATTAATCATAT
Found at i:50152255 original size:9 final size:9
Alignment explanation
Indices: 50152243--50152781 Score: 309
Period size: 9 Copynumber: 63.6 Consensus size: 9
50152233 TTAATCATAT
50152243 CATAACTTA
1 CATAACTTA
**
50152252 CATAACCAA
1 CATAACTTA
*
50152261 CATAA-TGA
1 CATAACTTA
*
50152269 C-TTACTTA
1 CATAACTTA
*
50152277 -ATAACCTA
1 CATAACTTA
50152285 CATAATAACTTA
1 C--A-TAACTTA
50152297 CATAA-TAATA
1 CATAACT--TA
*
50152307 CATAACCTA
1 CATAACTTA
*
50152316 CATAAATTA
1 CATAACTTA
* *
50152325 AATAAGTTA
1 CATAACTTA
50152334 CATAA--TA
1 CATAACTTA
* ***
50152341 CACAAAAAA
1 CATAACTTA
*
50152350 CAAAACTTA
1 CATAACTTA
50152359 CATAACTTA
1 CATAACTTA
50152368 CATAA--TA
1 CATAACTTA
* *
50152375 TCCT-ACATA
1 -CATAACTTA
50152384 -ATAACTTA
1 CATAACTTA
50152392 CATAA-TAATA
1 CATAACT--TA
*
50152402 CATAACCTA
1 CATAACTTA
*
50152411 CATAAATTA
1 CATAACTTA
* *
50152420 AATAAGTTA
1 CATAACTTA
*
50152429 CATAA-TACA
1 CATAACT-TA
50152438 CATAA---A
1 CATAACTTA
*
50152444 CAAAAACTTA
1 C-ATAACTTA
50152454 CATAACTTA
1 CATAACTTA
50152463 CATAACTTA
1 CATAACTTA
50152472 CATAA--TA
1 CATAACTTA
50152479 CATAACTTA
1 CATAACTTA
*
50152488 CATAACCTA
1 CATAACTTA
*
50152497 CTTAA--TA
1 CATAACTTA
50152504 CATAACTTA
1 CATAACTTA
50152513 CATAA--TA
1 CATAACTTA
*
50152520 CACAACTTA
1 CATAACTTA
50152529 CATAACTTA
1 CATAACTTA
50152538 CATAA--TA
1 CATAACTTA
50152545 CATAACTTA
1 CATAACTTA
* *
50152554 TATAA--GA
1 CATAACTTA
50152561 C--AACTTA
1 CATAACTTA
*
50152568 CATAATTTA
1 CATAACTTA
*
50152577 CTTAA--TA
1 CATAACTTA
50152584 CATAACTTA
1 CATAACTTA
50152593 CATAA--TA
1 CATAACTTA
50152600 CATAACTTA
1 CATAACTTA
*
50152609 CATAACCTA
1 CATAACTTA
*
50152618 CATAA--GA
1 CATAACTTA
50152625 CATAACTTA
1 CATAACTTA
* *
50152634 CATAAGTTT
1 CATAACTTA
*
50152643 CGTAA--TA
1 CATAACTTA
* *
50152650 CACAATTTA
1 CATAACTTA
50152659 CATAACTTA
1 CATAACTTA
*
50152668 CATAATTTA
1 CATAACTTA
*
50152677 CTTAA--TA
1 CATAACTTA
50152684 CATAACTTA
1 CATAACTTA
50152693 CATAACTTA
1 CATAACTTA
50152702 CATAA--TA
1 CATAACTTA
50152709 CATAACTTA
1 CATAACTTA
*
50152718 CATAATTTA
1 CATAACTTA
*
50152727 CTTAA--TA
1 CATAACTTA
50152734 CATAACTTA
1 CATAACTTA
*
50152743 CATAATTTA
1 CATAACTTA
*
50152752 CTTAA--TA
1 CATAACTTA
50152759 CATAACTTA
1 CATAACTTA
50152768 CATAACTTA
1 CATAACTTA
50152777 CATAA
1 CATAA
50152782 ATATATGATG
Statistics
Matches: 412, Mismatches: 66, Indels: 104
0.71 0.11 0.18
Matches are distributed among these distances:
5 2 0.00
6 2 0.00
7 92 0.22
8 18 0.04
9 273 0.66
10 17 0.04
11 1 0.00
12 7 0.02
ACGTcount: A:0.49, C:0.19, G:0.01, T:0.31
Consensus pattern (9 bp):
CATAACTTA
Found at i:50152290 original size:12 final size:12
Alignment explanation
Indices: 50152253--50152304 Score: 59
Period size: 12 Copynumber: 4.3 Consensus size: 12
50152243 CATAACTTAC
*
50152253 ATAACCAACATA
1 ATAACCTACATA
* * *
50152265 ATGACTTACTTA
1 ATAACCTACATA
50152277 ATAACCTACATA
1 ATAACCTACATA
*
50152289 ATAACTTACATA
1 ATAACCTACATA
50152301 ATAA
1 ATAA
50152305 TACATAACCT
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
12 32 1.00
ACGTcount: A:0.50, C:0.19, G:0.02, T:0.29
Consensus pattern (12 bp):
ATAACCTACATA
Found at i:50152374 original size:95 final size:95
Alignment explanation
Indices: 50152268--50152492 Score: 364
Period size: 95 Copynumber: 2.4 Consensus size: 95
50152258 CAACATAATG
*
50152268 ACTTACTTAATAACCTACATAATAACTTACATAATAATACATAACCTACATAAATTAAATAAGTT
1 ACTTACATAATAACCTACATAATAACTTACATAATAATACATAACCTACATAAATTAAATAAGTT
50152333 ACATAATACACAAAAA-ACAAAACTTACATA
66 ACATAATACACAAAAACA-AAAACTTACATA
*
50152363 ACTTACATAATATCCTACATAATAACTTACATAATAATACATAACCTACATAAATTAAATAAGTT
1 ACTTACATAATAACCTACATAATAACTTACATAATAATACATAACCTACATAAATTAAATAAGTT
*
50152428 ACATAATACACATAAACAAAAACTTACATA
66 ACATAATACACAAAAACAAAAACTTACATA
* *
50152458 ACTTACATAACTTACATA-ATACATAACTTACATAA
1 ACTTACATAA-TAACCTACATA-ATAACTTACATAA
50152493 CCTACTTAAT
Statistics
Matches: 121, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
95 103 0.85
96 18 0.15
ACGTcount: A:0.52, C:0.18, G:0.01, T:0.28
Consensus pattern (95 bp):
ACTTACATAATAACCTACATAATAACTTACATAATAATACATAACCTACATAAATTAAATAAGTT
ACATAATACACAAAAACAAAAACTTACATA
Found at i:50152383 original size:12 final size:12
Alignment explanation
Indices: 50152360--50152399 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
50152350 CAAAACTTAC
*
50152360 ATAACTTACATA
1 ATAACCTACATA
*
50152372 ATATCCTACATA
1 ATAACCTACATA
*
50152384 ATAACTTACATA
1 ATAACCTACATA
50152396 ATAA
1 ATAA
50152400 TACATAACCT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (12 bp):
ATAACCTACATA
Found at i:50152464 original size:34 final size:34
Alignment explanation
Indices: 50152384--50152781 Score: 164
Period size: 34 Copynumber: 11.4 Consensus size: 34
50152374 ATCCTACATA
* *
50152384 ATAACTTACATAATAATACATAACCTACATAAA-TTAA
1 ATAACTTACATAAT-ACACATAA--TACA-AAACTTAC
*
50152421 ATAAGTTACATAATACACATAA-ACAAAAACTTAC
1 ATAACTTACATAATACACATAATAC-AAAACTTAC
* *
50152455 ATAACTTACATAACT-TACATAATACATAACTTAC
1 ATAACTTACATAA-TACACATAATACAAAACTTAC
* *
50152489 ATAACCTACTTAATACATAACTTACATAATACACAACTTAC
1 ATAACTTAC---ATA-AT-AC--ACATAATACAAAACTTAC
*
50152530 ATAACTTACATAATACATAACTTATATA-AGACAACTTAC
1 ATAACTTACATAATAC---ACATA-ATACA-A-AACTTAC
* * *
50152569 ATAATTTACTTAAT--ACATAACTTACATAA--TAC
1 ATAACTTACATAATACACATAA--TACAAAACTTAC
* * *
50152601 ATAACTTACATAA-CCTACATAAGACATAACTTAC
1 ATAACTTACATAATAC-ACATAATACAAAACTTAC
* * * * *
50152635 ATAAGTTTCGTAATACACA-ATTTACATAACTTAC
1 ATAACTTACATAATACACATA-ATACAAAACTTAC
* * *
50152669 ATAATTTACTTAAT--ACATAACTTACATAACTTAC
1 ATAACTTACATAATACACATAA--TACAAAACTTAC
* **
50152703 ATAA--TACATAACT-TACATAATTTACTTAA--TAC
1 ATAACTTACATAA-TACACATAA--TACAAAACTTAC
** * *
50152735 ATAACTTACATAATTTACTTAATACATAACTTAC
1 ATAACTTACATAATACACATAATACAAAACTTAC
50152769 ATAACTTACATAA
1 ATAACTTACATAA
50152782 ATATATGATG
Statistics
Matches: 290, Mismatches: 35, Indels: 75
0.73 0.09 0.19
Matches are distributed among these distances:
32 42 0.14
33 10 0.03
34 146 0.50
35 6 0.02
36 10 0.03
37 25 0.09
38 7 0.02
39 19 0.07
41 25 0.09
ACGTcount: A:0.48, C:0.19, G:0.01, T:0.32
Consensus pattern (34 bp):
ATAACTTACATAATACACATAATACAAAACTTAC
Found at i:50152482 original size:16 final size:17
Alignment explanation
Indices: 50152289--50152781 Score: 244
Period size: 16 Copynumber: 28.8 Consensus size: 17
50152279 AACCTACATA
*
50152289 ATAACTTACATAATAATAC
1 ATAACTTACAT-A-ACTAC
* * *
50152308 ATAACCTACATAAATTAA
1 ATAACTTACAT-AACTAC
*
50152326 ATAAGTTACATAA-TAC
1 ATAACTTACATAACTAC
* *** *
50152342 ACAAAAAACAAAACTTAC
1 ATAACTTACATAAC-TAC
50152360 ATAACTTACATAA-TATC
1 ATAACTTACATAACTA-C
* *
50152377 CT-ACATA-ATAACTTAC
1 ATAACTTACATAAC-TAC
50152393 ATAA-TAATACATAACCTAC
1 ATAACT--TACATAA-CTAC
* * *
50152412 ATAAATTAAATAAGTTAC
1 ATAACTTACATAA-CTAC
*
50152430 ATAA-TACACATAA--AC
1 ATAACT-TACATAACTAC
*
50152445 AAAAACTTACATAACTTAC
1 -ATAACTTACATAAC-TAC
50152464 ATAACTTACATAA-TAC
1 ATAACTTACATAACTAC
50152480 ATAACTTACATAACCTAC
1 ATAACTTACATAA-CTAC
*
50152498 TTAA--TACATAACTTAC
1 ATAACTTACATAAC-TAC
*
50152514 ATAA--TACACAACTTAC
1 ATAACTTACATAAC-TAC
50152530 ATAACTTACATAA-TAC
1 ATAACTTACATAACTAC
*
50152546 ATAACTTATATAAGACAACTTAC
1 ATAACTTACAT-----AAC-TAC
* *
50152569 ATAATTTACTTAA-TAC
1 ATAACTTACATAACTAC
50152585 ATAACTTACATAA-TAC
1 ATAACTTACATAACTAC
50152601 ATAACTTACATAACCTAC
1 ATAACTTACATAA-CTAC
*
50152619 ATAA--GACATAACTTAC
1 ATAACTTACATAAC-TAC
* * *
50152635 ATAAGTTTCGTAA-TAC
1 ATAACTTACATAACTAC
* *
50152651 ACAATTTACATAACTTAC
1 ATAACTTACATAAC-TAC
* *
50152669 ATAATTTACTTAA-TAC
1 ATAACTTACATAACTAC
50152685 ATAACTTACATAACTTAC
1 ATAACTTACATAAC-TAC
50152703 ATAA--TACATAACTTAC
1 ATAACTTACATAAC-TAC
* *
50152719 ATAATTTACTTAA-TAC
1 ATAACTTACATAACTAC
*
50152735 ATAACTTACATAATTTAC
1 ATAACTTACATAA-CTAC
*
50152753 TTAA--TACATAACTTAC
1 ATAACTTACATAAC-TAC
50152769 ATAACTTACATAA
1 ATAACTTACATAA
50152782 ATATATGATG
Statistics
Matches: 373, Mismatches: 56, Indels: 91
0.72 0.11 0.17
Matches are distributed among these distances:
15 8 0.02
16 196 0.53
17 9 0.02
18 120 0.32
19 25 0.07
20 2 0.01
21 2 0.01
23 11 0.03
ACGTcount: A:0.49, C:0.18, G:0.01, T:0.31
Consensus pattern (17 bp):
ATAACTTACATAACTAC
Found at i:50152506 original size:50 final size:49
Alignment explanation
Indices: 50152452--50152781 Score: 305
Period size: 50 Copynumber: 6.5 Consensus size: 49
50152442 AACAAAAACT
* *
50152452 TACATAACTTACATAACTTACATAATACATAACTTACATAACCTACTTAA
1 TACATAACTTACATAATTTACATAATACATAACTTACATAA-CTACATAA
*
50152502 TACATAACTTACATAA--TACACAACTTACATAACTTACATAA-TACATAA
1 TACATAACTTACATAATTTACATAA--TACATAACTTACATAACTACATAA
* *
50152550 CTTATATAAGACAACTTACATAATTTACTTAATACATAACTTACATAA-TACATAA
1 --TACAT-----AACTTACATAATTTACATAATACATAACTTACATAACTACATAA
* * * * * *
50152605 CTTACATAACCTACATAA--GACATAACTTACATAAGTTTCGTAA-TACACAA
1 --TACATAACTTACATAATTTACATAA--TACATAACTTACATAACTACATAA
*
50152655 TTTACATAACTTACATAATTTACTTAATACATAACTTACATAACTTACATAA
1 --TACATAACTTACATAATTTACATAATACATAACTTACATAAC-TACATAA
* * *
50152707 TACATAACTTACATAATTTACTTAATACATAACTTACATAATTTACTTAA
1 TACATAACTTACATAATTTACATAATACATAACTTACATAA-CTACATAA
*
50152757 TACATAACTTACATAACTTACATAA
1 TACATAACTTACATAATTTACATAA
50152782 ATATATGATG
Statistics
Matches: 237, Mismatches: 25, Indels: 36
0.80 0.08 0.12
Matches are distributed among these distances:
48 17 0.07
50 164 0.69
52 11 0.05
55 40 0.17
57 5 0.02
ACGTcount: A:0.46, C:0.19, G:0.01, T:0.34
Consensus pattern (49 bp):
TACATAACTTACATAATTTACATAATACATAACTTACATAACTACATAA
Found at i:50152543 original size:25 final size:25
Alignment explanation
Indices: 50152353--50152781 Score: 249
Period size: 25 Copynumber: 17.1 Consensus size: 25
50152343 CAAAAAACAA
*
50152353 AACTTACATAACTTACATAATATCCT
1 AACTTACATAACTTACATAATA-CAT
*
50152379 -ACATA-ATAACTTACATAATAATACAT
1 AACTTACATAACTTAC---ATAATACAT
* * *
50152405 AACCTACATAAATTAAATAAGTTACAT
1 AACTTACATAACTTACATAA--TACAT
* *
50152432 AA-TACACATAA---ACAAAAACTTACAT
1 AACT-TACATAACTTAC-ATAA--TACAT
50152457 AACTTACATAACTTACATAATACAT
1 AACTTACATAACTTACATAATACAT
* *
50152482 AACTTACATAACCTACTTAATACAT
1 AACTTACATAACTTACATAATACAT
*
50152507 AACTTACATAA--TACACAACTTACAT
1 AACTTACATAACTTACATAA--TACAT
*
50152532 AACTTACATAA--TACATAACTTATAT
1 AACTTACATAACTTACATAA--TACAT
* *
50152557 AA--GAC--AACTTACATAATTTACTT
1 AACTTACATAACTTACATAA--TACAT
50152580 AA--TACATAACTTACATAATACAT
1 AACTTACATAACTTACATAATACAT
* *
50152603 AACTTACATAACCTACATAAGACAT
1 AACTTACATAACTTACATAATACAT
* * * *
50152628 AACTTACATAAGTTTCGTAATACAC
1 AACTTACATAACTTACATAATACAT
* *
50152653 AATTTACATAACTTACATAATTTACTT
1 AACTTACATAACTTACATAA--TACAT
50152680 AA--TACATAACTTACATAACTTACAT
1 AACTTACATAACTTACATAA--TACAT
*
50152705 AA--TACATAACTTACATAATTTACTT
1 AACTTACATAACTTACATAA--TACAT
*
50152730 AA--TACATAACTTACATAATTTACTT
1 AACTTACATAACTTACATAA--TACAT
50152755 AA--TACATAACTTACATAACTTACAT
1 AACTTACATAACTTACATAA--TACAT
50152780 AA
1 AA
50152782 ATATATGATG
Statistics
Matches: 336, Mismatches: 44, Indels: 47
0.79 0.10 0.11
Matches are distributed among these distances:
21 2 0.01
23 28 0.08
24 10 0.03
25 253 0.75
26 3 0.01
27 31 0.09
