Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A07
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 92880876
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2857347 characters in sequence are not A, C, G, or T
File 114 of 290
Found at i:35379673 original size:79 final size:81
Alignment explanation
Indices: 35379537--35379719 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
35379527 TCGAATGATG
* *
35379537 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
35379601 TGTGCGAGTTACTA-A
66 TGTGCGAGTTACTATA
* * * **
35379616 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
35379678 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGTTACTATA
* *
35379696 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
35379720 TGAACGAGTA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 59 0.66
80 30 0.33
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATA
Found at i:35379735 original size:40 final size:41
Alignment explanation
Indices: 35379537--35379721 Score: 231
Period size: 40 Copynumber: 4.6 Consensus size: 41
35379527 TCGAATGATG
* * *
35379537 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAT-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* *
35379577 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-AT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATAA
*
35379617 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
35379656 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
35379697 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
35379722 AACGAGTAGC
Statistics
Matches: 127, Mismatches: 12, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
39 35 0.28
40 82 0.65
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:35379743 original size:79 final size:79
Alignment explanation
Indices: 35379590--35379756 Score: 205
Period size: 79 Copynumber: 2.1 Consensus size: 79
35379580 GGACTAAGAT
* **
35379590 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
35379655 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
35379669 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* * *
35379732 TATAT-CTGGTTAAATT
63 TAAATCCGGGTTAAATC
35379748 CCGAAGGCA
1 CCGAAGGCA
35379757 CGTGATTTGG
Statistics
Matches: 76, Mismatches: 9, Indels: 6
0.84 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 52 0.68
80 22 0.29
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:35394274 original size:11 final size:11
Alignment explanation
Indices: 35394240--35394267 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
35394230 AGCAAGAGTC
35394240 AAAAGGAGCAA
1 AAAAGGAGCAA
35394251 AAAAGGAGCAA
1 AAAAGGAGCAA
35394262 AAAAGG
1 AAAAGG
35394268 GACAAAATGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.64, C:0.07, G:0.29, T:0.00
Consensus pattern (11 bp):
AAAAGGAGCAA
Found at i:35399564 original size:79 final size:81
Alignment explanation
Indices: 35399443--35399627 Score: 252
Period size: 79 Copynumber: 2.3 Consensus size: 81
35399433 GCTACTCGTT
* *
35399443 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCG
* *
35399507 GATTTAGTAAC-TCGCA
65 GATATAGTAACTTAGCA
* **
35399523 CAAATGCCTTCGGGACTTAACCCGGAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
* *
35399587 ATATGGTCACTTAGCA
66 ATATAGTAACTTAGCA
35399603 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
35399628 CATCATTCAA
Statistics
Matches: 93, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
78 3 0.03
79 58 0.62
80 32 0.34
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:35399627 original size:40 final size:40
Alignment explanation
Indices: 35399424--35399627 Score: 254
Period size: 40 Copynumber: 5.1 Consensus size: 40
35399414 CGGAATTTAA
** *
35399424 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
35399464 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
35399504 CCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
35399544 CCGGAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
35399583 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
35399623 CCGGA
1 CCGGA
35399628 CATCATTCAA
Statistics
Matches: 146, Mismatches: 13, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
38 3 0.02
39 34 0.23
40 98 0.67
41 11 0.08
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:35407524 original size:40 final size:40
Alignment explanation
Indices: 35407487--35407619 Score: 232
Period size: 40 Copynumber: 3.3 Consensus size: 40
35407477 GCTACTCGTT
* *
35407487 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
35407527 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
35407567 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
35407607 CAAATGCCTTCGG
1 CAAATGCCTTCGG
35407620 ATCTTAGTCC
Statistics
Matches: 90, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
40 88 0.98
41 2 0.02
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:35411874 original size:6 final size:6
Alignment explanation
Indices: 35411851--35411945 Score: 122
Period size: 6 Copynumber: 15.7 Consensus size: 6
35411841 TCCTCCTAAC
* *
35411851 TTTTTA TTCTTA TTTTTT TATTTTA -TTTTA TTTTTA TTTTTA TTTTTA
1 TTTTTA TTTTTA TTTTTA T-TTTTA TTTTTA TTTTTA TTTTTA TTTTTA
*
35411899 TTTTTA TTTTTA TTTTTA TTTTCA TTTTTA -TTTTA TTATTTTA TTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA -T-TTTTA TTTT
35411946 GAAAGACATA
Statistics
Matches: 78, Mismatches: 6, Indels: 10
0.83 0.06 0.11
Matches are distributed among these distances:
5 10 0.13
6 58 0.74
7 5 0.06
8 5 0.06
ACGTcount: A:0.17, C:0.02, G:0.00, T:0.81
Consensus pattern (6 bp):
TTTTTA
Found at i:35415565 original size:50 final size:50
Alignment explanation
Indices: 35415490--35415590 Score: 202
Period size: 50 Copynumber: 2.0 Consensus size: 50
35415480 CCGAGTGCTG
35415490 CGATTGATAGTGTGATCGATATCTCTGACTTTATGGGATCCTTAAGCTAA
1 CGATTGATAGTGTGATCGATATCTCTGACTTTATGGGATCCTTAAGCTAA
35415540 CGATTGATAGTGTGATCGATATCTCTGACTTTATGGGATCCTTAAGCTAA
1 CGATTGATAGTGTGATCGATATCTCTGACTTTATGGGATCCTTAAGCTAA
35415590 C
1 C
35415591 CTGGCGATAC
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.26, C:0.17, G:0.22, T:0.36
Consensus pattern (50 bp):
CGATTGATAGTGTGATCGATATCTCTGACTTTATGGGATCCTTAAGCTAA
Found at i:35423360 original size:46 final size:46
Alignment explanation
Indices: 35423302--35423451 Score: 142
Period size: 46 Copynumber: 3.2 Consensus size: 46
35423292 CGTGTCACAC
* *
35423302 GTCTTACTCTAGCTCTCATAATGTGGCTGATCCATGTCCCAGACAT
1 GTCTTACACTAGCTCTCATAATGTGGCCGATCCATGTCCCAGACAT
* * * * *
35423348 GTCTTACACTAGCCCTCGT-CTG-GATGCCGATTCCATGCCCCTGACAT
1 GTCTTACACTAGCTCTCATAATGTG--GCCGA-TCCATGTCCCAGACAT
* * ** *
35423395 GGTCTTACACTGGCTCTAATAATGTGGCCGAAGCATGTCCCAAACAT
1 -GTCTTACACTAGCTCTCATAATGTGGCCGATCCATGTCCCAGACAT
35423442 GTCTTACACT
1 GTCTTACACT
35423452 GGCGCACAAA
Statistics
Matches: 81, Mismatches: 17, Indels: 12
0.74 0.15 0.11
Matches are distributed among these distances:
44 1 0.01
45 2 0.02
46 30 0.37
47 25 0.31
48 20 0.25
49 2 0.02
50 1 0.01
ACGTcount: A:0.22, C:0.30, G:0.19, T:0.29
Consensus pattern (46 bp):
GTCTTACACTAGCTCTCATAATGTGGCCGATCCATGTCCCAGACAT
Found at i:35426874 original size:49 final size:48
Alignment explanation
Indices: 35426798--35426969 Score: 156
Period size: 49 Copynumber: 3.6 Consensus size: 48
35426788 TGTTACAGCC
* * *
35426798 AGTGTAAGACCTGTCTAGGACACGGCATCGGCCTCAAGATATGCAAGCT
1 AGTGTAAGACCTATCTAGGACATGGCATCGGCCTCAAGATATG-AAGTT
* * * ** *
35426847 AGTGTAAGACCTATCTAGGAGATGGCATCAG-CT--TGAGGTG-TGTT
1 AGTGTAAGACCTATCTAGGACATGGCATCGGCCTCAAGATATGAAGTT
* * *
35426891 AGTATAAGACCTATCTGGGACATGGTATCGGCCTCAA-AGTATGTAAGTT
1 AGTGTAAGACCTATCTAGGACATGGCATCGGCCTCAAGA-TATG-AAGTT
* *
35426940 AGTGTATGACCTGTCTAGGACATGGCATCG
1 AGTGTAAGACCTATCTAGGACATGGCATCG
35426970 ACTTAGATGT
Statistics
Matches: 94, Mismatches: 23, Indels: 12
0.73 0.18 0.09
Matches are distributed among these distances:
44 28 0.30
45 2 0.02
46 5 0.05
47 2 0.02
48 2 0.02
49 55 0.59
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.26
Consensus pattern (48 bp):
AGTGTAAGACCTATCTAGGACATGGCATCGGCCTCAAGATATGAAGTT
Found at i:35428283 original size:22 final size:21
Alignment explanation
Indices: 35428249--35428289 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
35428239 TCAAGAAAGA
*
35428249 CACACGGGCGTGTTGCCCCTCC
1 CACACGAGCGTG-TGCCCCTCC
*
35428271 CACACGAGTGTGTGCCCCT
1 CACACGAGCGTGTGCCCCT
35428290 ATTTCAAGAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.12, C:0.41, G:0.27, T:0.20
Consensus pattern (21 bp):
CACACGAGCGTGTGCCCCTCC
Found at i:35435172 original size:10 final size:12
Alignment explanation
Indices: 35435146--35435175 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
35435136 GCCACACAAC
35435146 GTGTGCTAGGTT
1 GTGTGCTAGGTT
35435158 GTGTGCTAGGTT
1 GTGTGCTAGGTT
35435170 GTGTGC
1 GTGTGC
35435176 CAGACTATAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.07, C:0.10, G:0.43, T:0.40
Consensus pattern (12 bp):
GTGTGCTAGGTT
Found at i:35440419 original size:13 final size:13
Alignment explanation
Indices: 35440403--35440447 Score: 54
Period size: 13 Copynumber: 3.3 Consensus size: 13
35440393 TTAAATGAGT
35440403 TAAAAAATTAAAA
1 TAAAAAATTAAAA
*
35440416 TAAAATATTAAAA
1 TAAAAAATTAAAA
*
35440429 TTAACAAAATTAAAG
1 -TAA-AAAATTAAAA
35440444 TAAA
1 TAAA
35440448 CAAGTTTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
13 13 0.48
14 6 0.22
15 8 0.30
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (13 bp):
TAAAAAATTAAAA
Found at i:35453484 original size:28 final size:31
Alignment explanation
Indices: 35453453--35453525 Score: 80
Period size: 31 Copynumber: 2.5 Consensus size: 31
35453443 AATTTTGAGT
*
35453453 AAAAATGTATATT-AGGGATT-AAAT-TGAA
1 AAAAATGTAAATTAAGGGATTAAAATGTGAA
* *
35453481 AAAATTGTAAATTAAGGGGTTAAAATGTGAA
1 AAAAATGTAAATTAAGGGATTAAAATGTGAA
* *
35453512 ATAAATGAAAATTA
1 AAAAATGTAAATTA
35453526 TGGCATGCTA
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
28 11 0.31
29 6 0.17
30 4 0.11
31 15 0.42
ACGTcount: A:0.52, C:0.00, G:0.18, T:0.30
Consensus pattern (31 bp):
AAAAATGTAAATTAAGGGATTAAAATGTGAA
Found at i:35454006 original size:40 final size:39
Alignment explanation
Indices: 35453922--35454056 Score: 126
Period size: 40 Copynumber: 3.3 Consensus size: 39
35453912 ACTATGTTCA
* ** *
35453922 GCACTAAGTGTGCAATTTTAAATAGCTTCGGCTATAAATA
1 GCACTAAGTGTGCAA-TTTGAATAGCTTCGGCTATATGTG
*
35453962 GCACTAAGTGTGCGAATTGGAATAGCTTCGGCTATATGTG
1 GCACTAAGTGTGC-AATTTGAATAGCTTCGGCTATATGTG
* * * *
35454002 GCACTAGGTATGCAATATTGAGATAGTTTCGGTTTAATATGATG
1 GCACTAAGTGTGCAAT-TTGA-ATAGCTTCGG-CT-ATATG-TG
35454046 GCACTAAGTGT
1 GCACTAAGTGT
35454057 ACGATATTTT
Statistics
Matches: 77, Mismatches: 12, Indels: 8
0.79 0.12 0.08
Matches are distributed among these distances:
39 3 0.04
