Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002708.1 Hibiscus syriacus cultivar Beakdansim tig00005589_pilon, whole genome shotgun sequence
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: 72785
ACGTcount: A:0.35, C:0.17, G:0.14, T:0.33
Found at i:754 original size:32 final size:29
Alignment explanation
Indices: 689--759 Score: 81
Period size: 29 Copynumber: 2.3 Consensus size: 29
679 TTTTATTAAT
*
689 AAAATTTAATAAATAAATTAGAAAAATTG
1 AAAATTTAATAAATAAATTAGAAAAATAG
*
718 AAAATATAATAAATAAAGTATAAGAAAAA-AG
1 AAAATTTAATAAATAAA-T-T-AGAAAAATAG
749 AAAAATTTAAT
1 -AAAATTTAAT
760 GGAAAACGGT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
29 16 0.46
30 1 0.03
31 2 0.06
32 16 0.46
ACGTcount: A:0.66, C:0.00, G:0.07, T:0.27
Consensus pattern (29 bp):
AAAATTTAATAAATAAATTAGAAAAATAG
Found at i:1286 original size:16 final size:16
Alignment explanation
Indices: 1256--1286 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1246 TAATATTGAA
*
1256 ACTTGAACTCGAAAAG
1 ACTTGAACTCAAAAAG
1272 ACTTGAACTCAAAAA
1 ACTTGAACTCAAAAA
1287 AAATTTAGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.19, G:0.13, T:0.19
Consensus pattern (16 bp):
ACTTGAACTCAAAAAG
Found at i:4538 original size:21 final size:21
Alignment explanation
Indices: 4514--4553 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
4504 TCAGATAATC
4514 AATAAAAAATACAAAGGAAAA
1 AATAAAAAATACAAAGGAAAA
* *
4535 AATATAAAATATAAAGGAA
1 AATAAAAAATACAAAGGAA
4554 TTTAAAAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.72, C:0.03, G:0.10, T:0.15
Consensus pattern (21 bp):
AATAAAAAATACAAAGGAAAA
Found at i:17139 original size:313 final size:313
Alignment explanation
Indices: 16312--17253 Score: 1811
Period size: 313 Copynumber: 3.0 Consensus size: 313
16302 TAAATTACGT
16312 GTTTAGTACTTAAACTATCAGTTTTAGTTCTTTTTAGTTCCTAAACTTTCATTTTTTTTCAAAAT
1 GTTTAGTACTTAAACTATCAGTTTTAGTTCTTTTTAGTTCCTAAACTTTCATTTTTTTTCAAAAT
*
16377 CATACCTAAAGTTTAGTTTTTATTTCATTTTAGTTTCACGTCGTTAAAAATTTTAGTTTTTGTTT
66 CATACCTAAAGTTTAGTTTTTATTTCATTTTAGTTCCACGTCGTTAAAAATTTTAGTTTTTGTTT
16442 CATTTTAGTACCTCCGTTCAAAATTCAATGTTAAGTTTGAAAAAATTGAAAGTTTAAGTACTAAA
131 CATTTTAGTACCTCCGTTCAAAATTCAATGTTAAGTTTGAAAAAATTGAAAGTTTAAGTACTAAA
*
16507 ATAGACCAAAACTGATAG---A-TTACATCTTCATATGAAAACCTACGTGAACCGGAAACAAACT
196 ATGGACCAAAACTGATAGATTAGTTACATCTTCATATGAAAACCTACGTGAACCGGAAACAAACT
16568 AGGGATTTTGTAAATAACTTAAGCTTGAAGACAGTGATGGAGCAAGGATTTTA
261 AGGGATTTTGTAAATAACTTAAGCTTGAAGACAGTGATGGAGCAAGGATTTTA
*
16621 GTTTAGTACTTAAATTATCAGTTTTAGTTCTTTTTAGTTCCTAAACTTTCATTTTTTTTTTCAAA
1 GTTTAGTACTTAAACTATCAGTTTTAGTTCTTTTTAGTTCCTAAACTTTCA--TTTTTTTTCAAA
16686 ATCATACCTAAAGTTTAGTTTTTATTTCATTTTAGTTCCACGTCGTTAAAAATTTTAGTTTTTGT
64 ATCATACCTAAAGTTTAGTTTTTATTTCATTTTAGTTCCACGTCGTTAAAAATTTTAGTTTTTGT
16751 TTCATTTTAGTACCTCCGTTCAAAATTCAATGTTAAGTTTGAAAAAATTGAAAGTTTAAGTACTA
129 TTCATTTTAGTACCTCCGTTCAAAATTCAATGTTAAGTTTGAAAAAATTGAAAGTTTAAGTACTA
16816 AAATGGACCAAAACTGATAGATTAGTTACATCTTCATATGAAAACCTACGTGAACCGGAAACAAA
194 AAATGGACCAAAACTGATAGATTAGTTACATCTTCATATGAAAACCTACGTGAACCGGAAACAAA
16881 CTAGGGATTTTGTAAATAACTTAAGCTTGAAGACAGTGATGGAGCAAGGATTTTA
259 CTAGGGATTTTGTAAATAACTTAAGCTTGAAGACAGTGATGGAGCAAGGATTTTA
16936 GTTTAGTACTTAAACTATCAGTTTTAGTTCTTTTTAGTTCCTAAACTTTCATTTTTTTTCAAAAT
1 GTTTAGTACTTAAACTATCAGTTTTAGTTCTTTTTAGTTCCTAAACTTTCATTTTTTTTCAAAAT
17001 CATACCTAAAGTTTAGTTTTTATTTCATTTTAGTTCCACGTCGTTAAAAATTTTAGTTTTTGTTT
66 CATACCTAAAGTTTAGTTTTTATTTCATTTTAGTTCCACGTCGTTAAAAATTTTAGTTTTTGTTT
17066 CATTTTAGTACCTCCGTTCAAAATTCAATGTTAAGTTTGAAAAAATTGAAAGTTTAAGTACTAAA
131 CATTTTAGTACCTCCGTTCAAAATTCAATGTTAAGTTTGAAAAAATTGAAAGTTTAAGTACTAAA
17131 ATGGACCAAAACTGATAGATTAGTTACATCTTCATATGAAAACCTACGTGAACCGGAAACAAACT
196 ATGGACCAAAACTGATAGATTAGTTACATCTTCATATGAAAACCTACGTGAACCGGAAACAAACT
17196 AGGGATTTTGTAAATAACTTAAGCTTGAAGACAGTGATGGAGCAAGGATTTTA
261 AGGGATTTTGTAAATAACTTAAGCTTGAAGACAGTGATGGAGCAAGGATTTTA
17249 GTTTA
1 GTTTA
17254 AGGGGACAAA
Statistics
Matches: 623, Mismatches: 4, Indels: 8
0.98 0.01 0.01
Matches are distributed among these distances:
309 50 0.08
311 160 0.26
313 267 0.43
314 1 0.00
315 145 0.23
ACGTcount: A:0.34, C:0.13, G:0.14, T:0.39
Consensus pattern (313 bp):
GTTTAGTACTTAAACTATCAGTTTTAGTTCTTTTTAGTTCCTAAACTTTCATTTTTTTTCAAAAT
CATACCTAAAGTTTAGTTTTTATTTCATTTTAGTTCCACGTCGTTAAAAATTTTAGTTTTTGTTT
CATTTTAGTACCTCCGTTCAAAATTCAATGTTAAGTTTGAAAAAATTGAAAGTTTAAGTACTAAA
ATGGACCAAAACTGATAGATTAGTTACATCTTCATATGAAAACCTACGTGAACCGGAAACAAACT
AGGGATTTTGTAAATAACTTAAGCTTGAAGACAGTGATGGAGCAAGGATTTTA
Found at i:19292 original size:108 final size:108
Alignment explanation
Indices: 19122--19319 Score: 378
Period size: 108 Copynumber: 1.8 Consensus size: 108
19112 ACCAAATAAT
19122 CTGTGTCAAAGTAACACAAGCATCAATTTAGTAATGATTCATACATCAATAGTAAAATAAAATAC
1 CTGTGTCAAAGTAACACAAGCATCAATTTAGTAATGATTCATACATCAATAGTAAAATAAAATAC
* *
19187 GTCATAAAATTAGTGTATCAAAATATACAAATGACATCAAAAA
66 GTCATAAAATTAGCGTACCAAAATATACAAATGACATCAAAAA
19230 CTGTGTCAAAGTAACACAAGCATCAATTTAGTAATGATTCATACATCAATAGTAAAATAAAATAC
1 CTGTGTCAAAGTAACACAAGCATCAATTTAGTAATGATTCATACATCAATAGTAAAATAAAATAC
19295 GTCATAAAATTAGCGTACCAAAATA
66 GTCATAAAATTAGCGTACCAAAATA
19320 AAGACAGATT
Statistics
Matches: 88, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
108 88 1.00
ACGTcount: A:0.48, C:0.15, G:0.11, T:0.27
Consensus pattern (108 bp):
CTGTGTCAAAGTAACACAAGCATCAATTTAGTAATGATTCATACATCAATAGTAAAATAAAATAC
GTCATAAAATTAGCGTACCAAAATATACAAATGACATCAAAAA
Found at i:25957 original size:20 final size:21
Alignment explanation
Indices: 25907--25957 Score: 52
Period size: 20 Copynumber: 2.5 Consensus size: 21
25897 GCAAACTTTC
*
25907 AAAAATCA-TAAAATAATTAT
1 AAAAATAATTAAAATAATTAT
* * *
25927 TAAATTTATTAAAAT-ATTAT
1 AAAAATAATTAAAATAATTAT
25947 AAAAATAATTA
1 AAAAATAATTA
25958 TTTTGTAGCA
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
20 18 0.75
21 6 0.25
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (21 bp):
AAAAATAATTAAAATAATTAT
Found at i:26548 original size:24 final size:23
Alignment explanation
Indices: 26518--26570 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
26508 TTACTTAGAG
26518 AAAAGGAGA-AAGAAAGACTCCTAA
1 AAAAGGA-ATAAGAAAG-CTCCTAA
**
26542 AAAAGGAATAAGACTGCTCCTAA
1 AAAAGGAATAAGAAAGCTCCTAA
26565 AAAAGG
1 AAAAGG
26571 CGTAAAACGG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
23 14 0.54
24 12 0.46
ACGTcount: A:0.55, C:0.13, G:0.21, T:0.11
Consensus pattern (23 bp):
AAAAGGAATAAGAAAGCTCCTAA
Found at i:26747 original size:2 final size:2
Alignment explanation
Indices: 26734--26777 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
26724 TAATTGGAAC
*
26734 CT CT CT CC CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
26776 CT
1 CT
26778 ATATATATAT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:26782 original size:2 final size:2
Alignment explanation
Indices: 26777--26817 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
26767 TCTCTCTCTC
26777 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
26818 GCTATGATTC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:27144 original size:304 final size:305
Alignment explanation
Indices: 26787--27382 Score: 1007
Period size: 305 Copynumber: 2.0 Consensus size: 305
26777 TATATATATA
* * *
26787 TATATATATATATATATATATATATATATATGCTATGATTCAATTACATAGTTTAAAACTTCTTA
1 TATATATATATATATATATATATATATATAGGCCATGATTCAATTACATAGTTTAAAACTTATTA
26852 GTTTTACACTTTTTT-AGGATCATTAGATGATAAGAAATCAAAGACTGAGATTAACATTAATAAA
66 GTTTTACACTTTTTTAAGGATCATTAGATGATAAGAAATCAAAGACTGAGATTAACATTAATAAA
* *
26916 TGAGAATATATTCACTGAAAAAGAAAAACAAAAAGTTAATCTTAGTCTTTGATTTCCCTCATTCA
131 TGAGAAGATATTCACTGAAAAAGAAAAACAAAAAGTTAATCTTAGTCTTTGATTTCCCTCATCCA