28 9 0.03
ACGTcount: A:0.48, C:0.19, G:0.01, T:0.32
Consensus pattern (25 bp):
AACTTACATAACTTACATAATACAT
Found at i:50158345 original size:21 final size:21
Alignment explanation
Indices: 50158319--50158367 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
50158309 CTACAACTTA
*
50158319 AAGCAGATGCGGCATCGAGAG
1 AAGCAGATGCGGCAGCGAGAG
* *
50158340 AAGCAGATGCTGCAGCGAGGG
1 AAGCAGATGCGGCAGCGAGAG
50158361 AAGCAGA
1 AAGCAGA
50158368 GCAGAGCAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.35, C:0.18, G:0.39, T:0.08
Consensus pattern (21 bp):
AAGCAGATGCGGCAGCGAGAG
Found at i:50158812 original size:43 final size:43
Alignment explanation
Indices: 50158778--50158942 Score: 240
Period size: 43 Copynumber: 3.8 Consensus size: 43
50158768 TTTGCAGAAG
*
50158778 AAGCGCCGCTAAAGAACATGATCTTTAGCAGCGTTTATGGAAA
1 AAGCGCCGCTAAAGAACATGATCTTTAGCAGCGTTTGTGGAAA
* * *
50158821 AAGCACCGCTAAAGAACATGATCTTTAGCGGCATTTGTGGAAA
1 AAGCGCCGCTAAAGAACATGATCTTTAGCAGCGTTTGTGGAAA
* *
50158864 AAGCGCCGCTAAGGAACATGATCTTTAGCAGCGTTTGTTGAAA
1 AAGCGCCGCTAAAGAACATGATCTTTAGCAGCGTTTGTGGAAA
* * * *
50158907 AAGCGCCGTTAAAGAACATAACCTTTAGCGGCGTTT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCAGCGTTT
50158943 AAAAAAATAT
Statistics
Matches: 108, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 108 1.00
ACGTcount: A:0.33, C:0.19, G:0.24, T:0.24
Consensus pattern (43 bp):
AAGCGCCGCTAAAGAACATGATCTTTAGCAGCGTTTGTGGAAA
Found at i:50158837 original size:86 final size:86
Alignment explanation
Indices: 50158739--50158938 Score: 251
Period size: 86 Copynumber: 2.3 Consensus size: 86
50158729 TGTAAAAATG
* *
50158739 CCGCTAAAAGAACATG-GCATTTA-CTGGCGTTTGCAGAAGAAGCGCCGCTAAAGAACATGATCT
1 CCGCT-AAAGAACATGAGC-TTTAGC-GGCATTTGCAGAAAAAGCGCCGCTAAAGAACATGATCT
50158802 TTAGCAGCGTTTATGGAAAAAGCA
63 TTAGCAGCGTTTATGGAAAAAGCA
* ** *
50158826 CCGCTAAAGAACATGATCTTTAGCGGCATTTGTGGAAAAAGCGCCGCTAAGGAACATGATCTTTA
1 CCGCTAAAGAACATGAGCTTTAGCGGCATTTGCAGAAAAAGCGCCGCTAAAGAACATGATCTTTA
* * *
50158891 GCAGCGTTTGTTGAAAAAGCG
66 GCAGCGTTTATGGAAAAAGCA
* * *
50158912 CCGTTAAAGAACATAACCTTTAGCGGC
1 CCGCTAAAGAACATGAGCTTTAGCGGC
50158939 GTTTAAAAAA
Statistics
Matches: 99, Mismatches: 12, Indels: 5
0.85 0.10 0.04
Matches are distributed among these distances:
86 92 0.93
87 7 0.07
ACGTcount: A:0.33, C:0.20, G:0.24, T:0.23
Consensus pattern (86 bp):
CCGCTAAAGAACATGAGCTTTAGCGGCATTTGCAGAAAAAGCGCCGCTAAAGAACATGATCTTTA
GCAGCGTTTATGGAAAAAGCA
Found at i:50159036 original size:21 final size:22
Alignment explanation
Indices: 50158994--50159036 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
50158984 TAGTGGCGCT
**
50158994 AAAAAGCGCCGCTAAAGGCCTG
1 AAAAAGCGCCGCTAAAAACCTG
50159016 AAAAA-CGCCGCTAAAAACCTG
1 AAAAAGCGCCGCTAAAAACCTG
50159037 TTTTGGTGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.42, C:0.28, G:0.21, T:0.09
Consensus pattern (22 bp):
AAAAAGCGCCGCTAAAAACCTG
Found at i:50159784 original size:34 final size:34
Alignment explanation
Indices: 50159666--50159850 Score: 235
Period size: 34 Copynumber: 5.4 Consensus size: 34
50159656 TTTATGGCAA
50159666 GTACATGCGAACTGTATATGTGTGTGAACCCTAG
1 GTACATGCGAACTGTATATGTGTGTGAACCCTAG
* * *
50159700 GTGACATGTGAACTGTACATGTGTATGAACCCTAG
1 GT-ACATGCGAACTGTATATGTGTGTGAACCCTAG
* * *
50159735 GTAACATGTGGACTGTATATGTGTGCGAACCCTAG
1 GT-ACATGCGAACTGTATATGTGTGTGAACCCTAG
*
50159770 GTACATGCGAACTGTATATGTGTGCGAACCCTAG
1 GTACATGCGAACTGTATATGTGTGTGAACCCTAG
* * * * *
50159804 GTAGATGCGAATTGTATATATATGTGAACCCTAT
1 GTACATGCGAACTGTATATGTGTGTGAACCCTAG
*
50159838 GTACATGTGAACT
1 GTACATGCGAACT
50159851 ATGCGAAACC
Statistics
Matches: 131, Mismatches: 19, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
34 70 0.53
35 61 0.47
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (34 bp):
GTACATGCGAACTGTATATGTGTGTGAACCCTAG
Found at i:50159955 original size:24 final size:24
Alignment explanation
Indices: 50159925--50159970 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
50159915 ATGTACATGC
50159925 ATATATGATATATGCGAACCCTAT
1 ATATATGATATATGCGAACCCTAT
*
50159949 ATATATGTTATATGCGAACCCT
1 ATATATGATATATGCGAACCCT
50159971 TAGGTGAACT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.35, C:0.17, G:0.13, T:0.35
Consensus pattern (24 bp):
ATATATGATATATGCGAACCCTAT
Found at i:50174987 original size:40 final size:40
Alignment explanation
Indices: 50174889--50175146 Score: 341
Period size: 40 Copynumber: 6.6 Consensus size: 40
50174879 TCCTCGTTCA
* * * * *
50174889 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
50174928 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
50174968 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
50175008 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
50175048 AATGCCTTCGGGACTTAACCCGGA-TT--TAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * *
50175085 AATGCCTTC-GGACTTAA-CCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAAC-TCGCACG
* *
50175123 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
50175147 CAGCATTCAA
Statistics
Matches: 200, Mismatches: 12, Indels: 13
0.89 0.05 0.06
Matches are distributed among these distances:
35 5 0.03
36 9 0.05
37 20 0.10
38 11 0.05
39 48 0.24
40 107 0.54
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:50182276 original size:40 final size:40
Alignment explanation
Indices: 50182178--50182440 Score: 361
Period size: 40 Copynumber: 6.6 Consensus size: 40
50182168 TCCTCGTTCA
* * * ** *
50182178 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
50182217 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
50182257 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
50182297 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
50182337 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
* * *
50182377 AATGCCTTCGGGACTTAACCCGGATATATTC-ACTTAGCAC-
1 AATGCCTTCGGGACTTAACCCGGATTTA-ACAAC-TCGCACG
* *
50182417 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
50182441 CAGCATTCAA
Statistics
Matches: 208, Mismatches: 13, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
39 34 0.16
40 168 0.81
41 6 0.03
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
Found at i:50182368 original size:120 final size:119
Alignment explanation
Indices: 50182178--50182440 Score: 402
Period size: 120 Copynumber: 2.2 Consensus size: 119
50182168 TCCTCGTTCA
* * *
50182178 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACTTAGCCCGGATTTAATAACTCACACAATGCCTTCGGGACATAACCCGGATT
* *
50182243 TAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAAC-TCGCAC
66 TAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
* * *
50182296 GAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGA
1 -AATGCCTTCGGGACTTAGCCCGGATTTAATAACTCACAC-AATGCCTTCGGGACATAACCCGGA
* *
50182361 TTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGATATATTCACTTAGCAC
64 TTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
*
50182417 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
50182441 CAGCATTCAA
Statistics
Matches: 130, Mismatches: 12, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
119 34 0.26
120 91 0.70
121 5 0.04
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.24
Consensus pattern (119 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAATAACTCACACAATGCCTTCGGGACATAACCCGGATT
TAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
Found at i:50187333 original size:20 final size:20
Alignment explanation
Indices: 50187308--50187350 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
50187298 AAGTAACTAA
50187308 TAGTACTTTTGATTTTTATC
1 TAGTACTTTTGATTTTTATC
50187328 TAGTACTTTTGATTTTTATC
1 TAGTACTTTTGATTTTTATC
50187348 TAG
1 TAG
50187351 ATAATGTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.21, C:0.09, G:0.12, T:0.58
Consensus pattern (20 bp):
TAGTACTTTTGATTTTTATC
Found at i:50190182 original size:41 final size:41
Alignment explanation
Indices: 50190129--50190293 Score: 186
Period size: 42 Copynumber: 4.0 Consensus size: 41
50190119 TAGAAAAAAA
*
50190129 CGCCACTAAAGAACATGGTCTTTAGCGGTGTTTTTTATAAG
1 CGCCACTAAAGAACATGGTCTTTAGCGGCGTTTTTTATAAG
50190170 CGCCACTAAAGAACATGGTCTTTAGCGGCGTTTTTTTATAAG
1 CGCCACTAAAGAACATGGTCTTTAGCGGCG-TTTTTTATAAG
* * * * *
50190212 CACCGCTGAAGAACATGATCTTTAGTGGCGTTTTTTATTAAG
1 CGCCACTAAAGAACATGGTCTTTAGCGGCGTTTTTTA-TAAG
* * * * * * * *
50190254 CGTCGCGAAAGAAGATGTTCTTTAACGGCGCTTTGTATAA
1 CGCCACTAAAGAACATGGTCTTTAGCGGCGTTTTTTATAA
50190294 AAATGCCGCT
Statistics
Matches: 106, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
41 39 0.37
42 67 0.63
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.33
Consensus pattern (41 bp):
CGCCACTAAAGAACATGGTCTTTAGCGGCGTTTTTTATAAG
Found at i:50190293 original size:83 final size:83
Alignment explanation
Indices: 50190137--50190293 Score: 199
Period size: 83 Copynumber: 1.9 Consensus size: 83
50190127 AACGCCACTA
* * * * *
50190137 AAGAACATGGTCTTTAGCGGTGTTTTTTATAAGCGCCACTAAAGAACATGGTCTTTAGCGGCGTT
1 AAGAACATGATCTTTAGCGGCGTTTTTTATAAGCGCCACGAAAGAACATGGTCTTTAACGGCGTC
*
50190202 TTTTTATAAGCACCGCTG
66 TTTGTATAAGCACCGCTG
* * * * *
50190220 AAGAACATGATCTTTAGTGGCGTTTTTTATTAAGCGTCGCGAAAGAAGATGTTCTTTAACGGCG-
1 AAGAACATGATCTTTAGCGGCGTTTTTTA-TAAGCGCCACGAAAGAACATGGTCTTTAACGGCGT
50190284 CTTTGTATAA
65 CTTTGTATAA
50190294 AAATGCCGCT
Statistics
Matches: 62, Mismatches: 11, Indels: 2
0.83 0.15 0.03
Matches are distributed among these distances:
83 34 0.55
84 28 0.45
ACGTcount: A:0.27, C:0.16, G:0.23, T:0.34
Consensus pattern (83 bp):
AAGAACATGATCTTTAGCGGCGTTTTTTATAAGCGCCACGAAAGAACATGGTCTTTAACGGCGTC
TTTGTATAAGCACCGCTG
Found at i:50195951 original size:7 final size:7
Alignment explanation
Indices: 50195941--50195977 Score: 56
Period size: 7 Copynumber: 5.0 Consensus size: 7
50195931 TGACATATTT
50195941 TTATGTA
1 TTATGTA
50195948 TTATGTAA
1 TTATGT-A
50195956 GTTATGTA
1 -TTATGTA
50195964 TTATGTA
1 TTATGTA
50195971 TTATGTA
1 TTATGTA
50195978 AGTACTGTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
7 20 0.71
8 2 0.07
9 6 0.21
ACGTcount: A:0.30, C:0.00, G:0.16, T:0.54
Consensus pattern (7 bp):
TTATGTA
Found at i:50195962 original size:9 final size:9
Alignment explanation
Indices: 50195948--50196391 Score: 397
Period size: 9 Copynumber: 50.4 Consensus size: 9
50195938 TTTTTATGTA
50195948 TTATGTAAG
1 TTATGTAAG
50195957 TTATGT-A-
1 TTATGTAAG
50195964 TTATGT-A-
1 TTATGTAAG
50195971 TTATGTAAG
1 TTATGTAAG
50195980 -TACTGTAAG
1 TTA-TGTAAG
*
50195989 TAATGTAAG
1 TTATGTAAG
50195998 TTATGTAAG
1 TTATGTAAG
* *
50196007 TAAT-TTA-
1 TTATGTAAG
50196014 TTATGTAAG
1 TTATGTAAG
* *
50196023 TTGTGTATAATA
1 TTATG--TAA-G
50196035 TTAATGTAAG
1 TT-ATGTAAG
50196045 TTATGTAAG
1 TTATGTAAG
* *
50196054 TTATTTAAT
1 TTATGTAAG
*
50196063 TTTTGTAAG
1 TTATGTAAG
50196072 TTATGTAA-
1 TTATGTAAG
50196080 TTAATGTAAG
1 TT-ATGTAAG
* *
50196090 TTATTTAAT
1 TTATGTAAG
50196099 TTATGTAAG
1 TTATGTAAG
50196108 TTATGTAAG
1 TTATGTAAG
*
50196117 TTACT-TAAT
1 TTA-TGTAAG
50196126 TTATGTAAG
1 TTATGTAAG
50196135 TTATGTAAG
1 TTATGTAAG
* *
50196144 TTATTTAAT
1 TTATGTAAG
50196153 TTATGTAAG
1 TTATGTAAG
50196162 TTATGTAAG
1 TTATGTAAG
50196171 ---T-TAAG
1 TTATGTAAG
* *
50196176 TTATTTAAT
1 TTATGTAAG