40 46 0.60
41 11 0.14
42 1 0.01
43 5 0.06
44 11 0.14
ACGTcount: A:0.30, C:0.13, G:0.24, T:0.33
Consensus pattern (39 bp):
GCACTAAGTGTGCAATTTGAATAGCTTCGGCTATATGTG
Found at i:35456613 original size:11 final size:11
Alignment explanation
Indices: 35456582--35456623 Score: 61
Period size: 11 Copynumber: 4.0 Consensus size: 11
35456572 TATAGCTTAC
35456582 TCCATTTCTTT
1 TCCATTTCTTT
*
35456593 TCCA--TGTTT
1 TCCATTTCTTT
35456602 TCCATTTCTTT
1 TCCATTTCTTT
35456613 TCCATTTCTTT
1 TCCATTTCTTT
35456624 CATTTTGGGT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
9 8 0.30
11 19 0.70
ACGTcount: A:0.10, C:0.26, G:0.02, T:0.62
Consensus pattern (11 bp):
TCCATTTCTTT
Found at i:35459239 original size:47 final size:46
Alignment explanation
Indices: 35459166--35459434 Score: 138
Period size: 47 Copynumber: 5.8 Consensus size: 46
35459156 ATTTGAGTGT
* * * * *
35459166 GAGCTAGTGTAA-AACATGTTTGGGACATGCATCGACCACATTATGA
1 GAGCCAGTGTAAGACCATGTCTAGGACATGCATCGACCACA-TACGA
* *** *
35459212 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGTA-TTGAGACGA
1 GAGCCAGTGTAAGACCATGTCTAGGACAT-GCATC-G-ACCACATACGA
* * * *
35459260 GAGCTAGTGTAAGA-CATGTCTAGGACATGCATCGGCCTCGAGACGTA
1 GAGCCAGTGTAAGACCATGTCTAGGACATGCATCGACCAC-ATACG-A
* * * * * * *
35459307 -AACTAGTGTAAGA-CATGTCTAGGACATGCATCGGCTAGGAGAAGA
1 GAGCCAGTGTAAGACCATGTCTAGGACATGCATCGACCA-CATACGA
* * * * * *
35459352 TAGTCAGTGTAAGACCATGTCTGGGACATGACATCGACTTGAGATA--T
1 GAGCCAGTGTAAGACCATGTCTAGGACATG-CATCGAC--CACATACGA
*
35459399 GAGCCAGTGTAATACCATGTCTAGGACATGGCATCG
1 GAGCCAGTGTAAGACCATGTCTAGGACAT-GCATCG
35459435 GTACCTTACC
Statistics
Matches: 179, Mismatches: 30, Indels: 27
0.76 0.13 0.11
Matches are distributed among these distances:
45 3 0.02
46 69 0.39
47 72 0.40
48 28 0.16
49 5 0.03
50 2 0.01
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.23
Consensus pattern (46 bp):
GAGCCAGTGTAAGACCATGTCTAGGACATGCATCGACCACATACGA
Found at i:35459313 original size:46 final size:46
Alignment explanation
Indices: 35459217--35459435 Score: 162
Period size: 46 Copynumber: 4.7 Consensus size: 46
35459207 TATGAGAGCC
* * * * *
35459217 AGTGTAAGACCATGTCTGGGACATGGCATCAGTATTGAGACGAGAGCT
1 AGTGTAAGA-CATGTCTAGGACAT-GCATCGGCATCGAGACGAGAACT
*
35459265 AGTGTAAGACATGTCTAGGACATGCATCGGCCTCGAGACGTA-AACT
1 AGTGTAAGACATGTCTAGGACATGCATCGGCATCGAGACG-AGAACT
* *
35459311 AGTGTAAGACATGTCTAGGACATGCATCGGC-TAG-GA-GAAGATAGT
1 AGTGTAAGACATGTCTAGGACATGCATCGGCATCGAGACG-AGA-ACT
* * * * * *
35459356 CAGTGTAAGACCATGTCTGGGACATGACATCGAC-TTGAGA-TATGAGCC
1 -AGTGTAAGA-CATGTCTAGGACATG-CATCGGCATCGAGACGA-GAACT
*
35459404 AGTGTAATACCATGTCTAGGACATGGCATCGG
1 AGTGTAAGA-CATGTCTAGGACAT-GCATCGG
35459436 TACCTTACCC
Statistics
Matches: 143, Mismatches: 19, Indels: 19
0.79 0.10 0.10
Matches are distributed among these distances:
43 2 0.01
44 3 0.02
45 4 0.03
46 56 0.39
47 55 0.38
48 19 0.13
49 4 0.03
ACGTcount: A:0.30, C:0.18, G:0.29, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTAGGACATGCATCGGCATCGAGACGAGAACT
Found at i:35459379 original size:93 final size:95
Alignment explanation
Indices: 35459217--35459433 Score: 239
Period size: 93 Copynumber: 2.3 Consensus size: 95
35459207 TATGAGAGCC
* * *
35459217 AGTGTAAGACCATGTCTGGGACATGGCATCAGTATTGAGACGAGAGCTAGTGTAAGACATGTCTA
1 AGTGTAAGACCATGTCTAGGACATGGCATCAGTATGGAGAAGAGAGCTAGTGTAAGACATGTCTA
35459282 GGACATG-CATCGGCCTCGAGACGTAAACT
66 GGACATGACATCGGCCTCGAGACGTAAACT
* *
35459311 AGTGTAAGA-CATGTCTAGGACAT-GCATCGGCTA-GGAGAAGATAG-TCAGTGTAAGACCATGT
1 AGTGTAAGACCATGTCTAGGACATGGCATCAG-TATGGAGAAGAGAGCT-AGTGTAAGA-CATGT
* * * ** * * *
35459372 CTGGGACATGACATC-GACTTGAGATATGAGCC
63 CTAGGACATGACATCGGCCTCGAGACGTAAACT
*
35459404 AGTGTAATACCATGTCTAGGACATGGCATC
1 AGTGTAAGACCATGTCTAGGACATGGCATC
35459434 GGTACCTTAC
Statistics
Matches: 103, Mismatches: 14, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
91 1 0.01
92 23 0.22
93 47 0.46
94 27 0.26
95 5 0.05
ACGTcount: A:0.30, C:0.18, G:0.28, T:0.23
Consensus pattern (95 bp):
AGTGTAAGACCATGTCTAGGACATGGCATCAGTATGGAGAAGAGAGCTAGTGTAAGACATGTCTA
GGACATGACATCGGCCTCGAGACGTAAACT
Found at i:35462830 original size:46 final size:48
Alignment explanation
Indices: 35462588--35462950 Score: 288
Period size: 46 Copynumber: 7.7 Consensus size: 48
35462578 AGGGTATAAT
* *
35462588 GCCGATGCCATGTCCTAGACATGGTCTTACACTGG--CTCATC-CATCAA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTC-T-AG
* * *** * ** *
35462635 GTCGATGCCATGTCCCAGATATGGTCTTACACCAACTATCAAAATCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTC-ATCTCTAG
* * *
35462684 GCCGAGGCCATGTCCCAGACATGGTCTTACACTAGCTCTCA-CATATTAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATC-T-CTAG
* * * *
35462733 TGCTGATGCCATGTTCCAGACATGGTCTTACACT-G-ACACATCTCGTA-
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTC-TAG
35462780 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TGCATCTCTAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-CATCTCTAG
* * * * *
35462826 GCCGATG-CATGTCCCAAACAT-GTCTTACACTAGCTCTCGTCTCAAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTCTAG
* * *
35462872 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAATGT-G
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT-CTCTAG
* *
35462920 GCTGATG-CATGTCCCAAACAT-GTCTTACACT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACT
35462951 AGCACGCAAA
Statistics
Matches: 254, Mismatches: 45, Indels: 35
0.76 0.13 0.10
Matches are distributed among these distances:
44 10 0.04
45 16 0.06
46 68 0.27
47 56 0.22
48 30 0.12
49 42 0.17
50 31 0.12
51 1 0.00
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.27
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTCTAG
Found at i:35462899 original size:94 final size:96
Alignment explanation
Indices: 35462585--35462953 Score: 334
Period size: 94 Copynumber: 3.9 Consensus size: 96
35462575 CATAGGGTAT
* * * *
35462585 AATGCCGATGCCATGTCCTAGACATGGTCTTACACTGGCTCATC-CATC-AAGTCGATGCCATGT
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCT-ATCATATCTAGGCCGATGCCATGT
* * * * * **
35462648 CCCAGATATGGTCTTACACCAACTATCAAAATC
65 CCCAAACATGGTCTTACACTAGCTCTC-ATCTC
* * * * * *
35462681 GAGGCCGAGGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATAT-TAGTGCTGATGCCAT
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTAT--CATATCTAG-GCCGATGCCAT
* * * *
35462745 GTTCCAGACATGGTCTTACACT-G-ACACATCTC
63 GTCCCAAACATGGTCTTACACTAGCTCTCATCTC
* *
35462777 -GTAGCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TGCATCTCTAGGCCGATG-CATG
1 AAT-GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTAT-CATATCTAGGCCGATGCCATG
*
35462837 TCCCAAACAT-GTCTTACACTAGCTCTCGTCTC
64 TCCCAAACATGGTCTTACACTAGCTCTCATCTC
* *
35462869 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAATGT-GGCTGATG-CATGT
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCAT-ATCTAGGCCGATGCCATGT
35462932 CCCAAACAT-GTCTTACACTAGC
65 CCCAAACATGGTCTTACACTAGC
35462954 ACGCAAATAA
Statistics
Matches: 224, Mismatches: 35, Indels: 30
0.78 0.12 0.10
Matches are distributed among these distances:
90 10 0.04
91 13 0.06
92 23 0.10
93 19 0.08
94 64 0.29
95 18 0.08
96 44 0.20
97 2 0.01
98 3 0.01
99 28 0.12
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (96 bp):
AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATATCTAGGCCGATGCCATGTC
CCAAACATGGTCTTACACTAGCTCTCATCTC
Found at i:35462935 original size:140 final size:142
Alignment explanation
Indices: 35462585--35462951 Score: 385
Period size: 140 Copynumber: 2.6 Consensus size: 142
35462575 CATAGGGTAT
*
35462585 AATGCCGATGCCATGTCCTAGACATGGTCTTACACTGGCTCATCCATCAA-GT-CGATGCCATGT
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCT-AT-CAT-AATGTGCGATG-CATGT
* * *
35462648 CCCAGATATGGTCTTACACCAACTATCAAAATCGAGGCCGAGGCCATGTCCCAGACATGGTCTTA
62 CCCAGACAT-GTCTTACACTAACTATCAAAATCGAGGCCGAGGCCATGTCCCAAACATGGTCTTA
*
35462713 CACTAGCTCTCACATATT
126 CACTAGCTCT-ACATATC
* * * * *
35462731 AGTGCTGATGCCATGTTCCAGACATGGTCTTACACTGAC-A-CAT-CTCGTAGCCGATGCATGTC
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAAT-GT-G-CGATGCATGTC
** ** * *
35462793 CCAGACATGTCTTACACTGGCT-TGC-ATCTCTAGGCCGATG-CATGTCCCAAACAT-GTCTTAC
63 CCAGACATGTCTTACACTAACTAT-CAAAATCGAGGCCGAGGCCATGTCCCAAACATGGTCTTAC
* *
35462854 ACTAGCTCT-CGTCTC
127 ACTAGCTCTACATATC
35462869 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAATGTGGCTGATGCATGTCC
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAATGT-GC-GATGCATGTCC
*
35462934 CAAACATGTCTTACACTA
64 CAGACATGTCTTACACTA
35462952 GCACGCAAAT
Statistics
Matches: 185, Mismatches: 26, Indels: 26
0.78 0.11 0.11
Matches are distributed among these distances:
138 38 0.21
139 2 0.01
140 49 0.26
141 14 0.08
142 17 0.09
143 12 0.06
144 14 0.08
145 5 0.03
146 34 0.18
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (142 bp):
AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAATGTGCGATGCATGTCCCA
GACATGTCTTACACTAACTATCAAAATCGAGGCCGAGGCCATGTCCCAAACATGGTCTTACACTA
GCTCTACATATC
Found at i:35465356 original size:20 final size:20
Alignment explanation
Indices: 35465331--35465370 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
35465321 AAATACTAAC
35465331 GTGTCTGAACTGAAAATCGA
1 GTGTCTGAACTGAAAATCGA
* *
35465351 GTGTCTGAATTGAAGATCGA
1 GTGTCTGAACTGAAAATCGA
35465371 ATATGTTCCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.33, C:0.12, G:0.28, T:0.28
Consensus pattern (20 bp):
GTGTCTGAACTGAAAATCGA
Found at i:35470733 original size:138 final size:138
Alignment explanation
Indices: 35470459--35470725 Score: 444
Period size: 138 Copynumber: 1.9 Consensus size: 138
35470449 CACGGTCTGC
* * *
35470459 CCCATGGGCATGTGGTTTGGCCGTGTGTCCCCTGCACCTAAATTTTGAGAAATAGAATGCTCAGA
1 CCCATGGGCATGTGGTTTGGCCGTGTGTCCCCTACACCTAAATTTTGAGAAACAGAATGCTCAAA
* * *
35470524 GTTGAGCAGAATGGCAGAGACACGGGAGTATGTCTCAGCTGTGTGCAGGACATGGCCTCAGGCAC
66 GTTGAGCACAATGGCAGAGACACGGGAGTATGCCTCAACTGTGTGCAGGACATGGCCTCAGGCAC
35470589 GAGCCTGG
131 GAGCCTGG
*
35470597 CCCATGGGCATGTGGTTTGGTCGTGTGTCCCCTACACCTAAATTTTGAGAAACAGAATGCTCAAA
1 CCCATGGGCATGTGGTTTGGCCGTGTGTCCCCTACACCTAAATTTTGAGAAACAGAATGCTCAAA
* * *
35470662 GTTGAGCACAATGGCAGAGACACGGGAGTATGCCTCAACTGTGTGGAGGTCATGGCCTTAGGCA
66 GTTGAGCACAATGGCAGAGACACGGGAGTATGCCTCAACTGTGTGCAGGACATGGCCTCAGGCA
35470726 TGGGCCTGTG
Statistics
Matches: 119, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
138 119 1.00
ACGTcount: A:0.24, C:0.22, G:0.30, T:0.23
Consensus pattern (138 bp):
CCCATGGGCATGTGGTTTGGCCGTGTGTCCCCTACACCTAAATTTTGAGAAACAGAATGCTCAAA
GTTGAGCACAATGGCAGAGACACGGGAGTATGCCTCAACTGTGTGCAGGACATGGCCTCAGGCAC
GAGCCTGG
Found at i:35474220 original size:40 final size:40
Alignment explanation
Indices: 35474183--35474368 Score: 243
Period size: 40 Copynumber: 4.7 Consensus size: 40
35474173 GCTACTCGTT
* *