* *
26981 ACTATTTTAAGGTGTAAAACTAAAA-CTTTTTTTATATAACCACTGGTATCTGATTTATTAATCG
196 ACTATTTTAAGGTGTAAAACTAAAAGCTTTTTTTATATAACCACTAGTATCTGAGTTATTAATCG
*
27045 GCTAAAAATTTTTACATTATGTAATTGGATTCTCTCTCTCTCTCTC
261 GCTAAAAA-TTTTACACTATGTAATTGGATTCTCTCTCTCTCTCTC
* * *
27091 TATATATATATATATATATATGTATGTATAGGCCGTGATTCAATTACATAGTTTAAAACTTATTA
1 TATATATATATATATATATATATATATATAGGCCATGATTCAATTACATAGTTTAAAACTTATTA
* * * * *
27156 GTTTTACACTTTTTTAATGATCGTTGGATGATAAGAAATCAAAGGCTGAGATTAACATTAGTAAA
66 GTTTTACACTTTTTTAAGGATCATTAGATGATAAGAAATCAAAGACTGAGATTAACATTAATAAA
27221 TGAGAAGATATTCACTGAAAAAGAAAAACAAAAAGTTAATCTTAGTCTTTGATTTCCCTCATCCA
131 TGAGAAGATATTCACTGAAAAAGAAAAACAAAAAGTTAATCTTAGTCTTTGATTTCCCTCATCCA
* *
27286 ACTATTTTAAGGTGTAAAACTAAAAGTTTTTTTTATATAACCACTAGTATCTGAGTTATTAATCT
196 ACTATTTTAAGGTGTAAAACTAAAAGCTTTTTTTATATAACCACTAGTATCTGAGTTATTAATCG
27351 GCTAAAAATTTTACACTATGTAATTGGATTCT
261 GCTAAAAATTTTACACTATGTAATTGGATTCT
27383 TTCCTCTATA
Statistics
Matches: 272, Mismatches: 18, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
304 74 0.27
305 155 0.57
306 43 0.16
ACGTcount: A:0.38, C:0.12, G:0.11, T:0.39
Consensus pattern (305 bp):
TATATATATATATATATATATATATATATAGGCCATGATTCAATTACATAGTTTAAAACTTATTA
GTTTTACACTTTTTTAAGGATCATTAGATGATAAGAAATCAAAGACTGAGATTAACATTAATAAA
TGAGAAGATATTCACTGAAAAAGAAAAACAAAAAGTTAATCTTAGTCTTTGATTTCCCTCATCCA
ACTATTTTAAGGTGTAAAACTAAAAGCTTTTTTTATATAACCACTAGTATCTGAGTTATTAATCG
GCTAAAAATTTTACACTATGTAATTGGATTCTCTCTCTCTCTCTC
Found at i:28068 original size:27 final size:27
Alignment explanation
Indices: 28038--28095 Score: 107
Period size: 27 Copynumber: 2.1 Consensus size: 27
28028 GACCTCCCAA
28038 TCCTAGTAACCGTCGTCCCCCTCCCCC
1 TCCTAGTAACCGTCGTCCCCCTCCCCC
*
28065 TCCTAGTAACCGTCGTCCTCCTCCCCC
1 TCCTAGTAACCGTCGTCCCCCTCCCCC
28092 TCCT
1 TCCT
28096 CCACGGCCAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.10, C:0.53, G:0.10, T:0.26
Consensus pattern (27 bp):
TCCTAGTAACCGTCGTCCCCCTCCCCC
Found at i:28231 original size:21 final size:20
Alignment explanation
Indices: 28207--28516 Score: 96
Period size: 21 Copynumber: 15.7 Consensus size: 20
28197 TCCGAACACG
28207 CCTCCTCCCCCTCCTCGTACA
1 CCTCCTCCCCCTCCTCGT-CA
*
28228 CCTCCT--ACC-CCTC--CA
1 CCTCCTCCCCCTCCTCGTCA
* *
28243 CCTACTCCCCCTCCTCGCGCA
1 CCTCCTCCCCCTCCTCG-TCA
* * * *
28264 CCTCTTCCCCCTCCCCCTGCT
1 CCTCCTCCCCCTCCTCGT-CA
*
28285 CCTACTCCCCCTCCTCGTACA
1 CCTCCTCCCCCTCCTCGT-CA
* *
28306 CCT-CT--TCCACCTC--CA
1 CCTCCTCCCCCTCCTCGTCA
* *
28321 CCTACTCCCCCTCCTAGCTCA
1 CCTCCTCCCCCTCCTCG-TCA
* * * *
28342 CCTCTTCCCCCTCCCCCTGCT
1 CCTCCTCCCCCTCCTCGT-CA
*
28363 CCTACTCCCCCTCCTCGTACA
1 CCTCCTCCCCCTCCTCGT-CA
**
28384 CCTCCT--ATC-CCTC--CA
1 CCTCCTCCCCCTCCTCGTCA
* *
28399 CCTACT-CCCCTCCTCGCGCA
1 CCTCCTCCCCCTCCTCG-TCA
* * *
28419 CCT-TTCCCCCCTCCTCCTCCT
1 CCTCCT-CCCCCTCCTCGT-CA
* *
28440 CCTACTCCCCCTCCTCGCGCA
1 CCTCCTCCCCCTCCTCG-TCA
* * * *
28461 CCTCTTCCCCCTCCCCCTGCT
1 CCTCCTCCCCCTCCTCGT-CA
*
28482 CCTACTCCCCCTCCTCGTACA
1 CCTCCTCCCCCTCCTCGT-CA
*
28503 CCTCCTACCCCTCC
1 CCTCCTCCCCCTCC
28517 ACCTACTCCT
Statistics
Matches: 204, Mismatches: 60, Indels: 50
0.65 0.19 0.16
Matches are distributed among these distances:
15 19 0.09
16 3 0.01
17 6 0.03
18 23 0.11
19 4 0.02
20 8 0.04
21 140 0.69
22 1 0.00
ACGTcount: A:0.09, C:0.62, G:0.05, T:0.25
Consensus pattern (20 bp):
CCTCCTCCCCCTCCTCGTCA
Found at i:28289 original size:42 final size:42
Alignment explanation
Indices: 28235--28567 Score: 301
Period size: 42 Copynumber: 8.4 Consensus size: 42
28225 ACACCTCCTA
*
28235 CCCCTCCACCTACTCCCCCTCCTCGCGCACCTCTTCCCCCTC
1 CCCCTCCTCCTACTCCCCCTCCTCGCGCACCTCTTCCCCCTC
* **
28277 CCCCTGCTCCTACTCCCCCTCCTCGTACACCTC-T-----TC
1 CCCCTCCTCCTACTCCCCCTCCTCGCGCACCTCTTCCCCCTC
* * * *
28313 CACCTCCACCTACTCCCCCTCCTAGCTCACCTCTTCCCCCTC
1 CCCCTCCTCCTACTCCCCCTCCTCGCGCACCTCTTCCCCCTC
* ** *
28355 CCCCTGCTCCTACTCCCCCTCCTCGTACA-C-C-T---CCTA
1 CCCCTCCTCCTACTCCCCCTCCTCGCGCACCTCTTCCCCCTC
* *
28391 TCCCTCCACCTACT-CCCCTCCTCGCGCACCT-TTCCCCCCTC
1 CCCCTCCTCCTACTCCCCCTCCTCGCGCACCTCTT-CCCCCTC
*
28432 CTCCTCCTCCTACTCCCCCTCCTCGCGCACCTCTTCCCCCTC
1 CCCCTCCTCCTACTCCCCCTCCTCGCGCACCTCTTCCCCCTC
* ** *
28474 CCCCTGCTCCTACTCCCCCTCCTCGTACA-C-C-T---CCTA
1 CCCCTCCTCCTACTCCCCCTCCTCGCGCACCTCTTCCCCCTC
* * *
28510 CCCCTCCACCTACTCCTCCTCCTAGCGCACCTCTTCCCCCTC
1 CCCCTCCTCCTACTCCCCCTCCTCGCGCACCTCTTCCCCCTC
* *
28552 CCCCTCCCCCTGCTCC
1 CCCCTCCTCCTACTCC
28568 TACTCCCCCT
Statistics
Matches: 230, Mismatches: 40, Indels: 42
0.74 0.13 0.13
Matches are distributed among these distances:
35 12 0.05
36 70 0.30
37 3 0.01
38 1 0.00
39 3 0.01
40 2 0.01
41 17 0.07
42 120 0.52
43 2 0.01
ACGTcount: A:0.08, C:0.62, G:0.05, T:0.24
Consensus pattern (42 bp):
CCCCTCCTCCTACTCCCCCTCCTCGCGCACCTCTTCCCCCTC
Found at i:28304 original size:78 final size:78
Alignment explanation
Indices: 28211--28483 Score: 399
Period size: 78 Copynumber: 3.5 Consensus size: 78
28201 AACACGCCTC
28211 CTCCCCCTCCTCGTACACCTCCTACCCCTCCACCTACTCCCCCTCCTCGCGCACCTCTTCCCCCT
1 CTCCCCCTCCTCGTACACCTCCTACCCCTCCACCTACTCCCCCTCCTCGCGCACCTCTTCCCCCT
28276 CCCCCTGCTCCTA
66 CCCCCTGCTCCTA
* * *
28289 CTCCCCCTCCTCGTACACCT-CTTCCACCTCCACCTACTCCCCCTCCTAGCTCACCTCTTCCCCC
1 CTCCCCCTCCTCGTACACCTCCTACC-CCTCCACCTACTCCCCCTCCTCGCGCACCTCTTCCCCC
28353 TCCCCCTGCTCCTA
65 TCCCCCTGCTCCTA
*
28367 CTCCCCCTCCTCGTACACCTCCTATCCCTCCACCTACT-CCCCTCCTCGCGCACCT-TTCCCCCC
1 CTCCCCCTCCTCGTACACCTCCTACCCCTCCACCTACTCCCCCTCCTCGCGCACCTCTT-CCCCC
* *
28430 TCCTCCTCCTCCTA
65 TCCCCCTGCTCCTA
** * * * *
28444 CTCCCCCTCCTCGCGCACCTCTTCCCCCTCCCCCTGCTCC
1 CTCCCCCTCCTCGTACACCTCCTACCCCTCCACCTACTCC
28484 TACTCCCCCT
Statistics
Matches: 175, Mismatches: 16, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
76 2 0.01
77 67 0.38
78 103 0.59
79 3 0.02
ACGTcount: A:0.08, C:0.62, G:0.05, T:0.25
Consensus pattern (78 bp):
CTCCCCCTCCTCGTACACCTCCTACCCCTCCACCTACTCCCCCTCCTCGCGCACCTCTTCCCCCT
CCCCCTGCTCCTA
Found at i:28472 original size:119 final size:120
Alignment explanation
Indices: 28315--28567 Score: 411
Period size: 119 Copynumber: 2.1 Consensus size: 120
28305 ACCTCTTCCA
*
28315 CCTCCACCTACTCCCCCTCCTAGCTCACCTCTTCCCCCTCCCCCTGCTCCTACTCCCCCTCCTCG
1 CCTCCACCTACTCCCCCTCCTAGCGCACCTCTTCCCCCTCCCCCTGCTCCTACTCCCCCTCCTCG
* * *
28380 TACACCTCCTATCCCTCCACCTACTCC-CCTCCTCGCGCACCT-TTCCCCCCTCCT
66 TACACCTCCTACCCCTCCACCTACTCCTCCTCCTAGCGCACCTCTT-CCCCCTCCC
* *
28434 CCTCCTCCTACTCCCCCTCCTCGCGCACCTCTTCCCCCTCCCCCTGCTCCTACTCCCCCTCCTCG
1 CCTCCACCTACTCCCCCTCCTAGCGCACCTCTTCCCCCTCCCCCTGCTCCTACTCCCCCTCCTCG
28499 TACACCTCCTACCCCTCCACCTACTCCTCCTCCTAGCGCACCTCTTCCCCCTCCC
66 TACACCTCCTACCCCTCCACCTACTCCTCCTCCTAGCGCACCTCTTCCCCCTCCC
* *
28554 CCTCCCCCTGCTCC
1 CCTCCACCTACTCC
28568 TACTCCCCCT
Statistics
Matches: 124, Mismatches: 8, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
119 88 0.71
120 34 0.27
121 2 0.02
ACGTcount: A:0.08, C:0.62, G:0.05, T:0.25
Consensus pattern (120 bp):
CCTCCACCTACTCCCCCTCCTAGCGCACCTCTTCCCCCTCCCCCTGCTCCTACTCCCCCTCCTCG
TACACCTCCTACCCCTCCACCTACTCCTCCTCCTAGCGCACCTCTTCCCCCTCCC
Found at i:28527 original size:21 final size:21
Alignment explanation
Indices: 28425--28732 Score: 122
Period size: 21 Copynumber: 15.6 Consensus size: 21
28415 CGCACCTTTC
* * *
28425 CCCCCTCCTCCTCCTCCTACT
1 CCCCCTCCACCTACTCCTCCT
* * * *
28446 CCCCCTCCTCGC-GCACCTCTT
1 CCCCCTCCAC-CTACTCCTCCT
* * *
28467 CCCCCTCCCCCTGCTCCTACT
1 CCCCCTCCACCTACTCCTCCT
* * *
28488 CCCCCTCCTCGTACACCTCCT
1 CCCCCTCCACCTACTCCTCCT
*
28509 ACCCCTCCACCTACTCCTCCT
1 CCCCCTCCACCTACTCCTCCT
** * *
28530 CCTAGC-GCACCT-CTTCCCCCT
1 CC-CCCTCCACCTAC-TCCTCCT
* * *
28551 CCCCCTCCCCCTGCTCCTACT
1 CCCCCTCCACCTACTCCTCCT
28572 CCCCCTCCACCTACT-C-CC-
1 CCCCCTCCACCTACTCCTCCT
* * * *