*
50196185 TTTTGTAAG
1 TTATGTAAG
50196194 TTATGTAA-
1 TTATGTAAG
50196202 TTAATGTAAG
1 TT-ATGTAAG
* *
50196212 TTATTTAAT
1 TTATGTAAG
50196221 TTATGTAAG
1 TTATGTAAG
50196230 TTATGTAAG
1 TTATGTAAG
* *
50196239 TTATTTAAT
1 TTATGTAAG
50196248 TTATGTAAG
1 TTATGTAAG
*
50196257 TTATGTTAG
1 TTATGTAAG
50196266 TTATGTAAG
1 TTATGTAAG
*
50196275 ---T-TAAT
1 TTATGTAAG
50196280 TTATGTAAG
1 TTATGTAAG
50196289 TTATGTAAG
1 TTATGTAAG
*
50196298 TTATTTAA-
1 TTATGTAAG
50196306 TTCATGTAAG
1 TT-ATGTAAG
50196316 TTATGTAAG
1 TTATGTAAG
* *
50196325 TTATTTAAT
1 TTATGTAAG
*
50196334 TTATGTAAT
1 TTATGTAAG
50196343 TTATGTAAG
1 TTATGTAAG
* *
50196352 TTATTTAAT
1 TTATGTAAG
*
50196361 TTTTGTAAG
1 TTATGTAAG
50196370 TTATGTAA-
1 TTATGTAAG
50196378 TTAATGTAAG
1 TT-ATGTAAG
50196388 TTAT
1 TTAT
50196392 TTAATTTGTG
Statistics
Matches: 352, Mismatches: 55, Indels: 56
0.76 0.12 0.12
Matches are distributed among these distances:
5 7 0.02
6 2 0.01
7 16 0.05
8 19 0.05
9 286 0.81
10 12 0.03
11 6 0.02
12 2 0.01
13 2 0.01
ACGTcount: A:0.34, C:0.01, G:0.16, T:0.50
Consensus pattern (9 bp):
TTATGTAAG
Found at i:50200161 original size:115 final size:113
Alignment explanation
Indices: 50199947--50200199 Score: 276
Period size: 115 Copynumber: 2.2 Consensus size: 113
50199937 ATGCATGGTT
* * *
50199947 AAGACCAAAACTCTGCGTTTTGGTTAGGATATTTTTCGGCGCTTCTCAAAAAGCGCCGCTAATAC
1 AAGA-CAAAACTCTGCGTTTTGGTTAAGATATTTTGCAGCGCTTCTCAAAAAGCGCCGCTAATAC
* * * * * *
50200012 TATGCTTTAGCGGCGATTTCTCGTGGATGCCACTAATTCCAGTATACATC
65 TATGCTTAAACGGCGATTTCCCAT-GAAGCCACTAATTCCAATATACATC
* * * * * *
50200062 AAGACTTAAACGCTGCGTTTTGGTTAATATATTTTGCAGTGCTTCTCAAAATGCGCCGCTAATAG
1 AAGAC-AAAACTCTGCGTTTTGGTTAAGATATTTTGCAGCGCTTCTCAAAAAGCGCCGCTAATAC
* * *
50200127 TATGCTTAAACGGTG-TTCTCCCAT-AAGCGTCACTAATTCTAATATACCTC
65 TATGCTTAAACGGCGATT-TCCCATGAAGC--CACTAATTCCAATATACATC
50200177 AAGACAAAACTCTGCGTTTTGGT
1 AAGACAAAACTCTGCGTTTTGGT
50200200 GAGGTACACT
Statistics
Matches: 114, Mismatches: 20, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
113 3 0.03
114 19 0.17
115 92 0.81
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (113 bp):
AAGACAAAACTCTGCGTTTTGGTTAAGATATTTTGCAGCGCTTCTCAAAAAGCGCCGCTAATACT
ATGCTTAAACGGCGATTTCCCATGAAGCCACTAATTCCAATATACATC
Found at i:50200441 original size:113 final size:113
Alignment explanation
Indices: 50200237--50200527 Score: 311
Period size: 113 Copynumber: 2.5 Consensus size: 113
50200227 TCCAGTATGT
* * * *
50200237 GCCACTAATTACT-GTATACATCAAGACAAAAACGTTGCGTTTTGGTTACGAAATTTTGCGGCGC
1 GCCACTAATT-CTAGTATACCTCAAGAC-CAAAC-TTGCGTTTTGGTTAAGATATTTTGCGGCGC
* * *
50200301 TTCTCCAAACGCGCCGCTAATAGTATGCCTTAGCGGCGTGTTCCCTT-TGC
63 TTCTCCAAACACGCCACTAATAGTATGCCTTAGCGGCGTGTTCCCTTAAGC
50200351 GCCACTAATTCTAGTATACCTCAAGACCAAACTCTGCGTTTTGGTTAAGATATTTTGCGGCGCTT
1 GCCACTAATTCTAGTATACCTCAAGACCAAACT-TGCGTTTTGGTTAAGATATTTTGCGGCGCTT
* * * * *
50200416 CTCACAAA-ATGCCACTAATATTATGCTTTAGCGGTGTTTTCCCTTAAGC
65 CTC-CAAACACGCCACTAATAGTATGCCTTAGCGGCGTGTTCCCTTAAGC
* * ** * * *
50200465 GCCACTAACTGTAACATACAC-CAAGACCAAAATGGTGCGCTTTGGTTAGGATATTTTGCGGCG
1 GCCACTAATTCTAGTATAC-CTCAAGACCAAACT--TGCGTTTTGGTTAAGATATTTTGCGGCG
50200528 TTTACCCATA
Statistics
Matches: 151, Mismatches: 20, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
112 1 0.01
113 68 0.45
114 55 0.36
115 27 0.18
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.31
Consensus pattern (113 bp):
GCCACTAATTCTAGTATACCTCAAGACCAAACTTGCGTTTTGGTTAAGATATTTTGCGGCGCTTC
TCCAAACACGCCACTAATAGTATGCCTTAGCGGCGTGTTCCCTTAAGC
Found at i:50201045 original size:13 final size:13
Alignment explanation
Indices: 50201027--50201051 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
50201017 TTAAGGCTTA
50201027 AGGTGTAAAAGTG
1 AGGTGTAAAAGTG
50201040 AGGTGTAAAAGT
1 AGGTGTAAAAGT
50201052 TAGAAATAAG
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:0.40, C:0.00, G:0.36, T:0.24
Consensus pattern (13 bp):
AGGTGTAAAAGTG
Found at i:50204305 original size:11 final size:11
Alignment explanation
Indices: 50204281--50204322 Score: 57
Period size: 11 Copynumber: 3.7 Consensus size: 11
50204271 AACTCATCCT
50204281 CTCTCAAATTTC
1 CTCTC-AATTTC
*
50204293 CTCTCAGTTTC
1 CTCTCAATTTC
*
50204304 CTCTAAATTTC
1 CTCTCAATTTC
50204315 CTCTCAAT
1 CTCTCAAT
50204323 CTGCTCTTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
11 21 0.81
12 5 0.19
ACGTcount: A:0.21, C:0.33, G:0.02, T:0.43
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:50204338 original size:22 final size:23
Alignment explanation
Indices: 50204281--50204335 Score: 67
Period size: 22 Copynumber: 2.4 Consensus size: 23
50204271 AACTCATCCT
* * *
50204281 CTCTCAAATTTCCTCTCAGTTTC
1 CTCTTAAATTTCCTCTCAATCTC
*
50204304 CTC-TAAATTTCCTCTCAATCTG
1 CTCTTAAATTTCCTCTCAATCTC
50204326 CTCTTAAATT
1 CTCTTAAATT
50204336 CCTTCCAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 18 0.67
23 9 0.33
ACGTcount: A:0.22, C:0.31, G:0.04, T:0.44
Consensus pattern (23 bp):
CTCTTAAATTTCCTCTCAATCTC
Found at i:50205561 original size:7 final size:7
Alignment explanation
Indices: 50205549--50205574 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
50205539 TAGTCGATTG
50205549 GTATTTA
1 GTATTTA
50205556 GTATTTA
1 GTATTTA
50205563 GTATTTA
1 GTATTTA
50205570 GTATT
1 GTATT
50205575 ATGTATATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.58
Consensus pattern (7 bp):
GTATTTA
Found at i:50206252 original size:18 final size:18
Alignment explanation
Indices: 50206225--50206264 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
50206215 CAAGTGCGTT
* *
50206225 TCCTAGCCCTTTTATGTA
1 TCCTAACCCTTATATGTA
*
50206243 TCCTAACCCTTATATGTT
1 TCCTAACCCTTATATGTA
50206261 TCCT
1 TCCT
50206265 TTTCCGAGTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.17, C:0.30, G:0.07, T:0.45
Consensus pattern (18 bp):
TCCTAACCCTTATATGTA
Found at i:50206780 original size:22 final size:22
Alignment explanation
Indices: 50206734--50207406 Score: 468
Period size: 23 Copynumber: 31.1 Consensus size: 22
50206724 GTTATTACTA
*
50206734 AAAAACCCTAAACCCTTAAAATT
1 AAAAACCCTAAACCCTT-AACTT
*
50206757 AAAAATCCTAAACCCTTAACTT
1 AAAAACCCTAAACCCTTAACTT
**
50206779 -AAAACCCTAAACTAATTTAA-TT
1 AAAAACCCTAAAC--CCTTAACTT
* * *
50206801 AAAAACCCTAAGCCTTTAAAATT
1 AAAAACCCTAAACCCTT-AACTT
50206824 AAAAACCCTAAACCCTTAACTT
1 AAAAACCCTAAACCCTTAACTT
*
50206846 AAAAA-CCTTAACCCTTAACTT
1 AAAAACCCTAAACCCTTAACTT
*
50206867 -AAAACCCT-AACCCTTAAAATT
1 AAAAACCCTAAACCCTT-AACTT
*
50206888 AAAAACCCTAAACCCTTAAAATT
1 AAAAACCCTAAACCCTT-AACTT
*
50206911 AAAAACCCTAAACCCTTAAAATT
1 AAAAACCCTAAACCCTT-AACTT
*
50206934 AAAAACCATAAACCCTTAACTT
1 AAAAACCCTAAACCCTTAACTT
* **
50206956 AAAAACTCTAAACAATTTAA-TT
1 AAAAACCCTAAAC-CCTTAACTT
* *
50206978 AAAAACCCTAAACCCTAAACCCT
1 AAAAACCCTAAACCCTTAA-CTT
*
50207001 ---AACCCTTAA--CTTAAAAACTCT
1 AAAAACCCTAAACCCTT---AACT-T
50207022 -AAAACCCTAAA--C-TAA-TT
1 AAAAACCCTAAACCCTTAACTT
* *
50207039 -TAAA-CCTAAAACCTTAAACCTT
1 AAAAACCCTAAACCCTT-AA-CTT
50207061 --AAACCCTTAAA--C-----TT
1 AAAAACCC-TAAACCCTTAACTT
50207075 AAAAACCCTAA-CCCTTAACTT
1 AAAAACCCTAAACCCTTAACTT
*
50207096 AAAAACCTTAAACCCTTAACTT
1 AAAAACCCTAAACCCTTAACTT
* **
50207118 AAAAACTCTAAACTAATTTAA-TT
1 AAAAACCCTAAAC--CCTTAACTT
50207141 AAAAACCCTAAACCCTTAACTT
1 AAAAACCCTAAACCCTTAACTT
*
50207163 AAAAACCCTAACCCCTTAACTT
1 AAAAACCCTAAACCCTTAACTT
* **
50207185 AAAAACCTTAAACTAATTTAA-TT
1 AAAAACCCTAAAC--CCTTAACTT
50207208 AAAAACCCTAAACCCTTAACTT
1 AAAAACCCTAAACCCTTAACTT
* **
50207230 AAAAACTCTAAACTAATTTAA-TT
1 AAAAACCCTAAAC--CCTTAACTT
50207253 AAAAACCCTAAACCCTTAAACTT
1 AAAAACCCTAAACCCTT-AACTT
**
50207276 AAAAACCCT-AACTAATTTAA-TT
1 AAAAACCCTAAAC--CCTTAACTT
*
50207298 GAAAACCCTAAACCCTTAACTT
1 AAAAACCCTAAACCCTTAACTT
*
50207320 AAAAACCCT-AACCCTCAACTT
1 AAAAACCCTAAACCCTTAACTT
*
50207341 AAAAA-CCTTAACCCTTAACTT
1 AAAAACCCTAAACCCTTAACTT
* ** *
50207362 TAAAACTTTAAA--CTAGAACTT
1 AAAAACCCTAAACCCT-TAACTT
* *
50207383 AAAAATCGT-AACCCTTAACTT
1 AAAAACCCTAAACCCTTAACTT
50207404 AAA
1 AAA
50207407 TTTATTTGAT
Statistics
Matches: 527, Mismatches: 68, Indels: 112
0.75 0.10 0.16
Matches are distributed among these distances:
14 2 0.00
15 3 0.01
16 13 0.02
17 4 0.01
18 4 0.01
19 3 0.01
20 29 0.06
21 121 0.23
22 158 0.30
23 176 0.33
24 14 0.03
ACGTcount: A:0.48, C:0.26, G:0.01, T:0.26
Consensus pattern (22 bp):
AAAAACCCTAAACCCTTAACTT
Found at i:50206820 original size:67 final size:66
Alignment explanation
Indices: 50206734--50207330 Score: 393
Period size: 67 Copynumber: 8.8 Consensus size: 66
50206724 GTTATTACTA
50206734 AAAAACCCTAAACCCTTAAAATTAAAAATCCTAAACCCTTAACTT-AAAACCCTAAACTAATTTA
1 AAAAACCCTAAACCCTT-AAATTAAAAA-CCTAAACCCTTAACTTAAAAACCCTAAACTAATTTA
50206798 ATT
64 ATT
* * * **
50206801 AAAAACCCTAAGCCTTTAAAATTAAAAACCCTAAACCCTTAACTTAAAAA-CCTTAAC--CCTTA
1 AAAAACCCTAAACCCTT-AAATTAAAAA-CCTAAACCCTTAACTTAAAAACCCTAAACTAATTTA
50206863 ACTT
64 A-TT
* **
50206867 -AAAACCCT-AACCCTTAAAATTAAAAACCCTAAACCCTTAAAATTAAAAACCCTAAAC-CCTTA
1 AAAAACCCTAAACCCTT-AAATTAAAAA-CCTAAACCCTT-AACTTAAAAACCCTAAACTAATT-
*
50206929 AAATT
62 TAATT
* * ** **
50206934 AAAAACCATAAACCCTTAACTTAAAAACTCTAAACAATTTAA-TTAAAAACCCTAAAC---CCTA
1 AAAAACCCTAAACCCTTAAATTAAAAAC-CTAAAC-CCTTAACTTAAAAACCCTAAACTAATTTA
**
50206995 AAC
64 ATT
*** * * ** * *
50206998 CCTAACCCTTAA--CTTAAAAACTCTAAAACCCTAAACTAATTTAAACCT-AAAACCTTAAACCT
1 AAAAACCCTAAACCCTT--AAA-T-TAAAAACCTAAAC--CCTT-AACTTAAAAACCCTAAA-C-
*
50207060 TAAACCCTTAAACTT
57 T-AA---TTTAA-TT
* *
50207075 AAAAACCCT-AACCCTTAACTTAAAAACCTTAAACCCTTAACTTAAAAACTCTAAACTAATTTAA
1 AAAAACCCTAAACCCTTAAATTAAAAACC-TAAACCCTTAACTTAAAAACCCTAAACTAATTTAA
50207139 TT
65 TT
* * *
50207141 AAAAACCCTAAACCCTTAACTTAAAAACCCTAACCCCTTAACTTAAAAACCTTAAACTAATTTAA
1 AAAAACCCTAAACCCTTAAATTAAAAA-CCTAAACCCTTAACTTAAAAACCCTAAACTAATTTAA
50207206 TT
65 TT
* ** ** *
50207208 AAAAACCCTAAACCCTTAACTTAAAAACTCTAAACTAATTTAA-TTAAAAACCCTAAAC-CCTTA
1 AAAAACCCTAAACCCTTAAATTAAAAAC-CTAAAC--CCTTAACTTAAAAACCCTAAACTAATTT
50207271 AACTT
63 AA-TT
** * *
50207276 AAAAACCCT-AACTAATTTAATTGAAAACCCTAAACCCTTAACTTAAAAACCCTAA
1 AAAAACCCTAAAC-CCTTAAATT-AAAAACCTAAACCCTTAACTTAAAAACCCTAA
50207331 CCCTCAACTT
Statistics
Matches: 427, Mismatches: 63, Indels: 80
0.75 0.11 0.14
Matches are distributed among these distances:
62 3 0.01
64 39 0.09
65 28 0.07
66 35 0.08
67 187 0.44
68 70 0.16
69 18 0.04
70 2 0.00
71 1 0.00
72 5 0.01
73 11 0.03
74 7 0.02
75 6 0.01
76 6 0.01
77 6 0.01
78 3 0.01
ACGTcount: A:0.48, C:0.26, G:0.00, T:0.26
Consensus pattern (66 bp):
AAAAACCCTAAACCCTTAAATTAAAAACCTAAACCCTTAACTTAAAAACCCTAAACTAATTTAAT
T
Found at i:50206849 original size:45 final size:44
Alignment explanation
Indices: 50206734--50207406 Score: 525
Period size: 45 Copynumber: 15.6 Consensus size: 44
50206724 GTTATTACTA
* *
50206734 AAAAACCCTAAACCCTTAAAATTAAAAATCCTAAACCCTTAACTT
1 AAAAACCCTAAACCCTT-AACTTAAAAACCCTAAACCCTTAACTT
** * * *
50206779 -AAAACCCTAAACTAATTTAA-TTAAAAACCCTAAGCCTTTAAAATT
1 AAAAACCCTAAAC--CCTTAACTTAAAAACCCTAAACCCTT-AACTT
*
50206824 AAAAACCCTAAACCCTTAACTTAAAAA-CCTTAACCCTTAACTT
1 AAAAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTT
* *
50206867 -AAAACCCT-AACCCTTAAAATTAAAAACCCTAAACCCTTAAAATT
