Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009635.1 Hibiscus syriacus cultivar Beakdansim tig00117038_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: 1009897
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 4
Found at i:6622 original size:54 final size:54
Alignment explanation
Indices: 6242--6618 Score: 459
Period size: 54 Copynumber: 7.0 Consensus size: 54
6232 TTATGTGTAT
* * *
6242 TATAGGCACTAAGTGTGCAACCCACGAAATTCATAATGTGTTTATGAACGACCA
1 TATAGGCACTAAGTGTGCAACCCACGAAATTCATAATATGTTGATGAACGACCG
* * * * *
6296 TATAGGCACTAAGTGTGCAACCCACGAAATTTATAATGTGTTTATGAATGACTG
1 TATAGGCACTAAGTGTGCAACCCACGAAATTCATAATATGTTGATGAACGACCG
* * *
6350 TGTAGGCACTAAGTGTGCAACCCAC-AGAATTCATCATATGTTGATGAATGACCG
1 TATAGGCACTAAGTGTGCAACCCACGA-AATTCATAATATGTTGATGAACGACCG
* * * * *
6404 TATAGGAACTAAGTGTACAACCCACGAAATTCATCATATATTGATGAATGACCG
1 TATAGGCACTAAGTGTGCAACCCACGAAATTCATAATATGTTGATGAACGACCG
* * * * *
6458 TATAGGCACAAAGTGTGCAACCCATGTAATTCATTATATGTTAATGAACGACCG
1 TATAGGCACTAAGTGTGCAACCCACGAAATTCATAATATGTTGATGAACGACCG
** * * * * *
6512 TATATACACTAAGTGTGCAACCTATGAAATTCATCATATGTTGATGAACAACCA
1 TATAGGCACTAAGTGTGCAACCCACGAAATTCATAATATGTTGATGAACGACCG
* * *
6566 TATAGGCACTAAGTGTGCAACCCACGGAATTTATAATATGTTTATGAACGACC
1 TATAGGCACTAAGTGTGCAACCCACGAAATTCATAATATGTTGATGAACGACC
6619 ATATCGGTAG
Statistics
Matches: 280, Mismatches: 41, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
53 1 0.00
54 278 0.99
55 1 0.00
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.28
Consensus pattern (54 bp):
TATAGGCACTAAGTGTGCAACCCACGAAATTCATAATATGTTGATGAACGACCG
Found at i:10940 original size:17 final size:17
Alignment explanation
Indices: 10920--10969 Score: 73
Period size: 17 Copynumber: 2.9 Consensus size: 17
10910 AGGGAAATAA
10920 TTCATTAATTAAACTAG
1 TTCATTAATTAAACTAG
* *
10937 TTCATTCATCAAACTAG
1 TTCATTAATTAAACTAG
*
10954 TTCATTTATTAAACTA
1 TTCATTAATTAAACTA
10970 ACTCTTAATT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 29 1.00
ACGTcount: A:0.38, C:0.16, G:0.04, T:0.42
Consensus pattern (17 bp):
TTCATTAATTAAACTAG
Found at i:11646 original size:17 final size:17
Alignment explanation
Indices: 11626--11676 Score: 66
Period size: 17 Copynumber: 3.0 Consensus size: 17
11616 TGATGAGAAT
11626 GTTTAATAAATGAACTA
1 GTTTAATAAATGAACTA
* *
11643 GTTTGATGAATGAACTA
1 GTTTAATAAATGAACTA
**
11660 GTTTAATTGATGAACTA
1 GTTTAATAAATGAACTA
11677 CTTCCCTAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 29 1.00
ACGTcount: A:0.39, C:0.06, G:0.18, T:0.37
Consensus pattern (17 bp):
GTTTAATAAATGAACTA
Found at i:13474 original size:55 final size:55
Alignment explanation
Indices: 13140--13463 Score: 431
Period size: 55 Copynumber: 5.9 Consensus size: 55
13130 TGGCACTATA
* * * *
13140 TGTGTGCAAAACTAAGAAATTCATAGTAAGTTTATGAATTTCCGTAT-CGCACTC
1 TGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTTCGTATGGGCACTG
* *
13194 TGTGT--AAAACTAAGAAATTCATAATAAATTTATGAA-TTTCTGTATGGGTACTG
1 TGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTTC-GTATGGGCACTG
* * *
13247 TGTCTGTAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTG
1 TGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTTCGTATGGGCACTG
** * * *
13302 CATGTGCAAAACTAAGAAATTCATAATTAGTTTATGAATTTTCATATGGGCACTC
1 TGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTTCGTATGGGCACTG
* *
13357 TGTGTACAAAACTAAGAAATTTATAATAAGTTTATGAATTTTCGTATGGGCACTG
1 TGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTTCGTATGGGCACTG
* ** *
13412 TGTGTGCAAAACTAAGAAATTCATAATGAGCCTATGAATTTTCGTATTGGCA
1 TGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTTCGTATGGGCA
13464 TTAGGTGTGC
Statistics
Matches: 234, Mismatches: 31, Indels: 9
0.85 0.11 0.03
Matches are distributed among these distances:
51 3 0.01
52 33 0.14
53 8 0.03
54 5 0.02
55 182 0.78
56 3 0.01
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.35
Consensus pattern (55 bp):
TGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTTCGTATGGGCACTG
Found at i:13722 original size:49 final size:50
Alignment explanation
Indices: 13629--13729 Score: 123
Period size: 49 Copynumber: 2.0 Consensus size: 50
13619 GCCTAATTGT
* * * ** *
13629 TTTTTTGGCAGAAAGGTGCCATTAATGCAAGTCAGATGCCTAACGGTGCA
1 TTTTTTGGCAGAAAGATGCCACTAATGCAAGTCAAATGAATAACGGTACA
* *
13679 TTTTTT-GCAGAAAGATTCCACTAATGCAAGTTAAATGAATAACGGTACA
1 TTTTTTGGCAGAAAGATGCCACTAATGCAAGTCAAATGAATAACGGTACA
13728 TT
1 TT
13730 ACCGGCATGA
Statistics
Matches: 43, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
49 37 0.86
50 6 0.14
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.31
Consensus pattern (50 bp):
TTTTTTGGCAGAAAGATGCCACTAATGCAAGTCAAATGAATAACGGTACA
Found at i:13766 original size:45 final size:45
Alignment explanation
Indices: 13711--13808 Score: 115
Period size: 45 Copynumber: 2.2 Consensus size: 45
13701 AATGCAAGTT
* *
13711 AAATGAATAACGGTACATTACCGGCATGAAACGATGTCATAAATA
1 AAATGAATAACGATACATTACCGGCATGAAACGATGCCATAAATA
* * * * * *
13756 AAATGCATAACGATGCATTATCGGCATGATAGGATGCCATAAATG
1 AAATGAATAACGATACATTACCGGCATGAAACGATGCCATAAATA
*
13801 AAAGGAAT
1 AAATGAAT
13809 GAATAATTAC
Statistics
Matches: 43, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.43, C:0.14, G:0.20, T:0.22
Consensus pattern (45 bp):
AAATGAATAACGATACATTACCGGCATGAAACGATGCCATAAATA
Found at i:15534 original size:13 final size:13
Alignment explanation
Indices: 15516--15540 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15506 ATGATTGTGA
15516 AGAAAATGATGTC
1 AGAAAATGATGTC
15529 AGAAAATGATGT
1 AGAAAATGATGT
15541 ATATATAGCT
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:0.48, C:0.04, G:0.24, T:0.24
Consensus pattern (13 bp):
AGAAAATGATGTC
Found at i:17524 original size:18 final size:18
Alignment explanation
Indices: 17498--17546 Score: 89
Period size: 18 Copynumber: 2.7 Consensus size: 18
17488 TCTATACAAG
*
17498 TGTGACTATTCTAATACT
1 TGTGCCTATTCTAATACT
17516 TGTGCCTATTCTAATACT
1 TGTGCCTATTCTAATACT
17534 TGTGCCTATTCTA
1 TGTGCCTATTCTA
17547 GATATAAAGG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.22, C:0.20, G:0.12, T:0.45
Consensus pattern (18 bp):
TGTGCCTATTCTAATACT
Found at i:23759 original size:77 final size:79
Alignment explanation
Indices: 23615--23763 Score: 187
Period size: 77 Copynumber: 1.9 Consensus size: 79
23605 ATATAGTAAG
** * *
23615 TAAACATTAAAAGAATGTAATTTTGATTACAAATCTTTTAATTGATATTTAATTCGGATTATTTA
1 TAAACATTAAAAGAATGTAATTCAGATTACAAATCTTTTAATTGATATTTAATTCGGACTAATTA
23680 AATAAGATTTTAAA
66 AATAAGATTTTAAA
* * * * *
23694 TAAATATT-AAAGATTGTAATTCAGATTATAAGTC-TTTAA-TGTATATTTAATTTGGACTAATT
1 TAAACATTAAAAGAATGTAATTCAGATTACAAATCTTTTAATTG-ATATTTAATTCGGACTAATT
23756 AAATAAGA
65 AAATAAGA
23764 AATTATTAAT
Statistics
Matches: 60, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
76 2 0.03
77 30 0.50
78 21 0.35
79 7 0.12
ACGTcount: A:0.43, C:0.05, G:0.10, T:0.42
Consensus pattern (79 bp):
TAAACATTAAAAGAATGTAATTCAGATTACAAATCTTTTAATTGATATTTAATTCGGACTAATTA
AATAAGATTTTAAA
Found at i:26227 original size:55 final size:55
Alignment explanation
Indices: 25680--26220 Score: 756
Period size: 55 Copynumber: 10.0 Consensus size: 55
25670 GGCACTATAA
*
25680 GTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTGT
1 GTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCATTGT
*
25735 GTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTGT
1 GTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCATTGT
* * * **
25790 GTGTGCAAAATTAAGAAATTCATAATATGTTTATGAATTTTCGTATGGGCACAGT
1 GTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCATTGT
* * * *
25845 GTATGCAAAACTATGAAATTCATAATAAGTTTACT-AATTTTCGTATGGGCACTGT
1 GTGTGCAAAACTAAGAAATTCATAATAAGTTTA-TGAATTTCCGTATGGGCATTGT
* * *
25900 GTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTTCGTTTGGCCATTGT
1 GTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCATTGT
* *
25955 GTGTGAAAAACTAAGAAATTCATAATAAGTTTATGAATTTCC-TATGGGCATTTT
1 GTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCATTGT
* *
26009 ATGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCATATGGGCATTGT
1 GTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCATTGT
* * *
26064 GTGTACAAAACTAAGAAATTCATAAAAAGTTTATGAATTTTCGTA----C--TGT
1 GTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCATTGT
* * **
26113 GTGTGCAAAACTAAAAAAATCATAATAAGTTTATGAATTTTTGTATGGGCATTGT
1 GTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCATTGT
* * * *
26168 GTGTGCAAAACTAAGAAATTCATAATGAGTCTATGAATTTCCATATTGGCATT
1 GTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCATT
26221 AGGTGTGATT
Statistics
Matches: 437, Mismatches: 40, Indels: 18
0.88 0.08 0.04
Matches are distributed among these distances:
49 43 0.10
51 1 0.00
53 1 0.00
54 50 0.11
55 341 0.78
56 1 0.00
ACGTcount: A:0.36, C:0.11, G:0.18, T:0.35
Consensus pattern (55 bp):
GTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCATTGT
Found at i:26450 original size:19 final size:19
Alignment explanation
Indices: 26426--26470 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
26416 TTAGATACCT
26426 AAAGGTGCATTTTTGGCAG
1 AAAGGTGCATTTTTGGCAG
* *
26445 AAAGGTACCTTTTTGGCAG
1 AAAGGTGCATTTTTGGCAG
26464 AAAGGTG
1 AAAGGTG
26471 TCAGTAATAC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.29, C:0.11, G:0.31, T:0.29
Consensus pattern (19 bp):
AAAGGTGCATTTTTGGCAG
Found at i:32100 original size:10 final size:10
Alignment explanation
Indices: 32071--32106 Score: 56
Period size: 11 Copynumber: 3.6 Consensus size: 10
32061 TTTGTTTTTT
32071 TTTTTTTGAA
1 TTTTTTTGAA
32081 TTTGTTTTGAA
1 TTT-TTTTGAA
32092 TTTTTTTG-A
1 TTTTTTTGAA
32101 TTTTTT
1 TTTTTT
32107 GACTAACCCA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
9 7 0.28
10 8 0.32
11 10 0.40
ACGTcount: A:0.14, C:0.00, G:0.11, T:0.75
Consensus pattern (10 bp):
TTTTTTTGAA
Found at i:45727 original size:21 final size:22
Alignment explanation
Indices: 45666--45749 Score: 125
Period size: 22 Copynumber: 3.8 Consensus size: 22
45656 CTTAACCCAC
* *
45666 AGTTTACGTCGAGGCTTTAGAAG
1 AGTTTACAT-GAGGTTTTAGAAG
*
45689 AGTTTATATGAGGTTTTAGAAG
1 AGTTTACATGAGGTTTTAGAAG
45711 AGTTTACATGA-GTTTTAGAAG
1 AGTTTACATGAGGTTTTAGAAG
45732 AGTTTACATGAGGTTTTA
1 AGTTTACATGAGGTTTTA
45750 AGTTTGGGGC
Statistics
Matches: 56, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
21 21 0.38
22 28 0.50
23 7 0.12
ACGTcount: A:0.30, C:0.06, G:0.26, T:0.38
Consensus pattern (22 bp):
AGTTTACATGAGGTTTTAGAAG
Found at i:47257 original size:49 final size:49
Alignment explanation
Indices: 47201--47415 Score: 281
Period size: 49 Copynumber: 4.4 Consensus size: 49
47191 TTGATGTAAG
* * *
47201 ACTATTAATGATGATTTAGCACGTTTGACGTCTTTGTGATGGTGGTGTT
1 ACTATTAATGATGATTTAGCACATCTGACGTCTTTGTGATGGTGGTGCT
* *
47250 ACTATTAATGATGATTTAGCA-AGTCTGACATCTTTGTGACT-ATGGTGCT