28590 CCTCCT--AGC-ACACCTCTT
1 CCCCCTCCACCTACTCCTCCT
* *
28608 CCCCCT-CACCCTGCTCCTACT
1 CCCCCTCCA-CCTACTCCTCCT
* *
28629 CCCCCTCCACGTACACCTCCT
1 CCCCCTCCACCTACTCCTCCT
*
28650 ACCCCTCCACCTA---CTCCT
1 CCCCCTCCACCTACTCCTCCT
*
28668 CCCCCTCC-CC--CCCCT-CT
1 CCCCCTCCACCTACTCCTCCT
28685 CCCCCTCCACCT-C-CC-CCT
1 CCCCCTCCACCTACTCCTCCT
*
28703 CCACCTCCACCT-C-CC-CCT
1 CCCCCTCCACCTACTCCTCCT
*
28721 CCACCTCCACCT
1 CCCCCTCCACCT
28733 CCACCAGCTA
Statistics
Matches: 219, Mismatches: 49, Indels: 41
0.71 0.16 0.13
Matches are distributed among these distances:
15 2 0.01
16 3 0.01
17 13 0.06
18 59 0.27
19 3 0.01
20 5 0.02
21 129 0.59
22 5 0.02
ACGTcount: A:0.09, C:0.65, G:0.03, T:0.22
Consensus pattern (21 bp):
CCCCCTCCACCTACTCCTCCT
Found at i:28583 original size:78 final size:78
Alignment explanation
Indices: 28434--28594 Score: 205
Period size: 78 Copynumber: 2.1 Consensus size: 78
28424 CCCCCCTCCT
* * * * * * *
28434 CCTCCTCCTACTCCCCCTCCTCGCGCACCTCTTCCCCCTCCCCCTGCTCCTACTCCCCCTCCTCG
1 CCTCCACCTACTCCCCCTCCTAGCGCACCTCTTCCCCCTCCCCCTCCCCCTACTCCCACTCCCCC
*
28499 TACACCTCCTACC
66 TACACCTACTACC
* * *
28512 CCTCCACCTACTCCTCCTCCTAGCGCACCTCTTCCCCCTCCCCCTCCCCCTGCTCCTACTCCCCC
1 CCTCCACCTACTCCCCCTCCTAGCGCACCTCTTCCCCCTCCCCCTCCCCCTACTCCCACTCCCCC
* *
28577 TCCACCTACTCCC
66 TACACCTACTACC
28590 CCTCC
1 CCTCC
28595 TAGCACACCT
Statistics
Matches: 70, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
78 70 1.00
ACGTcount: A:0.08, C:0.64, G:0.04, T:0.24
Consensus pattern (78 bp):
CCTCCACCTACTCCCCCTCCTAGCGCACCTCTTCCCCCTCCCCCTCCCCCTACTCCCACTCCCCC
TACACCTACTACC
Found at i:28593 original size:15 final size:14
Alignment explanation
Indices: 28544--28594 Score: 61
Period size: 15 Copynumber: 3.6 Consensus size: 14
28534 GCGCACCTCT
28544 TCCCCCTCCCC--C
1 TCCCCCTCCCCTAC
*
28556 TCCCCCTGCTCCTAC
1 TCCCCCT-CCCCTAC
28571 TCCCCCTCCACCTAC
1 TCCCCCTCC-CCTAC
28586 TCCCCCTCC
1 TCCCCCTCC
28595 TAGCACACCT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
12 7 0.21
13 3 0.09
14 1 0.03
15 22 0.67
ACGTcount: A:0.06, C:0.71, G:0.02, T:0.22
Consensus pattern (14 bp):
TCCCCCTCCCCTAC
Found at i:28613 original size:141 final size:142
Alignment explanation
Indices: 28428--28726 Score: 440
Period size: 141 Copynumber: 2.1 Consensus size: 142
28418 ACCTTTCCCC
* * * * *
28428 CCTCCTCCTCCTCCTACTCCCCCTCCTCGCGCACCTCTTCCCCCTCCCCCTGCTCCTACTCCCCC
1 CCTCCCCCTCCACCTACTCCCCCTCCTAGCACACCTCTTCCCCCTCACCCTGCTCCTACTCCCCC
* * * * *
28493 TCCTCGTACACCTCCTACCCCTCCACCTACTCCTCCTCCTAGCGCACCTCTTCCCCCTCCCCCTC
66 TCCACGTACACCTCCTACCCCTCCACCTACTCCTCCCCCTACCCCACCTC-TCCCCCTCCACCTC
* *
28558 CCCCTGCTCCT-A
130 CCCCTCCACCTCA
28570 -CTCCCCCTCCACCTACTCCCCCTCCTAGCACACCTCTTCCCCCTCACCCTGCTCCTACTCCCCC
1 CCTCCCCCTCCACCTACTCCCCCTCCTAGCACACCTCTTCCCCCTCACCCTGCTCCTACTCCCCC
* *
28634 TCCACGTACACCTCCTACCCCTCCACCTACTCCTCCCCCTCCCCCCCCTCTCCCCCTCCACCTCC
66 TCCACGTACACCTCCTACCCCTCCACCTACTCCTCCCCCTACCCCACCTCTCCCCCTCCACCTCC
28699 CCCTCCACCTCCA
131 CCCTCCACCT-CA
28712 CCTCCCCCTCCACCT
1 CCTCCCCCTCCACCT
28727 CCACCTCCAC
Statistics
Matches: 140, Mismatches: 14, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
140 22 0.16
141 103 0.74
142 1 0.01
143 14 0.10
ACGTcount: A:0.09, C:0.65, G:0.03, T:0.22
Consensus pattern (142 bp):
CCTCCCCCTCCACCTACTCCCCCTCCTAGCACACCTCTTCCCCCTCACCCTGCTCCTACTCCCCC
TCCACGTACACCTCCTACCCCTCCACCTACTCCTCCCCCTACCCCACCTCTCCCCCTCCACCTCC
CCCTCCACCTCA
Found at i:28646 original size:63 final size:63
Alignment explanation
Indices: 28516--28657 Score: 167
Period size: 63 Copynumber: 2.3 Consensus size: 63
28506 CCTACCCCTC
* * * * * * *
28516 CACCTACTCCTCCTCCTAGCGCACCTCTTCCCCCTCCCCCTCCCCCTGCTCCTACTCCCCCTC
1 CACCTACTCCCCCTCCTAGCACACCTCTTCCCCCTCACCCTCCCCCTACTCCCACTCCACCTA
* * * *
28579 CACCTACTCCCCCTCCTAGCACACCTCTTCCCCCTCACCCTGCTCCTACTCCCCCTCCACGTA
1 CACCTACTCCCCCTCCTAGCACACCTCTTCCCCCTCACCCTCCCCCTACTCCCACTCCACCTA
* *
28642 CACCTCCTACCCCTCC
1 CACCTACTCCCCCTCC
28658 ACCTACTCCT
Statistics
Matches: 66, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
63 66 1.00
ACGTcount: A:0.11, C:0.62, G:0.04, T:0.23
Consensus pattern (63 bp):
CACCTACTCCCCCTCCTAGCACACCTCTTCCCCCTCACCCTCCCCCTACTCCCACTCCACCTA
Found at i:28661 original size:57 final size:58
Alignment explanation
Indices: 28549--28696 Score: 155
Period size: 57 Copynumber: 2.6 Consensus size: 58
28539 CCTCTTCCCC
* *
28549 CTCCCCCTCCCCCTGCTCCTACTCCCCCTCCACCTACTCCCCCTCCTAGCACACCT-CT
1 CTCCCCCT-CCCCTGCTCCTACTCCCCCTCCACCTACACCCCCTCCCAGCACACCTACT
* * **
28607 -TCCCCCTCACCCTGCTCCTACTCCCCCTCCACGTACACCTCCTACCCCTC-CACCTACT
1 CTCCCCCTC-CCCTGCTCCTACTCCCCCTCCACCTACACCCCCT-CCCAGCACACCTACT
*
28665 CCTCCCCCTCCCC--CCCCT-CTCCCCCTCCACCT
1 -CTCCCCCTCCCCTGCTCCTACTCCCCCTCCACCT
28697 CCCCCTCCAC
Statistics
Matches: 77, Mismatches: 8, Indels: 12
0.79 0.08 0.12
Matches are distributed among these distances:
56 14 0.18
57 47 0.61
58 5 0.06
59 3 0.04
60 8 0.10
ACGTcount: A:0.10, C:0.66, G:0.03, T:0.22
Consensus pattern (58 bp):
CTCCCCCTCCCCTGCTCCTACTCCCCCTCCACCTACACCCCCTCCCAGCACACCTACT
Found at i:28735 original size:6 final size:6
Alignment explanation
Indices: 28653--28737 Score: 84
Period size: 6 Copynumber: 14.3 Consensus size: 6
28643 ACCTCCTACC
* * * * * *
28653 CCTCCA CCTACT CCTCCC CCTCC- CC-CCC CTCTCCC CCTCCA CCTCCC
1 CCTCCA CCTCCA CCTCCA CCTCCA CCTCCA C-CTCCA CCTCCA CCTCCA
*
28700 CCTCCA CCTCCA CCTCCC CCTCCA CCTCCA CCTCCA CC
1 CCTCCA CCTCCA CCTCCA CCTCCA CCTCCA CCTCCA CC
28738 AGCTACCTGC
Statistics
Matches: 67, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
4 2 0.03
5 3 0.04
6 58 0.87
7 4 0.06
ACGTcount: A:0.09, C:0.73, G:0.00, T:0.18
Consensus pattern (6 bp):
CCTCCA
Found at i:32500 original size:20 final size:20
Alignment explanation
Indices: 32475--32545 Score: 115
Period size: 20 Copynumber: 3.5 Consensus size: 20
32465 CTTTTTAAGC
32475 GTTTCGAAACTATCTCAAGA
1 GTTTCGAAACTATCTCAAGA
*
32495 GTTTCGAAACTATCTAAAGA
1 GTTTCGAAACTATCTCAAGA
* *
32515 GTTTTGAAACTATCTCAAGG
1 GTTTCGAAACTATCTCAAGA
32535 GTTTCGAAACT
1 GTTTCGAAACT
32546 TTCCCTAAAG
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Consensus pattern (20 bp):
GTTTCGAAACTATCTCAAGA
Found at i:37559 original size:11 final size:12
Alignment explanation
Indices: 37528--37571 Score: 53
Period size: 11 Copynumber: 4.1 Consensus size: 12
37518 TCAAAAATCA
37528 TAAAATAATTAT
1 TAAAATAATTAT
37540 T-AAAT--TTAT
1 TAAAATAATTAT
37549 TAAAAT-ATTA-
1 TAAAATAATTAT
37559 TAAAATAATTAT
1 TAAAATAATTAT
37571 T
1 T
37572 TTGTAGCAGC
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
9 5 0.18
10 10 0.36
11 11 0.39
12 2 0.07
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (12 bp):
TAAAATAATTAT
Found at i:38600 original size:16 final size:15
Alignment explanation
Indices: 38579--38616 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 15
38569 CATGATCCAA
38579 TTACACTGTGTAAATT
1 TTACACT-TGTAAATT
38595 TTACACCTTGTAAATT
1 TTACA-CTTGTAAATT
38611 TTACAC
1 TTACAC
38617 ATTTTTAGGA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 1 0.05
16 18 0.86
17 2 0.10
ACGTcount: A:0.32, C:0.18, G:0.08, T:0.42
Consensus pattern (15 bp):
TTACACTTGTAAATT
Found at i:39665 original size:304 final size:302
Alignment explanation
Indices: 39112--39688 Score: 992
Period size: 304 Copynumber: 1.9 Consensus size: 302
39102 TCTCTCTCTC
* * *
39112 TATATATATATATAGGTTATGATTCAATTACATAGTTTAAAACTTCTTAGTTTTACACTTTTTTA
1 TATATATATATATAGGCTATAATTCAATTACATAGTTTAAAACTTATTAGTTTTACACTTTTTTA
39177 GGATCATTAGATGATAAGAAATCAAAGGCTGAGATTAACATTAATAAATGAGAAGATATTCACTG
66 GGATCATTAGATGATAAGAAATCAAAGGCTGAGATTAACATTAATAAATGAGAAGATATTCACTG
* * *
39242 AAAAAGAAAAATAAAAAGTTAATCTTAGTCTTTGATTTCCCTCATTCAACTATTTTAAGGTGTAA