1 AAAAACCCTAAACCCTT-AACTTAAAAACCCTAAACCCTT-AACTT
* *
50206911 AAAAACCCTAAACCCTTAAAATTAAAAACCATAAACCCTTAACTT
1 AAAAACCCTAAACCCTT-AACTTAAAAACCCTAAACCCTTAACTT
* **
50206956 AAAAACTCTAAACAATTTAA-TTAAAAACCCTAAA-CC----C-T
1 AAAAACCCTAAAC-CCTTAACTTAAAAACCCTAAACCCTTAACTT
* *
50206994 --AAACCCT-AACCCTTAACTTAAAAACTCTAAAACCCTAAAC-T
1 AAAAACCCTAAACCCTTAACTTAAAAACCCT-AAACCCTTAACTT
* *
50207035 AATTTAAA-CCTAAA-----ACCTT--AAACCTTAAACCCTTAAACTT
1 AA---AAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTT-AACTT
*
50207075 AAAAACCCT-AACCCTTAACTTAAAAACCTTAAACCCTTAACTT
1 AAAAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTT
* **
50207118 AAAAACTCTAAACTAATTTAA-TTAAAAACCCTAAACCCTTAACTT
1 AAAAACCCTAAAC--CCTTAACTTAAAAACCCTAAACCCTTAACTT
* * **
50207163 AAAAACCCTAACCCCTTAACTTAAAAACCTTAAACTAATTTAA-TT
1 AAAAACCCTAAACCCTTAACTTAAAAACCCTAAAC--CCTTAACTT
* **
50207208 AAAAACCCTAAACCCTTAACTTAAAAACTCTAAACTAATTTAA-TT
1 AAAAACCCTAAACCCTTAACTTAAAAACCCTAAAC--CCTTAACTT
**
50207253 AAAAACCCTAAACCCTTAAACTTAAAAACCCT-AACTAATTTAA-TT
1 AAAAACCCTAAACCCTT-AACTTAAAAACCCTAAAC--CCTTAACTT
* *
50207298 GAAAACCCTAAACCCTTAACTTAAAAACCCT-AACCCTCAACTT
1 AAAAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTT
* * ** *
50207341 AAAAA-CCTTAACCCTTAACTTTAAAACTTTAAA--CTAGAACTT
1 AAAAACCCTAAACCCTTAACTTAAAAACCCTAAACCCT-TAACTT
* *
50207383 AAAAATCGT-AACCCTTAACTTAAA
1 AAAAACCCTAAACCCTTAACTTAAA
50207407 TTTATTTGAT
Statistics
Matches: 526, Mismatches: 57, Indels: 93
0.78 0.08 0.14
Matches are distributed among these distances:
34 4 0.01
35 13 0.02
36 9 0.02
37 7 0.01
38 11 0.02
39 9 0.02
40 3 0.01
41 15 0.03
42 69 0.13
43 43 0.08
44 106 0.20
45 166 0.32
46 71 0.13
ACGTcount: A:0.48, C:0.26, G:0.01, T:0.26
Consensus pattern (44 bp):
AAAAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTT
Found at i:50207050 original size:7 final size:7
Alignment explanation
Indices: 50207038--50207077 Score: 55
Period size: 7 Copynumber: 5.7 Consensus size: 7
50207028 CTAAACTAAT
50207038 TTAAACC
1 TTAAACC
*
50207045 TAAAACC
1 TTAAACC
50207052 TTAAACC
1 TTAAACC
50207059 TTAAACCC
1 TTAAA-CC
50207067 TTAAA-C
1 TTAAACC
50207073 TTAAA
1 TTAAA
50207078 AACCCTAACC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
6 6 0.20
7 17 0.57
8 7 0.23
ACGTcount: A:0.47, C:0.25, G:0.00, T:0.28
Consensus pattern (7 bp):
TTAAACC
Found at i:50207057 original size:14 final size:14
Alignment explanation
Indices: 50207038--50207078 Score: 55
Period size: 15 Copynumber: 2.9 Consensus size: 14
50207028 CTAAACTAAT
50207038 TTAAACCTAAAACC
1 TTAAACCTAAAACC
*
50207052 TTAAACCTTAAACCC
1 TTAAACC-TAAAACC
*
50207067 TTAAACTTAAAA
1 TTAAACCTAAAA
50207079 ACCCTAACCC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
14 11 0.48
15 12 0.52
ACGTcount: A:0.49, C:0.24, G:0.00, T:0.27
Consensus pattern (14 bp):
TTAAACCTAAAACC
Found at i:50207372 original size:21 final size:21
Alignment explanation
Indices: 50206734--50207406 Score: 278
Period size: 22 Copynumber: 31.1 Consensus size: 21
50206724 GTTATTACTA
* *
50206734 AAAAACCCTAAACCCTTAAAATT
1 AAAAA-CCTTAACCCTT-AACTT
*
50206757 AAAAATCCTAAACCCTTAACTT
1 AAAAA-CCTTAACCCTTAACTT
* * **
50206779 AAAACCCTAAACTAATTTAA-TT
1 AAAAACCTTAAC--CCTTAACTT
* * *
50206801 AAAAACCCTAAGCCTTTAAAATT
1 AAAAACCTTAA-CCCTT-AACTT
*
50206824 AAAAACCCTAAACCCTTAACTT
1 AAAAA-CCTTAACCCTTAACTT
50206846 AAAAACCTTAACCCTTAACTT
1 AAAAACCTTAACCCTTAACTT
* *
50206867 -AAAACCCTAACCCTTAAAATT
1 AAAAACCTTAACCCTT-AACTT
* *
50206888 AAAAACCCTAAACCCTTAAAATT
1 AAAAA-CCTTAACCCTT-AACTT
* *
50206911 AAAAACCCTAAACCCTTAAAATT
1 AAAAA-CCTTAACCCTT-AACTT
*
50206934 AAAAACCATAAACCCTTAACTT
1 AAAAACC-TTAACCCTTAACTT
* **
50206956 AAAAACTCTAAACAATTTAA-TT
1 AAAAAC-CTTAAC-CCTTAACTT
* * *
50206978 AAAAACCCTAAACCCTAAACCCT
1 AAAAA-CCTTAACCCTTAA-CTT
*
50207001 --AACCCTTAA--CTTAAAAACTCT
1 AAAAACCTTAACCCTT---AACT-T
* *
50207022 -AAAACCCTAA-AC-TAA-TT
1 AAAAACCTTAACCCTTAACTT
* * *
50207039 -TAAACCTAAAACCTTAAACCTT
1 AAAAACCTTAACCCTT-AA-CTT
*
50207061 -AAACCCTTAA------ACTT
1 AAAAACCTTAACCCTTAACTT
*
50207075 AAAAACCCTAACCCTTAACTT
1 AAAAACCTTAACCCTTAACTT
50207096 AAAAACCTTAAACCCTTAACTT
1 AAAAACCTT-AACCCTTAACTT
* **
50207118 AAAAACTCTAAACTAATTTAA-TT
1 AAAAAC-CTTAAC--CCTTAACTT
*
50207141 AAAAACCCTAAACCCTTAACTT
1 AAAAA-CCTTAACCCTTAACTT
*
50207163 AAAAACCCTAACCCCTTAACTT
1 AAAAACCTTAA-CCCTTAACTT
**
50207185 AAAAACCTTAAACTAATTTAA-TT
1 AAAAACCTT-AAC--CCTTAACTT
*
50207208 AAAAACCCTAAACCCTTAACTT
1 AAAAA-CCTTAACCCTTAACTT
* **
50207230 AAAAACTCTAAACTAATTTAA-TT
1 AAAAAC-CTTAAC--CCTTAACTT
*
50207253 AAAAACCCTAAACCCTTAAACTT
1 AAAAA-CCTTAACCCTT-AACTT
* **
50207276 AAAAACCCTAACTAATTTAA-TT
1 AAAAACCTTAAC--CCTTAACTT
* *
50207298 GAAAACCCTAAACCCTTAACTT
1 -AAAAACCTTAACCCTTAACTT
* *
50207320 AAAAACCCTAACCCTCAACTT
1 AAAAACCTTAACCCTTAACTT
50207341 AAAAACCTTAACCCTTAACTT
1 AAAAACCTTAACCCTTAACTT
* * * *
50207362 TAAAACTTTAA-ACTAGAACTT
1 AAAAACCTTAACCCT-TAACTT
* *
50207383 AAAAATCGTAACCCTTAACTT
1 AAAAACCTTAACCCTTAACTT
50207404 AAA
1 AAA
50207407 TTTATTTGAT
Statistics
Matches: 510, Mismatches: 83, Indels: 116
0.72 0.12 0.16
Matches are distributed among these distances:
14 3 0.01
15 9 0.02
17 8 0.02
18 4 0.01
19 3 0.01
20 24 0.05
21 133 0.26
22 153 0.30
23 150 0.29
24 23 0.05
ACGTcount: A:0.48, C:0.26, G:0.01, T:0.26
Consensus pattern (21 bp):
AAAAACCTTAACCCTTAACTT
Found at i:50211851 original size:15 final size:15
Alignment explanation
Indices: 50211827--50211859 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
50211817 TGTATACTTG
50211827 TATATATGTGTTAGA
1 TATATATGTGTTAGA
*
50211842 TATATGTGTGTTAGA
1 TATATATGTGTTAGA
50211857 TAT
1 TAT
50211860 GTTTGCAACT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.30, C:0.00, G:0.21, T:0.48
Consensus pattern (15 bp):
TATATATGTGTTAGA
Found at i:50215407 original size:20 final size:20
Alignment explanation
Indices: 50215382--50215421 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
50215372 TTCACCTCAT
50215382 GCATCGCATCATATGCATTA
1 GCATCGCATCATATGCATTA
*
50215402 GCATCGCATTATATGCATTA
1 GCATCGCATCATATGCATTA
50215422 AAGACCTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.33
Consensus pattern (20 bp):
GCATCGCATCATATGCATTA
Found at i:50223721 original size:90 final size:90
Alignment explanation
Indices: 50223458--50224127 Score: 954
Period size: 90 Copynumber: 7.5 Consensus size: 90
50223448 GATCGAATAT
* * * * * *
50223458 ACAGATCTTATCTTCCCATACTGGTGGTGAAGTAGA-TCAAAAAAAGCAGATCTTGTCTTCATGT
1 ACAGATCTTGTCTCCCCATACTGGTGGTGGAGCAGATTGAAGAAAAGCAGATCTTGTCTTCATGT
50223522 ACTGGCGTGAAGTAGATCAAAGA-A
66 ACTGGCGTGAAGTAGATCAAAGATA
* * * * *
50223546 ACCAGATCTTGTGTTCCCATACTGGTGGCGAAGCAGATCGAAGAAAA-CAGATCTTGTCTTCATG
1 A-CAGATCTTGTCTCCCCATACTGGTGGTGGAGCAGATTGAAGAAAAGCAGATCTTGTCTTCATG
*
50223610 TACTGGCGTGAAGTAGATCAAAGGTA
65 TACTGGCGTGAAGTAGATCAAAGATA
* *
50223636 ACAGATCTTGCCTCCCCATACTGGTGGTGGAGCAGATTGAAAAAAAGCAGATCTTGTCTTCATGT
1 ACAGATCTTGTCTCCCCATACTGGTGGTGGAGCAGATTGAAGAAAAGCAGATCTTGTCTTCATGT
*
50223701 ACTAGCGTGAAGTAGATCAAAGATA
66 ACTGGCGTGAAGTAGATCAAAGATA
* * * * * ** *
50223726 CCAGATATTGTCTTCCCATACTGGTGGCGAAGCAGATCAAAGGAAA-CAGATCTTGTCTTCATGT
1 ACAGATCTTGTCTCCCCATACTGGTGGTGGAGCAGATTGAAGAAAAGCAGATCTTGTCTTCATGT
*
50223790 ACTGGCGTGAAGTAGATCAAAGGTA
66 ACTGGCGTGAAGTAGATCAAAGATA
*
50223815 ACAGATCTTGCCTCCCCATACTGGTGGTGGAGCAGATTGAAGAAAAGCAGATCTTGTCTTCATGT
1 ACAGATCTTGTCTCCCCATACTGGTGGTGGAGCAGATTGAAGAAAAGCAGATCTTGTCTTCATGT
50223880 ACTGGCGTGAAGTAGATCAAAGATA
66 ACTGGCGTGAAGTAGATCAAAGATA
* *
50223905 CCAGATCTTGCCTCCCCATACTGGTGGTGGAGCAGATTGAAGAAAAGCAGATCTTGTCTTCATGT
1 ACAGATCTTGTCTCCCCATACTGGTGGTGGAGCAGATTGAAGAAAAGCAGATCTTGTCTTCATGT
* * *
50223970 ACTAGCGTGAAATAGATCAAAAATA
66 ACTGGCGTGAAGTAGATCAAAGATA
*
50223995 CCAGATCTTGTCTCCCCATACTGGTGGTGGAGCAGATTGAAGAAAAGCAGATCTTGTCTTCATGT
1 ACAGATCTTGTCTCCCCATACTGGTGGTGGAGCAGATTGAAGAAAAGCAGATCTTGTCTTCATGT
* * *
50224060 A-TCGGCATGAAGTAGATCAAATACA
66 ACT-GGCGTGAAGTAGATCAAAGATA
* **
50224085 ACAGATATTGTCTCCCCATACTGGTGGTGGAATAGATTGAAGA
1 ACAGATCTTGTCTCCCCATACTGGTGGTGGAGCAGATTGAAGA
50224128 TTACAGATCT
Statistics
Matches: 523, Mismatches: 53, Indels: 10
0.89 0.09 0.02
Matches are distributed among these distances:
88 1 0.00
89 188 0.36
90 334 0.64
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (90 bp):
ACAGATCTTGTCTCCCCATACTGGTGGTGGAGCAGATTGAAGAAAAGCAGATCTTGTCTTCATGT
ACTGGCGTGAAGTAGATCAAAGATA
Found at i:50223721 original size:179 final size:179
Alignment explanation
Indices: 50223458--50224111 Score: 990
Period size: 179 Copynumber: 3.7 Consensus size: 179
50223448 GATCGAATAT
** * * * *
50223458 ACAGATCTTATCTTCCCATACTGGTGGTGAAGTAGA-TCAAAAAAAGCAGATCTTGTCTTCATGT
1 ACAGATCTTGCCTCCCCATACTGGTGGTGGAGCAGATTGAAAAAAAGCAGATCTTGTCTTCATGT
* * *
50223522 ACTGGCGTGAAGTAGATCAAAGAAACCAGATCTTGTGTTCCCATACTGGTGGCGAAGCAGATCGA
66 ACTGGCGTGAAGTAGATCAAAGAAACCAGATATTGTCTCCCCATACTGGTGGCGAAGCAGATCGA
50223587 AGAAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGGTA
131 AGAAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGGTA
50223636 ACAGATCTTGCCTCCCCATACTGGTGGTGGAGCAGATTGAAAAAAAGCAGATCTTGTCTTCATGT
1 ACAGATCTTGCCTCCCCATACTGGTGGTGGAGCAGATTGAAAAAAAGCAGATCTTGTCTTCATGT
* * * *
50223701 ACTAGCGTGAAGTAGATCAAAGATACCAGATATTGTCTTCCCATACTGGTGGCGAAGCAGATCAA
66 ACTGGCGTGAAGTAGATCAAAGAAACCAGATATTGTCTCCCCATACTGGTGGCGAAGCAGATCGA
*
50223766 AGGAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGGTA
131 AGAAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGGTA
*
50223815 ACAGATCTTGCCTCCCCATACTGGTGGTGGAGCAGATTGAAGAAAAGCAGATCTTGTCTTCATGT
1 ACAGATCTTGCCTCCCCATACTGGTGGTGGAGCAGATTGAAAAAAAGCAGATCTTGTCTTCATGT
* * * * * *
50223880 ACTGGCGTGAAGTAGATCAAAGATACCAGATCTTGCCTCCCCATACTGGTGGTGGAGCAGATTGA
66 ACTGGCGTGAAGTAGATCAAAGAAACCAGATATTGTCTCCCCATACTGGTGGCGAAGCAGATCGA
* * **
50223945 AGAAAAGCAGATCTTGTCTTCATGTACTAGCGTGAAATAGATCAAAAATA
131 AGAAAA-CAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGGTA
* * *
50223995 CCAGATCTTGTCTCCCCATACTGGTGGTGGAGCAGATTGAAGAAAAGCAGATCTTGTCTTCATGT
1 ACAGATCTTGCCTCCCCATACTGGTGGTGGAGCAGATTGAAAAAAAGCAGATCTTGTCTTCATGT
* *
50224060 A-TCGGCATGAAGTAGATCAAATACAA-CAGATATTGTCTCCCCATACTGGTGG
66 ACT-GGCGTGAAGTAGATCAAAGA-AACCAGATATTGTCTCCCCATACTGGTGG
50224112 TGGAATAGAT
Statistics
Matches: 439, Mismatches: 33, Indels: 6
0.92 0.07 0.01
Matches are distributed among these distances:
178 31 0.07
179 262 0.60
180 145 0.33
181 1 0.00
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (179 bp):
ACAGATCTTGCCTCCCCATACTGGTGGTGGAGCAGATTGAAAAAAAGCAGATCTTGTCTTCATGT
ACTGGCGTGAAGTAGATCAAAGAAACCAGATATTGTCTCCCCATACTGGTGGCGAAGCAGATCGA
AGAAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGGTA
Found at i:50224215 original size:269 final size:269
Alignment explanation
Indices: 50223472--50224169 Score: 825
Period size: 269 Copynumber: 2.6 Consensus size: 269
50223462 ATCTTATCTT
* * *
50223472 CCCATACTGGTGGTGAAGTAGATCAAA-AAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTA
1 CCCATACTGGTGGCGAAGCAGATCAAAGAAAA-CAGATCTTGTCTTCATGTACTGGCATGAAGTA
* ** * * *
50223536 GATCAAAGA-AACCAGATCTTGTGTTCCCATACTGGTGG-CGAAGCAGATCGAAGAAAA-CAGAT
65 GATCAAAGACAA-CAGATATTGCCTCCCCATACTGGTGGTGGAA-CAGATTGAAGAAAAGCAGAT