1 ACTATTAATGATGATTTAGCACA-TCTGACGTCTTTGTGA-TGGTGGTGCT
* *
47299 ACTATAAATGATGATTTAGCACATCTAACGTCTTTGTGATGGTGGTGCT
1 ACTATTAATGATGATTTAGCACATCTGACGTCTTTGTGATGGTGGTGCT
* * * *
47348 AGTATTAATGATGATTTAGCACACCTGACGTCTTTGTGACGGTAGTGCT
1 ACTATTAATGATGATTTAGCACATCTGACGTCTTTGTGATGGTGGTGCT
* *
47397 ACTGTTAATGATGACTTAG
1 ACTATTAATGATGATTTAG
47416 AAAGACTAAC
Statistics
Matches: 144, Mismatches: 18, Indels: 8
0.85 0.11 0.05
Matches are distributed among these distances:
48 1 0.01
49 141 0.98
50 2 0.01
ACGTcount: A:0.25, C:0.13, G:0.23, T:0.38
Consensus pattern (49 bp):
ACTATTAATGATGATTTAGCACATCTGACGTCTTTGTGATGGTGGTGCT
Found at i:47428 original size:49 final size:49
Alignment explanation
Indices: 47201--47446 Score: 251
Period size: 49 Copynumber: 5.0 Consensus size: 49
47191 TTGATGTAAG
** * * * *
47201 ACTATTAATGATGATTTAGCACGTTTGACGTCTTTGTGATGGTGGTGTT
1 ACTATTAATGATGATTTAGCAAATCTAACGTCTTTGTGACGGTGGTGCT
* * * **
47250 ACTATTAATGATGATTTAGCAAGTCTGACATCTTTGTGACTATGGTGCT
1 ACTATTAATGATGATTTAGCAAATCTAACGTCTTTGTGACGGTGGTGCT
* * *
47299 ACTATAAATGATGATTTAGCACATCTAACGTCTTTGTGATGGTGGTGCT
1 ACTATTAATGATGATTTAGCAAATCTAACGTCTTTGTGACGGTGGTGCT
* * * * *
47348 AGTATTAATGATGATTTAGCACACCTGACGTCTTTGTGACGGTAGTGCT
1 ACTATTAATGATGATTTAGCAAATCTAACGTCTTTGTGACGGTGGTGCT
* * * * * *
47397 ACTGTTAATGATGACTTAG-AAAGACTAACGTCTTTATGGCGGTGATGCT
1 ACTATTAATGATGATTTAGCAAA-TCTAACGTCTTTGTGACGGTGGTGCT
47446 A
1 A
47447 TTTATGTGTA
Statistics
Matches: 165, Mismatches: 31, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
48 2 0.01
49 163 0.99
ACGTcount: A:0.26, C:0.14, G:0.24, T:0.37
Consensus pattern (49 bp):
ACTATTAATGATGATTTAGCAAATCTAACGTCTTTGTGACGGTGGTGCT
Found at i:48152 original size:49 final size:49
Alignment explanation
Indices: 48028--48144 Score: 148
Period size: 49 Copynumber: 2.4 Consensus size: 49
48018 AAAGTTAGTA
* * * * * *
48028 CTGACATCTTTGTGACGATG-TGATACTATTAATGATGATTTAGCACGT
1 CTGACGTCTTTGTGACGGTGATGCTATTGTTAATGATGATTTAGCACGC
48076 CTGACGTCTTTGTGACGGTGATGCTATTGTTAATGATGACTTT-GCACGC
1 CTGACGTCTTTGTGACGGTGATGCTATTGTTAATGATGA-TTTAGCACGC
*
48125 CTGACGTCTTTGTGATGGTG
1 CTGACGTCTTTGTGACGGTG
48145 GTTCTATTTT
Statistics
Matches: 60, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
48 18 0.30
49 39 0.65
50 3 0.05
ACGTcount: A:0.21, C:0.16, G:0.26, T:0.38
Consensus pattern (49 bp):
CTGACGTCTTTGTGACGGTGATGCTATTGTTAATGATGATTTAGCACGC
Found at i:48533 original size:704 final size:702
Alignment explanation
Indices: 47350--48730 Score: 2000
Period size: 704 Copynumber: 2.0 Consensus size: 702
47340 GTGGTGCTAG
47350 TATTAATGATGATTTAGCACACCTGACGTCTTTGTGACGGTAGTGCTACTGTTAATGATGACTTA
1 TATTAATGATGATTTAGCACACCTGACGTCTTTGTGACGGTAGTGCTACTGTTAATGATGACTTA
* * **
47415 GAAAGACTAACGTCTTTATGGCGGTGATGCTATTTATGTGTATGCTCATCTGACTTGGATACTGT
66 GAAAGACTAACGTCTTTATGACGGTGATGCTATTTATGTGTATGCTCATCTAACTTAAATACTGT
* *
47480 ACATTCTCAGTGGTTTACATTGGGCTAGAAATGAAGAAAAGGGAAAGGTAAATGCTATGAGATGA
131 ACATTCTCAGTGGTTTACATTGGGCTAGAAATGAAGAAAAAGGAAAGGTAAATGCTATAAGATGA
* *
47545 AAATAAAAGATACAACACTACGATGCAATATTTGACTCCTATATCGGGGTCCTCATATGGTTATA
196 AAATAAAAGATACAACACTACGATGCAATATTTGACTCCTACA-CGGGGTCCCCATATGGTTATA
* * * * *
47610 CTTTGGGATATGGTTTATTGGTTAATAAATTATAAAAAATTGAATAAGTTGTTGAGCTTATGGGA
260 CTTTGGGATATGGTTTATTGGTTAATAAATGATAAAAAAGTGAATAAGATGTTAACCTTATGGGA
* *
47675 TAAATGGCAAGATATTGGTAATAAACTTTATATTCAGTTATATCATGTTAATTTATATTAACATG
325 TAAATGGCAAGATATTGGTAAGAAACTTTATATTCAGTTATATCATGTTAATTTATAGTAACATG
* * * * * *
47740 GATGGTATATAGGTAAAGTGATCATATTGTATTGAATATTGTTATTCTATTAAATTATGTGTTGT
390 GATAGTATACAAGTAAAGTGATCATATTGCATTAAATATTGTTATTCTATTAAATTATGTGTTCT
47805 ATTACCTTGAATATTTAAATAATTGCCTCACTAAGTGTATACTTAGCGTGTGATAATTTTCACGC
455 ATTACCTTGAATATTTAAATAATTGCCTCACTAAGTGTATACTTAGCGTGTGATAATTTTCACG-
* *
47870 A-TAGGAAAAATGAAGAAAATGAGTAAGGAGCTGAGCTTGGCATTAATCACCAAGGACATATTTA
519 AGTAGGAAAAA-GAAGAAAAGGAGTAAGGAGCTGAGCTTGGCATTAATCACCAAGGAAATATTTA
* * * **
47934 CA-GCTAACAATAATGACATCCTATTGTGTTCTAAAAGTTCTAGATGGCATGTAAATGAGAATGA
583 CATG-TAACAATAATGACATCATACTATGTTCTAAAAGTTCTAGATGGCATGTAAACAAGAATGA
47998 AATGTGTGTAATTTCTTAATAAAGTTAGTACTGACATCTTTGTGACGATGTGATAC
647 AATGTGTGTAATTTCTTAATAAAGTTAGTACTGACATCTTTGTGACGATGTGATAC
** *
48054 TATTAATGATGATTTAGCACGTCTGACGTCTTTGTGACGGT-GATGCTATTGTTAATGATGACTT
1 TATTAATGATGATTTAGCACACCTGACGTCTTTGTGACGGTAG-TGCTACTGTTAATGATGACTT
* * * * * * * * * * * * *
48118 TGCACGCCTGACGTCTTTGTGATGGTGGTTCTATTTTTGTTTATGCTCGTCTAACTTAAATACTT
65 AGAAAGACTAACGTCTTTATGACGGTGATGCTATTTATGTGTATGCTCATCTAACTTAAATACTG
* * *
48183 TGCATTCTTAGTGGTTTACATTGGGCTATGAAATTGAA-AAAAAGGAAAGGTAAATGTTATAAGA
130 TACATTCTCAGTGGTTTACATTGGGCTA-GAAA-TGAAGAAAAAGGAAAGGTAAATGCTATAAGA
* * *
48247 TGAAAATAAATGATACAACACTACGGTGCAATATTTGACTCCTACA-GTGGTCCCCATATGGTTA
193 TGAAAATAAAAGATACAACACTACGATGCAATATTTGACTCCTACACGGGGTCCCCATATGGTTA
* * *
48311 TACTTTGGGCTATGGTTTATTGGTTAATAAATGATATACAAGTGAATAAGATGTTAACCTTATGG
258 TACTTTGGGATATGGTTTATTGGTTAATAAATGATAAAAAAGTGAATAAGATGTTAACCTTATGG
* * *
48376 GATAAATGGCAAGTATATTGGTAAGAAACTTTATATTCGGTTATATCATGTTAATTTTTGGTAAC
323 GATAAATGGCAAG-ATATTGGTAAGAAACTTTATATTCAGTTATATCATGTTAATTTATAGTAAC
48441 ATGGATAGTATACAAGTAAAGTGATCATATTGCATTAAATATTGTTATTCCT-TTAAATTATGTG
387 ATGGATAGTATACAAGTAAAGTGATCATATTGCATTAAATATTGTTATT-CTATTAAATTATGTG
* * * * * * * *
48505 TTCTATTGCCTTGAATATTTATATAATTGTCTCAGTAGGTTTATACTTAGCGTGTGATGATTTTT
451 TTCTATTACCTTGAATATTTAAATAATTGCCTCACTAAGTGTATACTTAGCGTGTGATAATTTTC
* *
48570 ACGAGTAGGAAAAAGAAGAAAAGGAGTAAGGAGCTTAGCTTGGCCTTAATCACCAAGGAAATATT
516 ACGAGTAGGAAAAAGAAGAAAAGGAGTAAGGAGCTGAGCTTGGCATTAATCACCAAGGAAATATT
* * * *
48635 TACATGTAACAATGATGACATCATACTATGTTCTAAACGTTCTAGCTGGCATGTATACAAGAATG
581 TACATGTAACAATAATGACATCATACTATGTTCTAAAAGTTCTAGATGGCATGTAAACAAGAATG
*
48700 AAATGTTTGTAATTTCTTAATAAAGTTAGTA
646 AAATGTGTGTAATTTCTTAATAAAGTTAGTA
48731 TTAAATATAA
Statistics
Matches: 599, Mismatches: 71, Indels: 15
0.87 0.10 0.02
Matches are distributed among these distances:
703 219 0.37
704 304 0.51
705 72 0.12
706 4 0.01
ACGTcount: A:0.33, C:0.12, G:0.20, T:0.36
Consensus pattern (702 bp):
TATTAATGATGATTTAGCACACCTGACGTCTTTGTGACGGTAGTGCTACTGTTAATGATGACTTA
GAAAGACTAACGTCTTTATGACGGTGATGCTATTTATGTGTATGCTCATCTAACTTAAATACTGT
ACATTCTCAGTGGTTTACATTGGGCTAGAAATGAAGAAAAAGGAAAGGTAAATGCTATAAGATGA
AAATAAAAGATACAACACTACGATGCAATATTTGACTCCTACACGGGGTCCCCATATGGTTATAC
TTTGGGATATGGTTTATTGGTTAATAAATGATAAAAAAGTGAATAAGATGTTAACCTTATGGGAT
AAATGGCAAGATATTGGTAAGAAACTTTATATTCAGTTATATCATGTTAATTTATAGTAACATGG
ATAGTATACAAGTAAAGTGATCATATTGCATTAAATATTGTTATTCTATTAAATTATGTGTTCTA
TTACCTTGAATATTTAAATAATTGCCTCACTAAGTGTATACTTAGCGTGTGATAATTTTCACGAG
TAGGAAAAAGAAGAAAAGGAGTAAGGAGCTGAGCTTGGCATTAATCACCAAGGAAATATTTACAT
GTAACAATAATGACATCATACTATGTTCTAAAAGTTCTAGATGGCATGTAAACAAGAATGAAATG
TGTGTAATTTCTTAATAAAGTTAGTACTGACATCTTTGTGACGATGTGATAC
Found at i:51962 original size:21 final size:21
Alignment explanation
Indices: 51938--51977 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
51928 TCAAGGGAGT
*
51938 TCAAAGACAAAAAGAAAAAAA
1 TCAAAAACAAAAAGAAAAAAA
*
51959 TCAAAAAGAAAAAGAAAAA
1 TCAAAAACAAAAAGAAAAA
51978 GAGAATTTCA
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:0.78, C:0.07, G:0.10, T:0.05
Consensus pattern (21 bp):
TCAAAAACAAAAAGAAAAAAA
Found at i:54803 original size:24 final size:25
Alignment explanation
Indices: 54773--54822 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
54763 ATGATGCTAA
*
54773 TTTCATAT-TCTATAATATAGTTAT
1 TTTCATATATATATAATATAGTTAT
54797 TTTCATATATATATAATATAGTTAT
1 TTTCATATATATATAATATAGTTAT
54822 T
1 T
54823 ATGATAATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 8 0.33
25 16 0.67
ACGTcount: A:0.36, C:0.06, G:0.04, T:0.54
Consensus pattern (25 bp):
TTTCATATATATATAATATAGTTAT
Found at i:60287 original size:21 final size:22
Alignment explanation
Indices: 60241--60287 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 22
60231 CACTTTTCTA
* * *
60241 TTTTTTTCTTGTTTTTCTTTTT
1 TTTTTTTCATGTTTTTCTCTTC
60263 TTTTTTTCAT-TTTTTCTCTTC
1 TTTTTTTCATGTTTTTCTCTTC
60284 TTTT
1 TTTT
60288 GTTCCCCAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 13 0.59
22 9 0.41
ACGTcount: A:0.02, C:0.13, G:0.02, T:0.83
Consensus pattern (22 bp):
TTTTTTTCATGTTTTTCTCTTC
Found at i:73973 original size:23 final size:24
Alignment explanation
Indices: 73947--73994 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
73937 TGAACGAAGG
* *
73947 ATGAGGAAGAATAAGAAGA-AGAA
1 ATGAAGAAGAAAAAGAAGAGAGAA
*
73970 ATGAAGAAGAAAAAGATGAGAGAA
1 ATGAAGAAGAAAAAGAAGAGAGAA
73994 A
1 A
73995 GTGGAGTGAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 16 0.76
24 5 0.24
ACGTcount: A:0.62, C:0.00, G:0.29, T:0.08
Consensus pattern (24 bp):
ATGAAGAAGAAAAAGAAGAGAGAA
Found at i:74874 original size:3 final size:3
Alignment explanation
Indices: 74868--74929 Score: 124
Period size: 3 Copynumber: 20.7 Consensus size: 3
74858 GGTAAAAAAA
74868 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
74916 TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TA
74930 CATCATTGCA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:77399 original size:26 final size:24
Alignment explanation
Indices: 77363--77421 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 24
77353 AAATCGTTCA
*
77363 TTTTTCAAATAAAAGTCATAATTGTT
1 TTTTTAAAATAAAA-T-ATAATTGTT
* *
77389 TTTTTAAAATAATATTTAATTGTT
1 TTTTTAAAATAAAATATAATTGTT
*
77413 TTTCTAAAA
1 TTTTTAAAA
77422 AAATGGTATT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
24 16 0.55
25 1 0.03
26 12 0.41
ACGTcount: A:0.39, C:0.05, G:0.05, T:0.51
Consensus pattern (24 bp):
TTTTTAAAATAAAATATAATTGTT
Found at i:85547 original size:21 final size:22
Alignment explanation
Indices: 85507--85549 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
85497 GTTTATCATC
85507 AAGTTTTTCATTATTTTTCTTT
1 AAGTTTTTCATTATTTTTCTTT
85529 AAGTTTTTC-TT-TTTGTTCTTT
1 AAGTTTTTCATTATTT-TTCTTT
85550 CAATTATGAG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 3 0.15
21 8 0.40
22 9 0.45
ACGTcount: A:0.14, C:0.09, G:0.07, T:0.70
Consensus pattern (22 bp):
AAGTTTTTCATTATTTTTCTTT
Found at i:87785 original size:12 final size:12
Alignment explanation
Indices: 87755--87801 Score: 60
Period size: 12 Copynumber: 4.0 Consensus size: 12
87745 TAGGGCAATC
* *
87755 AAGTTTATCATC
1 AAGTTTTTCATT
87767 AAGTTTTTCATT
1 AAGTTTTTCATT
*
87779 AAG-TTTTCTTT
1 AAGTTTTTCATT
87790 AAGTTTTTCATT
1 AAGTTTTTCATT
87802 TTGTTCTTTC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
11 10 0.33
12 20 0.67
ACGTcount: A:0.26, C:0.11, G:0.09, T:0.55
Consensus pattern (12 bp):
AAGTTTTTCATT
Found at i:100162 original size:15 final size:15
Alignment explanation