131 AAAAAGAAAAACAAAAAGTTAATCTTAGTCTTTGATTTCCCTCATCCAAATATTTTAAGGTGTAA
* *
39307 AACTAAAAGTTTTTTTTATATAACCACTGGTATCTGATTTGTTAATCGGCTAAAAATTTTTACAT
196 AACTAAAAGTTTTTTTTATATAACCACTGGTATCTGATTTATTAATCGGCTAAAAA-TTTTACAC
39372 TATGTAATTGGATTCTCTCTCTCTCTCTCTCTATATATATATA
260 TATGTAATTGGATTCTCTCTCTCTCTCTCTCTATATATATATA
* *
39415 TATATATATGTATAGGCTGTAATTCAATTACATAGTTTAAAACTTATTAGTTTTACACTTTTTTA
1 TATATATATATATAGGCTATAATTCAATTACATAGTTTAAAACTTATTAGTTTTACACTTTTTT-
* * * * *
39480 ATGATCGTTGGATGATAAGAAATCAAAGGCTGAGATTAACATTAGTAAATGAGAAGGTATTCACT
65 AGGATCATTAGATGATAAGAAATCAAAGGCTGAGATTAACATTAATAAATGAGAAGATATTCACT
39545 GAAAAAGAAAAACAAAAAGTTAATCTTAGTCTTTGATTTCCCTCATCCAAATATTTTAAGGTGTA
130 GAAAAAGAAAAACAAAAAGTTAATCTTAGTCTTTGATTTCCCTCATCCAAATATTTTAAGGTGTA
*
39610 AAACTAAAAGTTTTTTTTATATAACCACTGGTATCTGATTTATTAATCTGCTAAAAATTTTACAC
195 AAACTAAAAGTTTTTTTTATATAACCACTGGTATCTGATTTATTAATCGGCTAAAAATTTTACAC
39675 TATGTAATTGGATT
260 TATGTAATTGGATT
39689 ATTTCCTCTA
Statistics
Matches: 257, Mismatches: 16, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
303 80 0.31
304 177 0.69
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.39
Consensus pattern (302 bp):
TATATATATATATAGGCTATAATTCAATTACATAGTTTAAAACTTATTAGTTTTACACTTTTTTA
GGATCATTAGATGATAAGAAATCAAAGGCTGAGATTAACATTAATAAATGAGAAGATATTCACTG
AAAAAGAAAAACAAAAAGTTAATCTTAGTCTTTGATTTCCCTCATCCAAATATTTTAAGGTGTAA
AACTAAAAGTTTTTTTTATATAACCACTGGTATCTGATTTATTAATCGGCTAAAAATTTTACACT
ATGTAATTGGATTCTCTCTCTCTCTCTCTCTATATATATATA
Found at i:40398 original size:27 final size:27
Alignment explanation
Indices: 40368--40424 Score: 96
Period size: 27 Copynumber: 2.1 Consensus size: 27
40358 GACCTCCCAA
*
40368 TCCTAGTAACCGTCGTCCCCCTCCCCC
1 TCCTAGTAACCGTCATCCCCCTCCCCC
*
40395 TCCTAGTAACCGTCATCCTCCTCCCCC
1 TCCTAGTAACCGTCATCCCCCTCCCCC
40422 TCC
1 TCC
40425 CCCTCCTCCA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.12, C:0.54, G:0.09, T:0.25
Consensus pattern (27 bp):
TCCTAGTAACCGTCATCCCCCTCCCCC
Found at i:40622 original size:42 final size:41
Alignment explanation
Indices: 40576--40995 Score: 326
Period size: 42 Copynumber: 10.5 Consensus size: 41
40566 ACACCTCCTA
*
40576 CCCCTCCACCTACTCCCCCTCCTCGCGCACCTCTTCCCCCTC
1 CCCCTCCTCCTACTCCCCCTCCTCGCGCACCTCTT-CCCCTC
* **
40618 CCCCTTCTCCTACTCCCCCTCCTCGTACACCTC-T----T-
1 CCCCTCCTCCTACTCCCCCTCCTCGCGCACCTCTTCCCCTC
* * * *
40653 CACCTCCACCTACTCCCCCTCCTAGCTCACCTCTTCCCCCCCCCTC
1 CCCCTCCTCCTACTCCCCCTCCTCGCGCACCTCTT-----CCCCTC
* ** *
40699 CCCCTGCTCCTACTCCCCCTCCTCGTACA-C-C-T--CCTA
1 CCCCTCCTCCTACTCCCCCTCCTCGCGCACCTCTTCCCCTC
* *
40735 TCCCTCCACCTACTCCCCCTCCTCGCGCACCT-TTCCCCCCTC
1 CCCCTCCTCCTACTCCCCCTCCTCGCGCACCTCTT--CCCCTC
* *
40777 CTCCTGCTCCTACTCCCCCTCCTCGCGCACCTCTTCCCCCTC
1 CCCCTCCTCCTACTCCCCCTCCTCGCGCACCTCTT-CCCCTC
* ** *
40819 CCCCTGCTCCTACTCCCCCTCCTCGTACA-C-C-T--CCTA
1 CCCCTCCTCCTACTCCCCCTCCTCGCGCACCTCTTCCCCTC
* * *
40855 CCCCTCCACCTACTCCTCCTCCTAGCGCACCTCTTCCCCTC
1 CCCCTCCTCCTACTCCCCCTCCTCGCGCACCTCTTCCCCTC
* ** *
40896 CCCCTGCTCCTACTCCCCCTCCTCGTACA-C-C-T--CCTA
1 CCCCTCCTCCTACTCCCCCTCCTCGCGCACCTCTTCCCCTC
* *
40932 CCCCTCCACCTACTCCCCCTCCTAGCGCACCTCTTCCCCCTC
1 CCCCTCCTCCTACTCCCCCTCCTCGCGCACCTCTT-CCCCTC
*
40974 CCCCTGCTCCTACTCCCCCTCC
1 CCCCTCCTCCTACTCCCCCTCC
40996 ACGTACACCT
Statistics
Matches: 295, Mismatches: 53, Indels: 60
0.72 0.13 0.15
Matches are distributed among these distances:
35 27 0.09
36 82 0.28
37 3 0.01
38 4 0.01
39 4 0.01
40 2 0.01
41 28 0.09
42 116 0.39
43 3 0.01
44 1 0.00
45 2 0.01
46 23 0.08
ACGTcount: A:0.09, C:0.62, G:0.05, T:0.24
Consensus pattern (41 bp):
CCCCTCCTCCTACTCCCCCTCCTCGCGCACCTCTTCCCCTC
Found at i:40634 original size:21 final size:21
Alignment explanation
Indices: 40548--40995 Score: 95
Period size: 21 Copynumber: 21.4 Consensus size: 21
40538 ACACGCCTCC
* * *
40548 CCCCCTCCCCCTCCTCGTACA
1 CCCCCTCCCCCTCCACCTACT
* *
40569 CCTCCTACCCCTCCACCTACT
1 CCCCCTCCCCCTCCACCTACT
* *
40590 CCCCCTCCTCGC-GCACCT-CTT
1 CCCCCTCC-CCCTCCACCTAC-T
* *
40611 CCCCCTCCCCCTTCTCCTACT
1 CCCCCTCCCCCTCCACCTACT
* * *
40632 CCCCCTCCTCGTACACCT-CT
1 CCCCCTCCCCCTCCACCTACT
*
40652 -----T-CACCTCCACCTACT
1 CCCCCTCCCCCTCCACCTACT
**
40667 CCCCCTCCTAGCT-CACCT-CT
1 CCCCCTCC-CCCTCCACCTACT
* * *
40687 TCCCC-CCCCCTCCCCCTGCT
1 CCCCCTCCCCCTCCACCTACT
** * * *
40707 CCTACTCCCCCTCCTCGTACA
1 CCCCCTCCCCCTCCACCTACT
* **
40728 CCTCCTATCCCTCCACCTACT
1 CCCCCTCCCCCTCCACCTACT
* * *
40749 CCCCCTCCTCGC-GCACCT-TT
1 CCCCCTCC-CCCTCCACCTACT
* * *
40769 CCCCCCTCCTCCTGCTCCTACT
1 -CCCCCTCCCCCTCCACCTACT
* *
40791 CCCCCTCCTCGC-GCACCT-CTT
1 CCCCCTCC-CCCTCCACCTAC-T
* *
40812 CCCCCTCCCCCTGCTCCTACT
1 CCCCCTCCCCCTCCACCTACT
* * * *
40833 CCCCCTCCTCGTACACCTCCT
1 CCCCCTCCCCCTCCACCTACT
* * *
40854 ACCCCTCCACCTACTCCTCCTCCT
1 CCCCCTCC-CC--CTCCACCTACT
* * *
40878 AGCGCACCTCTTCCCCTCCCCCTGCT
1 --C-C-CC-CTCCCCCTCCACCTACT
** * * *
40904 CCTACTCCCCCTCCTCGTACA
1 CCCCCTCCCCCTCCACCTACT
* *
40925 CCTCCTACCCCTCCACCTACT
1 CCCCCTCCCCCTCCACCTACT
** *
40946 CCCCCTCCTAGC-GCACCT-CTT
1 CCCCCTCC-CCCTCCACCTAC-T
* *
40967 CCCCCTCCCCCTGCTCCTACT
1 CCCCCTCCCCCTCCACCTACT
40988 CCCCCTCC
1 CCCCCTCC
40996 ACGTACACCT
Statistics
Matches: 306, Mismatches: 86, Indels: 70
0.66 0.19 0.15
Matches are distributed among these distances:
14 8 0.03
15 3 0.01
18 2 0.01
19 6 0.02
20 23 0.08
21 223 0.73
22 14 0.05
23 1 0.00
24 9 0.03
26 9 0.03
27 1 0.00
28 4 0.01
29 3 0.01
ACGTcount: A:0.09, C:0.62, G:0.05, T:0.24
Consensus pattern (21 bp):
CCCCCTCCCCCTCCACCTACT
Found at i:40867 original size:78 final size:78
Alignment explanation
Indices: 40785--41025 Score: 448
Period size: 78 Copynumber: 3.1 Consensus size: 78
40775 TCCTCCTGCT
*
40785 CCTACTCCCCCTCCTCGCGCACCTCTTCCCCCTCCCCCTGCTCCTACTCCCCCTCCTCGTACACC
1 CCTACTCCCCCTCCTAGCGCACCTCTTCCCCCTCCCCCTGCTCCTACTCCCCCTCCTCGTACACC
40850 TCCTACCCCTCCA
66 TCCTACCCCTCCA
*
40863 CCTACTCCTCCTCCTAGCGCACCTCTT-CCCCTCCCCCTGCTCCTACTCCCCCTCCTCGTACACC
1 CCTACTCCCCCTCCTAGCGCACCTCTTCCCCCTCCCCCTGCTCCTACTCCCCCTCCTCGTACACC
40927 TCCTACCCCTCCA
66 TCCTACCCCTCCA
*
40940 CCTACTCCCCCTCCTAGCGCACCTCTTCCCCCTCCCCCTGCTCCTACTCCCCCTCCACGTACACC
1 CCTACTCCCCCTCCTAGCGCACCTCTTCCCCCTCCCCCTGCTCCTACTCCCCCTCCTCGTACACC
41005 TCCTACCCCTCCA
66 TCCTACCCCTCCA
41018 CCTACTCC
1 CCTACTCC
41026 TCCCCTCCCT
Statistics
Matches: 158, Mismatches: 4, Indels: 2
0.96 0.02 0.01
Matches are distributed among these distances:
77 76 0.48
78 82 0.52
ACGTcount: A:0.10, C:0.61, G:0.05, T:0.23
Consensus pattern (78 bp):
CCTACTCCCCCTCCTAGCGCACCTCTTCCCCCTCCCCCTGCTCCTACTCCCCCTCCTCGTACACC
TCCTACCCCTCCA
Found at i:41013 original size:21 final size:21
Alignment explanation
Indices: 40989--41028 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
40979 GCTCCTACTC
*
40989 CCCCTCCACGTACACCTCCTA
1 CCCCTCCACCTACACCTCCTA
*
41010 CCCCTCCACCTACTCCTCC
1 CCCCTCCACCTACACCTCC
41029 CCTCCCTCTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.15, C:0.62, G:0.03, T:0.20
Consensus pattern (21 bp):
CCCCTCCACCTACACCTCCTA
Found at i:41071 original size:6 final size:6
Alignment explanation
Indices: 41012--41073 Score: 65
Period size: 6 Copynumber: 10.3 Consensus size: 6
41002 ACCTCCTACC
* * *
41012 CCTCCA CCTACT CCTCC- CCTCC- CTCTCCCA CCTCCC CCTCCA CCTCCA
1 CCTCCA CCTCCA CCTCCA CCTCCA C-CT-CCA CCTCCA CCTCCA CCTCCA
41060 CCTCCA CCTCCA CC
1 CCTCCA CCTCCA CC
41074 AGTTACCTGC
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
5 6 0.12
6 37 0.77
7 4 0.08
8 1 0.02
ACGTcount: A:0.11, C:0.69, G:0.00, T:0.19
Consensus pattern (6 bp):
CCTCCA
Found at i:43911 original size:167 final size:168
Alignment explanation
Indices: 43605--43939 Score: 647
Period size: 167 Copynumber: 2.0 Consensus size: 168
43595 AGCACCAAAT