35474183 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
35474223 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
35474263 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
35474303 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
35474344 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
35474369 CATCATTCAA
Statistics
Matches: 133, Mismatches: 9, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
39 3 0.02
40 117 0.88
41 13 0.10
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:35478641 original size:40 final size:42
Alignment explanation
Indices: 35478574--35478668 Score: 108
Period size: 40 Copynumber: 2.4 Consensus size: 42
35478564 TCTCAGTATC
* * *
35478574 GCACACTTAGTGCC-TCATATAGCCGAAGCTA-TTCCAACTA
1 GCACACTTAGTGCCATCATATAGCCGAAGCCATTTCAAACCA
* * *
35478614 GCACACTTAGTGCCAT-TTGTAGTCGAAGCCATTTCAAACCA
1 GCACACTTAGTGCCATCATATAGCCGAAGCCATTTCAAACCA
35478655 -CACACTTAGTGCCA
1 GCACACTTAGTGCCA
35478669 AACATAGTCG
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
40 39 0.83
41 8 0.17
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.25
Consensus pattern (42 bp):
GCACACTTAGTGCCATCATATAGCCGAAGCCATTTCAAACCA
Found at i:35478677 original size:40 final size:40
Alignment explanation
Indices: 35478574--35478679 Score: 106
Period size: 40 Copynumber: 2.6 Consensus size: 40
35478564 TCTCAGTATC
** * * * *
35478574 GCACACTTAGTGCCTCATATAGCCGAAGCTATTCCAACTA
1 GCACACTTAGTGCCAAATATAGTCGAAGCCATTCAAACCA
** *
35478614 GCACACTTAGTGCCATTTGTAGTCGAAGCCATTTCAAACCA
1 GCACACTTAGTGCCAAATATAGTCGAAGCCA-TTCAAACCA
*
35478655 -CACACTTAGTGCCAAACATAGTCGA
1 GCACACTTAGTGCCAAATATAGTCGA
35478680 TTATCACCAT
Statistics
Matches: 53, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
40 46 0.87
41 7 0.13
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.25
Consensus pattern (40 bp):
GCACACTTAGTGCCAAATATAGTCGAAGCCATTCAAACCA
Found at i:35479320 original size:18 final size:18
Alignment explanation
Indices: 35479289--35479324 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
35479279 AGATTATTAA
35479289 TAAACAATTACAAAAACG
1 TAAACAATTACAAAAACG
35479307 TAAA-AATTATCAAAAACG
1 TAAACAATTA-CAAAAACG
35479325 GATCAAAATG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.61, C:0.14, G:0.06, T:0.19
Consensus pattern (18 bp):
TAAACAATTACAAAAACG
Found at i:35482563 original size:18 final size:19
Alignment explanation
Indices: 35482540--35482578 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
35482530 TTGTTGATCG
*
35482540 ATGAATGTGTGG-TAAAGT
1 ATGAATGTGGGGCTAAAGT
35482558 ATGAATGTGGGGCTAAAGT
1 ATGAATGTGGGGCTAAAGT
35482577 AT
1 AT
35482579 AAGAGATGAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.33, C:0.03, G:0.33, T:0.31
Consensus pattern (19 bp):
ATGAATGTGGGGCTAAAGT
Found at i:35490199 original size:702 final size:701
Alignment explanation
Indices: 35488917--35490314 Score: 2408
Period size: 702 Copynumber: 2.0 Consensus size: 701
35488907 AATGTTGATT
35488917 GAGTTCGTATAAGCCCACATATGTTATTTATTTCATATTTTAGTCCCTCAATTTAAAAATTTCAC
1 GAGTTCGTATAAGCCCACATATGTTATTTATTTCATATTTTAGTCCCTCAATTTAAAAATTTCAC
*
35488982 AATTTAGCCCATTTTACTCAAATTCATCAAAAATTACAAAACATGTTAACCCAATACATATCTTT
66 AATTTAGCCCATTTTACTCAAATTCATCAAAAATTACAAAACATGTTAACCCAATACATATATTT
*
35489047 CATTTAGTAACATCAACCTTCATAAATCTCATAATTTCATCAATGGCTCAACTCAAAATCATCAA
131 CATTTACTAACATCAACCTTCATAAATCTCATAATTTCATCAATGGCTCAACTCAAAATCATCAA
* *
35489112 CAATTTCAGAAATTGAGACATTGGCTTGATAGATTATTAATAAACAATTACAAAAACGTAGAAAT
196 CAATTTCAGAAATTGAGACATGGGCTTGATAGATTATTAAGAAACAATTACAAAAACGTAGAAAT
* *
35489177 TATCAAAAACGGATCAAAACGCATACCTTAATCACCAAAATCAATAGCCAAACCCTAAAACCACA
261 TATCAAAAACAGATCAAAACGCATACCTTAATCACCAAAATCAATAGACAAACCCTAAAACCACA
* *
35489242 ACCTTGGCTTTCTTTCTTTTGATTTTCAGCAATAGCATGAACAAAATGGCTAATTTCATGCTTTT
326 ACCTTGGCTTTCTTTCTTTTGATTTTCAGCAATAGCATAAACAAAATCGCTAATTTCATGCTTTT
* *
35489307 AGTTTTATTTTAATTAACATTAATATTCATTTTACCATTTTACCCTTGCATTAAAACATTAATAA
391 AATTTTATTTTAATTAACATTAATATTCATTTTACCATTTTACCCTTGAATTAAAACATTAATAA
* **
35489372 ACCATTATATTAAGGCCATTAATATCCACTCATATGTTCAATGGTCAAATAACAACATAAGGACC
456 ACCATTATATTAAGGCCATTAATATCCACTCATATGTTCAATGGTCAAATAAAAACATAAAAACC
* *
35489437 TCTCAATTATAAAGACAAAACAACTAGGTTCTTTAACAAATAGAAGGCCACTTTTACATTTTATG
521 TCTCAATTATAAAGACAAAACAACTAGGTACTTTAACAAAAAGAAGGCCACTTTTACATTTTATG
* *
35489502 CGATTAGGTCCTTTTATCAAATTAAGCACACAAACGATTAAATTTTCATACGAAACTTTCACAAA
586 CGATTAGGTCCTTTTATCAAATTAAGCACACAAACGATTAAATTTTAACACGAAACTTTCACAAA
*
35489567 TGCTTAACCACATATTGTAAACACAGAAATTAATATTAAAATAATTTCCATA
651 TGCTTAACCACATACTGTAAACACAGAAA-TAATATTAAAATAATTTCCATA
* * *
35489619 GAGTTTGTATAAGCTCACATAT-TTAATTTCTTTCATATTTTAGTCCCTCAATTTAAAAATTTCA
1 GAGTTCGTATAAGCCCACATATGTT-ATTTATTTCATATTTTAGTCCCTCAATTTAAAAATTTCA
*
35489683 CAATTTAGCCCATTTTACTCAAATTCATCAAAAATTACAAAACATGTTAACCCAATGCATATATT
65 CAATTTAGCCCATTTTACTCAAATTCATCAAAAATTACAAAACATGTTAACCCAATACATATATT
35489748 TCATTTACTAACATCAACCTTCATAAATCTCATAATTTCATCAATGGCTCAACAT-AAAATCATC
130 TCATTTACTAACATCAACCTTCATAAATCTCATAATTTCATCAATGGCTCAAC-TCAAAATCATC
* * *
35489812 AACAATTTCAGACATTGAGACATGGGCTTGATAGATTATTAAGCAGCAATTACAAAAACGTAGAA
194 AACAATTTCAGAAATTGAGACATGGGCTTGATAGATTATTAAGAAACAATTACAAAAACGTAGAA
*
35489877 ATTATTAAAAACAGATCAAAACGCATACCTTAATCACCAAAATCAATAGACAAACCCTAAAACCA
259 ATTATCAAAAACAGATCAAAACGCATACCTTAATCACCAAAATCAATAGACAAACCCTAAAACCA
* *
35489942 CAACCTTGGCTTTCTTTCTTTTGATTTTCGGCAATAGCATAAACAAAATCTCTAATTTCATGCTT
324 CAACCTTGGCTTTCTTTCTTTTGATTTTCAGCAATAGCATAAACAAAATCGCTAATTTCATGCTT
35490007 TTAATTTTATTTTAATTAACATTAATATTCATTTTACCATTTTACCCTTGAATTAAAACATTAAT
389 TTAATTTTATTTTAATTAACATTAATATTCATTTTACCATTTTACCCTTGAATTAAAACATTAAT
* *
35490072 AAACTATTATATTAAGGCCATTAATGTCCACTCATATGTTCAATGGTCAAATAAAAACATAAAAA
454 AAACCATTATATTAAGGCCATTAATATCCACTCATATGTTCAATGGTCAAATAAAAACATAAAAA
* * *
35490137 CCTCTCAATTCTAAAGA-AATAACTGA-TAGGTACTTTAGCAAAAAGAAGGCCACTTTTACATTT
519 CCTCTCAATTATAAAGACAA-AAC-AACTAGGTACTTTAACAAAAAGAAGGCCACTTTTACATTT
*
35490200 TATGCGATTAGGTCCTTTTATCAAATTCAGCACACAAACGATTAAATTTTAACACGAAACTTTCA
582 TATGCGATTAGGTCCTTTTATCAAATTAAGCACACAAACGATTAAATTTTAACACGAAACTTTCA
*
35490265 CAAATGCTTAACCACATACTGTAAACATAGAAATAATATTAAAATAATTT
647 CAAATGCTTAACCACATACTGTAAACACAGAAATAATATTAAAATAATTT
35490315 TTCTTACTCA
Statistics
Matches: 657, Mismatches: 35, Indels: 9
0.94 0.05 0.01
Matches are distributed among these distances:
701 21 0.03
702 634 0.96
703 2 0.00
ACGTcount: A:0.40, C:0.19, G:0.08, T:0.33
Consensus pattern (701 bp):
GAGTTCGTATAAGCCCACATATGTTATTTATTTCATATTTTAGTCCCTCAATTTAAAAATTTCAC
AATTTAGCCCATTTTACTCAAATTCATCAAAAATTACAAAACATGTTAACCCAATACATATATTT
CATTTACTAACATCAACCTTCATAAATCTCATAATTTCATCAATGGCTCAACTCAAAATCATCAA
CAATTTCAGAAATTGAGACATGGGCTTGATAGATTATTAAGAAACAATTACAAAAACGTAGAAAT
TATCAAAAACAGATCAAAACGCATACCTTAATCACCAAAATCAATAGACAAACCCTAAAACCACA
ACCTTGGCTTTCTTTCTTTTGATTTTCAGCAATAGCATAAACAAAATCGCTAATTTCATGCTTTT
AATTTTATTTTAATTAACATTAATATTCATTTTACCATTTTACCCTTGAATTAAAACATTAATAA
ACCATTATATTAAGGCCATTAATATCCACTCATATGTTCAATGGTCAAATAAAAACATAAAAACC
TCTCAATTATAAAGACAAAACAACTAGGTACTTTAACAAAAAGAAGGCCACTTTTACATTTTATG
CGATTAGGTCCTTTTATCAAATTAAGCACACAAACGATTAAATTTTAACACGAAACTTTCACAAA
TGCTTAACCACATACTGTAAACACAGAAATAATATTAAAATAATTTCCATA
Found at i:35502163 original size:43 final size:43
Alignment explanation
Indices: 35502116--35502247 Score: 237
Period size: 43 Copynumber: 3.1 Consensus size: 43
35502106 GTTAATCCAA
35502116 AGCCAAGTAGCTACATTGAAAAACCTAGAAAACCAAATGGGGC
1 AGCCAAGTAGCTACATTGAAAAACCTAGAAAACCAAATGGGGC
* *
35502159 AGCCAAGTAGCTATATTGAAAAACCTAGAAAACCAAATGGGTC
1 AGCCAAGTAGCTACATTGAAAAACCTAGAAAACCAAATGGGGC
*
35502202 AGCCAAGTAGCTACATTGGAAAACCTAGAAAACCAAATGGGGC
1 AGCCAAGTAGCTACATTGAAAAACCTAGAAAACCAAATGGGGC
35502245 AGC
1 AGC
35502248 TGGCAACTGA
Statistics
Matches: 84, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 84 1.00
ACGTcount: A:0.43, C:0.20, G:0.21, T:0.15
Consensus pattern (43 bp):
AGCCAAGTAGCTACATTGAAAAACCTAGAAAACCAAATGGGGC
Found at i:35517038 original size:25 final size:25
Alignment explanation
Indices: 35517010--35517079 Score: 72
Period size: 25 Copynumber: 2.8 Consensus size: 25
35517000 TTTTCTCCTA
* *
35517010 AATTTTTAATTTTATTTAATTATT-T
1 AATTTTTAA-TTTATTAAATCATTAT
35517035 AATTTTTCAATTTATTAAATCATTAAT
1 AATTTTT-AATTTATTAAATCATT-AT
*
35517062 AATTTTT-ATTAATTAAAT
1 AATTTTTAATTTATTAAAT
35517080 TTTTGAGAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
25 29 0.74
26 2 0.05
27 8 0.21
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.59
Consensus pattern (25 bp):
AATTTTTAATTTATTAAATCATTAT
Found at i:35524991 original size:21 final size:21
Alignment explanation
Indices: 35524967--35525008 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
35524957 TTTTGCTCTC
35524967 TGTTTGGTACCTATGATTTCA
1 TGTTTGGTACCTATGATTTCA
35524988 TGTTTGGTACCTATGATTTCA
1 TGTTTGGTACCTATGATTTCA
35525009 CGTCATCTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.19, C:0.14, G:0.19, T:0.48
Consensus pattern (21 bp):
TGTTTGGTACCTATGATTTCA
Found at i:35527332 original size:19 final size:19
Alignment explanation
Indices: 35527310--35527470 Score: 93
Period size: 20 Copynumber: 8.3 Consensus size: 19
35527300 ATTTTATTTG
35527310 TTTTTATAATTTTTAATAA
1 TTTTTATAATTTTTAATAA
*
35527329 TTTTTATATAATTTATAA-AA
1 -TTTT-TATAATTTTTAATAA
**
35527349 AATTTA-AAGTTTTT-ATAA
1 TTTTTATAA-TTTTTAATAA
*
35527367 TTATTTCAT-ATTTTTCATAA
1 TT-TTT-ATAATTTTTAATAA
35527387 TATTTTATAA--TTTAATTAA
1 T-TTTTATAATTTTTAA-TAA
* * * *
35527406 ATTTTATAGTTTTTCTATCA
1 TTTTTATAATTTTT-AATAA
*
35527426 TTTTTATAATTTTTAA-AT
1 TTTTTATAATTTTTAATAA
*
35527444 TTTATTATAATATATTAATAA
1 TTT-TTATAAT-TTTTAATAA
35527465 TTTTTA
1 TTTTTA
35527471 GATTTAAATA
Statistics
Matches: 107, Mismatches: 18, Indels: 32
0.68 0.11 0.20
Matches are distributed among these distances:
17 3 0.03
18 22 0.21
19 23 0.21
20 42 0.39
21 17 0.16
ACGTcount: A:0.37, C:0.02, G:0.01, T:0.59
Consensus pattern (19 bp):
TTTTTATAATTTTTAATAA
Found at i:35527399 original size:20 final size:19
Alignment explanation
Indices: 35527311--35527454 Score: 77
Period size: 19 Copynumber: 7.5 Consensus size: 19
35527301 TTTTATTTGT
*
35527311 TTTTATAATTTTTAATAATT
1 TTTTATAATTTTT-ATAATA
* *
35527331 TTTATATAATTTATA-AAAA
1 TTT-TATAATTTTTATAATA
*
35527350 ATTTA-AAGTTTTTATAATTA
1 TTTTATAA-TTTTTATAA-TA
*
35527370 TTTCAT-ATTTTTCATAATA
1 TTTTATAATTTTT-ATAATA
*
35527389 TTTTATAA-TTTAATTAA-A
1 TTTTATAATTTTTA-TAATA
* *
35527407 TTTTATAGTTTTTCT-ATCA
1 TTTTATAATTTTTATAAT-A
*
35527426 TTTTTATAATTTTTA-AATT
1 -TTTTATAATTTTTATAATA
35527445 TTATTATAAT
1 TT-TTATAAT
35527455 ATATTAATAA
Statistics
Matches: 94, Mismatches: 16, Indels: 29
0.68 0.12 0.21
Matches are distributed among these distances:
17 3 0.03
18 19 0.20
19 35 0.37
20 28 0.30