Indices: 100126--100156 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
100116 TGAGACATTA
*
100126 CCCGCCCCGCATCCG
1 CCCGCCCCACATCCG
100141 CCCGCCCCACATCCG
1 CCCGCCCCACATCCG
100156 C
1 C
100157 GGGCCCAGCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.10, C:0.68, G:0.16, T:0.06
Consensus pattern (15 bp):
CCCGCCCCACATCCG
Found at i:105555 original size:22 final size:23
Alignment explanation
Indices: 105502--105560 Score: 75
Period size: 23 Copynumber: 2.6 Consensus size: 23
105492 TTCCCTAAAA
*
105502 GGGGAATCAGTTCCCATTCAAAG
1 GGGGAATCGGTTCCCATTCAAAG
*
105525 GGGGAATCGGTTCCCCTTC-AAG
1 GGGGAATCGGTTCCCATTCAAAG
* *
105547 GGGGTATCGATTCC
1 GGGGAATCGGTTCC
105561 TCTTGCACTA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
22 15 0.47
23 17 0.53
ACGTcount: A:0.22, C:0.24, G:0.31, T:0.24
Consensus pattern (23 bp):
GGGGAATCGGTTCCCATTCAAAG
Found at i:107162 original size:19 final size:19
Alignment explanation
Indices: 107138--107218 Score: 162
Period size: 19 Copynumber: 4.3 Consensus size: 19
107128 TTCTTGAGTA
107138 TAGCCTTGAGCAACAAGTC
1 TAGCCTTGAGCAACAAGTC
107157 TAGCCTTGAGCAACAAGTC
1 TAGCCTTGAGCAACAAGTC
107176 TAGCCTTGAGCAACAAGTC
1 TAGCCTTGAGCAACAAGTC
107195 TAGCCTTGAGCAACAAGTC
1 TAGCCTTGAGCAACAAGTC
107214 TAGCC
1 TAGCC
107219 CTTGTTTCTC
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 62 1.00
ACGTcount: A:0.31, C:0.27, G:0.21, T:0.21
Consensus pattern (19 bp):
TAGCCTTGAGCAACAAGTC
Found at i:114155 original size:55 final size:55
Alignment explanation
Indices: 114082--114370 Score: 384
Period size: 55 Copynumber: 5.2 Consensus size: 55
114072 TTCTTTGAGG
* * * *
114082 TGCACACGTAGTGCCGATACGGTTGTTCATAAACATACTATGAATTCCGTGGTTT
1 TGCACACTTAGTTCCGATACGGTCGTTCATAAACATATTATGAATTCCGTGGTTT
* * *
114137 TGCATACTTAGTTCCGATACGGTCGTTCATAAACATATTATGAATTTCATGGTTT
1 TGCACACTTAGTTCCGATACGGTCGTTCATAAACATATTATGAATTCCGTGGTTT
*
114192 TGCACACTCAGTGT-CGATACGGTCGTTCATAAACATATTATGAATTCCGTGGGTTT
1 TGCACACTTAGT-TCCGATACGGTCGTTCATAAACATATTATGAATTCCGT-GGTTT
* *
114248 TGCACACTTAGTGCCGATACGGTCGTTTATAAACATATTATGAATTCCGTGGTTT
1 TGCACACTTAGTTCCGATACGGTCGTTCATAAACATATTATGAATTCCGTGGTTT
* ** * *
114303 TGCACACTTAGTGT-CGATACTGTTTTTCATAAACATATTAAGAATTTCGTGGGTTT
1 TGCACACTTAGT-TCCGATACGGTCGTTCATAAACATATTATGAATTCCGT-GGTTT
*
114359 TGCAAACTTAGT
1 TGCACACTTAGT
114371 GACTATAATA
Statistics
Matches: 207, Mismatches: 22, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
55 139 0.67
56 68 0.33
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.37
Consensus pattern (55 bp):
TGCACACTTAGTTCCGATACGGTCGTTCATAAACATATTATGAATTCCGTGGTTT
Found at i:114293 original size:111 final size:110
Alignment explanation
Indices: 114082--114371 Score: 429
Period size: 111 Copynumber: 2.6 Consensus size: 110
114072 TTCTTTGAGG
* * *
114082 TGCACACGTAGTGCCGATACGGTTGTTCATAAACATACTATGAATTCCGT-GGTTTTGCATACTT
1 TGCACAC-TAGTGTCGATACGGTTGTTCATAAACATATTATGAATTCCGTGGGTTTTGCAAACTT
* *
114146 AGTTCCGATACGGTCGTTCATAAACATATTATGAATTTCATGGTTT
65 AGTGCCGATACGGTCGTTCATAAACATATTATGAATTCCATGGTTT
* *
114192 TGCACACTCAGTGTCGATACGGTCGTTCATAAACATATTATGAATTCCGTGGGTTTTGCACACTT
1 TGCACACT-AGTGTCGATACGGTTGTTCATAAACATATTATGAATTCCGTGGGTTTTGCAAACTT
* *
114257 AGTGCCGATACGGTCGTTTATAAACATATTATGAATTCCGTGGTTT
65 AGTGCCGATACGGTCGTTCATAAACATATTATGAATTCCATGGTTT
* * * *
114303 TGCACACTTAGTGTCGATACTGTTTTTCATAAACATATTAAGAATTTCGTGGGTTTTGCAAACTT
1 TGCACAC-TAGTGTCGATACGGTTGTTCATAAACATATTATGAATTCCGTGGGTTTTGCAAACTT
114368 AGTG
65 AGTG
114372 ACTATAATAC
Statistics
Matches: 163, Mismatches: 14, Indels: 5
0.90 0.08 0.03
Matches are distributed among these distances:
109 1 0.01
110 45 0.28
111 116 0.71
112 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.37
Consensus pattern (110 bp):
TGCACACTAGTGTCGATACGGTTGTTCATAAACATATTATGAATTCCGTGGGTTTTGCAAACTTA
GTGCCGATACGGTCGTTCATAAACATATTATGAATTCCATGGTTT
Found at i:117862 original size:36 final size:35
Alignment explanation
Indices: 117758--117886 Score: 168
Period size: 35 Copynumber: 3.6 Consensus size: 35
117748 ATGGTGGTTA
* * *
117758 TATAGGCGTGAAATGGTTATAGAAGATGGTGATGA
1 TATAGGCGTGAAATGGTGATGGAAGATGGTGATGT
* * * *
117793 TATAGGCGTGCAATAGTAATGGAAGATGATGATGT
1 TATAGGCGTGAAATGGTGATGGAAGATGGTGATGT
117828 TATAGGCGTGAAAATGGTGATGGAAGATGGTGATGT
1 TATAGGCGTG-AAATGGTGATGGAAGATGGTGATGT
117864 TATAGGCGTGAAAAATGGTGATG
1 TATAGGCGTG--AAATGGTGATG
117887 AACAGATAGT
Statistics
Matches: 82, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
35 39 0.48
36 31 0.38
37 12 0.15
ACGTcount: A:0.33, C:0.04, G:0.35, T:0.28
Consensus pattern (35 bp):
TATAGGCGTGAAATGGTGATGGAAGATGGTGATGT
Found at i:117904 original size:37 final size:36
Alignment explanation
Indices: 117758--117904 Score: 115
Period size: 35 Copynumber: 4.1 Consensus size: 36
117748 ATGGTGGTTA
* * **
117758 TATAGGCGTG-AAATGGTTAT-AGAAGATGGTGATGA
1 TATAGGCGTGAAAATGGTGATGA-AAGATAGTGATCT
* * * * *
117793 TATAGGCGTG-CAATAGTAATGGAAGAT-GATGATGT
1 TATAGGCGTGAAAATGGTGATGAAAGATAG-TGATCT
* * *
117828 TATAGGCGTGAAAATGGTGATGGAAGATGGTGATGT
1 TATAGGCGTGAAAATGGTGATGAAAGATAGTGATCT
117864 TATAGGCGTGAAAAATGGTGATGAACAGATAGT-ATCT
1 TATAGGCGTG-AAAATGGTGATGAA-AGATAGTGATCT
117901 TATA
1 TATA
117905 AAACTAAGAA
Statistics
Matches: 95, Mismatches: 11, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
34 1 0.01
35 37 0.39
36 30 0.32
37 21 0.22
38 6 0.06
ACGTcount: A:0.35, C:0.05, G:0.32, T:0.29
Consensus pattern (36 bp):
TATAGGCGTGAAAATGGTGATGAAAGATAGTGATCT
Found at i:118269 original size:19 final size:20
Alignment explanation
Indices: 118226--118269 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
118216 TAAAACCCCT
*
118226 TTGAAAACACATGATTTTTA
1 TTGAAAACACATGAATTTTA
* *
118246 ATGAAAATACAT-AATTTTA
1 TTGAAAACACATGAATTTTA
118265 TTGAA
1 TTGAA
118270 GATAAATGCT
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.45, C:0.07, G:0.09, T:0.39
Consensus pattern (20 bp):
TTGAAAACACATGAATTTTA
Found at i:121522 original size:15 final size:15
Alignment explanation
Indices: 121504--121538 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
121494 ACTTTCTTCA
121504 CTTTTTCTTTTT-TTT
1 CTTTTT-TTTTTCTTT
121519 CTTTTTTTTTTCTTT
1 CTTTTTTTTTTCTTT
121534 CTTTT
1 CTTTT
121539 GCACTCCAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (15 bp):
CTTTTTTTTTTCTTT
Found at i:121815 original size:6 final size:6
Alignment explanation
Indices: 121796--121834 Score: 62
Period size: 6 Copynumber: 6.7 Consensus size: 6
121786 TGACAATTAA
*
121796 GAAAT- GAAAAG GAAATG GAAATG GAAATG GAAATG GAAA
1 GAAATG GAAATG GAAATG GAAATG GAAATG GAAATG GAAA
121835 GAATTGAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
5 4 0.13
6 27 0.87
ACGTcount: A:0.56, C:0.00, G:0.31, T:0.13
Consensus pattern (6 bp):
GAAATG
Found at i:122029 original size:35 final size:35
Alignment explanation
Indices: 121990--122118 Score: 129
Period size: 35 Copynumber: 3.7 Consensus size: 35
121980 TGGTAAGGGA
*
121990 ATGGTGGTTATATAGGTGAGAAATGGTGATAGAAG
1 ATGGTGATTATATAGGTGAGAAATGGTGATAGAAG
* * * *
122025 ATGGTGATGATATAGGCGTGCAATGGTGATAGAAG
1 ATGGTGATTATATAGGTGAGAAATGGTGATAGAAG
* *
122060 ATGGTGATGT-TATAGGCGTGA-AAATGGTGATGGAAT
1 ATGGTGAT-TATATA-G-GTGAGAAATGGTGATAGAAG
*
122096 ATGGTGATGT-TATAGGTGTGAAA
1 ATGGTGAT-TATATAGGTGAGAAA
122119 AATGGCGATG
Statistics
Matches: 78, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
34 3 0.04
35 46 0.59
36 27 0.35
37 2 0.03
ACGTcount: A:0.32, C:0.02, G:0.36, T:0.29
Consensus pattern (35 bp):
ATGGTGATTATATAGGTGAGAAATGGTGATAGAAG
Found at i:122100 original size:36 final size:36
Alignment explanation
Indices: 122005--122141 Score: 170
Period size: 35 Copynumber: 3.8 Consensus size: 36
121995 GGTTATATAG
*
122005 GTGAGAAATGGTGATAGAAGATGGTGATGATATAGGC
1 GTGA-AAATGGTGATAGAAGATGGTGATGTTATAGGC
*
122042 GTG-CAATGGTGATAGAAGATGGTGATGTTATAGGC
1 GTGAAAATGGTGATAGAAGATGGTGATGTTATAGGC
* * *
122077 GTGAAAATGGTGATGGAATATGGTGATGTTATAGGT
1 GTGAAAATGGTGATAGAAGATGGTGATGTTATAGGC
* *
122113 GTGAAAAATGGCGAT-GAAAGATAGTGATG
1 GTG-AAAATGGTGATAG-AAGATGGTGATG
122142 AACAGATTGT
Statistics
Matches: 88, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
35 33 0.38
36 32 0.36
37 23 0.26
ACGTcount: A:0.34, C:0.03, G:0.36, T:0.27
Consensus pattern (36 bp):
GTGAAAATGGTGATAGAAGATGGTGATGTTATAGGC
Found at i:122140 original size:37 final size:36
Alignment explanation
Indices: 122057--122141 Score: 116
Period size: 36 Copynumber: 2.3 Consensus size: 36
122047 ATGGTGATAG
* *
122057 AAGATGGTGATGTTATAGGCGTGAAAATGGTGATGG
1 AAGATGGTGATGTTATAGGCGTGAAAATGGCGATGA
* *
122093 AATATGGTGATGTTATAGGTGTGAAAAATGGCGATGA
1 AAGATGGTGATGTTATAGGCGTG-AAAATGGCGATGA
*
122130 AAGATAGTGATG
1 AAGATGGTGATG
122142 AACAGATTGT
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
36 21 0.50
37 21 0.50
ACGTcount: A:0.34, C:0.02, G:0.35, T:0.28
Consensus pattern (36 bp):
AAGATGGTGATGTTATAGGCGTGAAAATGGCGATGA
Found at i:122520 original size:19 final size:20
Alignment explanation
Indices: 122482--122524 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
122472 AAAACCCCTT
*
122482 TGAAAACACATGATTTTTAA
1 TGAAAACACATGAATTTTAA
*
122502 TGAAAATACAT-AATTTTAA
1 TGAAAACACATGAATTTTAA
122521 TGAA
1 TGAA
122525 GATAAACACT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 11 0.52
20 10 0.48
ACGTcount: A:0.49, C:0.07, G:0.09, T:0.35
Consensus pattern (20 bp):
TGAAAACACATGAATTTTAA
Found at i:126966 original size:55 final size:55
Alignment explanation
Indices: 126899--127189 Score: 377
Period size: 55 Copynumber: 5.3 Consensus size: 55
126889 TTCTTTGAGA
* * * *
126899 TGCACACGTAGTGCCAATACGGTCCTTCATAAACATATTATGAATTTCGTGATTT
1 TGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTTCGTGGTTT
* * ** *
126954 TGCACATTTAGTGTCGATACGGTATTTCATAAACATATTATGAATTCCGTGGTTT
1 TGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTTCGTGGTTT
* * *
127009 TACACACTTAGTGCAGATAAGGTCGTTCATAAACATATTATGAA-TTCTGTGGTTT
1 TGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTTC-GTGGTTT
* *
127064 TGCACACTTAGTACCGATACGGTCGTTCATAAACATATTATGAATTTTGTGGTTT
1 TGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTTCGTGGTTT
* * ** *
127119 TACACACTTAGTGTCGATACGGTTTTTCATAAACATATTATGAATTCCGTGGATTT
1 TGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTTCGTGG-TTT
*
127175 TGTACACTTAGTGCC
1 TGCACACTTAGTGCC
127190 TATAGTACAC
Statistics
Matches: 202, Mismatches: 31, Indels: 5
0.85 0.13 0.02
Matches are distributed among these distances:
54 2 0.01
55 183 0.91
56 17 0.08
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.37
Consensus pattern (55 bp):
TGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTTCGTGGTTT
Found at i:130597 original size:12 final size:12
Alignment explanation
Indices: 130571--130612 Score: 57
Period size: 13 Copynumber: 3.3 Consensus size: 12