43605 CCTCCTTCTCGACAAAGTATTTTTCAAACAAAACATTACAACGATGCTTCCAAAGCTGCCGAATA
1 CCTCCTTCTCGACAAAGTATTTTTCAAACAAAACATTACAACGATGCTTCCAAAGCTGCCGAATA
43670 ATAGTTGGAAAAAGGATATTCCAATTACTTTTAACAACAATAAAATAAAACAGAAACAACAAATG
66 ATAGTTGGAAAAAGGATATTCCAATTACTTTTAACAACAATAAAATAAAACAGAAACAACAAATG
43735 TCGATAATAATTAAACC-AATAAGAAGCAGTGACTGAA
131 TCGATAATAATTAAACCAAATAAGAAGCAGTGACTGAA
43772 CCTCCTTCTCGACAAAGTATTTTTCAAACAAAACATTACAACGATGCTTCCAAAGCTGCCGAATA
1 CCTCCTTCTCGACAAAGTATTTTTCAAACAAAACATTACAACGATGCTTCCAAAGCTGCCGAATA
43837 ATAGTTGGAAAAAGGATATTCCAATTACTTTTAACAACAAT-AAATAAAACAGAAACAACAAATG
66 ATAGTTGGAAAAAGGATATTCCAATTACTTTTAACAACAATAAAATAAAACAGAAACAACAAATG
43901 TCGAATAATAATTAAACCAAATAAGAAGCAGTGACTGAA
131 TCG-ATAATAATTAAACCAAATAAGAAGCAGTGACTGAA
43940 ATAAATTTTT
Statistics
Matches: 166, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
166 26 0.16
167 120 0.72
168 20 0.12
ACGTcount: A:0.46, C:0.19, G:0.12, T:0.24
Consensus pattern (168 bp):
CCTCCTTCTCGACAAAGTATTTTTCAAACAAAACATTACAACGATGCTTCCAAAGCTGCCGAATA
ATAGTTGGAAAAAGGATATTCCAATTACTTTTAACAACAATAAAATAAAACAGAAACAACAAATG
TCGATAATAATTAAACCAAATAAGAAGCAGTGACTGAA
Found at i:44296 original size:134 final size:133
Alignment explanation
Indices: 44080--44351 Score: 503
Period size: 134 Copynumber: 2.0 Consensus size: 133
44070 TGTACAACAT
44080 ACAAAAATATGGGATTTACCCCAAGTGTGAAAACACGTTGAGGGGCTGCGAAACGGTGCCGTTTC
1 ACAAAAATATGGGATTTACCCCAAGTGTGAAAACACGTTGAGGGGCTGCGAAACGGTGCCGTTTC
44145 TTGTTGCGTATTTAATCCCCAAAACATGTTTATTTCTCTG-TTACCCATTCCTCTTCTTTCACAG
66 TTGTTGCGTATTTAATCCCCAAAACATGTTTA-TTCTCTGTTTACCCATTCCTCTTCTTTCACAG
44209 AAAA
130 AAAA
44213 ACAAAAATATGGGGATTTACCCCAAGTGTG-AAACACGTTGAGGGGGCTGCGAAACGGTGCCGTT
1 ACAAAAATAT-GGGATTTACCCCAAGTGTGAAAACACGTTGA-GGGGCTGCGAAACGGTGCCGTT
44277 TCTTGTTGCGTATTTAATCCCCAAAACATGTTTATTCTCTGTTTACCCATTCCTCTTCTTTCACA
64 TCTTGTTGCGTATTTAATCCCCAAAACATGTTTATTCTCTGTTTACCCATTCCTCTTCTTTCACA
44342 GAAAA
129 GAAAA
44347 ACAAA
1 ACAAA
44352 GAGAAAAAGA
Statistics
Matches: 136, Mismatches: 0, Indels: 5
0.96 0.00 0.04
Matches are distributed among these distances:
133 28 0.21
134 108 0.79
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.31
Consensus pattern (133 bp):
ACAAAAATATGGGATTTACCCCAAGTGTGAAAACACGTTGAGGGGCTGCGAAACGGTGCCGTTTC
TTGTTGCGTATTTAATCCCCAAAACATGTTTATTCTCTGTTTACCCATTCCTCTTCTTTCACAGA
AAA
Found at i:47600 original size:11 final size:12
Alignment explanation
Indices: 47569--47612 Score: 53
Period size: 11 Copynumber: 4.1 Consensus size: 12
47559 TCAAAAATCA
47569 TAAAATAATTAT
1 TAAAATAATTAT
47581 T-AAAT--TTAT
1 TAAAATAATTAT
47590 TAAAAT-ATTA-
1 TAAAATAATTAT
47600 TAAAATAATTAT
1 TAAAATAATTAT
47612 T
1 T
47613 TTGTAGCAGC
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
9 5 0.18
10 10 0.36
11 11 0.39
12 2 0.07
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (12 bp):
TAAAATAATTAT
Found at i:48995 original size:2 final size:2
Alignment explanation
Indices: 48990--49023 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
48980 TCTCTCTCTC
48990 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
49024 GCTATAATCC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:49062 original size:15 final size:15
Alignment explanation
Indices: 49042--49073 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
49032 CCAATTACAC
49042 AGTTTAAAACTTTTT
1 AGTTTAAAACTTTTT
*
49057 AGTTTATAACTTTTT
1 AGTTTAAAACTTTTT
49072 AG
1 AG
49074 GATCGTTGGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.31, C:0.06, G:0.09, T:0.53
Consensus pattern (15 bp):
AGTTTAAAACTTTTT
Found at i:49983 original size:26 final size:27
Alignment explanation
Indices: 49954--50009 Score: 105
Period size: 26 Copynumber: 2.1 Consensus size: 27
49944 GACCTCTCAA
49954 TCCTAGTAACCGTCGTCC-CCTCCCCC
1 TCCTAGTAACCGTCGTCCTCCTCCCCC
49980 TCCTAGTAACCGTCGTCCTCCTCCCCC
1 TCCTAGTAACCGTCGTCCTCCTCCCCC
50007 TCC
1 TCC
50010 CCCTCCTCCA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
26 18 0.62
27 11 0.38
ACGTcount: A:0.11, C:0.54, G:0.11, T:0.25
Consensus pattern (27 bp):
TCCTAGTAACCGTCGTCCTCCTCCCCC
Found at i:50185 original size:20 final size:19
Alignment explanation
Indices: 50160--50405 Score: 87
Period size: 20 Copynumber: 13.0 Consensus size: 19
50150 TCCTACCCCT
50160 CCACCTACTCCCCCTCCTCG
1 CCACCT-CTCCCCCTCCTCG
*
50180 CCACCTCTTCCCCCTCC-CC
1 CCACCTC-TCCCCCTCCTCG
*
50199 CTCTCCTACTCCCCCTCCTCG
1 C-CACCT-CTCCCCCTCCTCG
* * *
50220 TACACCTCT--TCCACCT--
1 -CCACCTCTCCCCCTCCTCG
*
50236 CCACCTACTCCCCCTCCTAG
1 CCACCT-CTCCCCCTCCTCG
50256 CTCACCTCTTCCCCC-CC-C-
1 C-CACCTC-TCCCCCTCCTCG
*
50274 CCTCCTACTCCCCCTCCTCG
1 CCACCT-CTCCCCCTCCTCG
* *
50294 -CA-C-CT--CCTTCC-CT
1 CCACCTCTCCCCCTCCTCG
50307 CCACCTACTCCCCCTCCTCG
1 CCACCT-CTCCCCCTCCTCG
*
50327 CGCACCTTTCCCCCCTCCTC-
1 C-CACCTCT-CCCCCTCCTCG
*
50347 CTGCTCCTACT-CCCCTCCTCG
1 C--CACCT-CTCCCCCTCCTCG
*
50368 CGCACCTCTTCCCCTCC-C-
1 C-CACCTCTCCCCCTCCTCG
**
50386 CCTGCTCCTCCCCCTCCTCG
1 CCACCT-CTCCCCCTCCTCG
50406 TACACCTCCT
Statistics
Matches: 170, Mismatches: 24, Indels: 64
0.66 0.09 0.25
Matches are distributed among these distances:
13 1 0.01
14 7 0.04
15 6 0.04
16 4 0.02
17 15 0.09
18 25 0.15
19 14 0.08
20 59 0.35
21 38 0.22
22 1 0.01
ACGTcount: A:0.07, C:0.64, G:0.04, T:0.24
Consensus pattern (19 bp):
CCACCTCTCCCCCTCCTCG
Found at i:50249 original size:76 final size:77
Alignment explanation
Indices: 50128--50438 Score: 335
Period size: 74 Copynumber: 4.1 Consensus size: 77
50118 TCCGACACGC
*
50128 CTCCT-CTCCCCCTCCTCGT-ACCTCCTACCCCTCCACCTACTCCCCCTCCTCGC-CACCTCTTC
1 CTCCTACTCCCCCTCCTCGTCACCTCCTTCCCCTCCACCTACTCCCCCTCCTCGCGCACCTCTTC
50190 CCCCTCCCCCT-
66 CCCCTCCCCCTA
* *
50201 CTCCTACTCCCCCTCCTCGTACACCT-CTTCCACCTCCACCTACTCCCCCTCCTAGCTCACCTCT
1 CTCCTACTCCCCCTCCTCGT-CACCTCCTTCC-CCTCCACCTACTCCCCCTCCTCGCGCACCTCT
50265 T-CCCC-CCCCC--
64 TCCCCCTCCCCCTA
50275 CTCCTACTCCCCCTCCTCG-CACCTCCTT-CCCTCCACCTACTCCCCCTCCTCGCGCACCT-TTC
1 CTCCTACTCCCCCTCCTCGTCACCTCCTTCCCCTCCACCTACTCCCCCTCCTCGCGCACCTCTT-
* *
50337 CCCCCTCCTCCTG
65 CCCCCTCCCCCTA
* * * **
50350 CTCCTACT-CCCCTCCTCGCGCACCT-CTTCCCCTCCCCCTGCTCCTCCCCCTCCTCGTACACCT
1 CTCCTACTCCCCCTCCTCG-TCACCTCCTTCCCCT-CCAC--CTACTCCCCCTCCTCGCGCACCT
* * *
50413 CCTACCCCTCCACCTA
62 CTTCCCCCTCCCCCTA
*
50429 CTCCTCCTCC
1 CTCCTACTCC
50439 TAGCGCACCT
Statistics
Matches: 205, Mismatches: 14, Indels: 31
0.82 0.06 0.12
Matches are distributed among these distances:
70 2 0.01
71 28 0.14
72 10 0.05
73 12 0.06
74 43 0.21
75 20 0.10
76 40 0.20
77 11 0.05
79 37 0.18
80 2 0.01
ACGTcount: A:0.08, C:0.63, G:0.04, T:0.25
Consensus pattern (77 bp):
CTCCTACTCCCCCTCCTCGTCACCTCCTTCCCCTCCACCTACTCCCCCTCCTCGCGCACCTCTTC
CCCCTCCCCCTA
Found at i:50261 original size:21 final size:20
Alignment explanation
Indices: 50237--50384 Score: 54
Period size: 21 Copynumber: 7.8 Consensus size: 20
50227 CTTCCACCTC
*
50237 CACCTACTCCCCCTCCTAGCT
1 CACCT-CTCCCCCTCCTCGCT
50258 CACCTCTTCCCCC-CC-C-C-
1 CACCTC-TCCCCCTCCTCGCT
*
50275 CTCCTACTCCCCCTCCTCG--
1 CACCT-CTCCCCCTCCTCGCT
* *
50294 CACCTC-CTTCCCTCCAC-CT
1 CACCTCTC-CCCCTCCTCGCT
*
50313 -A-CT--CCCCCTCCTCGCG
1 CACCTCTCCCCCTCCTCGCT
*
50329 CACCTTTCCCCCCTCCTC-CT
1 CACCTCT-CCCCCTCCTCGCT
* *
50349 GCTCCTACT-CCCCTCCTCGCG
1 -CACCT-CTCCCCCTCCTCGCT
*
50370 CACCTCTTCCCCTCC
1 CACCTCTCCCCCTCC
50385 CCCTGCTCCT
Statistics
Matches: 96, Mismatches: 13, Indels: 37
0.66 0.09 0.25
Matches are distributed among these distances:
15 7 0.07
16 2 0.02
17 14 0.15
18 15 0.16
19 7 0.07
20 24 0.25
21 26 0.27
22 1 0.01
ACGTcount: A:0.07, C:0.64, G:0.05, T:0.24
Consensus pattern (20 bp):
CACCTCTCCCCCTCCTCGCT
Found at i:50287 original size:148 final size:146
Alignment explanation
Indices: 50127--50393 Score: 405