21 9 0.10
ACGTcount: A:0.37, C:0.03, G:0.01, T:0.59
Consensus pattern (19 bp):
TTTTATAATTTTTATAATA
Found at i:35527420 original size:38 final size:35
Alignment explanation
Indices: 35527369--35527448 Score: 99
Period size: 38 Copynumber: 2.2 Consensus size: 35
35527359 TTTTATAATT
*
35527369 ATTTCATATTTTTC-ATAATATTTTATAATTTAATTAA
1 ATTTTATATTTTTCTATAAT-TTTTATAATTT--TTAA
*
35527406 ATTTTATAGTTTTTCTATCATTTTTATAATTTTTAA
1 ATTTTATA-TTTTTCTATAATTTTTATAATTTTTAA
35527442 ATTTTAT
1 ATTTTAT
35527449 TATAATATAT
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
36 11 0.28
37 7 0.18
38 17 0.44
39 4 0.10
ACGTcount: A:0.33, C:0.05, G:0.01, T:0.61
Consensus pattern (35 bp):
ATTTTATATTTTTCTATAATTTTTATAATTTTTAA
Found at i:35527444 original size:8 final size:9
Alignment explanation
Indices: 35527310--35527470 Score: 80
Period size: 9 Copynumber: 16.7 Consensus size: 9
35527300 ATTTTATTTG
35527310 TTTTTATAA
1 TTTTTATAA
35527319 TTTTTAATAA
1 TTTTT-ATAA
35527329 TTTTTATATAA
1 -TTTT-TATAA
* *
35527340 TTTATAAAA
1 TTTTTATAA
**
35527349 AATTTA-AA
1 TTTTTATAA
35527357 GTTTTTATAA
1 -TTTTTATAA
35527367 TTATTTCAT-A
1 TT-TTT-ATAA
35527377 TTTTTCATAA
1 TTTTT-ATAA
35527387 TATTTTATAA
1 T-TTTTATAA
35527397 TTTAATTA-AA
1 TTT--TTATAA
*
35527407 -TTTTATAGT
1 TTTTTATA-A
*
35527416 TTTTCTATCA
1 TTTT-TATAA
35527426 TTTTTATAA
1 TTTTTATAA
35527435 TTTTTA-AA
1 TTTTTATAA
35527443 TTTTATTATAA
1 -TTT-TTATAA
*
35527454 TATATTAATAA
1 T-T-TTTATAA
35527465 TTTTTA
1 TTTTTA
35527471 GATTTAAATA
Statistics
Matches: 119, Mismatches: 13, Indels: 40
0.69 0.08 0.23
Matches are distributed among these distances:
7 3 0.03
8 5 0.04
9 44 0.37
10 36 0.30
11 29 0.24
12 2 0.02
ACGTcount: A:0.37, C:0.02, G:0.01, T:0.59
Consensus pattern (9 bp):
TTTTTATAA
Found at i:35527452 original size:57 final size:56
Alignment explanation
Indices: 35527310--35527454 Score: 145
Period size: 57 Copynumber: 2.5 Consensus size: 56
35527300 ATTTTATTTG
35527310 TTTTTATAATTTTTAATAATTTTTATATAATTTATAAAAAATTTAAAGTTTTTATAA
1 TTTTTATAATTTTTAATAATTTTT-TATAATTTATAAAAAATTTAAAGTTTTTATAA
* * * * * *
35527367 TTATTTCAT-ATTTTTCATAATATTTTATAATTTA-ATTAAATTTTATAGTTTTTCTATCA
1 TT-TTT-ATAATTTTTAATAATTTTTTATAATTTATA-AAAAATTTAAAG-TTTT-TATAA
35527426 TTTTTATAATTTTT-A-AATTTTATTATAAT
1 TTTTTATAATTTTTAATAATTTT-TTATAAT
35527455 ATATTAATAA
Statistics
Matches: 74, Mismatches: 7, Indels: 14
0.78 0.07 0.15
Matches are distributed among these distances:
56 6 0.08
57 30 0.41
58 30 0.41
59 8 0.11
ACGTcount: A:0.37, C:0.03, G:0.01, T:0.59
Consensus pattern (56 bp):
TTTTTATAATTTTTAATAATTTTTTATAATTTATAAAAAATTTAAAGTTTTTATAA
Found at i:35529802 original size:22 final size:22
Alignment explanation
Indices: 35529777--35529846 Score: 79
Period size: 22 Copynumber: 3.2 Consensus size: 22
35529767 TTTTAGTGCT
* *
35529777 TACTGTTCTACATTTCGATGCC
1 TACTGTTCTACACTACGATGCC
* * *
35529799 TACTGTTTTGCACTACGGTGCC
1 TACTGTTCTACACTACGATGCC
35529821 TACTGTTCTACACTAC-AGTGCC
1 TACTGTTCTACACTACGA-TGCC
35529843 TACT
1 TACT
35529847 AATTACTACG
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
22 39 1.00
ACGTcount: A:0.19, C:0.29, G:0.16, T:0.37
Consensus pattern (22 bp):
TACTGTTCTACACTACGATGCC
Found at i:35529843 original size:44 final size:41
Alignment explanation
Indices: 35529772--35529866 Score: 102
Period size: 44 Copynumber: 2.2 Consensus size: 41
35529762 CTGCATTTTA
* * * **
35529772 GTGCTTACTGTTCTACATTTCGATGCCTACTGTTTTGCACTACG
1 GTGCCTACTGTTCTACACTACGATGCCTACT-AATT--ACTACG
35529816 GTGCCTACTGTTCTACACTAC-AGTGCCTACTAATTACTACG
1 GTGCCTACTGTTCTACACTACGA-TGCCTACTAATTACTACG
35529857 GTGCCTACTG
1 GTGCCTACTG
35529867 ATACGCACTT
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
41 16 0.36
43 3 0.07
44 26 0.58
ACGTcount: A:0.19, C:0.27, G:0.18, T:0.36
Consensus pattern (41 bp):
GTGCCTACTGTTCTACACTACGATGCCTACTAATTACTACG
Found at i:35529883 original size:41 final size:41
Alignment explanation
Indices: 35529810--35529888 Score: 106
Period size: 41 Copynumber: 1.9 Consensus size: 41
35529800 ACTGTTTTGC
*
35529810 ACTACGGTGCCTACTGTTCTACACTACAGTGCCTACTAATT
1 ACTACGGTGCCTACTGTACTACACTACAGTGCCTACTAATT
* * *
35529851 ACTACGGTGCCTACTGATAC-GCACTTCGGTGCCTACTA
1 ACTACGGTGCCTACTG-TACTACACTACAGTGCCTACTA
35529889 GTGTGGTGTA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
41 31 0.94
42 2 0.06
ACGTcount: A:0.23, C:0.30, G:0.18, T:0.29
Consensus pattern (41 bp):
ACTACGGTGCCTACTGTACTACACTACAGTGCCTACTAATT
Found at i:35534489 original size:108 final size:108
Alignment explanation
Indices: 35534232--35534490 Score: 371
Period size: 108 Copynumber: 2.4 Consensus size: 108
35534222 ATAATTAATA
* * *
35534232 TTGTTAATTACTCTGTTAAAGTTTTTGACGTGTTTTTTT-AA-AATGATATCTTAAGTTAGAATA
1 TTGTTAATTACTCTGATAAAATTTTTGACATGTTTTTTTAAACAATGATATCTTAAGTTAGAATA
35534295 AGTTTTAAATAATAAAATTTCTAACAAAATTGTATTAAAATTT
66 AGTTTTAAATAATAAAATTTCTAACAAAATTGTATTAAAATTT
* * * **** * *
35534338 TTGTTAATTACTTTGATAAATTTTTTGA-TTAGTTTAACAAAACAATGATATGTTAAGTTGGAAT
1 TTGTTAATTACTCTGATAAAATTTTTGACAT-GTTTTTTTAAACAATGATATCTTAAGTTAGAAT
*
35534402 AAGTTTTAAATAATAAAATTTTTAACAAAATTGTATTAAAATTT
65 AAGTTTTAAATAATAAAATTTCTAACAAAATTGTATTAAAATTT
35534446 TTGTTAATTACTCTGATAAAATTTTTGACATGTTTTTTTAAACAA
1 TTGTTAATTACTCTGATAAAATTTTTGACATGTTTTTTTAAACAA
35534491 AATATTAGTT
Statistics
Matches: 131, Mismatches: 18, Indels: 6
0.85 0.12 0.04
Matches are distributed among these distances:
105 1 0.01
106 29 0.22
107 2 0.02
108 98 0.75
109 1 0.01
ACGTcount: A:0.39, C:0.05, G:0.10, T:0.46
Consensus pattern (108 bp):
TTGTTAATTACTCTGATAAAATTTTTGACATGTTTTTTTAAACAATGATATCTTAAGTTAGAATA
AGTTTTAAATAATAAAATTTCTAACAAAATTGTATTAAAATTT
Found at i:35538307 original size:11 final size:11
Alignment explanation
Indices: 35538289--35538326 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
35538279 TGCTCTCAAC
35538289 TCTCTCTTAAT
1 TCTCTCTTAAT
35538300 TCTCTCTTAAT
1 TCTCTCTTAAT
*
35538311 TCT-TACTCAAT
1 TCTCT-CTTAAT
35538322 TCTCT
1 TCTCT
35538327 TAGTTCACTC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
10 1 0.04
11 22 0.92
12 1 0.04
ACGTcount: A:0.18, C:0.29, G:0.00, T:0.53
Consensus pattern (11 bp):
TCTCTCTTAAT
Found at i:35538637 original size:15 final size:15
Alignment explanation
Indices: 35538619--35538650 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
35538609 TCTATAATCT
35538619 TTAATCGAACCATAC
1 TTAATCGAACCATAC
35538634 TTAATCGAACCATAC
1 TTAATCGAACCATAC
35538649 TT
1 TT
35538651 GAGTGATGCG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.38, C:0.25, G:0.06, T:0.31
Consensus pattern (15 bp):
TTAATCGAACCATAC
Found at i:35542559 original size:23 final size:25
Alignment explanation
Indices: 35542532--35542586 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
35542522 AATATTTACG
*
35542532 AAGTTAAGTG-AGTG-ATTAATTTA
1 AAGTTAAGTGAAGTGAATTAACTTA
35542555 AAGTTTAA-TGAAGTGAATTAACTTA
1 AAG-TTAAGTGAAGTGAATTAACTTA
35542580 AA-TTAAG
1 AAGTTAAG
35542587 GATAATTAGA
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
23 9 0.33
24 8 0.30
25 10 0.37
ACGTcount: A:0.44, C:0.02, G:0.18, T:0.36
Consensus pattern (25 bp):
AAGTTAAGTGAAGTGAATTAACTTA
Found at i:35542993 original size:22 final size:21
Alignment explanation
Indices: 35542960--35543000 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
35542950 AAATGAAATA
*
35542960 AAAGAAATGAAAAAGAGAAAC
1 AAAGAAACGAAAAAGAGAAAC
*
35542981 AAAGAAAACGAAATAGAGAA
1 AAAG-AAACGAAAAAGAGAA
35543001 GAACAGGGGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.71, C:0.05, G:0.20, T:0.05
Consensus pattern (21 bp):
AAAGAAACGAAAAAGAGAAAC
Found at i:35543671 original size:3 final size:3
Alignment explanation
Indices: 35543663--35543692 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
35543653 GAATGGTAAG
*
35543663 TAT TAT TAT TAT TAT TAT TAT TAG TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
35543693 AGTATTGAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:35544048 original size:51 final size:53
Alignment explanation
Indices: 35543993--35544110 Score: 141
Period size: 51 Copynumber: 2.2 Consensus size: 53
35543983 ATGTGTTGAC
* *
35543993 TACTGTGACTGTTCCGGATTCGTTCCAAAGAGGTAC-TCTGTACC-TGACTGT
1 TACTGTTACTGTTCCGGATTCGTTCCAAAGAGGTACTTCTGTACCGTCACTGT
* * * * * *
35544044 TACTGTTACTGTTTCGGATTTGTTTCGATGAGGTACTTTGTGTACCGTCACTGT
1 TACTGTTACTGTTCCGGATTCGTTCCAAAGAGGTAC-TTCTGTACCGTCACTGT
35544098 TACTGTTACTGTT
1 TACTGTTACTGTT
35544111 ACCGATACGG
Statistics
Matches: 56, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
51 30 0.54
53 7 0.12
54 19 0.34
ACGTcount: A:0.17, C:0.19, G:0.23, T:0.41
Consensus pattern (53 bp):
TACTGTTACTGTTCCGGATTCGTTCCAAAGAGGTACTTCTGTACCGTCACTGT
Found at i:35550091 original size:3 final size:3
Alignment explanation
Indices: 35550085--35550116 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
35550075 GACGTCCTCC
35550085 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CT
35550117 AGTTATTCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
CTT
Found at i:35556757 original size:21 final size:20
Alignment explanation
Indices: 35556733--35556782 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
35556723 AACTAAAAAT
*
35556733 CTAAACCCTAAATTATAAACC
1 CTAAACCC-AAACTATAAACC
*
35556754 CTAAATCCCAAACTATGAACC
1 CTAAA-CCCAAACTATAAACC
*
35556775 CCAAACCC
1 CTAAACCC
35556783 GAATGTTGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 3 0.12
21 19 0.76
22 3 0.12
ACGTcount: A:0.44, C:0.36, G:0.02, T:0.18
Consensus pattern (20 bp):
CTAAACCCAAACTATAAACC
Found at i:35558535 original size:17 final size:17
Alignment explanation
Indices: 35558513--35558550 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
35558503 ATTTTATAAT
35558513 AAATAAATCAT-AAAATA
1 AAATAAAT-ATAAAAATA
*
35558530 AAATAACTATAAAAATA
1 AAATAAATATAAAAATA
35558547 AAAT
1 AAAT
35558551 CAATTCTTGC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 2 0.11
17 17 0.89
ACGTcount: A:0.71, C:0.05, G:0.00, T:0.24
Consensus pattern (17 bp):
AAATAAATATAAAAATA
Found at i:35563357 original size:18 final size:20
Alignment explanation
Indices: 35563321--35563367 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
35563311 AGTTGTAAGT
35563321 ATATATATGTGAATAATTTG
1 ATATATATGTGAATAATTTG
* *
35563341 ATAT-TATGTGATTATTTTG
1 ATATATATGTGAATAATTTG
35563360 ATGATATA
1 AT-ATATA
35563368 ACATGTTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 15 0.65
20 6 0.26
21 2 0.09
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.49
Consensus pattern (20 bp):
ATATATATGTGAATAATTTG
Found at i:35563886 original size:50 final size:50
Alignment explanation
Indices: 35563713--35563906 Score: 201
Period size: 50 Copynumber: 3.9 Consensus size: 50
35563703 TGATCCATTG
* * *