130561 TTTAGAAAAC
130571 AAAATAAAAACTT
1 AAAATAAAAA-TT
130584 AAAATAAAAATT
1 AAAATAAAAATT
*
130596 AAAAGAAAAATAT
1 AAAATAAAAAT-T
130609 AAAA
1 AAAA
130613 CAAACGCGAG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
12 12 0.44
13 15 0.56
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.19
Consensus pattern (12 bp):
AAAATAAAAATT
Found at i:134204 original size:14 final size:14
Alignment explanation
Indices: 134185--134240 Score: 75
Period size: 14 Copynumber: 4.3 Consensus size: 14
134175 CATTCGTGAA
134185 CGTTCGGTTATGTT
1 CGTTCGGTTATGTT
134199 CGTTCGGTTATGTT
1 CGTTCGGTTATGTT
134213 CG-T---TTATGTT
1 CGTTCGGTTATGTT
*
134223 CGTTCGATTATGTT
1 CGTTCGGTTATGTT
134237 CGTT
1 CGTT
134241 TATGTTCATT
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
10 9 0.24
11 1 0.03
13 1 0.03
14 27 0.71
ACGTcount: A:0.09, C:0.14, G:0.25, T:0.52
Consensus pattern (14 bp):
CGTTCGGTTATGTT
Found at i:134257 original size:24 final size:23
Alignment explanation
Indices: 134186--134260 Score: 96
Period size: 24 Copynumber: 3.1 Consensus size: 23
134176 ATTCGTGAAC
* *
134186 GTTCGGTTATGTTCGTTCGGTTAT
1 GTTCGTTTATGTTCGTTC-ATTAT
134210 GTTCGTTTATGTTCGTTCGATTAT
1 GTTCGTTTATGTTCGTTC-ATTAT
*
134234 GTTCGTTTATGTTCATTCATTTAT
1 GTTCGTTTATGTTCGTTCA-TTAT
134258 GTT
1 GTT
134261 TAACCTAATC
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
23 1 0.02
24 46 0.98
ACGTcount: A:0.12, C:0.12, G:0.21, T:0.55
Consensus pattern (23 bp):
GTTCGTTTATGTTCGTTCATTAT
Found at i:135002 original size:10 final size:10
Alignment explanation
Indices: 134987--135061 Score: 61
Period size: 10 Copynumber: 7.7 Consensus size: 10
134977 GGGTCTCCAA
134987 CGTTTATGTT
1 CGTTTATGTT
134997 CGTTTATGTT
1 CGTTTATGTT
135007 CGTGTTCAT-TT
1 CGT-TT-ATGTT
* **
135018 ATGTTCGTGTT
1 -CGTTTATGTT
135029 CGTTTATGTT
1 CGTTTATGTT
135039 CG----TGTT
1 CGTTTATGTT
135045 CGTTTATGTT
1 CGTTTATGTT
135055 CGTTTAT
1 CGTTTAT
135062 TTATTAAATG
Statistics
Matches: 51, Mismatches: 6, Indels: 16
0.70 0.08 0.22
Matches are distributed among these distances:
6 6 0.12
10 34 0.67
11 7 0.14
12 4 0.08
ACGTcount: A:0.09, C:0.12, G:0.21, T:0.57
Consensus pattern (10 bp):
CGTTTATGTT
Found at i:135018 original size:16 final size:16
Alignment explanation
Indices: 134993--135057 Score: 121
Period size: 16 Copynumber: 4.1 Consensus size: 16
134983 CCAACGTTTA
134993 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
*
135009 TGTTCATTTATGTTCG
1 TGTTCGTTTATGTTCG
135025 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
135041 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
135057 T
1 T
135058 TTATTTATTA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 47 1.00
ACGTcount: A:0.08, C:0.12, G:0.23, T:0.57
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:135147 original size:16 final size:16
Alignment explanation
Indices: 135126--135158 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
135116 AAAAAAATTT
135126 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
135142 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
135158 T
1 T
135159 CTATTTATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.06, C:0.12, G:0.24, T:0.58
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:135762 original size:14 final size:15
Alignment explanation
Indices: 135743--135771 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
135733 TATATACTCG
135743 ATAAAAAT-AATCAA
1 ATAAAAATAAATCAA
135757 ATAAAAATAAATCAA
1 ATAAAAATAAATCAA
135772 CAAAATGTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.72, C:0.07, G:0.00, T:0.21
Consensus pattern (15 bp):
ATAAAAATAAATCAA
Found at i:141939 original size:13 final size:13
Alignment explanation
Indices: 141921--141945 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
141911 AATGAATTTT
141921 AAGATTTTCTAAA
1 AAGATTTTCTAAA
141934 AAGATTTTCTAA
1 AAGATTTTCTAA
141946 GTATATTCGA
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:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (13 bp):
AAGATTTTCTAAA
Found at i:142148 original size:21 final size:22
Alignment explanation
Indices: 142124--142176 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 22
142114 AGAGGGAACT
142124 GATTCCCCCCCAA-GGGGTACC
1 GATTCCCCCCCAAGGGGGTACC
142145 GATTCCCCCCCAAGGGGGTACC
1 GATTCCCCCCCAAGGGGGTACC
*
142167 GATTCTCCCC
1 GATTCCCCCC
142177 TGAATGGTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
21 13 0.43
22 17 0.57
ACGTcount: A:0.17, C:0.43, G:0.23, T:0.17
Consensus pattern (22 bp):
GATTCCCCCCCAAGGGGGTACC
Found at i:144285 original size:21 final size:21
Alignment explanation
Indices: 144237--144291 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
144227 AACAGTAGGA
* *
144237 GAATCGATTCACTGTTGGGGG
1 GAATCGGTTCCCTGTTGGGGG
144258 GAATCGGTTCCCTGTTGGGGG
1 GAATCGGTTCCCTGTTGGGGG
* *
144279 TAATCGGTACCCT
1 GAATCGGTTCCCT
144292 AAAATCATTC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.16, C:0.20, G:0.35, T:0.29
Consensus pattern (21 bp):
GAATCGGTTCCCTGTTGGGGG
Found at i:144757 original size:38 final size:41
Alignment explanation
Indices: 144672--144763 Score: 100
Period size: 43 Copynumber: 2.2 Consensus size: 41
144662 TATAAAATCT
* *
144672 CTTACCATTTATCCCATAAGCTCGTAAGCTTATTTTATCAATATA
1 CTTACCA-TTAT-TCATAAGCTCGTAAGCTTATTTTAGC-A-ATA
*
144717 CTTGCCATTATTCATAAGCTCGTAAGCTTA-TTT-GC-ATA
1 CTTACCATTATTCATAAGCTCGTAAGCTTATTTTAGCAATA
144755 CTTACCATT
1 CTTACCATT
144764 TATTAACCAT
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
38 11 0.26
41 1 0.02
42 3 0.07
43 18 0.42
44 4 0.09
45 6 0.14
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40
Consensus pattern (41 bp):
CTTACCATTATTCATAAGCTCGTAAGCTTATTTTAGCAATA
Found at i:145890 original size:21 final size:21
Alignment explanation
Indices: 145864--145903 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
145854 GAGAAGTTGT
145864 TTTTAAAATAT-AAAAATGATA
1 TTTTAAAAT-TGAAAAATGATA
145885 TTTTAAAATTGAAAAATGA
1 TTTTAAAATTGAAAAATGA
145904 AAAGAATCTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 1 0.06
21 17 0.94
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.38
Consensus pattern (21 bp):
TTTTAAAATTGAAAAATGATA
Found at i:149743 original size:23 final size:23
Alignment explanation
Indices: 149712--149762 Score: 86
Period size: 23 Copynumber: 2.3 Consensus size: 23
149702 AGAATCGATA
149712 CCCCC-TTGAAGGGGAACCAATT
1 CCCCCTTTGAAGGGGAACCAATT
*
149734 CCCCCTTTGAAGGGGAACCGATT
1 CCCCCTTTGAAGGGGAACCAATT
149757 CCCCCT
1 CCCCCT
149763 GTAGTGGAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
22 5 0.19
23 22 0.81
ACGTcount: A:0.22, C:0.37, G:0.22, T:0.20
Consensus pattern (23 bp):
CCCCCTTTGAAGGGGAACCAATT
Found at i:151699 original size:16 final size:16
Alignment explanation
Indices: 151646--151708 Score: 58
Period size: 16 Copynumber: 3.9 Consensus size: 16
151636 ATATTTTGGA
151646 ATGTTTGAATTTATGG
1 ATGTTTGAATTTATGG
*
151662 ATTGTTTGACTTTGAAT--
1 A-TGTTTGAATTT--ATGG
*
151679 TTGTTTGAATTTATGG
1 ATGTTTGAATTTATGG
*
151695 ATGTTTGAACTTAT
1 ATGTTTGAATTTAT
151709 ATTCTATATA
Statistics
Matches: 37, Mismatches: 5, Indels: 10
0.71 0.10 0.19
Matches are distributed among these distances:
14 2 0.05
16 23 0.62
17 10 0.27
19 2 0.05
ACGTcount: A:0.24, C:0.03, G:0.21, T:0.52
Consensus pattern (16 bp):
ATGTTTGAATTTATGG
Found at i:152344 original size:22 final size:22
Alignment explanation
Indices: 152310--152351 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
152300 TCCAGAATGT
152310 CTAGAGGGAACCGATTCCCCCC
1 CTAGAGGGAACCGATTCCCCCC
* *
152332 CTAGGGGGTACCGATTCCCC
1 CTAGAGGGAACCGATTCCCC
152352 TTGTTTAACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.19, C:0.38, G:0.26, T:0.17
Consensus pattern (22 bp):
CTAGAGGGAACCGATTCCCCCC
Found at i:155724 original size:22 final size:23
Alignment explanation
Indices: 155693--155749 Score: 71
Period size: 22 Copynumber: 2.5 Consensus size: 23
155683 GAAGTTTAAG
* *
155693 GGATATAGTTTCAGTAC-AAAAT
1 GGATAGAGTTTCAGTACTAAAAA
*
155715 GGATAGAGTTTTAGTACTAAAAA
1 GGATAGAGTTTCAGTACTAAAAA
*
155738 GGGTAGAGTTTC
1 GGATAGAGTTTC
155750 GATACTAGTA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
22 15 0.52
23 14 0.48
ACGTcount: A:0.37, C:0.07, G:0.25, T:0.32
Consensus pattern (23 bp):
GGATAGAGTTTCAGTACTAAAAA
Found at i:155744 original size:23 final size:22
Alignment explanation
Indices: 155690--155749 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 22
155680 TTTGAAGTTT
*
155690 AAGGGATATAGTTTCAGTACAAA
1 AAGGG-TAGAGTTTCAGTACAAA
* * *
155713 ATGGATAGAGTTTTAGTACTAAA
1 AAGGGTAGAGTTTCAGTAC-AAA
155736 AAGGGTAGAGTTTC
1 AAGGGTAGAGTTTC
155750 GATACTAGTA
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
22 12 0.41
23 17 0.59
ACGTcount: A:0.38, C:0.07, G:0.25, T:0.30
Consensus pattern (22 bp):
AAGGGTAGAGTTTCAGTACAAA
Found at i:160690 original size:33 final size:33
Alignment explanation
Indices: 160628--160692 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 33
160618 AGTATGCATG
* * *
160628 TTTTAGGGTTTTTGTTATTTCTAATAAGTTTGA
1 TTTTAGGGTTTTTATTATTTCCAACAAGTTTGA
* *
160661 TTTTAGGGTTTTTATTCTTTCCACCAAGTTTG
1 TTTTAGGGTTTTTATTATTTCCAACAAGTTTG
160693 GATTCTAATG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.18, C:0.09, G:0.17, T:0.55
Consensus pattern (33 bp):
TTTTAGGGTTTTTATTATTTCCAACAAGTTTGA
Found at i:160994 original size:20 final size:20
Alignment explanation
Indices: 160966--161004 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
160956 CGAATGAGTT
*
160966 AATTGATTCGTTTTCAATTG
1 AATTGATTCCTTTTCAATTG
* *
160986 AATTTATTCCTTTTTAATT
1 AATTGATTCCTTTTCAATT
161005 TGTTGAGTTG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.10, G:0.08, T:0.56
Consensus pattern (20 bp):
AATTGATTCCTTTTCAATTG
Found at i:165123 original size:157 final size:155
Alignment explanation
Indices: 164919--165231 Score: 608
Period size: 157 Copynumber: 2.0 Consensus size: 155
164909 CTTTAATCAA
164919 GGAAGAGTATTTCCAATGAGTTAGGAGGCTTATATCGCGTCAACAGTAACATTGTCGATCTTTCT
1 GGAAGAGTATTTCCAATGAGTTAGGAGGCTTATATCGCGTCAACAGTAACATTGTCGATCTTTCT
164984 ATTGATTTTCGTTTTGTTTTAGAAGCAAAATTTTTTGCTTTGTTTTAGATGTTAGTGTCACATAC
66 ATTGATTTTCGTTTTGTTTTAGAAGCAAAATTTTTTGCTTTGTTTTAGATGTTAGTGTCACATAC
165049 TGAATTGATGATTCTAAGGTGCCTAAG
131 TGAATTGAT--TTCTAAGGTGCCTAAG
165076 GGAAGAGTATTTCCAATGAGTTAGGAGGCTTATATCGCGTCAACAGTAACATTGTCGATCTTTCT
1 GGAAGAGTATTTCCAATGAGTTAGGAGGCTTATATCGCGTCAACAGTAACATTGTCGATCTTTCT
165141 ATTGATTTTCGTTTTGTTTTAGAAGCAAAATTTTTTGCTTTGTTTTAGATGTTAGTGTCACATAC
66 ATTGATTTTCGTTTTGTTTTAGAAGCAAAATTTTTTGCTTTGTTTTAGATGTTAGTGTCACATAC
165206 TGAATTGATTTCTAAGGTGCCTAAG
131 TGAATTGATTTCTAAGGTGCCTAAG
165231 G
1 G
165232 TGTGTATGAT
Statistics
Matches: 156, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