Period size: 148 Copynumber: 1.8 Consensus size: 146
50117 CTCCGACACG
*
50127 CCTCCTCTCCCCCTCCTCGTACCTCCTACCCCTCCACCTACTCCCCCTCCTCGC-CACCTCTT-C
1 CCTCCTCTCCCCCTCCTCGCACCTCCT-CCCCTCCACCTACTCCCCCTCCTCGCGCACCT-TTCC
*
50190 CCCCTCCCCCT-CTCCTACTCCCCCTCCTCGTACACCTCTTCCACCTCCACCTACTCCCCCTCCT
64 CCCCTCCCCCTGCTCCTACT-CCCCTCCTCGCACACCTCTTCC-CCTCCACCTACTCCCCCTCCT
50254 AGCTCACCTCTTCCCCCCCC
127 AGCTCACCTCTTCCCCCCCC
*
50274 CCTCCTACTCCCCCTCCTCGCACCTCCTTCCCTCCACCTACTCCCCCTCCTCGCGCACCTTTCCC
1 CCTCCT-CTCCCCCTCCTCGCACCTCCTCCCCTCCACCTACTCCCCCTCCTCGCGCACCTTTCCC
* * * *
50339 CCCTCCTCCTGCTCCTACTCCCCTCCTCGCGCACCTCTTCCCCTCCCCCTGCTCC
65 CCCTCCCCCTGCTCCTACTCCCCTCCTCGCACACCTCTTCCCCTCCACCTACTCC
50394 TCCCCCTCCT
Statistics
Matches: 109, Mismatches: 7, Indels: 8
0.88 0.06 0.06
Matches are distributed among these distances:
147 45 0.41
148 56 0.51
149 8 0.07
ACGTcount: A:0.07, C:0.64, G:0.04, T:0.25
Consensus pattern (146 bp):
CCTCCTCTCCCCCTCCTCGCACCTCCTCCCCTCCACCTACTCCCCCTCCTCGCGCACCTTTCCCC
CCTCCCCCTGCTCCTACTCCCCTCCTCGCACACCTCTTCCCCTCCACCTACTCCCCCTCCTAGCT
CACCTCTTCCCCCCCC
Found at i:50292 original size:15 final size:15
Alignment explanation
Indices: 50268--50325 Score: 55
Period size: 15 Copynumber: 3.7 Consensus size: 15
50258 CACCTCTTCC
*
50268 CCCCCCCCTCCTACT
1 CCCCCTCCTCCTACT
50283 CCCCCTCCTCGC-ACCT
1 CCCCCTCCTC-CTA-CT
*
50299 CCTTCCCTCCACCTACT
1 CC--CCCTCCTCCTACT
50316 CCCCCTCCTC
1 CCCCCTCCTC
50326 GCGCACCTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
15 17 0.49
16 5 0.14
17 5 0.14
18 8 0.23
ACGTcount: A:0.07, C:0.69, G:0.02, T:0.22
Consensus pattern (15 bp):
CCCCCTCCTCCTACT
Found at i:50315 original size:33 final size:33
Alignment explanation
Indices: 50203--50517 Score: 159
Period size: 36 Copynumber: 8.5 Consensus size: 33
50193 CTCCCCCTCT
50203 CCTACTCCCCCTCCTCGTACACCTCTTCCACCTCCA
1 CCTACTCCCCCTCCTCG--CACCTCTTCC-CCTCCA
* * *
50239 CCTACTCCCCCTCCTAGCTCACCTCTTCCCCCCCCCCT
1 CCTACTCCCCCTCCT--CGCACCTCTT---CCCCTCCA
50277 CCTACTCCCCCTCCTCGCACCTCCTT-CCCTCCA
1 CCTACTCCCCCTCCTCGCACCT-CTTCCCCTCCA
*
50310 CCTACTCCCCCTCCTCGCGCACCT-TTCCCCCCTCCTC
1 CCTACTCCCCCTCCT--CGCACCTCTT--CCCCTCC-A
* *
50347 CTGCTCCTACTCCCCTCCTCGCGCACCTCTTCCCCTCCCC
1 C--CTACT-C-CCCCTCCT--CGCACCTCTTCCCCT-CCA
* *
50387 CTGCTCCTCCCCCTCCTCGTACACCTCCTACCCCTCCA
1 C--CTACTCCCCCTCCTCG--CACCT-CTTCCCCTCCA
* *
50425 CCTACTCCTCCTCCTAGCGCACCTCTTCCCCCTCCCCCTGCT
1 CCTACTCCCCCTCCT--CGCACCTCTT-CCCCT----C--CA
* *
50467 CCTACTCCCCCTCCTCGTACACCTCCTACCCTCCA
1 CCTACTCCCCCTCCTCG--CACCTCTTCCCCTCCA
50502 CCTACTCCTCCC-CCTC
1 CCTACTCC-CCCTCCTC
50518 CCTCTCCACC
Statistics
Matches: 228, Mismatches: 18, Indels: 67
0.73 0.06 0.21
Matches are distributed among these distances:
33 22 0.10
35 22 0.10
36 62 0.27
37 5 0.02
38 38 0.17
39 14 0.06
40 18 0.08
41 23 0.10
42 24 0.11
ACGTcount: A:0.09, C:0.62, G:0.04, T:0.24
Consensus pattern (33 bp):
CCTACTCCCCCTCCTCGCACCTCTTCCCCTCCA
Found at i:50414 original size:21 final size:21
Alignment explanation
Indices: 50390--50554 Score: 71
Period size: 21 Copynumber: 8.2 Consensus size: 21
50380 CCTCCCCCTG
* *
50390 CTCCTCCCCCTCCTCGTACAC
1 CTCCTCCCCCTCCACCTACAC
*
50411 CTCCTACCCCTCCACCT--A-
1 CTCCTCCCCCTCCACCTACAC
* * *
50429 CTCCTCCTCCT--AGC-GCAC
1 CTCCTCCCCCTCCACCTACAC
* * * *
50447 CTCTTCCCCCTCCCCCTGCTC
1 CTCCTCCCCCTCCACCTACAC
* * *
50468 CTACTCCCCCTCCTCGTACAC
1 CTCCTCCCCCTCCACCTACAC
* *
50489 CTCCT-ACCCTCCACCTACTC
1 CTCCTCCCCCTCCACCTACAC
*
50509 CTCCCCCTCCCTCTCCACCT-C-C
1 CT---CCTCCCCCTCCACCTACAC
* *
50531 C-CCTCCACCTCCACCTCCAC
1 CTCCTCCCCCTCCACCTACAC
50551 CTCC
1 CTCC
50555 ACCTCCACCT
Statistics
Matches: 105, Mismatches: 26, Indels: 26
0.67 0.17 0.17
Matches are distributed among these distances:
16 2 0.02
17 1 0.01
18 31 0.30
19 2 0.02
20 16 0.15
21 38 0.36
22 2 0.02
23 4 0.04
24 9 0.09
ACGTcount: A:0.10, C:0.64, G:0.03, T:0.23
Consensus pattern (21 bp):
CTCCTCCCCCTCCACCTACAC
Found at i:50429 original size:148 final size:146
Alignment explanation
Indices: 50133--50454 Score: 386
Period size: 148 Copynumber: 2.2 Consensus size: 146
50123 CACGCCTCCT
* *
50133 CTCCCCCTCCTCGTACCTCCTACCCCTCCACCTACTCCCCCTCCTCGCCACCTCTTCCCCCTCCC
1 CTCCCCCTCCTCGCACCTCCT-TCCCTCCACCTACTCCCCCTCCTCGCCACCTCTTCCCCCTCCC
*
50198 CCTCTCCTACTCCCCCTCCTCGTACACCTCTTCCACCTCCACCTACTCCCCCTCCTAGCTCACCT
65 CCTCTCCTACTCCCCCTCCTCGCACACCTCTTCCACCTCCACCTACTCCCCCTCCTAGCTCACCT
* *
50263 CTTCCCCCCCCCCTCCTA
130 C-TCCACCCCCCCACCTA
50281 CTCCCCCTCCTCGCACCTCCTTCCCTCCACCTACTCCCCCTCCTCGCGCACCT-TTCCCCCCTCC
1 CTCCCCCTCCTCGCACCTCCTTCCCTCCACCTACTCCCCCTCCTCGC-CACCTCTT-CCCCCTCC
* * * * *
50345 TCCTGCTCCTACT-CCCCTCCTCGCGCACCTCTTCC-CCTCCCCCTGCTCCTCCCCCTCCTCG-T
64 CCCT-CTCCTACTCCCCCTCCTCGCACACCTCTTCCACCT-CCAC--CTACTCCCCCTCCTAGCT
* *
50407 ACACCTC-CTACCCCTCCACCTA
125 -CACCTCTCCACCCCCCCACCTA
*
50429 CTCCTCCTCCTAGCGCACCT-CTTCCC
1 CTCCCCCTCCT--CGCACCTCCTTCCC
50455 CCTCCCCCTG
Statistics
Matches: 152, Mismatches: 13, Indels: 17
0.84 0.07 0.09
Matches are distributed among these distances:
147 30 0.20
148 80 0.53
149 15 0.10
150 27 0.18
ACGTcount: A:0.08, C:0.63, G:0.04, T:0.25
Consensus pattern (146 bp):
CTCCCCCTCCTCGCACCTCCTTCCCTCCACCTACTCCCCCTCCTCGCCACCTCTTCCCCCTCCCC
CTCTCCTACTCCCCCTCCTCGCACACCTCTTCCACCTCCACCTACTCCCCCTCCTAGCTCACCTC
TCCACCCCCCCACCTA
Found at i:50458 original size:115 final size:113
Alignment explanation
Indices: 50239--50540 Score: 378
Period size: 115 Copynumber: 2.7 Consensus size: 113
50229 TCCACCTCCA
* * * * * *
50239 CCTACTCCCCCTCCTAGCTCACCTCTTCCCCCCCCCCTCCTACTCCCCCTCCTCGCACCTCCTTC
1 CCTACTCCCCCTCCTCGCACACCTCTTCCCCTCCCCCTACTCCTCCCCCTCCTCGCACCTCCTCC
* *
50304 CCTCCACCTACTCCCCCTCCTCGCGCACCTTTCCCCCCTCCTCCTGCT
66 CCTCCACCTACTCCCCCTCCTAGCGCACCTTTCCCCCCTCCCCCTGCT
* *
50352 CCTACT-CCCCTCCTCGCGCACCTCTTCCCCTCCCCCTGCTCCTCCCCCTCCTCGTACACCTCCT
1 CCTACTCCCCCTCCTCGCACACCTCTTCCCCTCCCCCTACTCCTCCCCCTCCTCG--CACCTCCT
*
50416 ACCCCTCCACCTACTCCTCCTCCTAGCGCACCTCTT-CCCCCTCCCCCTGCT
64 -CCCCTCCACCTACTCCCCCTCCTAGCGCACCT-TTCCCCCCTCCCCCTGCT
* * * * *
50467 CCTACTCCCCCTCCTCGTACACCTCCTACCCTCCACCTACTCCTCCCCCTCCCTCTCCACCT-C-
1 CCTACTCCCCCTCCTCGCACACCTCTTCCCCTCCCCCTACTCCTCCCCCT-CCTC-GCACCTCCT
50530 CCCCTCCACCT
64 CCCCTCCACCT
50541 CCACCTCCAC
Statistics
Matches: 166, Mismatches: 16, Indels: 14
0.85 0.08 0.07
Matches are distributed among these distances:
112 43 0.26
113 17 0.10
114 8 0.05
115 50 0.30
116 44 0.27
117 4 0.02
ACGTcount: A:0.08, C:0.63, G:0.04, T:0.24
Consensus pattern (113 bp):
CCTACTCCCCCTCCTCGCACACCTCTTCCCCTCCCCCTACTCCTCCCCCTCCTCGCACCTCCTCC
CCTCCACCTACTCCCCCTCCTAGCGCACCTTTCCCCCCTCCCCCTGCT
Found at i:50518 original size:18 final size:18
Alignment explanation
Indices: 50378--50575 Score: 89
Period size: 18 Copynumber: 10.6 Consensus size: 18
50368 CGCACCTCTT
* *
50378 CCCCTCCCCCTGCTCCTC
1 CCCCTCCACCTACTCCTC
* * *
50396 CCCCTCCTCGTACACCTCCTA
1 CCCCTCCACCT--A-CTCCTC
50417 CCCCTCCACCTACTCCTC
1 CCCCTCCACCTACTCCTC
*
50435 CTCCTAGCGCACCT-CT--TC
1 CCCCT--C-CACCTACTCCTC
* *
50453 CCCCTCCCCCTGCTCCTACTC
1 CCCCTCCACCTACT-C--CTC
* * *
50474 CCCCTCCTCGTACACCTC
1 CCCCTCCACCTACTCCTC
50492 CTACCCTCCACCTACTCCTC
1 C--CCCTCCACCTACTCCTC
* *
50512 CCCCTCC-CTCTCCACCTC
1 CCCCTCCAC-CTACTCCTC
* *
50530 CCCCTCCACCTCCACCTC
1 CCCCTCCACCTACTCCTC
* * *
50548 CACCTCCACCTCCACCTC
1 CCCCTCCACCTACTCCTC
*
50566 CACCTCCACC
1 CCCCTCCACC
50576 AGTTACCTGC
Statistics
Matches: 144, Mismatches: 20, Indels: 32
0.73 0.10 0.16
Matches are distributed among these distances:
15 4 0.03
16 3 0.02
17 1 0.01
18 84 0.58
19 2 0.01
20 19 0.13
21 31 0.22
ACGTcount: A:0.11, C:0.65, G:0.03, T:0.22
Consensus pattern (18 bp):
CCCCTCCACCTACTCCTC
Found at i:50519 original size:6 final size:6
Alignment explanation