35563713 TAAGTCACGTGTGTAGTACTAAGTGCAGGGTACTACGTGTACCAGATTGA
1 TAAGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGT
* * * * * * * * * * *
35563763 TAGGTCGCATGTGTAGTACTAACTACAGGCTATTATGCGTACCTGTTAACT
1 TAAGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT-AGT
* * *
35563814 TCAA-TCGCGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGT
1 T-AAGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGT
*
35563864 TAAGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACC
1 TAAGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACC
35563907 GGAGAGCTTC
Statistics
Matches: 112, Mismatches: 29, Indels: 6
0.76 0.20 0.04
Matches are distributed among these distances:
49 2 0.02
50 74 0.66
51 35 0.31
52 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (50 bp):
TAAGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGT
Found at i:35563895 original size:101 final size:101
Alignment explanation
Indices: 35563720--35563906 Score: 275
Period size: 101 Copynumber: 1.9 Consensus size: 101
35563710 TTGTAAGTCA
* * * *
35563720 CGTGTGTAGTACTAAGTGCAGGGTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGTACTAA
1 CGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGATAAGTCACATGTGTAGTACTAA
*
35563785 CTACAGGCTATTATGCGTACCTGTTAACTTCAATCG
66 CTACAGGCTACTATGCGTACCTGTTAACTTCAATCG
* * *
35563821 CGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAAGTCACGTGTGTAGTACTAA
1 CGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGATAAGTCACATGTGTAGTACTAA
* * *
35563886 GTGCAGGCTACTATGTGTACC
66 CTACAGGCTACTATGCGTACC
35563907 GGAGAGCTTC
Statistics
Matches: 75, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
101 75 1.00
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.30
Consensus pattern (101 bp):
CGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGATAAGTCACATGTGTAGTACTAA
CTACAGGCTACTATGCGTACCTGTTAACTTCAATCG
Found at i:35564758 original size:180 final size:179
Alignment explanation
Indices: 35564451--35564806 Score: 491
Period size: 180 Copynumber: 2.0 Consensus size: 179
35564441 TCCGAGAGTT
* *
35564451 GTACCATGAGAAAAATAATTTTTAGTGAAGAGAGTCAGAACTGTTAGACAGTGAAATAGGGGTAT
1 GTACCATGAGAAAAATAATTTTTAGTGAAGAGAGTCAGAACTGTCAAACAGTGAAATAGGGGTAT
* * * *
35564516 CTTTAATGAATAAACTGTACTAATTGGCTAAACAAAATATTCTGAAAATTTTATGATAAGAATAC
66 ATTTAATGAATAAAATGTACTAATTGGATAAACAAAATATTATGAAAATTTTATGATAAGAATAC
* * *
35564581 ATGTAAGTCTAGTTTCTAGA-AAAATTAGCAGTTCTCAATTTGGAGTCTA
131 ATATAAGTCTAGTTTC-AGAGAAAATTAACAGATCTCAATTTGGAGTCTA
* * **
35564630 GTACCATGAGATAAATAATTTTTAGTTAAGAGAGGTTGGAACTGTCAAACAGTGAAATAGGGGTA
1 GTACCATGAGAAAAATAATTTTTAGTGAAGAGA-GTCAGAACTGTCAAACAGTGAAATAGGGGTA
* * *
35564695 TATTTAATGAATAAAATGTACTTATTGGATAGACCAAAA-ATTATGAAAATTTTATGGTAAGAAT
65 TATTTAATGAATAAAATGTACTAATTGGATA-AACAAAATATTATGAAAATTTTATGATAAGAAT
* * * *
35564759 ATATATGAGTCTAGTTTCAGAGAAAATTAATAGATCTTAATTTGGAGT
129 ACATATAAGTCTAGTTTCAGAGAAAATTAACAGATCTCAATTTGGAGT
35564807 TTCGTAGCTC
Statistics
Matches: 154, Mismatches: 20, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
179 34 0.22
180 114 0.74
181 6 0.04
ACGTcount: A:0.40, C:0.08, G:0.19, T:0.33
Consensus pattern (179 bp):
GTACCATGAGAAAAATAATTTTTAGTGAAGAGAGTCAGAACTGTCAAACAGTGAAATAGGGGTAT
ATTTAATGAATAAAATGTACTAATTGGATAAACAAAATATTATGAAAATTTTATGATAAGAATAC
ATATAAGTCTAGTTTCAGAGAAAATTAACAGATCTCAATTTGGAGTCTA
Found at i:35567065 original size:47 final size:48
Alignment explanation
Indices: 35566956--35567319 Score: 239
Period size: 47 Copynumber: 7.8 Consensus size: 48
35566946 TGATTTGTGC
* **
35566956 GCCAGTGTAAGA-CATGTC-GGGACATGCTTCGGC--CACA-TTATGAGA
1 GCCAGTGTAAGACCATGTCTGGGACATGCATCGGCATC-CAGAGAT-AGA
*
35567001 GTCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCCAGACGAT-G-
1 GCCAGTGTAAGACCATGTCTGGGACAT-GCATCGGCATCCAGA-GATAGA
* * * *
35567049 GCTAGTGTAAGA-CATGTCTGGGACATGCAT---CAACCATATTATGAGA
1 GCCAGTGTAAGACCATGTCTGGGACATGCATCGGCATCCAGA-GAT-AGA
* * *
35567095 GCCAGTGTAAGACCATGTCTGGGATATGGCATCGACA--CAGAGATGAGT
1 GCCAGTGTAAGACCATGTCTGGGACAT-GCATCGGCATCCAGAGAT-AGA
* * * *
35567143 GCTAGAGTAAGA-CATGTCTGGGACATGCATCGGCTTTGACAGAGAT--A
1 GCCAGTGTAAGACCATGTCTGGGACATGCATCGGC-AT-CCAGAGATAGA
* * * * *
35567190 GCCAGTGTAAGA-CGTGTCTGGGACACGCATCGGC-T-AAGAG-TTGT
1 GCCAGTGTAAGACCATGTCTGGGACATGCATCGGCATCCAGAGATAGA
* ** * *
35567234 GCTAGTGTAAGACCATGTCTGGGACATGCATTAGCA-CGCATATATGAGA
1 GCCAGTGTAAGACCATGTCTGGGACATGCATCGGCATC-CAGAGAT-AGA
35567283 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCA
1 GCCAGTGTAAGACCATGTCTGGGACAT-GCATCGGCA
35567320 ATATATCCCA
Statistics
Matches: 251, Mismatches: 40, Indels: 51
0.73 0.12 0.15
Matches are distributed among these distances:
42 1 0.00
43 12 0.05
44 11 0.04
45 31 0.12
46 28 0.11
47 79 0.31
48 37 0.15
49 33 0.13
50 15 0.06
51 4 0.02
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.23
Consensus pattern (48 bp):
GCCAGTGTAAGACCATGTCTGGGACATGCATCGGCATCCAGAGATAGA
Found at i:35567124 original size:94 final size:93
Alignment explanation
Indices: 35566959--35567319 Score: 400
Period size: 94 Copynumber: 3.9 Consensus size: 93
35566949 TTTGTGCGCC
* ** * *
35566959 AGTGTAAGACATGTC-GGGACATGCTTCGGCCACATTATGAGAGTCAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCAACCATATTATGAGAGCCAGTGTAAGACCATGTCTGG
35567023 GACATGGCATCGGCATCCAGACGATG-GCT
66 GACATGGCATCGGCAT-CAGA-GATGTGCT
35567052 AGTGTAAGACATGTCTGGGACATGCATCAACCATATTATGAGAGCCAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCAACCATATTATGAGAGCCAGTGTAAGACCATGTCTGG
* *
35567117 GATATGGCATCGACA-CAGAGATGAGTGCT
66 GACATGGCATCGGCATCAGAGAT--GTGCT
* ** * *
35567146 AGAGTAAGACATGTCTGGGACATGCATC-GGC-T-TTGACAGAGATAGCCAGTGTAAGA-CGTGT
1 AGTGTAAGACATGTCTGGGACATGCATCAACCATATT-A-TGAG--AGCCAGTGTAAGACCATGT
* * *
35567207 CTGGGACA-CGCATCGGC-TAAGAGTTGTGCT
62 CTGGGACATGGCATCGGCATCAGAGATGTGCT
*
35567237 AGTGTAAGACCATGTCTGGGACATGCATTAGCACGCATA-TATGAGAGCCAGTGTAAGACCATGT
1 AGTGTAAGA-CATGTCTGGGACATGCATCA--AC-CATATTATGAGAGCCAGTGTAAGACCATGT
35567301 CTGGGACATGGCATCGGCA
62 CTGGGACATGGCATCGGCA
35567320 ATATATCCCA
Statistics
Matches: 225, Mismatches: 24, Indels: 35
0.79 0.08 0.12
Matches are distributed among these distances:
91 18 0.08
92 24 0.11
93 45 0.20
94 110 0.49
95 24 0.11
96 2 0.01
97 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.23
Consensus pattern (93 bp):
AGTGTAAGACATGTCTGGGACATGCATCAACCATATTATGAGAGCCAGTGTAAGACCATGTCTGG
GACATGGCATCGGCATCAGAGATGTGCT
Found at i:35567300 original size:141 final size:143
Alignment explanation
Indices: 35566956--35567319 Score: 385
Period size: 141 Copynumber: 2.6 Consensus size: 143
35566946 TGATTTGTGC
* *
35566956 GCCAGTGTAAGA-CATGTC-GGGACATGC-TTCGGC-CACAT-TATGAGAGTCAGTGTAAGACCA
1 GCCAGTGTAAGACCATGTCTGGGACATGCATT-AGCACACATATATGAGAGCCAGTGTAAGACCA
* * * *
35567016 TGTCTGGGACATGGCATCGGCATCCAGACGATGGCTAGTGTAAGACATGTCTGGGACATGCATCA
65 TGTCTGGGACATGGCATCGGCATACAGACGATAGCCAGTGTAAGACATGTCTGGGACACGCATCA
**
35567081 ACCATATTATGAGA
130 ACCATAAGATGAGA
* * * * * * *
35567095 GCCAGTGTAAGACCATGTCTGGGATATGGCA-TCG-ACACAGAGATGAGTGCTAGAGTAAGA-CA
1 GCCAGTGTAAGACCATGTCTGGGACAT-GCATTAGCACACATATATGAGAGCCAGTGTAAGACCA
* *
35567157 TGTCTGGGACAT-GCATCGGCTTTGACAGA-GATAGCCAGTGTAAGACGTGTCTGGGACACGCAT
65 TGTCTGGGACATGGCATCGGC-AT-ACAGACGATAGCCAGTGTAAGACATGTCTGGGACACGCAT
** * *
35567220 C-GGC-TAAGA-GTTGT
128 CAACCATAAGATG-AGA
* *
35567234 GCTAGTGTAAGACCATGTCTGGGACATGCATTAGCACGCATATATGAGAGCCAGTGTAAGACCAT
1 GCCAGTGTAAGACCATGTCTGGGACATGCATTAGCACACATATATGAGAGCCAGTGTAAGACCAT
35567299 GTCTGGGACATGGCATCGGCA
66 GTCTGGGACATGGCATCGGCA
35567320 ATATATCCCA
Statistics
Matches: 182, Mismatches: 30, Indels: 24
0.77 0.13 0.10
Matches are distributed among these distances:
138 4 0.02
139 43 0.24
140 35 0.19
141 71 0.39
142 29 0.16
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.23
Consensus pattern (143 bp):
GCCAGTGTAAGACCATGTCTGGGACATGCATTAGCACACATATATGAGAGCCAGTGTAAGACCAT
GTCTGGGACATGGCATCGGCATACAGACGATAGCCAGTGTAAGACATGTCTGGGACACGCATCAA
CCATAAGATGAGA
Found at i:35573152 original size:45 final size:46
Alignment explanation
Indices: 35573088--35573262 Score: 216
Period size: 45 Copynumber: 3.8 Consensus size: 46
35573078 TGTAACCCGC
*
35573088 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGG-CGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
* *
35573133 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C--GTTCGCAT
* *
35573183 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
*
35573226 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
35573263 TGCTTAACCA
Statistics
Matches: 111, Mismatches: 9, Indels: 19
0.80 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 36 0.32
46 29 0.26
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
Found at i:35573253 original size:93 final size:92
Alignment explanation
Indices: 35573095--35573265 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 92
35573085 CGCCCATAAG
*
35573095 CGAACTCGGACTCAACTCAACGAGCTCGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 CGAACTCGGACTCAACTCAACGAGCTCGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
35573160 CGAGTTCGGATGCCTAGTTACATCTCA
66 CGAGTTCGGATGCCTAGTTACATCTCA
*
35573187 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGG-CATTCGCATCCATAAGTGAACTCGGACTCAACTCA
35573252 ACGAGTTCGGATGC
65 ACGAGTTCGGATGC
35573266 TTAACCATCC
Statistics
Matches: 76, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
92 28 0.37
93 48 0.63
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (92 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCA
Found at i:35573717 original size:30 final size:30
Alignment explanation
Indices: 35573683--35573742 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
35573673 ATTTAATACG
35573683 AACTTTGGAAAAATTACACTTTTACCCCTA
1 AACTTTGGAAAAATTACACTTTTACCCCTA
* * * *
35573713 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTACCCCTA
35573743 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.32, C:0.25, G:0.07, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTACCCCTA
Found at i:35581815 original size:17 final size:17
Alignment explanation
Indices: 35581795--35581830 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
35581785 CTGGTATAAG
35581795 TATGAAAATGGTTCAGC
1 TATGAAAATGGTTCAGC
35581812 TATGAAAATGGTTCAGC
1 TATGAAAATGGTTCAGC
35581829 TA
1 TA
35581831 GGCTTGGGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.36, C:0.11, G:0.22, T:0.31
Consensus pattern (17 bp):
TATGAAAATGGTTCAGC
Found at i:35582306 original size:42 final size:42
Alignment explanation
Indices: 35582252--35582409 Score: 167
Period size: 42 Copynumber: 3.7 Consensus size: 42
35582242 TTAGGGTTAC
35582252 TGAGA-TTACGTGTAAGACCATATCTGGGATATGACATCGATA
1 TGAGACTT-CGTGTAAGACCATATCTGGGATATGACATCGATA
*
35582294 TGAGACTTCGTGTAAGACCATATCTGGGATATGACATCAATA