155 17 0.11
157 139 0.89
ACGTcount: A:0.26, C:0.13, G:0.21, T:0.40
Consensus pattern (155 bp):
GGAAGAGTATTTCCAATGAGTTAGGAGGCTTATATCGCGTCAACAGTAACATTGTCGATCTTTCT
ATTGATTTTCGTTTTGTTTTAGAAGCAAAATTTTTTGCTTTGTTTTAGATGTTAGTGTCACATAC
TGAATTGATTTCTAAGGTGCCTAAG
Found at i:166327 original size:110 final size:110
Alignment explanation
Indices: 166134--166344 Score: 422
Period size: 110 Copynumber: 1.9 Consensus size: 110
166124 TGCGTGATAT
166134 CGATTTATACAGATTAAGGTTGGTGCATTTAGCTAAGCTCCGAAAAGAACACATGGTAAGGTTGG
1 CGATTTATACAGATTAAGGTTGGTGCATTTAGCTAAGCTCCGAAAAGAACACATGGTAAGGTTGG
166199 TAAGTTGAGCCTTACTCTGAAATTCATGGTTTTGGACCTAAGTGA
66 TAAGTTGAGCCTTACTCTGAAATTCATGGTTTTGGACCTAAGTGA
166244 CGATTTATACAGATTAAGGTTGGTGCATTTAGCTAAGCTCCGAAAAGAACACATGGTAAGGTTGG
1 CGATTTATACAGATTAAGGTTGGTGCATTTAGCTAAGCTCCGAAAAGAACACATGGTAAGGTTGG
166309 TAAGTTGAGCCTTACTCTGAAATTCATGGTTTTGGA
66 TAAGTTGAGCCTTACTCTGAAATTCATGGTTTTGGA
166345 TAGTGTGCAT
Statistics
Matches: 101, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
110 101 1.00
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (110 bp):
CGATTTATACAGATTAAGGTTGGTGCATTTAGCTAAGCTCCGAAAAGAACACATGGTAAGGTTGG
TAAGTTGAGCCTTACTCTGAAATTCATGGTTTTGGACCTAAGTGA
Found at i:179387 original size:2 final size:2
Alignment explanation
Indices: 179380--179407 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
179370 GTACCGCTGT
179380 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
179408 ACACTCCTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:181920 original size:16 final size:16
Alignment explanation
Indices: 181901--182015 Score: 61
Period size: 16 Copynumber: 7.2 Consensus size: 16
181891 AATTTAGTGA
*
181901 AACCGAAATTAACCCG
1 AACCGAAAGTAACCCG
* * **
181917 AACCAAAAGCAATACG
1 AACCGAAAGTAACCCG
* **
181933 AACCGAAAGCAACCTA
1 AACCGAAAGTAACCCG
** *
181949 AACCGAATTTTAACCCT
1 AACCGAA-AGTAACCCG
* *
181966 ATCCTAAAGTAACCCG
1 AACCGAAAGTAACCCG
**
181982 AACCGAATTTAACCCG
1 AACCGAAAGTAACCCG
* *
181998 -ACCGAAAGCAAACCG
1 AACCGAAAGTAACCCG
182013 AAC
1 AAC
182016 GAATTGAAAT
Statistics
Matches: 69, Mismatches: 28, Indels: 4
0.68 0.28 0.04
Matches are distributed among these distances:
15 11 0.16
16 49 0.71
17 9 0.13
ACGTcount: A:0.44, C:0.30, G:0.12, T:0.13
Consensus pattern (16 bp):
AACCGAAAGTAACCCG
Found at i:182112 original size:18 final size:19
Alignment explanation
Indices: 182073--182128 Score: 55
Period size: 18 Copynumber: 3.1 Consensus size: 19
182063 TGATAAATTA
*
182073 ATTTA-AATAAAATTGATA-
1 ATTTATAATAAAA-TAATAG
* *
182091 ATTTATTA-AAAATATTAG
1 ATTTATAATAAAATAATAG
182109 ATTTATAATAAAATAATAG
1 ATTTATAATAAAATAATAG
182128 A
1 A
182129 AAGTTTAAGA
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
17 3 0.10
18 16 0.53
19 11 0.37
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.39
Consensus pattern (19 bp):
ATTTATAATAAAATAATAG
Found at i:182710 original size:16 final size:16
Alignment explanation
Indices: 182691--182743 Score: 52
Period size: 16 Copynumber: 3.3 Consensus size: 16
182681 CGAAATCTAA
182691 CCGATCCGATATTTAC
1 CCGATCCGATATTTAC
* * * *
182707 CCGACCCGAAATCTAT
1 CCGATCCGATATTTAC
* *
182723 CCGATCCGGTATTAAC
1 CCGATCCGATATTTAC
182739 CCGAT
1 CCGAT
182744 TCAAAAATCA
Statistics
Matches: 27, Mismatches: 10, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.26, C:0.34, G:0.15, T:0.25
Consensus pattern (16 bp):
CCGATCCGATATTTAC
Found at i:182719 original size:32 final size:32
Alignment explanation
Indices: 182678--182742 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
182668 GTTGACTTAA
*
182678 ACCCGAAATCTAACCGATCCGATATTTACCCG
1 ACCCGAAATCTAACCGATCCGATATTAACCCG
* *
182710 ACCCGAAATCTATCCGATCCGGTATTAACCCG
1 ACCCGAAATCTAACCGATCCGATATTAACCCG
182742 A
1 A
182743 TTCAAAAATC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.31, C:0.34, G:0.14, T:0.22
Consensus pattern (32 bp):
ACCCGAAATCTAACCGATCCGATATTAACCCG
Found at i:182759 original size:32 final size:32
Alignment explanation
Indices: 182683--182767 Score: 100
Period size: 32 Copynumber: 2.7 Consensus size: 32
182673 CTTAAACCCG
* * **
182683 AAATCTAACCGATCCGATATTTACCCGACCCG
1 AAATCTAACCGATCCGGTATTAACCCGACCAA
* *
182715 AAATCTATCCGATCCGGTATTAACCCGATTCAA
1 AAATCTAACCGATCCGGTATTAACCCGA-CCAA
182748 AAATC-AACCGATCCGGTATT
1 AAATCTAACCGATCCGGTATT
182768 GACCTGACTC
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
32 39 0.87
33 6 0.13
ACGTcount: A:0.33, C:0.29, G:0.13, T:0.25
Consensus pattern (32 bp):
AAATCTAACCGATCCGGTATTAACCCGACCAA
Found at i:185546 original size:34 final size:31
Alignment explanation
Indices: 185503--185565 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 31
185493 GGGGGGGGTT
*
185503 CCAAAAAGAATAGAGAAAATTAAAAAAAAACAA
1 CCAAAAAGAA-A-AGAAAATGAAAAAAAAACAA
*
185536 CCAAGAAAGAAAAGAAACTGAAAAAAAAAC
1 CCAA-AAAGAAAAGAAAATGAAAAAAAAAC
185566 TTACTTGATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
32 16 0.59
33 5 0.19
34 6 0.22
ACGTcount: A:0.71, C:0.11, G:0.11, T:0.06
Consensus pattern (31 bp):
CCAAAAAGAAAAGAAAATGAAAAAAAAACAA
Found at i:186721 original size:5 final size:5
Alignment explanation
Indices: 186711--186736 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
186701 CTCTTTTCAT
186711 TTTTA TTTTA TTTTA TTTTA TTTTA T
1 TTTTA TTTTA TTTTA TTTTA TTTTA T
186737 ATTTGTGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:190262 original size:4 final size:4
Alignment explanation
Indices: 190253--192731 Score: 4587
Period size: 4 Copynumber: 623.0 Consensus size: 4
190243 TTCGTATATC
190253 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
190301 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
190349 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
190397 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
190445 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
190493 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
190541 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
190589 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
190637 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
190685 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
190733 G-AT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
190780 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
190828 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
190876 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
190924 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
190972 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
191020 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
191068 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
191116 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
191164 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
191212 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
191260 GTAT GTAT GTAT GTAT GTAT G--T GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
191306 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
191354 GTAT GTAT GTAT GTAT GTAT GTAT GTAT G-AT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
191401 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
191449 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
191497 GTAT GTAT GTAT GTAT GTAT GTAT GTA- -TAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
191543 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
191591 GTAT GTAT GTAT GTAT GTA- GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
191638 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
191686 G--T GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
191732 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
191780 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
191828 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAGT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTA-T GTAT GTAT GTAT GTAT
191877 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
191925 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
191973 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
192021 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTA- GTAT GTA-
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
192067 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
192115 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTA-
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
192162 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
192210 GTA- GTAT GTAT GTAT GTA- GTAT GTAT GTA- GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
* * * * * * *
192255 GTAT GTAT GCAT GCAT GCAT GCAT GCAT ATGT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
* *
192303 GTGT AGTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GCAT
1 GTAT -GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
* * * *
192352 GCAT GCAT GCAT GCAT GCATAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT G--TAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
192402 GTAT GTAT GTA- -TAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
192448 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
192496 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
* * * * * *
192544 GTAT GCAT GCAT GCAT GCAT GCAT GCAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
* * * * *
192592 GTAT GTAT GCAT GCAT GCAT GCAT GCAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
192640 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
192688 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
192732 AAGTATATAA
Statistics
Matches: 2440, Mismatches: 14, Indels: 42
0.98 0.01 0.02
Matches are distributed among these distances:
2 8 0.00
3 27 0.01
4 2395 0.98
5 7 0.00
6 3 0.00
ACGTcount: A:0.25, C:0.01, G:0.25, T:0.49
Consensus pattern (4 bp):
GTAT
Found at i:192946 original size:111 final size:111
Alignment explanation
Indices: 192791--193014 Score: 439
Period size: 111 Copynumber: 2.0 Consensus size: 111
192781 GAAACTCGAA
192791 AACCGTGACTTTATGAATAGATTACATTCAAACCATGACATTAATCGAATACTTGGCAATTCGGT
1 AACCGTGACTTTATGAATAGATTACATTCAAACCATGACATTAATCGAATACTTGGCAATTCGGT
192856 GTTTGCTCTATTGTGATTGTGAAGTCGAAGACTTTGTGACGACATG
66 GTTTGCTCTATTGTGATTGTGAAGTCGAAGACTTTGTGACGACATG
*
192902 AACCGTGACTTTATGAATAGATTACATTCAAACCATGACATTAATCGGATACTTGGCAATTCGGT
1 AACCGTGACTTTATGAATAGATTACATTCAAACCATGACATTAATCGAATACTTGGCAATTCGGT
192967 GTTTGCTCTATTGTGATTGTGAAGTCGAAGACTTTGTGACGACATG
66 GTTTGCTCTATTGTGATTGTGAAGTCGAAGACTTTGTGACGACATG
193013 AA
1 AA
193015 TACTTCAGCT
Statistics
Matches: 112, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
111 112 1.00
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.33
Consensus pattern (111 bp):