Indices: 50486--50575 Score: 110
Period size: 6 Copynumber: 14.7 Consensus size: 6
50476 CCTCCTCGTA
* * * *
50486 CACCTC CTACCCTC CACCTA CTCCTC CCCCTC C-CTCTC CACCTC CCCCTC
1 CACCTC C-A-CCTC CACCTC CACCTC CACCTC CAC-CTC CACCTC CACCTC
50536 CACCTC CACCTC CACCTC CACCTC CACCTC CACCTC CACC
1 CACCTC CACCTC CACCTC CACCTC CACCTC CACCTC CACC
50576 AGTTACCTGC
Statistics
Matches: 74, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
5 1 0.01
6 65 0.88
7 3 0.04
8 5 0.07
ACGTcount: A:0.13, C:0.68, G:0.00, T:0.19
Consensus pattern (6 bp):
CACCTC
Found at i:50564 original size:116 final size:115
Alignment explanation
Indices: 50239--50565 Score: 303
Period size: 116 Copynumber: 2.8 Consensus size: 115
50229 TCCACCTCCA
* * * * * * * * *
50239 CCTACTCCCCCTCCTAGCTCACCTCTTCCCCCCCCCCTCCTACTCCCCCTCCTCG--CACCTCCT
1 CCTACT-CCCCTCCTCGCACACCTCCTACCCTCCACCTACTCCTCCCCCTCCTCGTACACCTCCA
* * * *
50302 TCCCTCCACCTACTCCCCCTCCT-CGCGCACCT-TTCCCCCCTCCTCCTGCT
65 CCCCTCCACCTACTCCACCTCCTAC-CCCACCTCTTCCCCCCTCCCCCTGCT
* * * * *
50352 CCTACTCCCCTCCTCGCGCACCTCTTCCCCTCCCCCTGCTCCTCCCCCTCCTCGTACACCTCCTA
1 CCTACTCCCCTCCTCGCACACCTCCTACCCTCCACCTACTCCTCCCCCTCCTCGTACACCTCC-A
* * *
50417 CCCCTCCACCTACTCCTCCTCCTAGCGCACCTCTT-CCCCCTCCCCCTGCT
65 CCCCTCCACCTACTCCACCTCCTACCCCACCTCTTCCCCCCTCCCCCTGCT
* *
50467 CCTACTCCCCCTCCTCGTACACCTCCTACCCTCCACCTACTCCTCCCCCTCCCTC-TCCACCT-C
1 CCTACT-CCCCTCCTCGCACACCTCCTACCCTCCACCTACTCCTCCCCCT-CCTCGTACACCTCC
50530 -CCCCTCCACCTCCACCTCCACCTCC-ACCTCCACCTC
64 ACCCCTCCACCT--A-CTCCACCTCCTACC-CCACCTC
50566 CACCTCCACC
Statistics
Matches: 183, Mismatches: 20, Indels: 19
0.82 0.09 0.09
Matches are distributed among these distances:
112 43 0.23
113 17 0.09
114 7 0.04
115 52 0.28
116 60 0.33
117 4 0.02
ACGTcount: A:0.09, C:0.64, G:0.04, T:0.24
Consensus pattern (115 bp):
CCTACTCCCCTCCTCGCACACCTCCTACCCTCCACCTACTCCTCCCCCTCCTCGTACACCTCCAC
CCCTCCACCTACTCCACCTCCTACCCCACCTCTTCCCCCCTCCCCCTGCT
Found at i:54319 original size:20 final size:20
Alignment explanation
Indices: 54294--54368 Score: 132
Period size: 20 Copynumber: 3.8 Consensus size: 20
54284 GATACTTTTT
54294 AAGAGTTTCGAAACTATCTC
1 AAGAGTTTCGAAACTATCTC
*
54314 AAGAGTTTCGAAACTATCTA
1 AAGAGTTTCGAAACTATCTC
54334 AAGAGTTTCGAAACTATCTC
1 AAGAGTTTCGAAACTATCTC
*
54354 AAGAGTTTTGAAACT
1 AAGAGTTTCGAAACT
54369 TTCCCTAAAG
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 52 1.00
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.31
Consensus pattern (20 bp):
AAGAGTTTCGAAACTATCTC
Found at i:59139 original size:11 final size:12
Alignment explanation
Indices: 59108--59151 Score: 53
Period size: 11 Copynumber: 4.1 Consensus size: 12
59098 TCAAAAATCA
59108 TAAAATAATTAT
1 TAAAATAATTAT
59120 T-AAAT--TTAT
1 TAAAATAATTAT
59129 TAAAAT-ATTA-
1 TAAAATAATTAT
59139 TAAAATAATTAT
1 TAAAATAATTAT
59151 T
1 T
59152 TTGTAGCAGC
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
9 5 0.18
10 10 0.36
11 11 0.39
12 2 0.07
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (12 bp):
TAAAATAATTAT
Found at i:60543 original size:2 final size:2
Alignment explanation
Indices: 60538--60577 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
60528 TCTCTCTCTC
60538 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
60578 GCTATAATCC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:61526 original size:27 final size:27
Alignment explanation
Indices: 61496--61550 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
61486 GACCTCTCAA
61496 TCCTAGTAACCGTCGTCCCCCTCCCCC
1 TCCTAGTAACCGTCGTCCCCCTCCCCC
*
61523 TCCTAGTAACCGTCGTCCTCCTCCCCC
1 TCCTAGTAACCGTCGTCCCCCTCCCCC
61550 T
1 T
61551 TCCCCTCCTC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.11, C:0.53, G:0.11, T:0.25
Consensus pattern (27 bp):
TCCTAGTAACCGTCGTCCCCCTCCCCC
Found at i:61809 original size:21 final size:22
Alignment explanation
Indices: 61780--61962 Score: 71
Period size: 21 Copynumber: 9.0 Consensus size: 22
61770 CACCTCTTCC
*
61780 ACCTCCACCTACTCCCCCTCCT
1 ACCTGCACCTACTCCCCCTCCT
*
61802 AGCT-CACCT-CTTCCCCCTCC-
1 ACCTGCACCTAC-TCCCCCTCCT
* *
61822 CCCTGCTCCTACTCCCCCTCCT
1 ACCTGCACCTACTCCCCCTCCT
* * * **
61844 -CGTACACCTCCTATCCCTCC-
1 ACCTGCACCTACTCCCCCTCCT
61864 ACCT--A----CTCCCCCTCCT
1 ACCTGCACCTACTCCCCCTCCT
*
61880 -CGC-GCACCTT-TCCCCCCTCCT
1 AC-CTGCACCTACT-CCCCCTCCT
*
61901 -CCTGCTCCTACTCCCCCTCCT
1 ACCTGCACCTACTCCCCCTCCT
*
61922 -CGC-GCACCT-CTTCCCCTCC-
1 AC-CTGCACCTACTCCCCCTCCT
* *
61941 CCCTGCTCCTACTCCCCCTCCT
1 ACCTGCACCTACTCCCCCTCCT
61963 CGTACACCTC
Statistics
Matches: 121, Mismatches: 19, Indels: 42
0.66 0.10 0.23
Matches are distributed among these distances:
15 9 0.07
16 1 0.01
17 1 0.01
19 2 0.02
20 20 0.17
21 82 0.68
22 6 0.05
ACGTcount: A:0.08, C:0.62, G:0.05, T:0.25
Consensus pattern (22 bp):
ACCTGCACCTACTCCCCCTCCT
Found at i:61810 original size:36 final size:35
Alignment explanation
Indices: 61681--62093 Score: 221
Period size: 36 Copynumber: 10.8 Consensus size: 35
61671 CCTCCTCCCC
*
61681 CTCCCCCTCCTCG-TACACCTCCTACCCCT-CACCTA
1 CTCCCCCTCCTCGCT-CACCT-CTTCCCCTCCACCTA
* *
61716 CTCCCCCTCCTCGCGCACCTCTTCCCCCTTCTCCCCTA
1 CTCCCCCTCCTCGCTCACCTCTT-CCCC-TC-CACCTA
61754 CTCCTCCCTCCTCG-TACACCTCTTCCACCTCCACCTA
1 CTCC-CCCTCCTCGCT-CACCTCTTCC-CCTCCACCTA
* *
61791 CTCCCCCTCCTAGCTCACCTCTTCCCCCTCCCCCTGCTCCTA
1 CTCCCCCTCCTCGCTCACCTCTT-CCCCT----C--CACCTA
61833 CTCCCCCTCCTCG-TACACCTCCTAT-CCCTCCACCTA
1 CTCCCCCTCCTCGCT-CACCT-CT-TCCCCTCCACCTA
* *
61869 CTCCCCCTCCTCGCGCACCT-TTCCCCCCTCCTCCTGCTCCTA
1 CTCCCCCTCCTCGCTCACCTCTT----CC-CCT-C--CACCTA
* *
61911 CTCCCCCTCCTCGCGCACCTCTTCCCCTCCCCCTGCTCCTA
1 CTCCCCCTCCTCGCTCACCTCTTCCCCT----C--CACCTA
*
61952 CTCCCCCTCCTCG-TACACCTCCTACCCCTCCACCTA
1 CTCCCCCTCCTCGCT-CACCT-CTTCCCCTCCACCTA
* * * *
61988 CTCCTCCTCCTAGCGCACCTCTTCCCCCCTCCCCCTGCTCCTA
1 CTCCCCCTCCTCGCTCACCTCTT--CCCCT----C--CACCTA
*
62031 CTCCCCCTCCTCG-TACACCTCCTACCCCTCCACCTA
1 CTCCCCCTCCTCGCT-CACCT-CTTCCCCTCCACCTA
* *
62067 CTCCCCCTCCTAGCGCACCTCTTCCCC
1 CTCCCCCTCCTCGCTCACCTCTTCCCC
62094 CTCCCCCTGC
Statistics
Matches: 304, Mismatches: 27, Indels: 94
0.72 0.06 0.22
Matches are distributed among these distances:
33 1 0.00
34 3 0.01
35 30 0.10
36 86 0.28
37 17 0.06
38 20 0.07
39 24 0.08
40 2 0.01
41 30 0.10
42 63 0.21
43 25 0.08
44 3 0.01
ACGTcount: A:0.09, C:0.61, G:0.05, T:0.25
Consensus pattern (35 bp):
CTCCCCCTCCTCGCTCACCTCTTCCCCTCCACCTA
Found at i:61834 original size:42 final size:41
Alignment explanation
Indices: 61787--62160 Score: 303
Period size: 42 Copynumber: 9.3 Consensus size: 41
61777 TCCACCTCCA
* *
61787 CCTACTCCCCCTCCTAGCTCACCTCTTCCCCCTCCCCCTGCT
1 CCTACTCCCCCTCCTCGCGCACCTCTT-CCCCTCCCCCTGCT
** ** * *
61829 CCTACTCCCCCTCCTCGTACA-C-C-T--CCTATCCCTCCA
1 CCTACTCCCCCTCCTCGCGCACCTCTTCCCCTCCCCCTGCT
*
61865 CCTACTCCCCCTCCTCGCGCACCT-TTCCCCCCTCCTCCTGCT
1 CCTACTCCCCCTCCTCGCGCACCTCTT--CCCCTCCCCCTGCT
61907 CCTACTCCCCCTCCTCGCGCACCTCTTCCCCTCCCCCTGCT
1 CCTACTCCCCCTCCTCGCGCACCTCTTCCCCTCCCCCTGCT
** * * *
61948 CCTACTCCCCCTCCTCGTACA-C-C-T--CCTACCCCTCCA
1 CCTACTCCCCCTCCTCGCGCACCTCTTCCCCTCCCCCTGCT
* *
61984 CCTACTCCTCCTCCTAGCGCACCTCTTCCCCCCTCCCCCTGCT
1 CCTACTCCCCCTCCTCGCGCACCTCTT--CCCCTCCCCCTGCT
** * * *
62027 CCTACTCCCCCTCCTCGTACA-C-C-T--CCTACCCCTCCA
1 CCTACTCCCCCTCCTCGCGCACCTCTTCCCCTCCCCCTGCT
*
62063 CCTACTCCCCCTCCTAGCGCACCTCTTCCCCCTCCCCCTGCT
1 CCTACTCCCCCTCCTCGCGCACCTCTT-CCCCTCCCCCTGCT
* ** * * *
62105 CCTACTCCCCCTCCACGTACACCTCCTACCCCTCCACCTACT
1 CCTACTCCCCCTCCTCGCGCACCT-CTTCCCCTCCCCCTGCT
* *
62147 CCTCCTCCCTCTCC
1 CCTACTCCCCCTCC
62161 ACCTCCACCT
Statistics
Matches: 261, Mismatches: 49, Indels: 44
0.74 0.14 0.12
Matches are distributed among these distances:
36 80 0.31
37 3 0.01
38 4 0.02
39 4 0.02
40 3 0.01
41 34 0.13
42 103 0.39