1 TGAGACTTCGTGTAAGACCATATCTGGGATATGACATCGATA
* ** * *
35582336 TGAGGCTTTTTGTAAGACCATAGT-TGGGCTATTGGCATCGATA
1 TGAGACTTCGTGTAAGACCATA-TCTGGGATA-TGACATCGATA
* * * ** *
35582379 CGAGACTACATGTAAGTTCATAACTGGGATA
1 TGAGACTTCGTGTAAGACCATATCTGGGATA
35582410 CGGCATTGGT
Statistics
Matches: 96, Mismatches: 16, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
42 63 0.66
43 33 0.34
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.30
Consensus pattern (42 bp):
TGAGACTTCGTGTAAGACCATATCTGGGATATGACATCGATA
Found at i:35583129 original size:23 final size:22
Alignment explanation
Indices: 35583096--35583139 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
35583086 TTGGTCATGG
35583096 TTGAATCGGTGGTATGTGTATGC
1 TTGAATCGGTGGTATGT-TATGC
* *
35583119 TTGAATTGGTGTTATGTTATG
1 TTGAATCGGTGGTATGTTATG
35583140 TTGTGTAGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.18, C:0.05, G:0.32, T:0.45
Consensus pattern (22 bp):
TTGAATCGGTGGTATGTTATGC
Found at i:35604365 original size:11 final size:11
Alignment explanation
Indices: 35604349--35604379 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
35604339 GAGATAGAGT
35604349 TTGGTATTGAA
1 TTGGTATTGAA
35604360 TTGGTATTGAA
1 TTGGTATTGAA
35604371 TTGGTATTG
1 TTGGTATTG
35604380 CTCCATACAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.23, C:0.00, G:0.29, T:0.48
Consensus pattern (11 bp):
TTGGTATTGAA
Found at i:35609371 original size:13 final size:13
Alignment explanation
Indices: 35609353--35609377 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
35609343 AGGCCGTGTG
35609353 AAGGACACAGGCC
1 AAGGACACAGGCC
35609366 AAGGACACAGGC
1 AAGGACACAGGC
35609378 TTGTTCTTGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.28, G:0.32, T:0.00
Consensus pattern (13 bp):
AAGGACACAGGCC
Found at i:35611711 original size:26 final size:25
Alignment explanation
Indices: 35611682--35611743 Score: 79
Period size: 26 Copynumber: 2.4 Consensus size: 25
35611672 GCTCTTCGAA
*
35611682 AGCTTCCCGATTAAAGGCTCTTTGTG
1 AGCTTCCCGATTAAAGGCTCTCTG-G
** *
35611708 AGCTTCCTAATTAATGGCTCTCTGG
1 AGCTTCCCGATTAAAGGCTCTCTGG
35611733 AGCTTCCCGAT
1 AGCTTCCCGAT
35611744 ATGGCTCGCT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
25 10 0.33
26 20 0.67
ACGTcount: A:0.19, C:0.26, G:0.21, T:0.34
Consensus pattern (25 bp):
AGCTTCCCGATTAAAGGCTCTCTGG
Found at i:35611765 original size:23 final size:23
Alignment explanation
Indices: 35611721--35611768 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
35611711 TTCCTAATTA
* *
35611721 ATGGCTCTCTGGAGCTTCCCGAT
1 ATGGCTCGCTGGAACTTCCCGAT
* *
35611744 ATGGCTCGCTTGAACTTTCCGAT
1 ATGGCTCGCTGGAACTTCCCGAT
35611767 AT
1 AT
35611769 ATGGCTATTC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.17, C:0.27, G:0.23, T:0.33
Consensus pattern (23 bp):
ATGGCTCGCTGGAACTTCCCGAT
Found at i:35611808 original size:25 final size:25
Alignment explanation
Indices: 35611660--35611850 Score: 87
Period size: 25 Copynumber: 7.7 Consensus size: 25
35611650 TTTATGAGTG
35611660 TCCCGA-TATATGGCTC-TTCGAAAGCT
1 TCCCGATTA-ATGGCTCTTTCG--AGCT
* *
35611686 TCCCGATTAAAGGCTCTTTGTGAGCT
1 TCCCGATTAATGGCTCTTT-CGAGCT
** * *
35611712 TCCTAATTAATGGCTCTCTGGAGCT
1 TCCCGATTAATGGCTCTTTCGAGCT
* *
35611737 TCCCGA-T-ATGGCTCGCTT-GAACT
1 TCCCGATTAATGGCTC-TTTCGAGCT
* *
35611760 TTCCGA-TATATGGCT-ATTCAGAGCT
1 TCCCGATTA-ATGGCTCTTTC-GAGCT
**
35611785 TCCTAATTAATGGCTCTTTCGAGCT
1 TCCCGATTAATGGCTCTTTCGAGCT
* * **
35611810 ACCC-ATTATTGGCTCGCAT-GAGCT
1 TCCCGATTAATGGCTC-TTTCGAGCT
*
35611834 TCCTGATT-ATGGCTCTT
1 TCCCGATTAATGGCTCTT
35611851 ATGAAAATGA
Statistics
Matches: 124, Mismatches: 29, Indels: 27
0.69 0.16 0.15
Matches are distributed among these distances:
23 19 0.15
24 25 0.20
25 39 0.31
26 36 0.29
27 4 0.03
28 1 0.01
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.35
Consensus pattern (25 bp):
TCCCGATTAATGGCTCTTTCGAGCT
Found at i:35611809 original size:73 final size:73
Alignment explanation
Indices: 35611707--35611847 Score: 189
Period size: 73 Copynumber: 1.9 Consensus size: 73
35611697 GGCTCTTTGT
* * *
35611707 GAGCTTCCTAATTAATGGCTCTCTGGAGCTTCCCGA-TA-TGGCTCGCTTGAACTTTCC-GATAT
1 GAGCTTCCTAATTAATGGCTCTCTCGAGCTACCC-ATTATTGGCTCGCATGAAC-TTCCTGAT-T
35611769 ATGGCTATTCA
63 ATGGCTATTCA
* *
35611780 GAGCTTCCTAATTAATGGCTCTTTCGAGCTACCCATTATTGGCTCGCATGAGCTTCCTGATTATG
1 GAGCTTCCTAATTAATGGCTCTCTCGAGCTACCCATTATTGGCTCGCATGAACTTCCTGATTATG
35611845 GCT
66 GCT
35611848 CTTATGAAAA
Statistics
Matches: 60, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
72 1 0.02
73 44 0.73
74 15 0.25
ACGTcount: A:0.20, C:0.25, G:0.21, T:0.35
Consensus pattern (73 bp):
GAGCTTCCTAATTAATGGCTCTCTCGAGCTACCCATTATTGGCTCGCATGAACTTCCTGATTATG
GCTATTCA
Found at i:35618383 original size:12 final size:13
Alignment explanation
Indices: 35618353--35618382 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
35618343 TTTAACTTAC
*
35618353 TTTTTCCTCTTTT
1 TTTTTCCACTTTT
35618366 TTTTTCCACTTTT
1 TTTTTCCACTTTT
35618379 TTTT
1 TTTT
35618383 CTTTCTCACT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.03, C:0.20, G:0.00, T:0.77
Consensus pattern (13 bp):
TTTTTCCACTTTT
Found at i:35618387 original size:16 final size:17
Alignment explanation
Indices: 35618362--35618403 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
35618352 CTTTTTCCTC
35618362 TTTTTTTTTC-CACT-T
1 TTTTTTTTTCTCACTCT
35618377 TTTTTTCTTTCTCACTCT
1 TTTTTT-TTTCTCACTCT
35618395 TTTTGTTTT
1 TTTT-TTTT
35618404 GATTTTTCTA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
15 6 0.26
16 4 0.17
17 4 0.17
18 7 0.30
19 2 0.09
ACGTcount: A:0.05, C:0.19, G:0.02, T:0.74
Consensus pattern (17 bp):
TTTTTTTTTCTCACTCT
Found at i:35622085 original size:11 final size:10
Alignment explanation
Indices: 35622059--35622092 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
35622049 GGAGAGCACC
*
35622059 AAGAGTCAAA
1 AAGAGCCAAA
35622069 AAGAGCCAAA
1 AAGAGCCAAA
35622079 AATGAGCCAAA
1 AA-GAGCCAAA
35622090 AAG
1 AAG
35622093 GGGCAAAACA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 12 0.55
11 10 0.45
ACGTcount: A:0.59, C:0.15, G:0.21, T:0.06
Consensus pattern (10 bp):
AAGAGCCAAA
Found at i:35631604 original size:17 final size:18
Alignment explanation
Indices: 35631584--35631631 Score: 55
Period size: 20 Copynumber: 2.7 Consensus size: 18
35631574 TCAAACTCAT
35631584 ATAA-TTACATATTCAAC
1 ATAATTTACATATTCAAC
35631601 ATAATTTTTACATATTCAAC
1 ATAA--TTTACATATTCAAC
*
35631621 ATCATTT-CATA
1 ATAATTTACATA
35631632 ATATAAGACA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 8 0.30
18 3 0.11
20 16 0.59
ACGTcount: A:0.42, C:0.17, G:0.00, T:0.42
Consensus pattern (18 bp):
ATAATTTACATATTCAAC
Found at i:35631613 original size:20 final size:20
Alignment explanation
Indices: 35631588--35631627 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
35631578 ACTCATATAA
35631588 TTACATATTCAACATAATTT
1 TTACATATTCAACATAATTT
*
35631608 TTACATATTCAACATCATTT
1 TTACATATTCAACATAATTT
35631628 CATAATATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.38, C:0.17, G:0.00, T:0.45
Consensus pattern (20 bp):
TTACATATTCAACATAATTT
Found at i:35640369 original size:56 final size:56
Alignment explanation
Indices: 35640303--35640437 Score: 209
Period size: 56 Copynumber: 2.4 Consensus size: 56
35640293 CCATGGCATT
* * *
35640303 GATATATGTGTGTGAGTAGGACCACGTTTAATACGTTGGCATTGATATGTGGTTCC
1 GATATATGTGTGTGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTCC
35640359 GATATATGTGTGTGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTCC
1 GATATATGTGTGTGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTCC
* *
35640415 -AGTTTATGTGTGAGAGTAAGACC
1 GA-TATATGTGTGTGAGTAAGACC
35640438 CTGTCTGGGA
Statistics
Matches: 73, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
55 1 0.01
56 72 0.99
ACGTcount: A:0.26, C:0.13, G:0.27, T:0.34
Consensus pattern (56 bp):
GATATATGTGTGTGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTCC
Found at i:35643827 original size:345 final size:345
Alignment explanation
Indices: 35643196--35643885 Score: 1380
Period size: 345 Copynumber: 2.0 Consensus size: 345
35643186 ACTTTCAGGC
35643196 GTCTAAATTGATATGCTGATGAAATAAATAAATTTTACTAATTTAGATCAAGAGAAACGTGATTC
1 GTCTAAATTGATATGCTGATGAAATAAATAAATTTTACTAATTTAGATCAAGAGAAACGTGATTC
35643261 GGGTCTTGATCGGGGTAAGAACAAAGTTTACGAGGATTAAGTTCGTCTTCATCATTTTGTATCGA
66 GGGTCTTGATCGGGGTAAGAACAAAGTTTACGAGGATTAAGTTCGTCTTCATCATTTTGTATCGA
35643326 GGTAAGTACATATGTAAATAATGTGTTATTGAAGCTTACTTTGGTATATTTTAATAATATACATG
131 GGTAAGTACATATGTAAATAATGTGTTATTGAAGCTTACTTTGGTATATTTTAATAATATACATG
35643391 TGTAATTAGCTTATTGTTGTTATGCATTTAAATTCTAATTGTTGCCATGAATGTATGAATGACAT
196 TGTAATTAGCTTATTGTTGTTATGCATTTAAATTCTAATTGTTGCCATGAATGTATGAATGACAT
35643456 GTTATGCGAGTAAATTACAATGTGAGAAAATGCGATGCTATTCGATTTGATATGAAGCCCCGTTG
261 GTTATGCGAGTAAATTACAATGTGAGAAAATGCGATGCTATTCGATTTGATATGAAGCCCCGTTG
35643521 AACCTTAGACATAGCATAGG
326 AACCTTAGACATAGCATAGG
35643541 GTCTAAATTGATATGCTGATGAAATAAATAAATTTTACTAATTTAGATCAAGAGAAACGTGATTC
1 GTCTAAATTGATATGCTGATGAAATAAATAAATTTTACTAATTTAGATCAAGAGAAACGTGATTC
35643606 GGGTCTTGATCGGGGTAAGAACAAAGTTTACGAGGATTAAGTTCGTCTTCATCATTTTGTATCGA
66 GGGTCTTGATCGGGGTAAGAACAAAGTTTACGAGGATTAAGTTCGTCTTCATCATTTTGTATCGA
35643671 GGTAAGTACATATGTAAATAATGTGTTATTGAAGCTTACTTTGGTATATTTTAATAATATACATG
131 GGTAAGTACATATGTAAATAATGTGTTATTGAAGCTTACTTTGGTATATTTTAATAATATACATG
35643736 TGTAATTAGCTTATTGTTGTTATGCATTTAAATTCTAATTGTTGCCATGAATGTATGAATGACAT
196 TGTAATTAGCTTATTGTTGTTATGCATTTAAATTCTAATTGTTGCCATGAATGTATGAATGACAT
35643801 GTTATGCGAGTAAATTACAATGTGAGAAAATGCGATGCTATTCGATTTGATATGAAGCCCCGTTG
261 GTTATGCGAGTAAATTACAATGTGAGAAAATGCGATGCTATTCGATTTGATATGAAGCCCCGTTG
35643866 AACCTTAGACATAGCATAGG
326 AACCTTAGACATAGCATAGG
35643886 ATACAAAAGG
Statistics
Matches: 345, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
345 345 1.00
ACGTcount: A:0.33, C:0.11, G:0.20, T:0.36
Consensus pattern (345 bp):
GTCTAAATTGATATGCTGATGAAATAAATAAATTTTACTAATTTAGATCAAGAGAAACGTGATTC
GGGTCTTGATCGGGGTAAGAACAAAGTTTACGAGGATTAAGTTCGTCTTCATCATTTTGTATCGA
GGTAAGTACATATGTAAATAATGTGTTATTGAAGCTTACTTTGGTATATTTTAATAATATACATG
TGTAATTAGCTTATTGTTGTTATGCATTTAAATTCTAATTGTTGCCATGAATGTATGAATGACAT
GTTATGCGAGTAAATTACAATGTGAGAAAATGCGATGCTATTCGATTTGATATGAAGCCCCGTTG
AACCTTAGACATAGCATAGG
Found at i:35658416 original size:20 final size:20
Alignment explanation
Indices: 35658391--35658430 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
35658381 GTATGGGCTT
35658391 ACATGGGTCGCATAATGGGC
1 ACATGGGTCGCATAATGGGC
*
35658411 ACATGGGTCGTATAATGGGC
1 ACATGGGTCGCATAATGGGC
35658431 CTTAGGCCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.25, C:0.17, G:0.35, T:0.23
Consensus pattern (20 bp):
ACATGGGTCGCATAATGGGC
Found at i:35658603 original size:27 final size:27