AACCGTGACTTTATGAATAGATTACATTCAAACCATGACATTAATCGAATACTTGGCAATTCGGT
GTTTGCTCTATTGTGATTGTGAAGTCGAAGACTTTGTGACGACATG
Found at i:194761 original size:16 final size:16
Alignment explanation
Indices: 194740--194779 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
194730 CACTAAGAAA
*
194740 ACATACATCAACATAT
1 ACATACATCAACACAT
194756 ACATACATCAACACAT
1 ACATACATCAACACAT
194772 ACATACAT
1 ACATACAT
194780 GATACATGAG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.50, C:0.28, G:0.00, T:0.23
Consensus pattern (16 bp):
ACATACATCAACACAT
Found at i:195288 original size:37 final size:35
Alignment explanation
Indices: 195161--195308 Score: 143
Period size: 37 Copynumber: 3.9 Consensus size: 35
195151 TAAATTTTTT
* * *
195161 TTTGTCTCGCTAGAGATAATGTTTCTTAAAAAAACAAA
1 TTTGTCTCGCTTGAGACAATTTTTC-T--AAAAACAAA
*
195199 TTTGATCTCGCTTGAGACAATTTTCTCTAAAAAGTAAA
1 TTTG-TCTCGCTTGAGACAATTTT-TCTAAAAA-CAAA
*
195237 TTTTGTCTCGCTTGAGACAATTTTTACTAAGAACAAA
1 -TTTGTCTCGCTTGAGACAATTTTT-CTAAAAACAAA
* *
195274 TTTCGTCTCACTTGAGACCATTTTTCTTAAAAACA
1 TTT-GTCTCGCTTGAGACAATTTTTC-TAAAAACA
195309 CAAATTCTGA
Statistics
Matches: 94, Mismatches: 9, Indels: 15
0.80 0.08 0.13
Matches are distributed among these distances:
36 4 0.04
37 35 0.37
38 32 0.34
39 21 0.22
40 2 0.02
ACGTcount: A:0.34, C:0.17, G:0.12, T:0.37
Consensus pattern (35 bp):
TTTGTCTCGCTTGAGACAATTTTTCTAAAAACAAA
Found at i:195538 original size:66 final size:65
Alignment explanation
Indices: 195345--195546 Score: 262
Period size: 68 Copynumber: 3.0 Consensus size: 65
195335 ACAAAATTAC
* *
195345 AAATCTTTGAGTTTGTTTCCCTTAAAACAAATATTTGTCTCTCTTAAGACAATTTCTCTTGAAAC
1 AAATCTTTGAGTTTGTTTCCCTTGAAACAAAT-TTTGTCTCTCTTAAGATAATTTCTCTTGAAAC
195410 A
65 A
* * *
195411 CAAATCTTTAAGTATGTTTCCCTGGAAACAAAATTTTGGTCTCTC-TAGAGATAATTTCTCTTGA
1 -AAATCTTTGAGTTTGTTTCCCTTGAAAC-AAATTTT-GTCTCTCTTA-AGATAATTTCTCTTGA
195475 AACA
62 AACA
* * * *
195479 AAAGTCTTTGAGTTTGTTTCCCTTGAAACATATTTTGTCTCTCTTTAGATAGTTCCTCTTGAAAC
1 AAA-TCTTTGAGTTTGTTTCCCTTGAAACAAATTTTGTCTCTCTTAAGATAATTTCTCTTGAAAC
195544 A
65 A
195545 AA
1 AA
195547 TCCCTAAAGA
Statistics
Matches: 118, Mismatches: 12, Indels: 11
0.84 0.09 0.08
Matches are distributed among these distances:
66 27 0.23
67 39 0.33
68 52 0.44
ACGTcount: A:0.30, C:0.18, G:0.12, T:0.40
Consensus pattern (65 bp):
AAATCTTTGAGTTTGTTTCCCTTGAAACAAATTTTGTCTCTCTTAAGATAATTTCTCTTGAAACA
Found at i:196066 original size:16 final size:15
Alignment explanation
Indices: 196045--196074 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
196035 AAAAATTATT
196045 ATTATTATTATCATTA
1 ATTATTATTA-CATTA
196061 ATTATTATTACATT
1 ATTATTATTACATT
196075 TTTTACAAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.57
Consensus pattern (15 bp):
ATTATTATTACATTA
Found at i:198188 original size:19 final size:18
Alignment explanation
Indices: 198166--198204 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
198156 ATTTTATTTA
198166 ATATA-ATA-TATTTATAT
1 ATATATATATTATTTAT-T
198183 ATATATATATTATTTATT
1 ATATATATATTATTTATT
198201 ATAT
1 ATAT
198205 TTTCTCTCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 8 0.40
19 7 0.35
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
ATATATATATTATTTATT
Found at i:198472 original size:48 final size:46
Alignment explanation
Indices: 198372--198475 Score: 113
Period size: 48 Copynumber: 2.2 Consensus size: 46
198362 ATTAGTTTTA
* *
198372 TTTTATATTATTTACATTATTTTTTTGCTTCTGTTTTTATTCTTAT
1 TTTTATTTTATTTACATTATTTTTTTGCTTATGTTTTTATTCTTAT
* * *
198418 TCTTATTTTATTTA-ATTCACTTTGTTTTGTTTATGTTATTTA-TCTTGT
1 TTTTATTTTATTTACATT-A-TTT-TTTTGCTTATGTT-TTTATTCTTAT
198466 TTTTATTTTA
1 TTTTATTTTA
198476 ATTATATTTT
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
45 3 0.06
46 13 0.27
47 3 0.06
48 25 0.52
49 4 0.08
ACGTcount: A:0.17, C:0.08, G:0.06, T:0.69
Consensus pattern (46 bp):
TTTTATTTTATTTACATTATTTTTTTGCTTATGTTTTTATTCTTAT
Found at i:198508 original size:16 final size:16
Alignment explanation
Indices: 198466--198512 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
198456 TTTATCTTGT
*
198466 TTTTATT-TTAATTATA
1 TTTTATTCTTTATT-TA
198482 TTTTATTCTTTATTTA
1 TTTTATTCTTTATTTA
198498 TTTT-TTCCTTTATTT
1 TTTTATT-CTTTATTT
198513 TTAGATTAGT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
15 2 0.07
16 21 0.75
17 5 0.18
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.74
Consensus pattern (16 bp):
TTTTATTCTTTATTTA
Found at i:206874 original size:2 final size:2
Alignment explanation
Indices: 206867--206896 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
206857 TCTTATCACC
206867 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
206897 TTCGCTGCCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:216173 original size:12 final size:12
Alignment explanation
Indices: 216156--216202 Score: 62
Period size: 11 Copynumber: 4.1 Consensus size: 12
216146 GCCTTAAATT
216156 AAAAAAAAG-AA
1 AAAAAAAAGAAA
216167 AAAAAAAA-AAA
1 AAAAAAAAGAAA
*
216178 AAGAAAAAGAAA
1 AAAAAAAAGAAA
*
216190 AAGAAAAAGAAA
1 AAAAAAAAGAAA
216202 A
1 A
216203 GAAATTAAGG
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
11 17 0.52
12 16 0.48
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (12 bp):
AAAAAAAAGAAA
Found at i:219577 original size:12 final size:12
Alignment explanation
Indices: 219558--219601 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 12
219548 ATTAAAAGAA
219558 AAAT-AGTTAAT
1 AAATGAGTTAAT
*
219569 AAATGAGTTTAT
1 AAATGAGTTAAT
* *
219581 AAATGAATTGAT
1 AAATGAGTTAAT
219593 AAATGAGTT
1 AAATGAGTT
219602 TTCAAATAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
11 4 0.14
12 24 0.86
ACGTcount: A:0.48, C:0.00, G:0.16, T:0.36
Consensus pattern (12 bp):
AAATGAGTTAAT
Found at i:219670 original size:15 final size:15
Alignment explanation
Indices: 219650--219698 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
219640 AAATTTCTAT
219650 ACAAATAGTTGAGAA
1 ACAAATAGTTGAGAA
* *
219665 AC-AA-A-TTGACTAT
1 ACAAATAGTTGA-GAA
219678 ACAAATAGTTGAGAA
1 ACAAATAGTTGAGAA
219693 ACAAAT
1 ACAAAT
219699 TGACTATACA
Statistics
Matches: 26, Mismatches: 4, Indels: 8
0.68 0.11 0.21
Matches are distributed among these distances:
12 4 0.15
13 4 0.15
14 4 0.15
15 10 0.38
16 4 0.15
ACGTcount: A:0.53, C:0.10, G:0.14, T:0.22
Consensus pattern (15 bp):
ACAAATAGTTGAGAA
Found at i:219678 original size:28 final size:28
Alignment explanation
Indices: 219646--219716 Score: 142
Period size: 28 Copynumber: 2.5 Consensus size: 28
219636 GAATAAATTT
219646 CTATACAAATAGTTGAGAAACAAATTGA
1 CTATACAAATAGTTGAGAAACAAATTGA
219674 CTATACAAATAGTTGAGAAACAAATTGA
1 CTATACAAATAGTTGAGAAACAAATTGA
219702 CTATACAAATAGTTG
1 CTATACAAATAGTTG
219717 GTTACCCTTC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.48, C:0.11, G:0.14, T:0.27
Consensus pattern (28 bp):
CTATACAAATAGTTGAGAAACAAATTGA
Found at i:221117 original size:42 final size:42
Alignment explanation
Indices: 221062--221265 Score: 275
Period size: 42 Copynumber: 4.9 Consensus size: 42
221052 GAGCCTAGGA
* * * *
221062 AAACTGTAAGGCTTACCCTTGCACACAACAAAGGAATCTGGG
1 AAACTATAAGGCTTACCTTTGCACACAACAAAGGGACCTGGG
* * * *
221104 AATCTGTAAGGCTTACCTTTGCACACAGCAAAGGGACCGGGG
1 AAACTATAAGGCTTACCTTTGCACACAACAAAGGGACCTGGG
* *
221146 AAACTATAATGCTTACCTTTGCACACAACAAAGGGACCGGGG
1 AAACTATAAGGCTTACCTTTGCACACAACAAAGGGACCTGGG
*
221188 AAACTATAAGGCTTACCTTTGCACACAACAAAGGGACCTGGT
1 AAACTATAAGGCTTACCTTTGCACACAACAAAGGGACCTGGG
* *
221230 AAACTATAAGGCTTAACC-TCGCACACAGCAAAGGGA
1 AAACTATAAGGCTT-ACCTTTGCACACAACAAAGGGA
221266 TCTGAGAATA
Statistics
Matches: 146, Mismatches: 15, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
42 143 0.98
43 3 0.02
ACGTcount: A:0.35, C:0.24, G:0.22, T:0.19
Consensus pattern (42 bp):
AAACTATAAGGCTTACCTTTGCACACAACAAAGGGACCTGGG
Found at i:222256 original size:29 final size:29
Alignment explanation
Indices: 222220--222322 Score: 161
Period size: 29 Copynumber: 3.6 Consensus size: 29
222210 TAGAAATTAA
* * *
222220 TTACAAAACCAACACCCTTTTGACAATGT
1 TTACAAAACTAACACCCTTTTAACAATAT
*
222249 TCACAAAACTAACACCCTTTTAACAATAT
1 TTACAAAACTAACACCCTTTTAACAATAT
*
222278 TTACAAAACTAACACCCTTTTAAAAATAT
1 TTACAAAACTAACACCCTTTTAACAATAT
222307 TTACAAAACTAACACC
1 TTACAAAACTAACACC
222323 TAGTCAACAG
Statistics
Matches: 68, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 68 1.00
ACGTcount: A:0.45, C:0.26, G:0.02, T:0.27
Consensus pattern (29 bp):
TTACAAAACTAACACCCTTTTAACAATAT
Found at i:222375 original size:17 final size:17
Alignment explanation
Indices: 222331--222377 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
222321 CCTAGTCAAC
*
222331 AGTCAACGGTCGGGTCT
1 AGTCAACGGTCGGGTCG
222348 ACGGTC-A-GGTCGGGTCG
1 A--GTCAACGGTCGGGTCG
222365 AGTCAACGGTCGG
1 AGTCAACGGTCGG
222378 ATCAACAGTC
Statistics
Matches: 25, Mismatches: 1, Indels: 8
0.74 0.03 0.24
Matches are distributed among these distances:
15 3 0.12
16 1 0.04
17 17 0.68
18 1 0.04
19 3 0.12
ACGTcount: A:0.17, C:0.23, G:0.40, T:0.19
Consensus pattern (17 bp):
AGTCAACGGTCGGGTCG
Found at i:223837 original size:20 final size:20
Alignment explanation
Indices: 223812--223945 Score: 126
Period size: 20 Copynumber: 6.7 Consensus size: 20
223802 AATTGGGAAA
* *
223812 ATCGCAATGTGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
223832 ATCGCAATGCGATACTTACT
1 ATCGCAACGCGATACTGACT
* * *
223852 ATCGCAATGCGATAAT-ACAAA
1 ATCGCAACGCGATACTGAC--T
*
223873 ATCGCAACGAGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
223893 TTCGCAACGCGATTCTGACT
1 ATCGCAACGCGATACTGACT
* *
223913 TTCGCAACGCGATTCTGACT
1 ATCGCAACGCGATACTGACT
*
223933 TTCGCAACGCGAT
1 ATCGCAACGCGAT
223946 TTACATAGCG
Statistics
Matches: 100, Mismatches: 11, Indels: 6
0.85 0.09 0.05
Matches are distributed among these distances:
19 2 0.02
20 83 0.83
21 13 0.13
22 2 0.02
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:223856 original size:61 final size:61
Alignment explanation
Indices: 223809--223925 Score: 162
Period size: 61 Copynumber: 1.9 Consensus size: 61
223799 GCGAATTGGG
* * * * *
223809 AAAATCGCAATGTGATACTGACTATCGCAATGCGATACTTACTATCGCAATGCGATAATAC
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
* * *
223870 AAAATCGCAACGAGATACTGACTTTCGCAACGCGATTCTGACTTTCGCAACGCGAT
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGAT
223926 TCTGACTTTC
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
61 48 1.00
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.25
Consensus pattern (61 bp):
AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
Found at i:223946 original size:20 final size:20
Alignment explanation
Indices: 223874--223946 Score: 128
Period size: 20 Copynumber: 3.6 Consensus size: 20
223864 TAATACAAAA
* *
223874 TCGCAACGAGATACTGACTT
1 TCGCAACGCGATTCTGACTT