43 30 0.11
ACGTcount: A:0.09, C:0.61, G:0.05, T:0.24
Consensus pattern (41 bp):
CCTACTCCCCCTCCTCGCGCACCTCTTCCCCTCCCCCTGCT
Found at i:61931 original size:78 final size:78
Alignment explanation
Indices: 61681--61923 Score: 349
Period size: 78 Copynumber: 3.2 Consensus size: 78
61671 CCTCCTCCCC
*
61681 CTCCCCCTCCTCGTACACCTCCTACCCCT-CACCTACTCCCCCTCCTCGCGCACCTCTTCCCCCT
1 CTCCCCCTCCTCGTACACCTCCTATCCCTCCACCTACTCCCCCTCCTCGCGCACCTCTTCCCCCT
*
61745 --T-CT-CCCCTA
66 CCTCCTGCTCCTA
* *
61754 CTCCTCCCTCCTCGTACACCT-CT-TCCACCTCCACCTACTCCCCCTCCTAGCTCACCTCTTCCC
1 CTCC-CCCTCCTCGTACACCTCCTAT-C-CCTCCACCTACTCCCCCTCCTCGCGCACCTCTTCCC
*
61817 CCTCCCCCTGCTCCTA
63 CCTCCTCCTGCTCCTA
61833 CTCCCCCTCCTCGTACACCTCCTATCCCTCCACCTACTCCCCCTCCTCGCGCACCT-TTCCCCCC
1 CTCCCCCTCCTCGTACACCTCCTATCCCTCCACCTACTCCCCCTCCTCGCGCACCTCTT-CCCCC
61897 TCCTCCTGCTCCTA
65 TCCTCCTGCTCCTA
61911 CTCCCCCTCCTCG
1 CTCCCCCTCCTCG
61924 CGCACCTCTT
Statistics
Matches: 151, Mismatches: 8, Indels: 17
0.86 0.05 0.10
Matches are distributed among these distances:
73 7 0.05
74 19 0.13
75 33 0.22
77 2 0.01
78 77 0.51
79 12 0.08
80 1 0.01
ACGTcount: A:0.09, C:0.61, G:0.05, T:0.26
Consensus pattern (78 bp):
CTCCCCCTCCTCGTACACCTCCTATCCCTCCACCTACTCCCCCTCCTCGCGCACCTCTTCCCCCT
CCTCCTGCTCCTA
Found at i:61961 original size:119 final size:120
Alignment explanation
Indices: 61787--62070 Score: 444
Period size: 119 Copynumber: 2.4 Consensus size: 120
61777 TCCACCTCCA
* *
61787 CCTACTCCCCCTCCTAGCTCACCTCTTCCCCCTCCCCCTGCTCCTACTCCCCCTCCTCGTACACC
1 CCTACTCCCCCTCCTCGCACACCTCTT-CCCCTCCCCCTGCTCCTACTCCCCCTCCTCGTACACC
* * *
61852 TCCTATCCCTCCACCTACTCCCCCTCCTCGCGCACCT-TTCCCCCCTCCTCCTGCT
65 TCCTACCCCTCCACCTACTCCCCCTCCTAGCGCACCTCTTCCCCCCTCCCCCTGCT
*
61907 CCTACTCCCCCTCCTCGCGCACCTCTTCCCCTCCCCCTGCTCCTACTCCCCCTCCTCGTACACCT
1 CCTACTCCCCCTCCTCGCACACCTCTTCCCCTCCCCCTGCTCCTACTCCCCCTCCTCGTACACCT
*
61972 CCTACCCCTCCACCTACTCCTCCTCCTAGCGCACCTCTTCCCCCCTCCCCCTGCT
66 CCTACCCCTCCACCTACTCCCCCTCCTAGCGCACCTCTTCCCCCCTCCCCCTGCT
* * * *
62027 CCTACTCCCCCTCCTCGTACACCTCCTACCCCTCCACCTACTCC
1 CCTACTCCCCCTCCTCGCACACCT-CTTCCCCTCCCCCTGCTCC
62071 CCCTCCTAGC
Statistics
Matches: 151, Mismatches: 11, Indels: 3
0.92 0.07 0.02
Matches are distributed among these distances:
119 71 0.47
120 64 0.42
121 16 0.11
ACGTcount: A:0.09, C:0.61, G:0.05, T:0.25
Consensus pattern (120 bp):
CCTACTCCCCCTCCTCGCACACCTCTTCCCCTCCCCCTGCTCCTACTCCCCCTCCTCGTACACCT
CCTACCCCTCCACCTACTCCCCCTCCTAGCGCACCTCTTCCCCCCTCCCCCTGCT
Found at i:61993 original size:21 final size:20
Alignment explanation
Indices: 61928--62187 Score: 106
Period size: 21 Copynumber: 12.8 Consensus size: 20
61918 TCCTCGCGCA
* * *
61928 CCTCTTCCCCTCCCCCTGCT
1 CCTCCTCCCCTCCACCTACT
* * * *
61948 CCTACTCCCCCTCCTCGTACA
1 CCTCCT-CCCCTCCACCTACT
61969 CCTCCTACCCCTCCACCTACT
1 CCTCCT-CCCCTCCACCTACT
***
61990 CCTCCTCCTAGCGCACCT-CT
1 CCTCCTCCCCTC-CACCTACT
* *
62010 --TCC-CCCCTCCCCCTGCT
1 CCTCCTCCCCTCCACCTACT
* * * *
62027 CCTACTCCCCCTCCTCGTACA
1 CCTCCT-CCCCTCCACCTACT
62048 CCTCCTACCCCTCCACCTACT
1 CCTCCT-CCCCTCCACCTACT
* ***
62069 CCCCCTCCTAGCGCACCT-CT
1 CCTCCTCCCCTC-CACCTACT
* *
62089 --T-C-CCCCTCCCCCTGCT
1 CCTCCTCCCCTCCACCTACT
* * *
62105 CCTACTCCCCCTCCACGTACA
1 CCTCCT-CCCCTCCACCTACT
62126 CCTCCTACCCCTCCACCTACT
1 CCTCCT-CCCCTCCACCTACT
62147 CCTCCTCCCTCTCCACCTCCACCT
1 CCTCCTCCC-CTCCACCT--A-CT
*
62171 CCACCTCCACCTCCACC
1 CCTCCTCC-CCTCCACC
62188 AGTTACCTGC
Statistics
Matches: 175, Mismatches: 46, Indels: 34
0.69 0.18 0.13
Matches are distributed among these distances:
15 4 0.02
16 9 0.05
17 6 0.03
18 4 0.02
19 3 0.02
20 17 0.10
21 114 0.65
23 1 0.01
24 16 0.09
25 1 0.01
ACGTcount: A:0.11, C:0.62, G:0.04, T:0.23
Consensus pattern (20 bp):
CCTCCTCCCCTCCACCTACT
Found at i:62046 original size:79 final size:78
Alignment explanation
Indices: 61907--62154 Score: 444
Period size: 79 Copynumber: 3.2 Consensus size: 78
61897 TCCTCCTGCT
*
61907 CCTACTCCCCCTCCTCGCGCACCTCTT-CCCCTCCCCCTGCTCCTACTCCCCCTCCTCGTACACC
1 CCTACTCCCCCTCCTAGCGCACCTCTTCCCCCTCCCCCTGCTCCTACTCCCCCTCCTCGTACACC
61971 TCCTACCCCTCCA
66 TCCTACCCCTCCA
*
61984 CCTACTCCTCCTCCTAGCGCACCTCTTCCCCCCTCCCCCTGCTCCTACTCCCCCTCCTCGTACAC
1 CCTACTCCCCCTCCTAGCGCACCTCTT-CCCCCTCCCCCTGCTCCTACTCCCCCTCCTCGTACAC
62049 CTCCTACCCCTCCA
65 CTCCTACCCCTCCA
*
62063 CCTACTCCCCCTCCTAGCGCACCTCTTCCCCCTCCCCCTGCTCCTACTCCCCCTCCACGTACACC
1 CCTACTCCCCCTCCTAGCGCACCTCTTCCCCCTCCCCCTGCTCCTACTCCCCCTCCTCGTACACC
62128 TCCTACCCCTCCA
66 TCCTACCCCTCCA
*
62141 CCTACTCCTCCTCC
1 CCTACTCCCCCTCC
62155 CTCTCCACCT
Statistics
Matches: 164, Mismatches: 5, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
77 25 0.15
78 63 0.38
79 76 0.46
ACGTcount: A:0.10, C:0.62, G:0.05, T:0.23
Consensus pattern (78 bp):
CCTACTCCCCCTCCTAGCGCACCTCTTCCCCCTCCCCCTGCTCCTACTCCCCCTCCTCGTACACC
TCCTACCCCTCCA
Found at i:62095 original size:36 final size:36
Alignment explanation
Indices: 62015--62154 Score: 111
Period size: 36 Copynumber: 3.7 Consensus size: 36
62005 CCTCTTCCCC
* * * *
62015 CCTCCCCCTGCTCCTACTCCCCCTCCTCGTACACCT
1 CCTCCCCCTCCACCTACTCCCCCTCCTAGCACACCT
* *
62051 CCTACCCCTCCACCTACTCCCCCTCCTAGCGCACCTCTT
1 CCTCCCCCTCCACCTACTCCCCCTCCTAGCACA-C-C-T
* * *
62090 CCCCCTCCCCCTGCTCCTACTCCCCCTCC-ACGTACACCT
1 ---CCTCCCCCTCCACCTACTCCCCCTCCTA-GCACACCT
* *
62129 CCTACCCCTCCACCTACTCCTCCTCC
1 CCTCCCCCTCCACCTACTCCCCCTCC
62155 CTCTCCACCT
Statistics
Matches: 82, Mismatches: 15, Indels: 14
0.74 0.14 0.13
Matches are distributed among these distances:
36 49 0.60
37 1 0.01
38 1 0.01
39 2 0.02
40 1 0.01
41 2 0.02
42 26 0.32
ACGTcount: A:0.11, C:0.62, G:0.04, T:0.23
Consensus pattern (36 bp):
CCTCCCCCTCCACCTACTCCCCCTCCTAGCACACCT
Found at i:62144 original size:12 final size:11
Alignment explanation
Indices: 62133--62187 Score: 51
Period size: 12 Copynumber: 4.9 Consensus size: 11
62123 ACACCTCCTA
62133 CCCCTCCACCT
1 CCCCTCCACCT
* *
62144 --ACTCCTCCT
1 CCCCTCCACCT
62153 CCCTCTCCACCT
1 CCC-CTCCACCT
62165 CCACCTCCACCT
1 CC-CCTCCACCT
62177 CCACCTCCACC
1 CC-CCTCCACC
62188 AGTTACCTGC
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
9 7 0.19
12 28 0.78
13 1 0.03
ACGTcount: A:0.13, C:0.67, G:0.00, T:0.20
Consensus pattern (11 bp):
CCCCTCCACCT
Found at i:62166 original size:6 final size:6
Alignment explanation
Indices: 62157--62187 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
62147 CCTCCTCCCT
62157 CTCCAC CTCCAC CTCCAC CTCCAC CTCCAC C
1 CTCCAC CTCCAC CTCCAC CTCCAC CTCCAC C
62188 AGTTACCTGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.16, C:0.68, G:0.00, T:0.16
Consensus pattern (6 bp):
CTCCAC
Found at i:65847 original size:20 final size:20
Alignment explanation
Indices: 65822--65885 Score: 119
Period size: 20 Copynumber: 3.2 Consensus size: 20
65812 GATACTTTTT
65822 AAGAGTTTCGAAACTATCTC
1 AAGAGTTTCGAAACTATCTC
*
65842 AAGAGTTTCGAAACTATCTA
1 AAGAGTTTCGAAACTATCTC
65862 AAGAGTTTCGAAACTATCTC
1 AAGAGTTTCGAAACTATCTC
65882 AAGA
1 AAGA
65886 AAACTTTCCC
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.39, C:0.17, G:0.16, T:0.28
Consensus pattern (20 bp):
AAGAGTTTCGAAACTATCTC
Found at i:71538 original size:2 final size:2
Alignment explanation
Indices: 71531--71559 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
71521 AATTTTAATA
71531 AT AT AT AT AT AT AT AT AT AT AT A- AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
71560 GGGAAGGATC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:72022 original size:2 final size:2
Alignment explanation
Indices: 72017--72057 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
72007 TCTCTCTCTC
72017 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
72058 GTTTAAGCTA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Done.