* * * * * * * * * *
50223598 CTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGGTAACAGATCTTGCCTCCCCATACTGGTGG
128 CTTATCTCCATGAACAGGAGTGAAGCAGATCAAAGATACCAGATCTTACCTCCCCATACTGGTGA
* * * *
50223663 TGGAGCAGATTGAAAAAAAGCAGATCTTGTCTTCATGTACTAGCGTGAAGTAGATCAAAGATACC
193 TGGAGCACATTGAAGAAAAGCAGATCTTGTCTTCATGTACTAGCGTGAAATAGATCAAAAATACC
*
50223728 AGATATTGTCTT
258 AGATATTGTCTC
* *
50223740 CCCATACTGGTGGCGAAGCAGATCAAAGGAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAG
1 CCCATACTGGTGGCGAAGCAGATCAAAGAAAACAGATCTTGTCTTCATGTACTGGCATGAAGTAG
** * *
50223805 ATCAAAGGTAACAGATCTTGCCTCCCCATACTGGTGGTGGAGCAGATTGAAGAAAAGCAGATCTT
66 ATCAAAGACAACAGATATTGCCTCCCCATACTGGTGGTGGAACAGATTGAAGAAAAGCAGATCTT
* * * * * * * *
50223870 GTCTTCATGTACTGGCGTGAAGTAGATCAAAGATACCAGATCTTGCCTCCCCATACTGGTGGTGG
131 ATCTCCATGAACAGGAGTGAAGCAGATCAAAGATACCAGATCTTACCTCCCCATACTGGTGATGG
*
50223935 AGCAGATTGAAGAAAAGCAGATCTTGTCTTCATGTACTAGCGTGAAATAGATCAAAAATACCAGA
196 AGCACATTGAAGAAAAGCAGATCTTGTCTTCATGTACTAGCGTGAAATAGATCAAAAATACCAGA
*
50224000 TCTTGTCTC
261 TATTGTCTC
* * **
50224009 CCCATACTGGTGGTGGAGCAGATTGAAGAAAAGCAGATCTTGTCTTCATGTA-TCGGCATGAAGT
1 CCCATACTGGTGGCGAAGCAGATCAAAGAAAA-CAGATCTTGTCTTCATGTACT-GGCATGAAGT
* * * **
50224073 AGATCAAATACAACAGATATTGTCTCCCCATACTGGTGGTGGAATAGATTGAAGATTA-CAGATC
64 AGATCAAAGACAACAGATATTGCCTCCCCATACTGGTGGTGGAACAGATTGAAGAAAAGCAGATC
* * *
50224137 TTATCTCCCT-AAGCAGTAGTGGAGCAGATCAAA
129 TTATCTCCATGAA-CAGGAGTGAAGCAGATCAAA
50224170 TATGGTGGAT
Statistics
Matches: 382, Mismatches: 41, Indels: 13
0.88 0.09 0.03
Matches are distributed among these distances:
268 102 0.27
269 203 0.53
270 77 0.20
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (269 bp):
CCCATACTGGTGGCGAAGCAGATCAAAGAAAACAGATCTTGTCTTCATGTACTGGCATGAAGTAG
ATCAAAGACAACAGATATTGCCTCCCCATACTGGTGGTGGAACAGATTGAAGAAAAGCAGATCTT
ATCTCCATGAACAGGAGTGAAGCAGATCAAAGATACCAGATCTTACCTCCCCATACTGGTGATGG
AGCACATTGAAGAAAAGCAGATCTTGTCTTCATGTACTAGCGTGAAATAGATCAAAAATACCAGA
TATTGTCTC
Found at i:50224391 original size:132 final size:132
Alignment explanation
Indices: 50224111--50224384 Score: 494
Period size: 132 Copynumber: 2.1 Consensus size: 132
50224101 CATACTGGTG
*
50224111 GTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAATATGGT
1 GTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGT
* * * *
50224176 GGATTTTACCTCCCTGATGTTGCAATGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAA
66 GGATTTTACCTCCCTAAGGTTACAATGGAGTACATTGAAGCCAGTAATTCTATCTCCCGGGGCAA
50224241 CA
131 CA
50224243 GTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGT
1 GTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGT
*
50224308 GGATTTTACCTCCCTAAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCGGGGCAA
66 GGATTTTACCTCCCTAAGGTTACAATGGAGTACATTGAAGCCAGTAATTCTATCTCCCGGGGCAA
50224373 CA
131 CA
50224375 GTGGAATAGA
1 GTGGAATAGA
50224385 CAGAAGAAAT
Statistics
Matches: 136, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
132 136 1.00
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.27
Consensus pattern (132 bp):
GTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGT
GGATTTTACCTCCCTAAGGTTACAATGGAGTACATTGAAGCCAGTAATTCTATCTCCCGGGGCAA
CA
Found at i:50224420 original size:132 final size:131
Alignment explanation
Indices: 50224111--50224424 Score: 443
Period size: 132 Copynumber: 2.4 Consensus size: 131
50224101 CATACTGGTG
** * *
50224111 GTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAATATGGT
1 GTGGAATAGACAGAAGATTA-AGATCCTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGT
* * * *
50224176 GGATTTTACCTCCCTGATGTTGCAATGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAA
65 GGATTTTACCTCCCTAAGGTTACAATGGAGTACATTGAAGCCAGTAATTCTATCTCCCGGGGCAA
50224241 CA
130 CA
** *
50224243 GTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGT
1 GTGGAATAGACAGAAGATTA-AGATCCTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGT
*
50224308 GGATTTTACCTCCCTAAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCGGGGCAA
65 GGATTTTACCTCCCTAAGGTTACAATGGAGTACATTGAAGCCAGTAATTCTATCTCCCGGGGCAA
50224373 CA
130 CA
**
50224375 GTGGAATAGACAGAAGAAATT-A-ATCCTATCTCCCTGAAGTTGTAGTGGAG
1 GTGGAATAGACAGAAG--ATTAAGATCCTATCTCCCT-AAGCAGTAGTGGAG
50224425 TGGATTAAAA
Statistics
Matches: 168, Mismatches: 11, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
131 12 0.07
132 153 0.91
134 3 0.02
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (131 bp):
GTGGAATAGACAGAAGATTAAGATCCTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTG
GATTTTACCTCCCTAAGGTTACAATGGAGTACATTGAAGCCAGTAATTCTATCTCCCGGGGCAAC
A
Found at i:50226349 original size:13 final size:13
Alignment explanation
Indices: 50226331--50226360 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
50226321 GTATACTTGT
50226331 ATATATGTGTTAG
1 ATATATGTGTTAG
50226344 ATATATGTGTTAG
1 ATATATGTGTTAG
50226357 ATAT
1 ATAT
50226361 GTTTTCAACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.33, C:0.00, G:0.20, T:0.47
Consensus pattern (13 bp):
ATATATGTGTTAG
Found at i:50226404 original size:14 final size:14
Alignment explanation
Indices: 50226385--50226423 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
50226375 TGTTATATTG
50226385 TATTTGTATATATA
1 TATTTGTATATATA
* *
50226399 TATTTGTAAATATT
1 TATTTGTATATATA
*
50226413 TATTCGTATAT
1 TATTTGTATAT
50226424 GTTGTAAATT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.03, G:0.08, T:0.56
Consensus pattern (14 bp):
TATTTGTATATATA
Found at i:50226551 original size:19 final size:20
Alignment explanation
Indices: 50226510--50226551 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
50226500 ACCATTCATC
* *
50226510 AAGGTTATTTTCTTGATTCA
1 AAGGTTATTTTCTTGAATAA
*
50226530 AAGGTT-TTTTTTTGAATAA
1 AAGGTTATTTTCTTGAATAA
50226549 AAG
1 AAG
50226552 CATTATTGGA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.31, C:0.05, G:0.17, T:0.48
Consensus pattern (20 bp):
AAGGTTATTTTCTTGAATAA
Found at i:50227640 original size:125 final size:125
Alignment explanation
Indices: 50227418--50227795 Score: 621
Period size: 125 Copynumber: 3.0 Consensus size: 125
50227408 CCCAAACATG
* * *
50227418 CTACTATAGCAAAAGCGCGTTCACGAGGGCGCGCTTTCACAAATTCTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
*
50227483 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCATGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGAC
* * *
50227543 CTACTGTTGTAAAAGCGCGTCCACGAGGGCACGATTTCACAAATTCTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
*
50227608 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAACTCAAAATTATTTCTTCCAGGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGAC
* * * * *
50227668 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAAATCTTATCAAACAGCATTCTAC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
* *
50227733 TAGAAGCGATTTTGTACTATTTGATCAGAAACGTCAACTCGAAATTATTTCTTCCAGGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGAC
50227793 CTA
1 CTA
50227796 AAATCCCTAA
Statistics
Matches: 234, Mismatches: 19, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
125 234 1.00
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.29
Consensus pattern (125 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGAC
Found at i:50236265 original size:18 final size:18
Alignment explanation
Indices: 50236242--50236279 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
50236232 ATTCGGGTAA
50236242 AACCGAAAAAATTCGGTT
1 AACCGAAAAAATTCGGTT
**
50236260 AACCGACCAAATTCGGTT
1 AACCGAAAAAATTCGGTT
50236278 AA
1 AA
50236280 TCGGTCGGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.42, C:0.21, G:0.16, T:0.21
Consensus pattern (18 bp):
AACCGAAAAAATTCGGTT
Found at i:50236290 original size:30 final size:30
Alignment explanation
Indices: 50236254--50236325 Score: 144
Period size: 30 Copynumber: 2.4 Consensus size: 30
50236244 CCGAAAAAAT
50236254 TCGGTTAACCGACCAAATTCGGTTAATCGG
1 TCGGTTAACCGACCAAATTCGGTTAATCGG
50236284 TCGGTTAACCGACCAAATTCGGTTAATCGG
1 TCGGTTAACCGACCAAATTCGGTTAATCGG
50236314 TCGGTTAACCGA
1 TCGGTTAACCGA
50236326 ATTTTTTCGG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 42 1.00
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.26
Consensus pattern (30 bp):
TCGGTTAACCGACCAAATTCGGTTAATCGG
Found at i:50236655 original size:9 final size:9
Alignment explanation
Indices: 50236639--50236699 Score: 104
Period size: 9 Copynumber: 6.8 Consensus size: 9
50236629 GGTATTTTTC
50236639 GGTAATTCG
1 GGTAATTCG
*
50236648 GTTAATTCG
1 GGTAATTCG
*
50236657 GGAAATTCG
1 GGTAATTCG
50236666 GGTAATTCG
1 GGTAATTCG
50236675 GGTAATTCG
1 GGTAATTCG
50236684 GGTAATTCG
1 GGTAATTCG
50236693 GGTAATT
1 GGTAATT
50236700 TTTAACCAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 48 1.00
ACGTcount: A:0.25, C:0.10, G:0.31, T:0.34
Consensus pattern (9 bp):
GGTAATTCG
Found at i:50240968 original size:22 final size:20
Alignment explanation
Indices: 50240917--50240968 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 20
50240907 TTTTACAATA
50240917 TTTATTTAAAACTTGTTTAT
1 TTTATTTAAAACTTGTTTAT
50240937 TATTATTTTAAAA-TTGTTCTACAT
1 T-TTA-TTTAAAACTTGTT-T--AT
50240961 TTTATTTA
1 TTTATTTA
50240969 TTTTAATTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
20 1 0.04
21 8 0.30
22 12 0.44
23 3 0.11
24 3 0.11
ACGTcount: A:0.31, C:0.06, G:0.04, T:0.60
Consensus pattern (20 bp):
TTTATTTAAAACTTGTTTAT
Found at i:50244865 original size:5 final size:5
Alignment explanation
Indices: 50244855--50244884 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
50244845 TTCATGCATC
50244855 TACAT TACAT TACAT TACAT TACAT TACAT
1 TACAT TACAT TACAT TACAT TACAT TACAT
50244885 GCATTAAGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.40, C:0.20, G:0.00, T:0.40
Consensus pattern (5 bp):
TACAT
Found at i:50249073 original size:22 final size:20
Alignment explanation
Indices: 50249022--50249073 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 20
50249012 TTTTACAATA
50249022 TTTATTTAAAACTTGTTTAT
1 TTTATTTAAAACTTGTTTAT
50249042 TATTATTTTAAAA-TTGTTCTACAT
1 T-TTA-TTTAAAACTTGTT-T--AT
50249066 TTTATTTA
1 TTTATTTA
50249074 TTTTAATTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
20 1 0.04
21 8 0.30
22 12 0.44
23 3 0.11
24 3 0.11
ACGTcount: A:0.31, C:0.06, G:0.04, T:0.60
Consensus pattern (20 bp):
TTTATTTAAAACTTGTTTAT
Found at i:50251222 original size:18 final size:19
Alignment explanation
Indices: 50251199--50251234 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
50251189 GATCATTCTG
50251199 ATTTG-TTTCGTTATTTTA
1 ATTTGTTTTCGTTATTTTA
*
50251217 ATTTGTTTTCTTTATTTT
1 ATTTGTTTTCGTTATTTT
50251235 CTGAATTTCC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.14, C:0.06, G:0.08, T:0.72
Consensus pattern (19 bp):
ATTTGTTTTCGTTATTTTA
Found at i:50254530 original size:15 final size:15
Alignment explanation
Indices: 50254510--50254542 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
50254500 TCGAGAAGAA
50254510 AGAAACAAGTCAGAC
1 AGAAACAAGTCAGAC
50254525 AGAAACAAGTCAGAC
1 AGAAACAAGTCAGAC
50254540 AGA
1 AGA
50254543 TAGGAAAGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.55, C:0.18, G:0.21, T:0.06
Consensus pattern (15 bp):
AGAAACAAGTCAGAC