223894 TCGCAACGCGATTCTGACTT
1 TCGCAACGCGATTCTGACTT
223914 TCGCAACGCGATTCTGACTT
1 TCGCAACGCGATTCTGACTT
223934 TCGCAACGCGATT
1 TCGCAACGCGATT
223947 TACATAGCGC
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 51 1.00
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (20 bp):
TCGCAACGCGATTCTGACTT
Found at i:224539 original size:19 final size:19
Alignment explanation
Indices: 224503--224544 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
224493 ACGAGAGAAT
*
224503 CGCAACGCGAAATAAAAAA
1 CGCAACGCGAAACAAAAAA
* *
224522 CGCAACGCGAAACCAAAAT
1 CGCAACGCGAAACAAAAAA
224541 CGCA
1 CGCA
224545 TTGCGATTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.50, C:0.29, G:0.17, T:0.05
Consensus pattern (19 bp):
CGCAACGCGAAACAAAAAA
Found at i:224587 original size:33 final size:33
Alignment explanation
Indices: 224540--224645 Score: 131
Period size: 33 Copynumber: 3.1 Consensus size: 33
224530 GAAACCAAAA
*
224540 TCGCATTGCGATTTTCATTTCGCGTTGCGATTC
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTC
*
224573 TCTCGTTGCGATTTTCATTTCGCGTTGCGATTTTC
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGA--TTC
**
224608 ATTTCGCGTTGCGATAGTCATTTCGCGTTGCGATTC
1 ---TCGCGTTGCGATTTTCATTTCGCGTTGCGATTC
224644 TC
1 TC
224646 ATTATCTCGT
Statistics
Matches: 63, Mismatches: 5, Indels: 10
0.81 0.06 0.13
Matches are distributed among these distances:
33 30 0.48
35 3 0.05
36 3 0.05
38 27 0.43
ACGTcount: A:0.11, C:0.24, G:0.22, T:0.43
Consensus pattern (33 bp):
TCGCGTTGCGATTTTCATTTCGCGTTGCGATTC
Found at i:224631 original size:24 final size:19
Alignment explanation
Indices: 224540--224670 Score: 164
Period size: 19 Copynumber: 7.1 Consensus size: 19
224530 GAAACCAAAA
*
224540 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
224559 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
224573 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
224592 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
224611 TCGCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
*
224630 TCGCGTTGCGATTCTCATT
1 TCGCGTTGCGATTTTCATT
*
224649 ATCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
224669 TC
1 TC
224671 AACCAAAAGA
Statistics
Matches: 97, Mismatches: 9, Indels: 12
0.82 0.08 0.10
Matches are distributed among these distances:
14 10 0.10
16 3 0.03
17 3 0.03
19 64 0.66
20 17 0.18
ACGTcount: A:0.12, C:0.23, G:0.20, T:0.45
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:226218 original size:63 final size:63
Alignment explanation
Indices: 226119--226249 Score: 244
Period size: 63 Copynumber: 2.1 Consensus size: 63
226109 GTTACGTGAT
* *
226119 GAGGTCAATGCCTTGCGTGAGGAGATCGGTACTCTACGCTATAACGATGGTGCATGGTGTGTG
1 GAGGTCAATGCCTTGCGTGAGGAGATCGGTACTCTACGCGATAACGATGGTGCATGGCGTGTG
226182 GAGGTCAATGCCTTGCGTGAGGAGATCGGTACTCTACGCGATAACGATGGTGCATGGCGTGTG
1 GAGGTCAATGCCTTGCGTGAGGAGATCGGTACTCTACGCGATAACGATGGTGCATGGCGTGTG
226245 GAGGT
1 GAGGT
226250 GTCTACTTTA
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
63 66 1.00
ACGTcount: A:0.21, C:0.18, G:0.37, T:0.25
Consensus pattern (63 bp):
GAGGTCAATGCCTTGCGTGAGGAGATCGGTACTCTACGCGATAACGATGGTGCATGGCGTGTG
Found at i:226614 original size:95 final size:89
Alignment explanation
Indices: 226416--226602 Score: 259
Period size: 91 Copynumber: 2.0 Consensus size: 89
226406 TAGATTGCTT
* * *
226416 AGTAAATTTATTCGGTTGCTGCCAATACTGCTAAACTGTTTATTAACACTGTGAAGTTAGTATTT
1 AGTAAA-TTATTTGGTTGCTGCCAATACTGCTAAACTGTTTATTAACACTGTAAAATTAGTATTT
226481 GTCTTTTTGTTTTGTCTTTTGGTTGA
65 GTC-TTTTGTTTTGTCTTTTGGTTGA
* *
226507 AGTAAATTTATTTGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTAAAATTAGT
1 AGTAAA-TTATTTGGTTGCTGCCAATACTGCTAAAC--TGT-TT-ATTAACACTGTAAAATTAGT
226572 ATTTGTC-TTTGTTTTGTCTTTTGGTTGA
61 ATTTGTCTTTTGTTTTGTCTTTTGGTTGA
226600 AGT
1 AGT
226603 TTTGAAATAT
Statistics
Matches: 87, Mismatches: 5, Indels: 6
0.89 0.05 0.06
Matches are distributed among these distances:
91 34 0.39
93 27 0.31
94 2 0.02
95 24 0.28
ACGTcount: A:0.22, C:0.12, G:0.18, T:0.48
Consensus pattern (89 bp):
AGTAAATTATTTGGTTGCTGCCAATACTGCTAAACTGTTTATTAACACTGTAAAATTAGTATTTG
TCTTTTGTTTTGTCTTTTGGTTGA
Found at i:226879 original size:42 final size:42
Alignment explanation
Indices: 226827--227024 Score: 193
Period size: 42 Copynumber: 4.7 Consensus size: 42
226817 GCCTGTTATC
* * *
226827 CCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTATCATT
1 CCTCAAGAGTCCACTCCCACCGTTCAAGAGGCCCCTATCATT
* * * * *
226869 CCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTGTCATC
1 CCTCAAGAGTCCACTCCCACCGTTCAAGAGGCCCCTATCATT
* * * *
226911 CCTCAAGAGTCCACTCCTATCATTGAAGAGGCCCCTATCATT
1 CCTCAAGAGTCCACTCCCACCGTTCAAGAGGCCCCTATCATT
* * * *
226953 CCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTGTCA-T
1 CCTCAAGAGTCCACTCCCACCGTTCAAGAGGCCCCTATCATT
* * *
226994 CGTTGAAGAGGTCC-CTCCCACCATTCAAGAG
1 C-CTCAAGA-GTCCACTCCCACCGTTCAAGAG
227025 CCCGATTCAC
Statistics
Matches: 125, Mismatches: 29, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
41 2 0.02
42 119 0.95
43 4 0.03
ACGTcount: A:0.23, C:0.37, G:0.18, T:0.22
Consensus pattern (42 bp):
CCTCAAGAGTCCACTCCCACCGTTCAAGAGGCCCCTATCATT
Found at i:226982 original size:21 final size:21
Alignment explanation
Indices: 226958--227024 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
226948 TCATTCCTCG
226958 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
226979 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
227000 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
227021 AGAG
1 AGAG
227025 CCCGATTCAC
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.21, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:227003 original size:84 final size:84
Alignment explanation
Indices: 226819--226994 Score: 334
Period size: 84 Copynumber: 2.1 Consensus size: 84
226809 ACCGACTCGC
* *
226819 CTGTTATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
1 CTGTCATCCCTCAAGAGTCCACTCCTATCATTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
226884 CCCACCGTTCAAGAGGCCA
66 CCCACCGTTCAAGAGGCCA
226903 CTGTCATCCCTCAAGAGTCCACTCCTATCATTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
1 CTGTCATCCCTCAAGAGTCCACTCCTATCATTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
226968 CCCACCGTTCAAGAGGCCA
66 CCCACCGTTCAAGAGGCCA
226987 CTGTCATC
1 CTGTCATC
226995 GTTGAAGAGG
Statistics
Matches: 90, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
84 90 1.00
ACGTcount: A:0.22, C:0.38, G:0.17, T:0.24
Consensus pattern (84 bp):
CTGTCATCCCTCAAGAGTCCACTCCTATCATTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
CCCACCGTTCAAGAGGCCA
Found at i:227024 original size:84 final size:84
Alignment explanation
Indices: 226819--227024 Score: 297
Period size: 84 Copynumber: 2.5 Consensus size: 84
226809 ACCGACTCGC
* * * * *
226819 CTGTTATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
1 CTGTCATCCCTCAAGAGTCCACTCCCACCATTCAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
226884 CCCACCGTTCAAGAGGCCA
66 CCCACCGTTCAAGAGGCCA
* * *
226903 CTGTCATCCCTCAAGAGTCCACTCCTATCATTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
1 CTGTCATCCCTCAAGAGTCCACTCCCACCATTCAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
226968 CCCACCGTTCAAGAGGCCA
66 CCCACCGTTCAAGAGGCCA
** *
226987 CTGTCATCGTTGAAGAGGTCC-CTCCCACCATTCAAGAG
1 CTGTCATCCCTCAAGA-GTCCACTCCCACCATTCAAGAG
227025 CCCGATTCAC
Statistics
Matches: 113, Mismatches: 8, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
84 109 0.96
85 4 0.04
ACGTcount: A:0.22, C:0.36, G:0.18, T:0.23
Consensus pattern (84 bp):
CTGTCATCCCTCAAGAGTCCACTCCCACCATTCAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
CCCACCGTTCAAGAGGCCA
Found at i:228398 original size:14 final size:14
Alignment explanation
Indices: 228379--228414 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
228369 ATTGTTTAAT
228379 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
* *
228393 TGATTTATAAAAGT
1 TGATTTGTAAAAGG
228407 TGATTTGT
1 TGATTTGT
228415 TTAATTGATG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Found at i:228545 original size:19 final size:18
Alignment explanation
Indices: 228521--228575 Score: 55
Period size: 19 Copynumber: 3.2 Consensus size: 18
228511 AAAAAGTACT
228521 ATCGCAATGCGAAATGAAA
1 ATCGCAA-GCGAAATGAAA
*
228540 ATCGCAA-CG--A-GAGA
1 ATCGCAAGCGAAATGAAA
228554 ATCGCAACGCGAAATGAAA
1 ATCGCAA-GCGAAATGAAA
228573 ATC
1 ATC
228576 ACAACGAGAG
Statistics
Matches: 29, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
14 10 0.34
15 1 0.03
16 2 0.07
17 2 0.07
18 1 0.03
19 13 0.45
ACGTcount: A:0.45, C:0.20, G:0.22, T:0.13
Consensus pattern (18 bp):
ATCGCAAGCGAAATGAAA
Found at i:228558 original size:14 final size:14
Alignment explanation
Indices: 228539--228595 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
228529 GCGAAATGAA
228539 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
228553 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
*
228572 AATCACAACGAGAG
1 AATCGCAACGAGAG
228586 AATCGCAACG
1 AATCGCAACG
228596 CGAAATTAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
14 19 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 9 0.26
ACGTcount: A:0.46, C:0.23, G:0.23, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:228566 original size:33 final size:33
Alignment explanation
Indices: 228521--228610 Score: 144
Period size: 33 Copynumber: 2.7 Consensus size: 33
228511 AAAAAGTACT
*
228521 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
*
228554 ATCGCAACGCGAAATGAAAATCACAACGAGAGA
1 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
* *
228587 ATCGCAACGCGAAATTAAATTCGC
1 ATCGCAACGCGAAATGAAAATCGC
228611 GTTGCGATTT
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 52 1.00
ACGTcount: A:0.44, C:0.21, G:0.21, T:0.13
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
Found at i:228669 original size:33 final size:32
Alignment explanation
Indices: 228629--228754 Score: 182
Period size: 33 Copynumber: 3.8 Consensus size: 32
228619 TTCATTTCGT
*
228629 GTTGCGATTTTCATTTCGTATTGCGATTCCCTC
1 GTTGCGATTTTCATTTCGCATTGCGATT-CCTC
**
228662 GTTGCGATTTTCATTTCGCATTGCGAAATT-AGC
1 GTTGCGATTTTCATTTCGCATTGCG--ATTCCTC
228695 GTTGCGATTTTCATTTCGCATTGCGATTCTCTC
1 GTTGCGATTTTCATTTCGCATTGCGATTC-CTC
228728 GTTGCGATTTTCATTTCGCATTGCGAT
1 GTTGCGATTTTCATTTCGCATTGCGAT
228755 AGTAATTTCT
Statistics
Matches: 84, Mismatches: 5, Indels: 8
0.87 0.05 0.08
Matches are distributed among these distances:
31 3 0.04
33 78 0.93
35 3 0.04
ACGTcount: A:0.15, C:0.21, G:0.20, T:0.44
Consensus pattern (32 bp):
GTTGCGATTTTCATTTCGCATTGCGATTCCTC
Found at i:228687 original size:19 final size:19
Alignment explanation
Indices: 228606--228754 Score: 96
Period size: 19 Copynumber: 8.7 Consensus size: 19