Alignment explanation
Indices: 35658550--35658603 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
35658540 ATGACCAAAA
* *
35658550 TACCCCTATAGGGTAAAATGGCTATTT
1 TACCCCTAGAGGGTAAAATGACTATTT
*
35658577 TACCCCTCGAGGGT-AAATGACTGATTT
1 TACCCCTAGAGGGTAAAATGACT-ATTT
35658604 GTGCTATGAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 7 0.30
27 16 0.70
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.31
Consensus pattern (27 bp):
TACCCCTAGAGGGTAAAATGACTATTT
Found at i:35663708 original size:26 final size:25
Alignment explanation
Indices: 35663675--35663733 Score: 93
Period size: 26 Copynumber: 2.3 Consensus size: 25
35663665 AAAGGAAATG
35663675 AAAT-GAGTTAATTTTGATTTCATA
1 AAATCGAGTTAATTTTGATTTCATA
35663699 TAAATCGAGTTAATTTTGATTTCATA
1 -AAATCGAGTTAATTTTGATTTCATA
35663725 AAGATCGAG
1 AA-ATCGAG
35663734 AAACAAAGGA
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
25 6 0.19
26 26 0.81
ACGTcount: A:0.37, C:0.07, G:0.15, T:0.41
Consensus pattern (25 bp):
AAATCGAGTTAATTTTGATTTCATA
Found at i:35668627 original size:40 final size:40
Alignment explanation
Indices: 35668583--35668665 Score: 130
Period size: 40 Copynumber: 2.1 Consensus size: 40
35668573 AAGGCACACG
* *
35668583 TCTGCTTACACGGGTGTGTGATCTATGAACGTAAAATTTT
1 TCTGCTTACACGAGCGTGTGATCTATGAACGTAAAATTTT
* *
35668623 TCTGCTTATACGAGCGTGTGATCTATGAACGTAAATTTTT
1 TCTGCTTACACGAGCGTGTGATCTATGAACGTAAAATTTT
35668663 TCT
1 TCT
35668666 AAGTGCTCAA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.24, C:0.16, G:0.20, T:0.40
Consensus pattern (40 bp):
TCTGCTTACACGAGCGTGTGATCTATGAACGTAAAATTTT
Found at i:35673540 original size:15 final size:15
Alignment explanation
Indices: 35673520--35673550 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
35673510 ATATTTTAAC
*
35673520 TATATTATAATATGT
1 TATATTATAACATGT
35673535 TATATTATAACATGT
1 TATATTATAACATGT
35673550 T
1 T
35673551 TTTTTTTAAC
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:0.39, C:0.03, G:0.06, T:0.52
Consensus pattern (15 bp):
TATATTATAACATGT
Found at i:35697816 original size:48 final size:46
Alignment explanation
Indices: 35697625--35697843 Score: 146
Period size: 48 Copynumber: 4.7 Consensus size: 46
35697615 ACATCTAAGT
* * * *
35697625 CGATGCCATATCCCAGACAGGTCTTACACT-G-ACACAT-GTCAA-GC
1 CGATG-CATATCCCAGACATGTCTTACACTAGCTCTCATAAT-AAGGC
* * * *
35697669 CGATGCCATATCCTAGATAGGTCTTACACTAGCT-TGCATATCTCAAGGC
1 CGATG-CATATCCCAGACATGTCTTACACTAGCTCT-CATA-AT-AAGGC
* * * * ** * *
35697718 TGATGCATGTCCCAGATATGTCTTACACTAGCTCTCGTCTTAATGT
1 CGATGCATATCCCAGACATGTCTTACACTAGCTCTCATAATAAGGC
*
35697764 CGATGCCAT-TCCCCA-AGCATGGTCTTACACTAGCTCTCATAATGAGGC
1 CGATG-CATAT-CCCAGA-CAT-GTCTTACACTAGCTCTCATAATAAGGC
35697812 CGATGCATATCCCAGACATGTCTTACACTAGC
1 CGATGCATATCCCAGACATGTCTTACACTAGC
35697844 ACACATCCAT
Statistics
Matches: 140, Mismatches: 22, Indels: 24
0.75 0.12 0.13
Matches are distributed among these distances:
44 28 0.20
45 1 0.01
46 25 0.18
47 20 0.14
48 59 0.42
49 7 0.05
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (46 bp):
CGATGCATATCCCAGACATGTCTTACACTAGCTCTCATAATAAGGC
Found at i:35702272 original size:16 final size:15
Alignment explanation
Indices: 35702232--35702278 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 15
35702222 AGATGATAAT
35702232 TATTAATATATAATTA
1 TATTAAT-TATAATTA
35702248 TATCT-ATTATAATATA
1 TAT-TAATTATAAT-TA
*
35702264 TATTAATTATTATTA
1 TATTAATTATAATTA
35702279 ACTTTATATA
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
15 9 0.33
16 17 0.63
17 1 0.04
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (15 bp):
TATTAATTATAATTA
Found at i:35702277 original size:10 final size:11
Alignment explanation
Indices: 35702230--35702279 Score: 52
Period size: 10 Copynumber: 4.7 Consensus size: 11
35702220 AAAGATGATA
35702230 ATTATTAATAT
1 ATTATTAATAT
* *
35702241 ATAATTATATCT
1 ATTATTA-ATAT
35702253 ATTA-TAATAT
1 ATTATTAATAT
35702263 A-TATTAAT-T
1 ATTATTAATAT
35702272 ATTATTAA
1 ATTATTAA
35702280 CTTTATATAG
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
9 4 0.12
10 14 0.44
11 8 0.25
12 6 0.19
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (11 bp):
ATTATTAATAT
Found at i:35702277 original size:22 final size:23
Alignment explanation
Indices: 35702230--35702279 Score: 72
Period size: 22 Copynumber: 2.3 Consensus size: 23
35702220 AAAGATGATA
35702230 ATTATTAATATATAATTATATCT
1 ATTATTAATATATAATTATATCT
35702253 ATTA-TAATATAT-ATTA-AT-T
1 ATTATTAATATATAATTATATCT
35702272 ATTATTAA
1 ATTATTAA
35702280 CTTTATATAG
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
19 5 0.19
20 5 0.19
21 4 0.15
22 8 0.31
23 4 0.15
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (23 bp):
ATTATTAATATATAATTATATCT
Found at i:35702491 original size:17 final size:18
Alignment explanation
Indices: 35702465--35702498 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
35702455 TTTTTGTTTA
35702465 AATAAATTAATA-GCATT
1 AATAAATTAATATGCATT
*
35702482 AATAATTTAATATGCAT
1 AATAAATTAATATGCAT
35702499 ATATTTGATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.38
Consensus pattern (18 bp):
AATAAATTAATATGCATT
Found at i:35705844 original size:25 final size:25
Alignment explanation
Indices: 35705814--35705865 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
35705804 AAAAATGTTG
*
35705814 TTCTGAAGGAATTTTTCAAAGGTGT
1 TTCTGAAGGAAATTTTCAAAGGTGT
35705839 TTCTGAAGGAAATTTTCAAAGGTGT
1 TTCTGAAGGAAATTTTCAAAGGTGT
35705864 TT
1 TT
35705866 ACAAGAAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.29, C:0.08, G:0.23, T:0.40
Consensus pattern (25 bp):
TTCTGAAGGAAATTTTCAAAGGTGT
Found at i:35709032 original size:15 final size:16
Alignment explanation
Indices: 35708996--35709025 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
35708986 ACATATCATT
35708996 TATTTCATTATATCAA
1 TATTTCATTATATCAA
35709012 TATTTCA-TATATCA
1 TATTTCATTATATCA
35709026 TAGTTTCCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.37, C:0.13, G:0.00, T:0.50
Consensus pattern (16 bp):
TATTTCATTATATCAA
Found at i:35710977 original size:30 final size:30
Alignment explanation
Indices: 35710943--35711003 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
35710933 TCCTTAACTC
35710943 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
35710973 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
35711003 A
1 A
35711004 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:35729786 original size:22 final size:22
Alignment explanation
Indices: 35729749--35729827 Score: 95
Period size: 22 Copynumber: 3.6 Consensus size: 22
35729739 TTGTATGAGT
* * *
35729749 TTAGCACTTCTGTATTATCTAC
1 TTAGCACTTCAGTATTCTCTGC
* * *
35729771 TTAGCACTTCAATATTCTTTGT
1 TTAGCACTTCAGTATTCTCTGC
*
35729793 TTAGCACTTCAGTACTCTCTGC
1 TTAGCACTTCAGTATTCTCTGC
35729815 TTAGCACTTCAGT
1 TTAGCACTTCAGT
35729828 GCTTCCTGGT
Statistics
Matches: 47, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 47 1.00
ACGTcount: A:0.22, C:0.24, G:0.11, T:0.43
Consensus pattern (22 bp):
TTAGCACTTCAGTATTCTCTGC
Found at i:35733512 original size:17 final size:15
Alignment explanation
Indices: 35733482--35733515 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 15
35733472 TGGGTAAATC
35733482 ATTTTTTTATTTTTT
1 ATTTTTTTATTTTTT
35733497 ATTTTCTTTCATTTTTT
1 ATTTT-TTT-ATTTTTT
35733514 AT
1 AT
35733516 CATGAAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.29
16 3 0.18
17 9 0.53
ACGTcount: A:0.15, C:0.06, G:0.00, T:0.79
Consensus pattern (15 bp):
ATTTTTTTATTTTTT
Found at i:35735294 original size:2 final size:2
Alignment explanation
Indices: 35735282--35735317 Score: 63
Period size: 2 Copynumber: 17.5 Consensus size: 2
35735272 TTTTCTATTC
35735282 TA TA GTA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
35735318 TTTGTTTCCA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 31 0.94
3 2 0.06
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:35736887 original size:13 final size:13
Alignment explanation
Indices: 35736869--35736898 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
35736859 TTTTTTTAAA
*
35736869 AAATTATATATAT
1 AAATTAAATATAT
35736882 AAATTAAATATAT
1 AAATTAAATATAT
35736895 AAAT
1 AAAT
35736899 AAAAAATAGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
AAATTAAATATAT
Found at i:35737109 original size:21 final size:21
Alignment explanation
Indices: 35737068--35737108 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
35737058 AGATTTTTTT
*
35737068 TCATAAAAATTATATATAAAA
1 TCATAAAAATTATATAAAAAA
35737089 TCATAAAAATT-TATAAAAAA
1 TCATAAAAATTATATAAAAAA
35737109 AATTTTTTAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (21 bp):
TCATAAAAATTATATAAAAAA
Found at i:35737110 original size:22 final size:21
Alignment explanation
Indices: 35737068--35737111 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
35737058 AGATTTTTTT
* *
35737068 TCATAAAAATTATATATAAAA
1 TCATAAAAATTATAAAAAAAA
35737089 TCATAAAAATTTATAAAAAAAA
1 TCATAAAAA-TTATAAAAAAAA
35737111 T
1 T
35737112 TTTTTACCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.32
Consensus pattern (21 bp):
TCATAAAAATTATAAAAAAAA
Found at i:35737407 original size:17 final size:17
Alignment explanation
Indices: 35737374--35737489 Score: 71
Period size: 17 Copynumber: 6.6 Consensus size: 17
35737364 ATTTTAAAAT
35737374 AATTTATTTATATTTTATG
1 AATTT-TTTA-ATTTTATG
35737393 AATTTTTTAATTTTACT-
1 AATTTTTTAATTTTA-TG
35737410 AATTTTTTAATTTT-TAG
1 AATTTTTTAATTTTAT-G
* *
35737427 ATTTTTTATAAATTTA-G
1 AATTTTT-TAATTTTATG
*
35737444 -ATTTTTATATATTTTA-A
1 AATTTTT-TA-ATTTTATG
*
35737461 AATTTTTCATAATTTTATT
1 AATTTTT--TAATTTTATG
*
35737480 ATTTTTTTAA
1 AATTTTTTAA
35737490 AAAAATCTAT
Statistics
Matches: 81, Mismatches: 7, Indels: 20
0.75 0.06 0.19
Matches are distributed among these distances:
15 1 0.01
16 8 0.10
17 35 0.43
18 23 0.28
19 14 0.17
ACGTcount: A:0.32, C:0.02, G:0.03, T:0.64
Consensus pattern (17 bp):
AATTTTTTAATTTTATG
Found at i:35737432 original size:9 final size:8
Alignment explanation
Indices: 35737373--35737434 Score: 54
Period size: 9 Copynumber: 7.2 Consensus size: 8
35737363 AATTTTAAAA
35737373 TAATTTATT
1 TAATTT-TT
35737382 TATATTTTAT
1 TA-ATTTT-T
*
35737392 GAATTTTT
1 TAATTTTT
*
35737400 TAATTTTAC
1 TAATTTT-T
35737409 TAATTTTT
1 TAATTTTT
35737417 TAA-TTTT
1 TAATTTTT
35737424 TAGATTTTT
1 TA-ATTTTT
35737433 TA
1 TA
35737435 TAAATTTAGA
Statistics
Matches: 44, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
7 6 0.14
8 11 0.25
9 21 0.48
10 6 0.14
ACGTcount: A:0.29, C:0.02, G:0.03, T:0.66
Consensus pattern (8 bp):
TAATTTTT
Found at i:35737447 original size:25 final size:23
Alignment explanation
Indices: 35737415--35737465 Score: 66
Period size: 25 Copynumber: 2.1 Consensus size: 23