Found at i:50263852 original size:169 final size:168
Alignment explanation
Indices: 50263618--50264610 Score: 1353
Period size: 169 Copynumber: 5.9 Consensus size: 168
50263608 AGTAGATTAA
** * * * * *
50263618 AGCTGAAGTGGAATGAATTAAAGATGTGGGTAGCGGATCCTATCTCTTTGGCATTACCCTGGAAC
1 AGCTGAAGTGGAGCGGATTAAAGCTGTGGGCAGCGAATCCTATCTCTTTGGCATTACCGTGGAAC
* *
50263683 AGATTAAAGCTAAAGGTAGCGAATCTTGTTTCCTGGGTGCTGCAGTGGAGCAGATTAAAGCTGAG
66 AGATTAAAGCTAAAGGTAGCGAATCTTGTTTCCTGGGCG-TGCAGCGGAGCAGATTAAAGCTGAG
* **
50263748 GGTAGCGAATCTTATCTCCCTGGCGTTAAGACTTACAAT
130 GGCAGCGAATCTTATCTCCCTGGCGTTAAGACTTGGAAT
* * * *
50263787 AGCTGAAATGGAGCGGATTAAAGCTGTCGGCAGTGAATCCTATCTCTTTGGCATTATCGTGGAAC
1 AGCTGAAGTGGAGCGGATTAAAGCTGTGGGCAGCGAATCCTATCTCTTTGGCATTACCGTGGAAC
* * * *
50263852 AAATTAAAGCTAAAGGTAGCGAATCTTATTTCAC-GAGCGCTGCAGTGGAGCAGATTAAAGCTGA
66 AGATTAAAGCTAAAGGTAGCGAATCTTGTTTC-CTGGGCG-TGCAGCGGAGCAGATTAAAGCTGA
*
50263916 GGGCAGCGAATCTTATCTCCCTGACGTTAAGACTTGGAAT
129 GGGCAGCGAATCTTATCTCCCTGGCGTTAAGACTTGGAAT
* * *
50263956 AGCTGAAGTGGAGCGGATTAAAACTGTGGGCAGCAAATCCTATCTCTTTGGCATTACCGTGGAAT
1 AGCTGAAGTGGAGCGGATTAAAGCTGTGGGCAGCGAATCCTATCTCTTTGGCATTACCGTGGAAC
**
50264021 AGATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCAGGCGTTGCAGCGGAGCAGATTAAAGCTGAG
66 AGATTAAAGCTAAAGGTAGCGAATCTTGTTTCCTGGGCG-TGCAGCGGAGCAGATTAAAGCTGAG
*
50264086 GGTAGCGAATCTTATCTCCCTGGCGTTAAGACTTGGAAT
130 GGCAGCGAATCTTATCTCCCTGGCGTTAAGACTTGGAAT
*
50264125 AGCTGAAGTGGAGTGGATTAAAGCTGTGGGCAGCGAATCCTATCTCTTTGGCATTACCGTGGAAC
1 AGCTGAAGTGGAGCGGATTAAAGCTGTGGGCAGCGAATCCTATCTCTTTGGCATTACCGTGGAAC
* * * * ** * *
50264190 AAATTAAAGCTAAAGATAGCGAATCTTGTTTCCCGGGCGTTACAATGGAGCAGATTAAAACTAAG
66 AGATTAAAGCTAAAGGTAGCGAATCTTGTTTCCTGGGCG-TGCAGCGGAGCAGATTAAAGCTGAG
* * *
50264255 GACAGTGAATCTTATCTCTCTGGCGTTAAGACTTGGAAT
130 GGCAGCGAATCTTATCTCCCTGGCGTTAAGACTTGGAAT
* * * * *
50264294 AGCTGAAGCGGAGCGGATTAAAGCTGTGGGCAGCGAATCCTATCTTTTTGGCATTACTGTGAAAA
1 AGCTGAAGTGGAGCGGATTAAAGCTGTGGGCAGCGAATCCTATCTCTTTGGCATTACCGTGGAAC
* * * *
50264359 ATATTAAAGCTAAAGGTGGCGAGTCTTGTTTTCCT-GGCGTTGCAGCAGAGCAGATTAAAGCTGA
66 AGATTAAAGCTAAAGGTAGCGAATCTTG-TTTCCTGGGCG-TGCAGCGGAGCAGATTAAAGCTGA
* *
50264423 GGGCAGCAAATCTTATCTCCCTCGCGTTAAGACTTGGAAT
129 GGGCAGCGAATCTTATCTCCCTGGCGTTAAGACTTGGAAT
* * *
50264463 AGCTGAAGTGGAGCGGATTAAAGCTGTGGGCAGCGAATCCTATCTCTTTGGCGTTACAGTAGAAC
1 AGCTGAAGTGGAGCGGATTAAAGCTGTGGGCAGCGAATCCTATCTCTTTGGCATTACCGTGGAAC
* * * *
50264528 AGATTAAGGCTAAAGGTAGCGAATCTGGTTTCCCT-GGCGTGGTAGCGGAGTAGATTAAAGCTGA
66 AGATTAAAGCTAAAGGTAGCGAATCTTGTTT-CCTGGGCGT-GCAGCGGAGCAGATTAAAGCTGA
* *
50264592 AGGCAGCGAATCTCATCTC
129 GGGCAGCGAATCTTATCTC
50264611 TCCAGCATTA
Statistics
Matches: 729, Mismatches: 90, Indels: 10
0.88 0.11 0.01
Matches are distributed among these distances:
168 5 0.01
169 718 0.98
170 6 0.01
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.26
Consensus pattern (168 bp):
AGCTGAAGTGGAGCGGATTAAAGCTGTGGGCAGCGAATCCTATCTCTTTGGCATTACCGTGGAAC
AGATTAAAGCTAAAGGTAGCGAATCTTGTTTCCTGGGCGTGCAGCGGAGCAGATTAAAGCTGAGG
GCAGCGAATCTTATCTCCCTGGCGTTAAGACTTGGAAT
Found at i:50264736 original size:41 final size:41
Alignment explanation
Indices: 50264681--50264771 Score: 137
Period size: 41 Copynumber: 2.2 Consensus size: 41
50264671 AAACCACAGA
* ** *
50264681 TCTTATCTCTCTGAAGTTGCAGTAGAGCATATCGTGTCCAG
1 TCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCAAG
*
50264722 TCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCGCATCAAG
1 TCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCAAG
50264763 TCTTATCTC
1 TCTTATCTC
50264772 CCTAAAATGA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 45 1.00
ACGTcount: A:0.23, C:0.22, G:0.20, T:0.35
Consensus pattern (41 bp):
TCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCAAG
Found at i:50266180 original size:3 final size:3
Alignment explanation
Indices: 50266172--50266265 Score: 88
Period size: 3 Copynumber: 31.3 Consensus size: 3
50266162 AGCTTGCTAC
*
50266172 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TACT CTAT TGT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T -TAT TAT TAT
* * *
50266219 TAT T-T TCAT TA- TAT TA- TAT T-T TAC TAT TAT TCT TAG TAT TAT
1 TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
50266261 ATAT T
1 -TAT T
50266266 TGTTTATATT
Statistics
Matches: 75, Mismatches: 8, Indels: 16
0.76 0.08 0.16
Matches are distributed among these distances:
2 8 0.11
3 58 0.77
4 7 0.09
5 2 0.03
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:50269523 original size:13 final size:13
Alignment explanation
Indices: 50269505--50269530 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
50269495 ACTAGAGAGT
50269505 CAATTTTTTTATA
1 CAATTTTTTTATA
50269518 CAATTTTTTTATA
1 CAATTTTTTTATA
50269531 AATATATAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.08, G:0.00, T:0.62
Consensus pattern (13 bp):
CAATTTTTTTATA
Found at i:50271794 original size:27 final size:27
Alignment explanation
Indices: 50271763--50271817 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
50271753 TTAACCAATG
50271763 TAGGATATACCCACTACCAACAATCCT
1 TAGGATATACCCACTACCAACAATCCT
50271790 TAGGATATACCCACTACCAACAATCCT
1 TAGGATATACCCACTACCAACAATCCT
50271817 T
1 T
50271818 TGCATATTAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.36, C:0.33, G:0.07, T:0.24
Consensus pattern (27 bp):
TAGGATATACCCACTACCAACAATCCT
Found at i:50271824 original size:27 final size:27
Alignment explanation
Indices: 50271767--50271824 Score: 98
Period size: 27 Copynumber: 2.1 Consensus size: 27
50271757 CCAATGTAGG
*
50271767 ATATACCCACTACCAACAATCCTTAGG
1 ATATACCCACTACCAACAATCCTTAGC
*
50271794 ATATACCCACTACCAACAATCCTTTGC
1 ATATACCCACTACCAACAATCCTTAGC
50271821 ATAT
1 ATAT
50271825 TACCAACAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.36, C:0.33, G:0.05, T:0.26
Consensus pattern (27 bp):
ATATACCCACTACCAACAATCCTTAGC
Found at i:50272428 original size:82 final size:81
Alignment explanation
Indices: 50272288--50272444 Score: 244
Period size: 82 Copynumber: 1.9 Consensus size: 81
50272278 TTTAGATTTG
** * * *
50272288 ATGAATTCATCAAGTCTGTCTCAATAGGACCACCCAAACTTTGGGCTATGAACTCATTAAGAGTA
1 ATGAATTCATCAAGTCCATCTCAATAGGACCACCCAAAATCTAGGCTATGAACTCATTAAGAGTA
50272353 ATAAACTCAACAAGTCA
66 AT-AACTCAACAAGTCA
50272370 ATGAATTCATCAAGTCCATCTCAATAGGACCACCCAAAATCTAGGCTATGAA-TCCATTAAGAGT
1 ATGAATTCATCAAGTCCATCTCAATAGGACCACCCAAAATCTAGGCTATGAACT-CATTAAGAGT
50272434 AATAACTCAAC
65 AATAACTCAAC
50272445 CTTATGCATG
Statistics
Matches: 69, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
81 9 0.13
82 60 0.87
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.25
Consensus pattern (81 bp):
ATGAATTCATCAAGTCCATCTCAATAGGACCACCCAAAATCTAGGCTATGAACTCATTAAGAGTA
ATAACTCAACAAGTCA
Found at i:50273098 original size:35 final size:35
Alignment explanation
Indices: 50273055--50273264 Score: 298
Period size: 35 Copynumber: 6.1 Consensus size: 35
50273045 GCAGGGAATA
*
50273055 TTTGTTGCAGGGAATCTCTTCTGTTCACGCATTAT
1 TTTGTTGCAGGGAATCTCTCCTGTTCACGCATTAT
*
50273090 TTTGTTGCA-GGAATCTCTCCTATTCACGCATTAT
1 TTTGTTGCAGGGAATCTCTCCTGTTCACGCATTAT
* *
50273124 TTTGTTGCAGAGAATCTTTCCTGTTCACGCATTAT
1 TTTGTTGCAGGGAATCTCTCCTGTTCACGCATTAT
* * * *
50273159 TTTGTTGCAAGGAATCTTTCTTGTTCACGCATCA-
1 TTTGTTGCAGGGAATCTCTCCTGTTCACGCATTAT
*
50273193 TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTAT
1 TTTGTTGCAGGGAATCTCTCCTGTTCACGCATTAT
* * *
50273228 TTTGTTGCAAGGAATCTCTCCTGTTCATGTATTAT
1 TTTGTTGCAGGGAATCTCTCCTGTTCACGCATTAT
50273263 TT
1 TT
50273265 CTTTTTAGAC
Statistics
Matches: 155, Mismatches: 18, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
34 61 0.39
35 94 0.61
ACGTcount: A:0.19, C:0.21, G:0.17, T:0.43
Consensus pattern (35 bp):
TTTGTTGCAGGGAATCTCTCCTGTTCACGCATTAT
Found at i:50273235 original size:104 final size:104
Alignment explanation
Indices: 50273055--50273264 Score: 309
Period size: 104 Copynumber: 2.0 Consensus size: 104
50273045 GCAGGGAATA
* * *
50273055 TTTGTTGCAGGGAATCTCTTCTGTTCACGCATTATTTTGTTGCAGGAATCTCTCCTATTCACGCA
1 TTTGTTGCAAGGAATCTCTTCTGTTCACGCATCATTTTCTTGCAGGAATCTCTCCTATTCACGCA
*
50273120 TTATTTTGTTGC-AGAGAATCTTTCCTGTTCACGCATTAT
66 TTATTTTGTTGCAAG-GAATCTCTCCTGTTCACGCATTAT
*
50273159 TTTGTTGCAAGGAATCT-TTCTTGTTCACGCATCA-TTTCTTGCAGGGAATCTCTCCTGTTCACG
1 TTTGTTGCAAGGAATCTCTTC-TGTTCACGCATCATTTTCTTGCA-GGAATCTCTCCTATTCACG
* *
50273222 CATTATTTTGTTGCAAGGAATCTCTCCTGTTCATGTATTAT
64 CATTATTTTGTTGCAAGGAATCTCTCCTGTTCACGCATTAT
50273263 TT
1 TT
50273265 CTTTTTAGAC
Statistics
Matches: 96, Mismatches: 7, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
103 11 0.11
104 83 0.86
105 2 0.02
ACGTcount: A:0.19, C:0.21, G:0.17, T:0.43
Consensus pattern (104 bp):
TTTGTTGCAAGGAATCTCTTCTGTTCACGCATCATTTTCTTGCAGGAATCTCTCCTATTCACGCA
TTATTTTGTTGCAAGGAATCTCTCCTGTTCACGCATTAT
Found at i:50273265 original size:69 final size:69
Alignment explanation
Indices: 50273053--50273267 Score: 315
Period size: 69 Copynumber: 3.1 Consensus size: 69
50273043 TTGCAGGGAA
* * *
50273053 TATTTGTTGCAGGGAATCTCTTCTGTTCACGCATTATTTTGTTGC-AGGAATCTCTCCTATTCAC
1 TATTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAAGGAATCTCTCCTGTTCAC
50273117 GCAT
66 GCAT
* * * * *
50273121 TATTTTGTTGCAGAGAATCTTTCCTGTTCACGCATTATTTTGTTGCAAGGAATCTTTCTTGTTCA
1 TA-TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAAGGAATCTCTCCTGTTCA
50273186 CGCAT
65 CGCAT
* *
50273191 CATTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAAGGAATCTCTCCTGTTCAT
1 TATTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAAGGAATCTCTCCTGTTCAC
*
50273256 GTAT
66 GCAT
50273260 TATTTCTT
1 TATTTCTT
50273268 TTTAGACCTG
Statistics
Matches: 130, Mismatches: 15, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
68 2 0.02
69 107 0.82
70 21 0.16
ACGTcount: A:0.19, C:0.21, G:0.17, T:0.43
Consensus pattern (69 bp):
TATTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAAGGAATCTCTCCTGTTCAC
GCAT
Found at i:50294508 original size:18 final size:17
Alignment explanation
Indices: 50294481--50294541 Score: 54
Period size: 18 Copynumber: 3.6 Consensus size: 17
50294471 AAATTTATTT
50294481 AAAATTAAAA-AACATTA
1 AAAATTAAAAGAA-ATTA
*
50294498 AAAATTCAAAAGAAATTT
1 AAAATT-AAAAGAAATTA
* *
50294516 AAAATTATAA-AAACTA
1 AAAATTAAAAGAAATTA
*
50294532 AAAAATAAAA
1 AAAATTAAAA
50294542 ATATGTTTTT
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
16 12 0.33
17 9 0.25
18 13 0.36
19 2 0.06
ACGTcount: A:0.70, C:0.05, G:0.02, T:0.23
Consensus pattern (17 bp):
AAAATTAAAAGAAATTA
Found at i:50294967 original size:20 final size:20
Alignment explanation
Indices: 50294930--50294969 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
50294920 AAATAATAGA
* *
50294930 TTAAGAATTTTTTTAGTTTT
1 TTAAGAATTTTATGAGTTTT
*
50294950 TTAATAATTTTATGAGTTTT
1 TTAAGAATTTTATGAGTTTT
50294970 AAAATATTTG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.28, C:0.00, G:0.10, T:0.62
Consensus pattern (20 bp):
TTAAGAATTTTATGAGTTTT
Found at i:50295162 original size:31 final size:31
Alignment explanation
Indices: 50295122--50295191 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 31
50295112 TAGGGATTAC
* * * *
50295122 AAAATTAAAGT-GCAGGAGTCAAATTGATATA