228596 CGAAATTAAA
*
228606 TTCGCGTTGCGA-TTTCAT
1 TTCGCATTGCGATTTTCAT
**
228624 TTCGTGTTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
* *
228643 TTCGTATTGCGA--TTC-C
1 TTCGCATTGCGATTTTCAT
*
228659 CTCG--TTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
*
228676 TTCGCATTGCGA-----AA
1 TTCGCATTGCGATTTTCAT
* *
228690 TTAGCGTTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
228709 TTCGCATTGCGA--TTC-T
1 TTCGCATTGCGATTTTCAT
*
228725 CTCG--TTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
228742 TTCGCATTGCGAT
1 TTCGCATTGCGAT
228755 AGTAATTTCT
Statistics
Matches: 101, Mismatches: 14, Indels: 31
0.69 0.10 0.21
Matches are distributed among these distances:
14 23 0.23
16 13 0.13
17 13 0.13
18 11 0.11
19 41 0.41
ACGTcount: A:0.14, C:0.21, G:0.20, T:0.44
Consensus pattern (19 bp):
TTCGCATTGCGATTTTCAT
Found at i:228718 original size:66 final size:66
Alignment explanation
Indices: 228629--228753 Score: 232
Period size: 66 Copynumber: 1.9 Consensus size: 66
228619 TTCATTTCGT
*
228629 GTTGCGATTTTCATTTCGTATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGCGAAATTAG
1 GTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGCGAAATTAG
228694 C
66 C
*
228695 GTTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGA
1 GTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGCGA
228754 TAGTAATTTC
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 57 1.00
ACGTcount: A:0.15, C:0.22, G:0.20, T:0.43
Consensus pattern (66 bp):
GTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGCGAAATTAG
C
Found at i:231259 original size:24 final size:24
Alignment explanation
Indices: 231225--231278 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
231215 CTGAAACATC
*
231225 ATCAAAATCCGAGTATCGACCAAT
1 ATCAAAATCCGAGTATCGACCAAG
* * *
231249 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATCGACCAAG
231273 ATCAAA
1 ATCAAA
231279 TTTCGAATAC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.41, C:0.22, G:0.17, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATCGACCAAG
Found at i:232291 original size:20 final size:20
Alignment explanation
Indices: 232266--232355 Score: 128
Period size: 20 Copynumber: 4.5 Consensus size: 20
232256 ATTCATTTGA
*
232266 CTATCGCAACGCGACAATGG
1 CTATCGCAACGCGAAAATGG
*
232286 CTATCGCAACACGAAAATGG
1 CTATCGCAACGCGAAAATGG
* * *
232306 CTATCGGATCGCAAAAATGG
1 CTATCGCAACGCGAAAATGG
232326 CTATCGCAACGCG-AAATGG
1 CTATCGCAACGCGAAAATGG
232345 CTATCGCAACG
1 CTATCGCAACG
232356 ACAAAATCGC
Statistics
Matches: 61, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
19 17 0.28
20 44 0.72
ACGTcount: A:0.33, C:0.27, G:0.23, T:0.17
Consensus pattern (20 bp):
CTATCGCAACGCGAAAATGG
Found at i:232333 original size:15 final size:16
Alignment explanation
Indices: 232313--232354 Score: 50
Period size: 19 Copynumber: 2.5 Consensus size: 16
232303 TGGCTATCGG
232313 ATCGCAA-AAATGGCT
1 ATCGCAACAAATGGCT
232328 ATCGCAACGCGAAATGGCT
1 ATCGCAA--C-AAATGGCT
232347 ATCGCAAC
1 ATCGCAAC
232355 GACAAAATCG
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
15 7 0.30
17 1 0.04
19 15 0.65
ACGTcount: A:0.36, C:0.26, G:0.21, T:0.17
Consensus pattern (16 bp):
ATCGCAACAAATGGCT
Found at i:232426 original size:19 final size:19
Alignment explanation
Indices: 232381--232445 Score: 86
Period size: 19 Copynumber: 3.7 Consensus size: 19
232371 GAAATGAAAA
232381 TCGCATTGCGATTTTC---
1 TCGCATTGCGATTTTCATT
*
232397 TCG--TTGTGATTTTCATT
1 TCGCATTGCGATTTTCATT
232414 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
232433 TCGCATTGCGATT
1 TCGCATTGCGATT
232446 CTCTCATTGC
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
14 10 0.24
16 3 0.07
17 3 0.07
19 26 0.62
ACGTcount: A:0.14, C:0.20, G:0.18, T:0.48
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:234494 original size:20 final size:20
Alignment explanation
Indices: 234452--234517 Score: 69
Period size: 20 Copynumber: 3.3 Consensus size: 20
234442 TAGTTTACTT
* * **
234452 TCGCAACACGAAACTTAAAA
1 TCGCAACACGAAAATGACTA
234472 TCGCAACACGAAAATGACTA
1 TCGCAACACGAAAATGACTA
* * *
234492 TCGCAACGCGGAAATGGCTA
1 TCGCAACACGAAAATGACTA
234512 TCGCAA
1 TCGCAA
234518 TGCGAAATGA
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.41, C:0.26, G:0.18, T:0.15
Consensus pattern (20 bp):
TCGCAACACGAAAATGACTA
Found at i:234526 original size:19 final size:20
Alignment explanation
Indices: 234471--234538 Score: 75
Period size: 20 Copynumber: 3.5 Consensus size: 20
234461 GAAACTTAAA
* *
234471 ATCGCAACACGAAAATGACT
1 ATCGCAACGCGGAAATGACT
*
234491 ATCGCAACGCGGAAATGGCT
1 ATCGCAACGCGGAAATGACT
* **
234511 ATCGCAATGC-GAAATGAAA
1 ATCGCAACGCGGAAATGACT
234530 ATCGCAACG
1 ATCGCAACG
234539 ACAAAATCGC
Statistics
Matches: 40, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
19 14 0.35
20 26 0.65
ACGTcount: A:0.40, C:0.24, G:0.22, T:0.15
Consensus pattern (20 bp):
ATCGCAACGCGGAAATGACT
Found at i:234546 original size:14 final size:14
Alignment explanation
Indices: 234527--234584 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
234517 ATGCGAAATG
234527 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
234541 AAAATCGCAATGCGAA
1 AAAATCGCAA--CGAC
234557 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
234573 AAAATCGCAACG
1 AAAATCGCAACG
234585 CGAAACACAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.48, C:0.24, G:0.17, T:0.10
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:234569 original size:32 final size:33
Alignment explanation
Indices: 234511--234589 Score: 142
Period size: 32 Copynumber: 2.4 Consensus size: 33
234501 GGAAATGGCT
234511 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
234544 ATCGCAATGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
234576 ATCGCAACGCGAAA
1 ATCGCAATGCGAAA
234590 CACAAATCGC
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
32 29 0.64
33 16 0.36
ACGTcount: A:0.47, C:0.23, G:0.19, T:0.11
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:234618 original size:19 final size:19
Alignment explanation
Indices: 234596--234677 Score: 104
Period size: 18 Copynumber: 4.6 Consensus size: 19
234586 GAAACACAAA
234596 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
234615 TCGCGTTGCGA-TTTCATT
1 TCGCATTGCGATTTTCATT
*
234633 TCGCATTGCGA-TTT--TG
1 TCGCATTGCGATTTTCATT
234649 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
234666 TCGCATTGCGAT
1 TCGCATTGCGAT
234678 AGCCATTTCC
Statistics
Matches: 54, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
14 6 0.11
15 3 0.06
16 4 0.07
17 4 0.07
18 20 0.37
19 17 0.31
ACGTcount: A:0.13, C:0.21, G:0.21, T:0.45
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:234705 original size:39 final size:34
Alignment explanation
Indices: 234596--234697 Score: 102
Period size: 33 Copynumber: 2.8 Consensus size: 34
234586 GAAACACAAA
234596 TCGCATTGCGATTTTCATTTCGCGTTGCGATTTCATT
1 TCGCATTGCGA---TCATTTCGCGTTGCGATTTCATT
234633 TCGCATTGCGAT--TTT-GTCGTTGCGATTTTCATT
1 TCGCATTGCGATCATTTCG-CGTTGCGA-TTTCATT
234666 TCGCATTGCGATAGCCATTTCCGCGTTGCGAT
1 TCGCATTGCGAT---CATTT-CGCGTTGCGAT
234698 AGTCATTTTC
Statistics
Matches: 56, Mismatches: 0, Indels: 17
0.77 0.00 0.23
Matches are distributed among these distances:
31 1 0.02
32 11 0.20
33 19 0.34
34 1 0.02
37 11 0.20
38 4 0.07
39 8 0.14
40 1 0.02
ACGTcount: A:0.14, C:0.23, G:0.22, T:0.42
Consensus pattern (34 bp):
TCGCATTGCGATCATTTCGCGTTGCGATTTCATT
Found at i:234714 original size:20 final size:20
Alignment explanation
Indices: 234662--234705 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
234652 TTGCGATTTT
*
234662 CATTT-CGCATTGCGATAGC
1 CATTTCCGCGTTGCGATAGC
*
234681 CATTTCCGCGTTGCGATAGT
1 CATTTCCGCGTTGCGATAGC
234701 CATTT
1 CATTT
234706 TCGTGTTGCA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.18, C:0.25, G:0.20, T:0.36
Consensus pattern (20 bp):
CATTTCCGCGTTGCGATAGC
Found at i:235224 original size:18 final size:18
Alignment explanation
Indices: 235198--235242 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
235188 GTCGATCAGA
*
235198 TGATGGCTCTAGGTGAGG
1 TGATGGCTCTAGGCGAGG
* *
235216 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTAGGCGAGG
235234 TGATGGCTC
1 TGATGGCTC
235243 CCGAAGTGGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.16, C:0.16, G:0.42, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTAGGCGAGG
Found at i:236908 original size:22 final size:22
Alignment explanation
Indices: 236882--236925 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
236872 GATGGAGATA
236882 GACGGATTTCGCCAGAGATGGG
1 GACGGATTTCGCCAGAGATGGG
* *
236904 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGCCAGAGATGGG
236926 TGAGAGAGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.20, C:0.16, G:0.43, T:0.20
Consensus pattern (22 bp):
GACGGATTTCGCCAGAGATGGG
Found at i:237139 original size:20 final size:20
Alignment explanation
Indices: 237093--237267 Score: 147
Period size: 20 Copynumber: 8.7 Consensus size: 20
237083 CGCTTTGAAA
*
237093 ATCGCATTGCGATTATGT-ATT
1 ATCGCATTGCGA-TA-GTAAGT
* * *
237114 ATCGCGTTGCGAAAGTAAGA
1 ATCGCATTGCGATAGTAAGT
* * * *
237134 ATCGCGTTGCGAAAGTCAGA
1 ATCGCATTGCGATAGTAAGT
* * * *
237154 ATCGCGTTACGAAAGTCAGT
1 ATCGCATTGCGATAGTAAGT
* * * *
237174 ATCTCGTTGCGATTTTGT-ATT
1 ATCGCATTGCGA--TAGTAAGT
237195 ATCGCATTGCGATAGTAAGT
1 ATCGCATTGCGATAGTAAGT
237215 ATCGCATTGCGATAGTAAGT
1 ATCGCATTGCGATAGTAAGT
*
237235 ATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATAGTAAGT
237255 ATCGCATTGCGAT
1 ATCGCATTGCGAT
237268 TTTCCCAATT
Statistics
Matches: 133, Mismatches: 17, Indels: 9
0.84 0.11 0.06
Matches are distributed among these distances:
19 5 0.04
20 103 0.77
21 23 0.17
22 2 0.02
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (20 bp):
ATCGCATTGCGATAGTAAGT
Found at i:237239 original size:81 final size:81
Alignment explanation
Indices: 237093--237270 Score: 239
Period size: 81 Copynumber: 2.2 Consensus size: 81
237083 CGCTTTGAAA
* * * *
237093 ATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTAAGAATCGCGTTGCGAAAGTCAGAATCG
1 ATCGCATTGCGATTTTGTATTATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTAAGAATCG
*
237158 CGTTACGAAAGTCAGT
66 CATTACGAAAGTCAGT
* * * * * *
237174 ATCTCGTTGCGATTTTGTATTATCGCATTGCGATAGTAAGTATCGCATTGCGATAGTAAGTATCG
1 ATCGCATTGCGATTTTGTATTATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTAAGAATCG
* *
237239 CATTGCGATAGTCAGT
66 CATTACGAAAGTCAGT
237255 ATCGCATTGCGATTTT
1 ATCGCATTGCGATTTT
237271 CCCAATTCGC
Statistics
Matches: 82, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
81 82 1.00
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (81 bp):
ATCGCATTGCGATTTTGTATTATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTAAGAATCG
CATTACGAAAGTCAGT
Done.