1 AAAAATAAAGTAGAAGG-GTCAAACTGATAAA
*
50295153 AAAAATAAAGTATAAGGGTCAAACTGATAAA
1 AAAAATAAAGTAGAAGGGTCAAACTGATAAA
50295184 AAAAATAA
1 AAAAATAA
50295192 TACAAGTATC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
31 30 0.91
32 3 0.09
ACGTcount: A:0.57, C:0.06, G:0.16, T:0.21
Consensus pattern (31 bp):
AAAAATAAAGTAGAAGGGTCAAACTGATAAA
Found at i:50297434 original size:26 final size:26
Alignment explanation
Indices: 50297405--50297456 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
50297395 CCATAAACTA
50297405 ACATGGGATTTCAAGTGGAAGGATGT
1 ACATGGGATTTCAAGTGGAAGGATGT
50297431 ACATGGGATTTCAAGTGGAAGGATGT
1 ACATGGGATTTCAAGTGGAAGGATGT
50297457 TGTCTTTGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.31, C:0.08, G:0.35, T:0.27
Consensus pattern (26 bp):
ACATGGGATTTCAAGTGGAAGGATGT
Found at i:50298268 original size:51 final size:51
Alignment explanation
Indices: 50298206--50298307 Score: 177
Period size: 51 Copynumber: 2.0 Consensus size: 51
50298196 ATTATTTTAA
*
50298206 AAAAAATTAAAAATATATTTATATTCATTTTAATTTAATATTGAAAAAATT
1 AAAAAATTAAAAATATATTTACATTCATTTTAATTTAATATTGAAAAAATT
* *
50298257 AAAAAATTAAAAATATATTTACATTTATTTTAATTTAATATTGAATAAATT
1 AAAAAATTAAAAATATATTTACATTCATTTTAATTTAATATTGAAAAAATT
50298308 TATATATATT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 48 1.00
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (51 bp):
AAAAAATTAAAAATATATTTACATTCATTTTAATTTAATATTGAAAAAATT
Found at i:50298309 original size:32 final size:31
Alignment explanation
Indices: 50298268--50298330 Score: 81
Period size: 32 Copynumber: 2.0 Consensus size: 31
50298258 AAAAATTAAA
* *
50298268 AATATATTTACATTTATTTTAATTTAATATTG
1 AATAAATTTACATATATTTT-ATTTAATATTG
* *
50298300 AATAAATTTATATATATTTTATTTATTATTG
1 AATAAATTTACATATATTTTATTTAATATTG
50298331 TTTTATATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
31 10 0.37
32 17 0.63
ACGTcount: A:0.38, C:0.02, G:0.03, T:0.57
Consensus pattern (31 bp):
AATAAATTTACATATATTTTATTTAATATTG
Found at i:50300438 original size:16 final size:16
Alignment explanation
Indices: 50300407--50300443 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
50300397 AATTAATAAT
50300407 TATTTTATTTTATTTA
1 TATTTTATTTTATTTA
50300423 TATTTATATTTT-TTTA
1 TATTT-TATTTTATTTA
50300439 T-TTTT
1 TATTTT
50300444 TGTAACTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
14 1 0.05
15 3 0.15
16 10 0.50
17 6 0.30
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (16 bp):
TATTTTATTTTATTTA
Found at i:50304788 original size:42 final size:42
Alignment explanation
Indices: 50304709--50304788 Score: 108
Period size: 42 Copynumber: 1.9 Consensus size: 42
50304699 CCGAAAAGAG
* *
50304709 CAGTTCAAATATTGATCAGCATGGGGCATAAGGTGATCAGAA
1 CAGTTCAAATATTAATCAGCATGGGGCATAAGATGATCAGAA
* *
50304751 CAGTTCAAATTTTAATCAG-ATAGGGGCATATGATGATC
1 CAGTTCAAATATTAATCAGCAT-GGGGCATAAGATGATC
50304789 TTGCTATACT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
41 2 0.06
42 31 0.94
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.28
Consensus pattern (42 bp):
CAGTTCAAATATTAATCAGCATGGGGCATAAGATGATCAGAA
Found at i:50305901 original size:44 final size:44
Alignment explanation
Indices: 50305851--50306165 Score: 172
Period size: 44 Copynumber: 7.2 Consensus size: 44
50305841 AATAGCAGAT
* * *
50305851 CTTGCCTTCTTGTACCGACAGCGAAGCAGATCGAAGACACCAGC
1 CTTGCCTTCCTGCACTGACAGCGAAGCAGATCGAAGACACCAGC
*** * * * * * * *
50305895 CTTGCC-TCCTTGGGTTG-CAGCGGAGCAG-GCTAAAAATAGCAGAT
1 CTTGCCTTCC-TGCACTGACAGCGAAGCAGATC-GAAGACACCAG-C
50305939 CTTGCCTTCCTGCACTGACAGCGAAGCAGATCGAAGACACCAGC
1 CTTGCCTTCCTGCACTGACAGCGAAGCAGATCGAAGACACCAGC
* *** * * ** * * * *
50305983 CTTGCCTCCCTGGGTTG-CAGCGGAGCAGGTTAAAAATAGCAGAT
1 CTTGCCTTCCTGCACTGACAGCGAAGCAGATCGAAGACACCAG-C
*
50306027 CTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGC
1 CTTGCCTTCCTGCACTGACAGCGAAGCAGATCGAAGACACCAGC
* * * * * * ** * * * *
50306071 CTTGCCTCCCTGGATTG-CAGCGGATCAGGTTAAAAATATCAGAT
1 CTTGCCTTCCTGCACTGACAGCGAAGCAGATCGAAGACACCAG-C
* * **
50306115 CTTTCCTTCTTGCACCAACAGCGAAGCAGATCGAAGACACCAGC
1 CTTGCCTTCCTGCACTGACAGCGAAGCAGATCGAAGACACCAGC
50306159 CTTGCCT
1 CTTGCCT
50306166 CTTTGGGTTG
Statistics
Matches: 184, Mismatches: 77, Indels: 20
0.65 0.27 0.07
Matches are distributed among these distances:
42 1 0.01
43 54 0.29
44 73 0.40
45 55 0.30
46 1 0.01
ACGTcount: A:0.26, C:0.30, G:0.24, T:0.20
Consensus pattern (44 bp):
CTTGCCTTCCTGCACTGACAGCGAAGCAGATCGAAGACACCAGC
Found at i:50305967 original size:45 final size:45
Alignment explanation
Indices: 50305837--50306231 Score: 152
Period size: 44 Copynumber: 9.0 Consensus size: 45
50305827 AACAGATCGG
* * *
50305837 TAAAAATAGCAGATCTTGCCTTCTTGTACCGACAGCGAAGCA-GA
1 TAAAAATAGCAGATCTTGCCTTCCTGCACTGACAGCGAAGCAGGA
* * * * * *** * *
50305881 TCGAAGACACCAG-CCTTGCC-TCCTTGGGTTG-CAGCGGAGCAGGC
1 T-AAAAATAGCAGATCTTGCCTTCC-TGCACTGACAGCGAAGCAGGA
50305925 TAAAAATAGCAGATCTTGCCTTCCTGCACTGACAGCGAAGCA-GA
1 TAAAAATAGCAGATCTTGCCTTCCTGCACTGACAGCGAAGCAGGA
* * * * * * *** * *
50305969 TCGAAGACACCAG-CCTTGCCTCCCTGGGTTG-CAGCGGAGCAGGT
1 T-AAAAATAGCAGATCTTGCCTTCCTGCACTGACAGCGAAGCAGGA
*
50306013 TAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCA-GA
1 TAAAAATAGCAGATCTTGCCTTCCTGCACTGACAGCGAAGCAGGA
* * * * * * * * * * *
50306057 TCGAAGACACCAG-CCTTGCCTCCCTGGATTG-CAGCGGATCAGGT
1 T-AAAAATAGCAGATCTTGCCTTCCTGCACTGACAGCGAAGCAGGA
* * * **
50306101 TAAAAATATCAGATCTTTCCTTCTTGCACCAACAGCGAAGCA-GA
1 TAAAAATAGCAGATCTTGCCTTCCTGCACTGACAGCGAAGCAGGA
* * * * * * *** * *
50306145 TCGAAGACACCAG-CCTTGCC-TCTTTGGGTTG-CAGCGGAGCAGGT
1 T-AAAAATAGCAGATCTTGCCTTC-CTGCACTGACAGCGAAGCAGGA
* *
50306189 TAAAAATAGCAGATCTTGCCTTCCTACACCGACAGCGAAGCAG
1 TAAAAATAGCAGATCTTGCCTTCCTGCACTGACAGCGAAGCAG
50306232 ATCGATGACC
Statistics
Matches: 234, Mismatches: 97, Indels: 39
0.63 0.26 0.11
Matches are distributed among these distances:
43 67 0.29
44 98 0.42
45 69 0.29
ACGTcount: A:0.28, C:0.28, G:0.24, T:0.21
Consensus pattern (45 bp):
TAAAAATAGCAGATCTTGCCTTCCTGCACTGACAGCGAAGCAGGA
Found at i:50306280 original size:88 final size:88
Alignment explanation
Indices: 50305837--50306236 Score: 674
Period size: 88 Copynumber: 4.5 Consensus size: 88
50305827 AACAGATCGG
* *
50305837 TAAAAATAGCAGATCTTGCCTTCTTGTACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
1 TAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
* *
50305902 CCTTGGGTTGCAGCGGAGCAGGC
66 CCCTGGGTTGCAGCGGAGCAGGT
*
50305925 TAAAAATAGCAGATCTTGCCTTCCTGCACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
1 TAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
50305990 CCCTGGGTTGCAGCGGAGCAGGT
66 CCCTGGGTTGCAGCGGAGCAGGT
50306013 TAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
1 TAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
* *
50306078 CCCTGGATTGCAGCGGATCAGGT
66 CCCTGGGTTGCAGCGGAGCAGGT
* * * *
50306101 TAAAAATATCAGATCTTTCCTTCTTGCACCAACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
1 TAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
**
50306166 CTTTGGGTTGCAGCGGAGCAGGT
66 CCCTGGGTTGCAGCGGAGCAGGT
*
50306189 TAAAAATAGCAGATCTTGCCTTCCTACACCGACAGCGAAGCAGATCGA
1 TAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGA
50306237 TGACCCTAAC
Statistics
Matches: 291, Mismatches: 21, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
88 291 1.00
ACGTcount: A:0.28, C:0.28, G:0.24, T:0.20
Consensus pattern (88 bp):
TAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
CCCTGGGTTGCAGCGGAGCAGGT
Found at i:50306337 original size:44 final size:44
Alignment explanation
Indices: 50306247--50306510 Score: 246
Period size: 44 Copynumber: 6.3 Consensus size: 44
50306237 TGACCCTAAC
* * *
50306247 CCTATCTCCCTGGTCAGCATTGGAATAGATTAAAGA----G-CT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAAT
* *
50306286 -CTATCTCCCTGGTTAGCAGTGAAATAGGTTAAAGATTGTGAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAAT
* * * * *
50306329 CTTATCTCCCTGGCCAGTAGTGGAATAGGTTGAAGATTGAGAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAAT
* * * *
50306373 GCTATCTCCCTGGGCAGCAGTGGAATAGATTAAAGA----G--C
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAAT
*
50306411 CCTATCTCCCTGGTCAGTAGTGGAATAGGTTAAAGATTGTGAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAAT
* * * * **
50306455 CCTATCTCCCTGGACAGTAGTGGAATAGGTTAATGATGGCAAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAAT
*
50306499 CTTATCTCCCTG
1 CCTATCTCCCTG
50306511 AAGTTGCAGT
Statistics
Matches: 183, Mismatches: 30, Indels: 19
0.79 0.13 0.08
Matches are distributed among these distances:
38 63 0.34
40 1 0.01
42 2 0.01
43 1 0.01
44 116 0.63
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (44 bp):
CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAAT
Found at i:50306410 original size:126 final size:126
Alignment explanation
Indices: 50306248--50306485 Score: 404
Period size: 126 Copynumber: 1.9 Consensus size: 126
50306238 GACCCTAACC
* * * *
50306248 CTATCTCCCTGGTCAGCATTGGAATAGATTAAAGAGCTCTATCTCCCTGGTTAGCAGTGAAATAG
1 CTATCTCCCTGGGCAGCAGTGGAATAGATTAAAGAGCCCTATCTCCCTGGTCAGCAGTGAAATAG
* *
50306313 GTTAAAGATTGTGAATCTTATCTCCCTGGCCAGTAGTGGAATAGGTTGAAGATTGAGAATG
66 GTTAAAGATTGTGAATCCTATCTCCCTGGACAGTAGTGGAATAGGTTGAAGATTGAGAATG
* *
50306374 CTATCTCCCTGGGCAGCAGTGGAATAGATTAAAGAGCCCTATCTCCCTGGTCAGTAGTGGAATAG
1 CTATCTCCCTGGGCAGCAGTGGAATAGATTAAAGAGCCCTATCTCCCTGGTCAGCAGTGAAATAG
50306439 GTTAAAGATTGTGAATCCTATCTCCCTGGACAGTAGTGGAATAGGTT
66 GTTAAAGATTGTGAATCCTATCTCCCTGGACAGTAGTGGAATAGGTT
50306486 AATGATGGCA
Statistics
Matches: 104, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
126 104 1.00
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (126 bp):
CTATCTCCCTGGGCAGCAGTGGAATAGATTAAAGAGCCCTATCTCCCTGGTCAGCAGTGAAATAG
GTTAAAGATTGTGAATCCTATCTCCCTGGACAGTAGTGGAATAGGTTGAAGATTGAGAATG
Found at i:50306435 original size:82 final size:82
Alignment explanation
Indices: 50306331--50306487 Score: 251
Period size: 82 Copynumber: 1.9 Consensus size: 82
50306321 TTGTGAATCT
* * *
50306331 TATCTCCCTGGCCAGTAGTGGAATAGGTTGAAGATTGAGAATGCTATCTCCCTGGGCAGCAGTGG
1 TATCTCCCTGGCCAGTAGTGGAATAGGTTAAAGATTGAGAATCCTATCTCCCTGGACAGCAGTGG
50306396 AATAGATTAAAGAGCCC
66 AATAGATTAAAGAGCCC
* * *
50306413 TATCTCCCTGGTCAGTAGTGGAATAGGTTAAAGATTGTGAATCCTATCTCCCTGGACAGTAGTGG
1 TATCTCCCTGGCCAGTAGTGGAATAGGTTAAAGATTGAGAATCCTATCTCCCTGGACAGCAGTGG
*
50306478 AATAGGTTAA
66 AATAGATTAA
50306488 TGATGGCAAA
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
82 68 1.00
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.27
Consensus pattern (82 bp):
TATCTCCCTGGCCAGTAGTGGAATAGGTTAAAGATTGAGAATCCTATCTCCCTGGACAGCAGTGG
AATAGATTAAAGAGCCC
Found at i:50306675 original size:45 final size:45
Alignment explanation
Indices: 50306582--50306696 Score: 126
Period size: 45 Copynumber: 2.6 Consensus size: 45
50306572 ATCACATCGG
* * ** *
50306582 GTCTTATTTTCCTGAAGTTGTAGTGGAGTAGACCCAAGAAAGCGA
1 GTCTTATTTCCCTGAAGTTGCAGTGGACCAGACCCAAGAAAGCAA
* *
50306627 GTCTTATTTCCCTGAAGTTGCAGTGGACCAGACTCAATG-AAGTAA
1 GTCTTATTTCCCTGAAGTTGCAGTGGACCAGACCCAA-GAAAGCAA
* *
50306672 GTCTTA-TCCCCTGAAATTGCAGTGG
1 GTCTTATTTCCCTGAAGTTGCAGTGG
50306697 GGCAGACTAA
Statistics
Matches: 60, Mismatches: 9, Indels: 3
0.83 0.12 0.04
Matches are distributed among these distances:
44 17 0.28
45 42 0.70
46 1 0.02
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (45 bp):
GTCTTATTTCCCTGAAGTTGCAGTGGACCAGACCCAAGAAAGCAA
Found at i:50307248 original size:58 final size:58
Alignment explanation
Indices: 50307176--50307367 Score: 341
Period size: 58 Copynumber: 3.3 Consensus size: 58
50307166 AAAGTTGCAG
* *
50307176 TAGAGTAGATCGCATCAAGTCTTACCT-CTCTGAGGTTACAGTGGAGCAGACTGAAGAA
1 TAGAGTAGATCGCATCAAGTCTTATCTCCT-TGAGTTTACAGTGGAGCAGACTGAAGAA
50307234 TAGAGTAGATCGCATCAAGTCTTATCTCCTTGAGTTTACAGTGGAGCAGACTGAAGAA
1 TAGAGTAGATCGCATCAAGTCTTATCTCCTTGAGTTTACAGTGGAGCAGACTGAAGAA
50307292 TAGAGTAGATCGCATCAAGTCTTATCTCCTTGAGTTTACAGTGGAGCAGACTGAAGAA
1 TAGAGTAGATCGCATCAAGTCTTATCTCCTTGAGTTTACAGTGGAGCAGACTGAAGAA
*
50307350 TAGAGTAGATCGTATCAA
1 TAGAGTAGATCGCATCAA
50307368 ATTCATCTTT
Statistics
Matches: 130, Mismatches: 3, Indels: 2
0.96 0.02 0.01
Matches are distributed among these distances:
58 128 0.98
59 2 0.02
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.27
Consensus pattern (58 bp):
TAGAGTAGATCGCATCAAGTCTTATCTCCTTGAGTTTACAGTGGAGCAGACTGAAGAA
Found at i:50310777 original size:29 final size:29
Alignment explanation
Indices: 50310732--50310787 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
50310722 TTTGTTTCTT
*
50310732 TTTAATAATATAAGGACTAAATTGATCCA
1 TTTAACAATATAAGGACTAAATTGATCCA
*
50310761 TTTAACAATA-AAGGGACTAATTTGATC
1 TTTAACAATATAA-GGACTAAATTGATC
50310788 AAATCCTATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 2 0.08
29 22 0.92
ACGTcount: A:0.43, C:0.11, G:0.12, T:0.34
Consensus pattern (29 bp):
TTTAACAATATAAGGACTAAATTGATCCA
Found at i:50312154 original size:114 final size:117
Alignment explanation
Indices: 50312026--50312244 Score: 311
Period size: 121 Copynumber: 1.9 Consensus size: 117
50312016 TAGTCATTGC
* * *
50312026 ATATTTAGCCGATTTGTTTTAGGGTTCATAAGAAATTGTGTGATTTTTTT-TA-T-T-TTTTTAA
1 ATATTTAGCCGATTTGTTTTAGGCTTCATAAGAAATT-AGAGATTTTTTTATATTATATTTTTAA
* *
50312087 TTGGATATTGATGAAACATTTCTTTCCCATGCGTGAAATGTATTCGAGTAAGT
65 TTCGATATTGATGAAACATTCCTTTCCCATGCGTGAAATGTATTCGAGTAAGT
50312140 ATATTTAGCCGATTTGTTTTAGGCTTCATAAGAAATTAGAGATTTTTTTATATTTTTTATATTTT
1 ATATTTAGCCGATTTGTTTTAGGCTTCATAAGAAATTAGAGATTTTTTTATA----TTATATTTT
*
50312205 TAATTCGATATTGATGAAACATTCCTTTCCCATGTGTGAA
62 TAATTCGATATTGATGAAACATTCCTTTCCCATGCGTGAA
50312245 TATTAGAGTA
Statistics
Matches: 91, Mismatches: 6, Indels: 9
0.86 0.06 0.08
Matches are distributed among these distances:
113 10 0.11
114 38 0.42
119 1 0.01
120 1 0.01
121 41 0.45
ACGTcount: A:0.27, C:0.10, G:0.16, T:0.47
Consensus pattern (117 bp):
ATATTTAGCCGATTTGTTTTAGGCTTCATAAGAAATTAGAGATTTTTTTATATTATATTTTTAAT
TCGATATTGATGAAACATTCCTTTCCCATGCGTGAAATGTATTCGAGTAAGT
Found at i:50313658 original size:69 final size:69
Alignment explanation
Indices: 50313576--50313724 Score: 235
Period size: 69 Copynumber: 2.2 Consensus size: 69
50313566 TCTTTCAACA
* *
50313576 AATCATTTCAAAAAACAAACAAAATATGTTATACTAACAAAATGATCCTATAACAGTAAAATGTT
1 AATCATTTCAAAAAACAAACAAAATATGCTATACTAACAAAATGATCCTATAACAATAAAATGTT
50313641 AACC
66 AACC
* * *
50313645 AATCATTTCAAAAAACAAACAAAATATGCTATGCTAACAAAATGATCCTATAGCAATAAGATGTT
1 AATCATTTCAAAAAACAAACAAAATATGCTATACTAACAAAATGATCCTATAACAATAAAATGTT
*
50313710 GACC
66 AACC
*
50313714 AACCATTTCAA
1 AATCATTTCAA
50313725 CAAATCATTT
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
69 73 1.00
ACGTcount: A:0.50, C:0.17, G:0.07, T:0.26
Consensus pattern (69 bp):
AATCATTTCAAAAAACAAACAAAATATGCTATACTAACAAAATGATCCTATAACAATAAAATGTT
AACC
Found at i:50314058 original size:160 final size:158
Alignment explanation
Indices: 50313834--50314283 Score: 489
Period size: 161 Copynumber: 2.8 Consensus size: 158
50313824 TATGCCATCC
* * * * * * *
50313834 TTTTTT-GGCTTCTAGTTCTCATGCTTATACTAGACT--GAGAACAAAAATCAGAACCCCAAATT
1 TTTTTTGGGCTTCTAGTTTTCGTACTCATACAAGACTAAGACAAAAAAAATCAGAA-CCCAAATT
*
50313896 AGATTTAAATAATTTGGAATTGACATTAAAAAAGTATTTACGATATACTTGTGATCCAATTGTGT
65 AGATTTAAATAATTTGGAATTGACATTAAAAAAGTGTTTACGATATACTTGTGATCCAATTGTGT
*
50313961 TAGGCAGAATGCATAGTGTCATGTTGTTC
130 TAGGCAGAATGCATAGTGTCATGTTGTTA
* * * *
50313990 TTTTTTTGGCTTCTAGTTTGT-GTACTCATACCAGGCTAAGATTAAAAAAAATCAGAACCTCAAA
1 TTTTTTGGGCTTCTAGTTT-TCGTACTCATACAAGACTAAGA-CAAAAAAAATCAGAACC-CAAA
* ** * * * *
50314054 TTAGA-TTAAATTATTGTTAAATTGACATTAAAAATAGTGTATACGATATACCTGTGATCTAGTT
63 TTAGATTTAAATAATT-TGGAATTGACATTAAAAA-AGTGTTTACGATATACTTGTGATCCAATT
* * * * * *
50314118 GTATTAGACTGAATGCTTGGTGTTATGTTGTTA
126 GTGTTAGGCAGAATGCATAGTGTCATGTTGTTA
* * *
50314151 TTTTTTGGGCTTCTAGTTTTCGTACTCGTACAAGACTAAGACCAAAAAACTCAGAACCCAAATTA
1 TTTTTTGGGCTTCTAGTTTTCGTACTCATACAAGACTAAGACAAAAAAAATCAGAACCCAAATTA
* * * * *
50314216 GATTTTAATATTTTGGAATTGACAATGAAAAAA-TGTTTACGATATACTTGTGTTCCCATTGTGT
66 GATTTAAATAATTTGGAATTGAC-ATTAAAAAAGTGTTTACGATATACTTGTGATCCAATTGTGT
50314280 TAGG
130 TAGG
50314284 TTGACTGCAT
Statistics
Matches: 239, Mismatches: 44, Indels: 20
0.79 0.15 0.07
Matches are distributed among these distances:
156 6 0.03
157 22 0.09
158 28 0.12
159 31 0.13
160 67 0.28
161 85 0.36
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (158 bp):
TTTTTTGGGCTTCTAGTTTTCGTACTCATACAAGACTAAGACAAAAAAAATCAGAACCCAAATTA
GATTTAAATAATTTGGAATTGACATTAAAAAAGTGTTTACGATATACTTGTGATCCAATTGTGTT
AGGCAGAATGCATAGTGTCATGTTGTTA
Found at i:50316599 original size:54 final size:54
Alignment explanation
Indices: 50316487--50316605 Score: 121
Period size: 54 Copynumber: 2.2 Consensus size: 54
50316477 ATCCCTAACC
* *
50316487 CCCTCCTCACCACCTCCATCACTCTCACCACATTCACTGACAGCAACACCAACC
1 CCCTTCTCACCACCTCCATCACTCTCACCACATTCACTGACAGCAACACCAACA
* * * * * * * * * *
50316541 CCCTTCTCACCACCTTCGTCTCTCTCTCCACCTTTATTGACATCAACATCATCA
1 CCCTTCTCACCACCTCCATCACTCTCACCACATTCACTGACAGCAACACCAACA
*
50316595 CCCTTCCCACC
1 CCCTTCTCACC
50316606 TAAACCTTCA
Statistics
Matches: 52, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.23, C:0.50, G:0.03, T:0.24
Consensus pattern (54 bp):
CCCTTCTCACCACCTCCATCACTCTCACCACATTCACTGACAGCAACACCAACA
Found at i:50319116 original size:17 final size:18
Alignment explanation
Indices: 50319084--50319117 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
50319074 AACCCTAAAA
*
50319084 AATTTCTAATTTTTTTTT
1 AATTTCTAATTATTTTTT
50319102 AATTT-TAATTATTTTT
1 AATTTCTAATTATTTTT
50319118 AAGTTTAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (18 bp):
AATTTCTAATTATTTTTT
Found at i:50325785 original size:26 final size:26
Alignment explanation
Indices: 50325730--50325785 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 26
50325720 ATATTTTATC
* * *
50325730 AAAATTTTACCAGGGACAAAATCTTC
1 AAAATTTTACCAGAGACAAAATCGTA
*
50325756 AAAATTTTACCA-AGAGTAAAATCGTA
1 AAAATTTTACCAGAGA-CAAAATCGTA
50325782 AAAA
1 AAAA
50325786 AAAATTGCTA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
25 2 0.08
26 23 0.92
ACGTcount: A:0.50, C:0.14, G:0.11, T:0.25
Consensus pattern (26 bp):
AAAATTTTACCAGAGACAAAATCGTA
Found at i:50332730 original size:13 final size:13
Alignment explanation
Indices: 50332712--50332737 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
50332702 CCAAATATGA
50332712 GGTATAAAAAAAC
1 GGTATAAAAAAAC
50332725 GGTATAAAAAAAC
1 GGTATAAAAAAAC
50332738 TATGGCACTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.08, G:0.15, T:0.15
Consensus pattern (13 bp):
GGTATAAAAAAAC
Found at i:50334174 original size:6 final size:6
Alignment explanation
Indices: 50334163--50334190 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
50334153 TAGGTTTCCA
50334163 AAAATG AAAATG AAAATG AAAATG AAAA
1 AAAATG AAAATG AAAATG AAAATG AAAA
50334191 ATTGCAATCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.71, C:0.00, G:0.14, T:0.14
Consensus pattern (6 bp):
AAAATG
Found at i:50335160 original size:28 final size:28
Alignment explanation
Indices: 50335120--50335175 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
50335110 TTTCCAACAA
50335120 TAGCAATTACAAAAATAATATGGATAAC
1 TAGCAATTACAAAAATAATATGGATAAC
50335148 TAGCAATTACAAAAATAATATGGATAAC
1 TAGCAATTACAAAAATAATATGGATAAC
50335176 CGAGTTTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.54, C:0.11, G:0.11, T:0.25
Consensus pattern (28 bp):
TAGCAATTACAAAAATAATATGGATAAC
Found at i:50337363 original size:41 final size:40
Alignment explanation
Indices: 50337303--50337380 Score: 113
Period size: 39 Copynumber: 1.9 Consensus size: 40
50337293 ATATATGTTC
*
50337303 TTTATATTTTATGATTTACATA-TATCTATGTATATACTT
1 TTTATATTTTATGATTTACATACTATATATGTATATACTT
50337342 TTTATATTTTATGATAGTTACATACGTATATATGTATAT
1 TTTATATTTTATGAT--TTACATAC-TATATATGTATAT
50337381 GTTTACTTAT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
39 15 0.44
41 7 0.21
43 12 0.35
ACGTcount: A:0.32, C:0.06, G:0.08, T:0.54
Consensus pattern (40 bp):
TTTATATTTTATGATTTACATACTATATATGTATATACTT
Found at i:50338105 original size:109 final size:109
Alignment explanation
Indices: 50337914--50338325 Score: 562
Period size: 109 Copynumber: 3.8 Consensus size: 109
50337904 TAAGTAATGC
* * *
50337914 AATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGTTGGGATTCGATTTTTCTTGTT
1 AATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCAATTTTTCTTGTT
*
50337979 CAACCAAATAGCCAAATACCCTTTCAAAAATTTCAAAATAAGGA
66 CAACCAAATAGCCAAATATCCTTTCAAAAATTTCAAAATAAGGA
*
50338023 AATGTTTTGCGTTTGGAAATTCGAGAAAATGTGCCCTAATGTGCTGGGATTT-AATTTTTCTTGT
1 AATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGG-TTTCAATTTTTCTTGT
* * *
50338087 TCAACCAAATAGCGAAATATCCTTTCAAAAACTTCAAAATAAGGC
65 TCAACCAAATAGCCAAATATCCTTTCAAAAATTTCAAAATAAGGA
* * * * * **
50338132 AATGTTTTGCGTTTGAAAATTTGAGAAAGCGTGCCCTAATGTGTTGGGTTTCGATTTTTCTCATT
1 AATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCAATTTTTCTTGTT
** * *
50338197 CGTCCAAATAGCCAAATATCTTTTCAAAAATTTTAAAATAA-GA
66 CAACCAAATAGCCAAATATCCTTTCAAAAATTTCAAAATAAGGA
* * *
50338240 CAATGTTTTGCGTTTGGAAACTCGAGAAAACATGCCCTAATGTGCTGGGTTTCAATTCTTC--GT
1 -AATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCAATTTTTCTTGT
**
50338303 TGGACCAAATAGCCAAATATCCT
65 TCAACCAAATAGCCAAATATCCT
50338326 CTTATATCTT
Statistics
Matches: 265, Mismatches: 35, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
107 21 0.08
108 4 0.02
109 238 0.90
110 2 0.01
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.34
Consensus pattern (109 bp):
AATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCAATTTTTCTTGTT
CAACCAAATAGCCAAATATCCTTTCAAAAATTTCAAAATAAGGA
Found at i:50342263 original size:24 final size:24
Alignment explanation
Indices: 50342227--50342320 Score: 100
Period size: 25 Copynumber: 3.8 Consensus size: 24
50342217 AAAAATGTTC
* *
50342227 AAAAAA-AACAAAAAAAGGAAAGA
1 AAAAAAGAAAAAAAAAAGAAAAGA
*
50342250 AAAAAACAAAAAAAAAACGAAAAGA
1 AAAAAAGAAAAAAAAAA-GAAAAGA
* *
50342275 AAAAAAGGAAAAGAAAAGAAAAGA
1 AAAAAAGAAAAAAAAAAGAAAAGA
50342299 AGAAAAAGAAAAGGAAAAAAGA
1 A-AAAAAGAAAA--AAAAAAGA
50342321 GAGTCCAAGG
Statistics
Matches: 59, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
23 6 0.10
24 17 0.29
25 29 0.49
27 7 0.12
ACGTcount: A:0.81, C:0.03, G:0.16, T:0.00
Consensus pattern (24 bp):
AAAAAAGAAAAAAAAAAGAAAAGA
Done.