35737405 TTACTAATTT
*
35737415 TTTAATTTTTAGATTTTTTATAAA
1 TTTAATTTTTAGATATTTTA-AAA
*
35737439 TTTAGATTTTTATATATTTTAAAA
1 TTTA-ATTTTTAGATATTTTAAAA
35737463 TTT
1 TTT
35737466 TTCATAATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 10 0.42
25 14 0.58
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (23 bp):
TTTAATTTTTAGATATTTTAAAA
Found at i:35737457 original size:16 final size:17
Alignment explanation
Indices: 35737411--35737457 Score: 62
Period size: 16 Copynumber: 2.9 Consensus size: 17
35737401 AATTTTACTA
*
35737411 ATTTTTTA-ATTTTTAG
1 ATTTTTTATATATTTAG
*
35737427 ATTTTTTATAAATTTAG
1 ATTTTTTATATATTTAG
35737444 A-TTTTTATATATTT
1 ATTTTTTATATATTT
35737458 TAAAATTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
16 20 0.74
17 7 0.26
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (17 bp):
ATTTTTTATATATTTAG
Found at i:35739533 original size:46 final size:47
Alignment explanation
Indices: 35739386--35739746 Score: 196
Period size: 46 Copynumber: 7.6 Consensus size: 47
35739376 TTTGTGTGCT
* *
35739386 AGTGTAAGA-CATGTCTGGAACATGCATCGG-C-C-AGATTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGCATTGGCCTCGAGA-TAT-A-AGCC
* * * * * * *
35739432 AGTGTAAGACCATGTCTGGGACAAGGAATCGGCATTGAGATGA-GAGCT
1 AGTGTAAGACCATGTCTGGGAC-ATGCATTGGCCTCGAGAT-ATAAGCC
*
35739480 AGTGTAAGA-CATGTCTGGGACATGCACTGGCCTCGAGATATAAGCC
1 AGTGTAAGACCATGTCTGGGACATGCATTGGCCTCGAGATATAAGCC
* *
35739526 AGTGTAAGA-CATGTCTGGGACATGCATTGG-CTACGAGATGT--GTC
1 AGTGTAAGACCATGTCTGGGACATGCATTGGCCT-CGAGATATAAGCC
* * * *
35739570 AGCGTAAGACCATGTCCGGGACATGGCATTGGCAT-GA-ATATGTGAGAGCT
1 AGTGTAAGACCATGTCTGGGACAT-GCATTGGCCTCGAGATA--T-A-AGCC
* * * *
35739620 AGTGTAAGACCATGTCTGGGACATGGCCTCGGCCTC-A-ATTTTGATAGTC
1 AGTGTAAGACCATGTCTGGGACAT-GCATTGGCCTCGAGA-TAT-A-AGCC
** * * * * *
35739669 AGTGTAAGACTGTGTCTGGGACATGGCA-TCGACTTGATG-GATGAGCC
1 AGTGTAAGACCATGTCTGGGACAT-GCATTGGCCTCGA-GATATAAGCC
*
35739716 AATGTAAGACCATGTCTGGGACATGGCATTG
1 AGTGTAAGACCATGTCTGGGACAT-GCATTG
35739747 ACATTATACC
Statistics
Matches: 244, Mismatches: 48, Indels: 44
0.73 0.14 0.13
Matches are distributed among these distances:
44 12 0.05
45 18 0.07
46 68 0.28
47 52 0.21
48 23 0.09
49 32 0.13
50 34 0.14
51 5 0.02
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.24
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATGCATTGGCCTCGAGATATAAGCC
Found at i:35739690 original size:99 final size:96
Alignment explanation
Indices: 35739567--35739742 Score: 228
Period size: 96 Copynumber: 1.8 Consensus size: 96
35739557 TACGAGATGT
* * * *
35739567 GTCAGCGTAAGACCATGTCCGGGACATGGCATTGGCATGAATATGTGA-GAGCTAGTGTAAGACC
1 GTCAGCGTAAGACCATGTCCGGGACATGGCATCGACATG---ATG-GATGAGCCAATGTAAGACC
35739631 ATGTCTGGGACATGGCCTCGGCCTCAATTTTGATA
62 ATGTCTGGGACATGGCCTCGGCCTCAATTTTGATA
* ** * *
35739666 GTCAGTGTAAGACTGTGTCTGGGACATGGCATCGACTTGATGGATGAGCCAATGTAAGACCATGT
1 GTCAGCGTAAGACCATGTCCGGGACATGGCATCGACATGATGGATGAGCCAATGTAAGACCATGT
35739731 CTGGGACATGGC
66 CTGGGACATGGC
35739743 ATTGACATTA
Statistics
Matches: 67, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
95 2 0.03
96 33 0.49
99 32 0.48
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.25
Consensus pattern (96 bp):
GTCAGCGTAAGACCATGTCCGGGACATGGCATCGACATGATGGATGAGCCAATGTAAGACCATGT
CTGGGACATGGCCTCGGCCTCAATTTTGATA
Found at i:35740483 original size:12 final size:10
Alignment explanation
Indices: 35740468--35740494 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
35740458 AGACACATGG
35740468 GTGTGTGGCC
1 GTGTGTGGCC
35740478 GTGTGTGGCC
1 GTGTGTGGCC
35740488 GTGTGTG
1 GTGTGTG
35740495 ACACACGGTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.00, C:0.15, G:0.52, T:0.33
Consensus pattern (10 bp):
GTGTGTGGCC
Found at i:35744002 original size:111 final size:111
Alignment explanation
Indices: 35743808--35744032 Score: 308
Period size: 111 Copynumber: 2.0 Consensus size: 111
35743798 TTTGAAAAAC
* **
35743808 TTTTTAATTTGGCCGAGTCTTAATAACACTGAAATGATTGTATACATGTTTTTAAGTGTAGTAAC
1 TTTTTAATTTGACCGAGTCTTAATAACACTGAAATGATTGTATACATGTGATTAAGTGTAGTAAC
** * *
35743873 GCCTCGTATCTCATCTCGACGTAGGGCTCGGGTTTGGGGTGTTACA
66 GCCTCGTATCTCATCTCGACGTAGGGCTCAAGTGTGGGGTCTTACA
** * * * *
35743919 TTTTTAATTTGATTGAGTCTTAATGACA-TCGCAATGATTGTATGCATGTGATTAAGTGTGGTAA
1 TTTTTAATTTGACCGAGTCTTAATAACACT-GAAATGATTGTATACATGTGATTAAGTGTAGTAA
*
35743983 CGCCTGGTATCTCATCTCGACGTAGGGCTCAAGTGTGGGGTCTTACA
65 CGCCTCGTATCTCATCTCGACGTAGGGCTCAAGTGTGGGGTCTTACA
35744030 TTT
1 TTT
35744033 AGTGGTATCA
Statistics
Matches: 99, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
110 1 0.01
111 98 0.99
ACGTcount: A:0.23, C:0.16, G:0.24, T:0.37
Consensus pattern (111 bp):
TTTTTAATTTGACCGAGTCTTAATAACACTGAAATGATTGTATACATGTGATTAAGTGTAGTAAC
GCCTCGTATCTCATCTCGACGTAGGGCTCAAGTGTGGGGTCTTACA
Found at i:35758669 original size:28 final size:28
Alignment explanation
Indices: 35758612--35758671 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 28
35758602 AAGCACTATA
* *
35758612 GTGCTCACTGCTACGCGAATGCACTACG
1 GTGCTCACTGCTACACGAATACACTACG
* *
35758640 GTGCTCATTGCTACATGAATACACCT-CG
1 GTGCTCACTGCTACACGAATACA-CTACG
35758668 GTGC
1 GTGC
35758672 ACCTTTGTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 25 0.93
29 2 0.07
ACGTcount: A:0.22, C:0.30, G:0.23, T:0.25
Consensus pattern (28 bp):
GTGCTCACTGCTACACGAATACACTACG
Found at i:35759411 original size:52 final size:53
Alignment explanation
Indices: 35759332--35759436 Score: 185
Period size: 52 Copynumber: 2.0 Consensus size: 53
35759322 GTACTGATAA
*
35759332 TTAGAAGGAAGTATCGATACTTCAACC-AGGTATCGATACCTTACTAGAGTAC
1 TTAGAAGGAAGTATCGATACTTCAACCAAGGTATAGATACCTTACTAGAGTAC
*
35759384 TTAGAAGGAAGTATCGATACTTTAACCAAGGTATAGATACCTTACTAGAGTAC
1 TTAGAAGGAAGTATCGATACTTCAACCAAGGTATAGATACCTTACTAGAGTAC
35759437 CGATACTCTG
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
52 26 0.52
53 24 0.48
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.28
Consensus pattern (53 bp):
TTAGAAGGAAGTATCGATACTTCAACCAAGGTATAGATACCTTACTAGAGTAC
Found at i:35760662 original size:29 final size:26
Alignment explanation
Indices: 35760630--35760680 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 26
35760620 AGAGTGATTA
35760630 TTTGTATTGGATTTACTTTTAGGTGTAG
1 TTTGT-TT-GATTTACTTTTAGGTGTAG
35760658 ---GTTTGATTTACTTTTAGGTGTAG
1 TTTGTTTGATTTACTTTTAGGTGTAG
35760681 GTTTTAACAC
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
23 19 0.83
24 2 0.09
25 2 0.09
ACGTcount: A:0.18, C:0.04, G:0.25, T:0.53
Consensus pattern (26 bp):
TTTGTTTGATTTACTTTTAGGTGTAG
Found at i:35760665 original size:23 final size:23
Alignment explanation
Indices: 35760639--35760684 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
35760629 ATTTGTATTG
35760639 GATTTACTTTTAGGTGTAGGTTT
1 GATTTACTTTTAGGTGTAGGTTT
35760662 GATTTACTTTTAGGTGTAGGTTT
1 GATTTACTTTTAGGTGTAGGTTT
35760685 TAACACTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.17, C:0.04, G:0.26, T:0.52
Consensus pattern (23 bp):
GATTTACTTTTAGGTGTAGGTTT
Found at i:35784727 original size:28 final size:29
Alignment explanation
Indices: 35784687--35784743 Score: 89
Period size: 28 Copynumber: 2.0 Consensus size: 29
35784677 CCAGGTTTTT
*
35784687 GGACACGGGCGTGT-CTAGGCCATGTGAA
1 GGACACAGGCGTGTGCTAGGCCATGTGAA
*
35784715 GGACACAGGCGTGTGCTTGGCCATGTGAA
1 GGACACAGGCGTGTGCTAGGCCATGTGAA
35784744 AACCCCTGTA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
28 13 0.50
29 13 0.50
ACGTcount: A:0.21, C:0.21, G:0.39, T:0.19
Consensus pattern (29 bp):
GGACACAGGCGTGTGCTAGGCCATGTGAA
Found at i:35796130 original size:28 final size:28
Alignment explanation
Indices: 35796090--35796178 Score: 144
Period size: 28 Copynumber: 3.2 Consensus size: 28
35796080 TGTACTAGAG
35796090 TACCCCTATGTATGCAAAATTACCATTA
1 TACCCCTATGTATGCAAAATTACCATTA
*
35796118 TACCCCTATGTATGTAAAATTACCATTA
1 TACCCCTATGTATGCAAAATTACCATTA
*
35796146 TACCCCTATGTATGCAAAATGACC-TCTA
1 TACCCCTATGTATGCAAAATTACCAT-TA
35796174 TACCC
1 TACCC
35796179 GTAGGGTTAA
Statistics
Matches: 57, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
27 1 0.02
28 56 0.98
ACGTcount: A:0.34, C:0.27, G:0.08, T:0.31
Consensus pattern (28 bp):
TACCCCTATGTATGCAAAATTACCATTA
Found at i:35796328 original size:28 final size:27
Alignment explanation
Indices: 35796287--35796376 Score: 92
Period size: 27 Copynumber: 3.2 Consensus size: 27
35796277 AGGAAGCGTC
35796287 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAA-TATCTGTT
* ** *
35796315 CTGGTGGCCCTGCCACGTATATCTATT
1 CTGGTGGCACTGCCACAAATATCTGTT
*
35796342 CTGGTGGCACTGCCACAAAACATCTGTAT
1 CTGGTGGCACTGCCAC-AAATATCTGT-T
35796371 CTGGTG
1 CTGGTG
35796377 ACTCTGTCAC
Statistics
Matches: 50, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
27 22 0.44
28 21 0.42
29 7 0.14
ACGTcount: A:0.20, C:0.26, G:0.23, T:0.31
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATCTGTT
Found at i:35801090 original size:36 final size:36
Alignment explanation
Indices: 35801050--35801122 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
35801040 TTATTAAACC
35801050 ATTTAATCATCAAACATTAGGCCATTTATGTCCATT
1 ATTTAATCATCAAACATTAGGCCATTTATGTCCATT
35801086 ATTTAATCATCAAACATTAGGCCATTTATGTCCATT
1 ATTTAATCATCAAACATTAGGCCATTTATGTCCATT
35801122 A
1 A
35801123 ACCTTATCAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.34, C:0.19, G:0.08, T:0.38
Consensus pattern (36 bp):
ATTTAATCATCAAACATTAGGCCATTTATGTCCATT
Found at i:35805276 original size:23 final size:23
Alignment explanation
Indices: 35805219--35805278 Score: 95
Period size: 23 Copynumber: 2.6 Consensus size: 23
35805209 TTACTTTTCC
*
35805219 AATTTT-AATTTCATTTACACACA
1 AATTTTCAA-TTCACTTACACACA
35805242 AATTTTCAATTCACTTACACACA
1 AATTTTCAATTCACTTACACACA
35805265 AATTTTCAATTCAC
1 AATTTTCAATTCAC
35805279 AATCAATTCA
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
23 33 0.94
24 2 0.06
ACGTcount: A:0.38, C:0.22, G:0.00, T:0.40
Consensus pattern (23 bp):
AATTTTCAATTCACTTACACACA
Found at i:35805675 original size:13 final size:14
Alignment explanation
Indices: 35805657--35805691 Score: 54
Period size: 13 Copynumber: 2.5 Consensus size: 14
35805647 TTTTAGTTAC
35805657 TAATAATTTA-TTA
1 TAATAATTTATTTA
35805670 TAATAATTTATTTA
1 TAATAATTTATTTA
35805684 TATATAAT
1 TA-ATAAT
35805692 ATATAAATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 10 0.50
14 5 0.25
15 5 0.25
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (14 bp):
TAATAATTTATTTA
Found at i:35809032 original size:43 final size:43
Alignment explanation
Indices: 35808983--35809151 Score: 150
Period size: 43 Copynumber: 4.0 Consensus size: 43
35808973 TAGGATTTCT
35808983 GATATGTG-TTCTCGTGTAAGACCACGTCTGGGACATTGGCATC
1 GATATGTGATT-TCGTGTAAGACCACGTCTGGGACATTGGCATC
* * ** * *
35809026 GATATGTGATTAT-GTGTAAGACCATGTTTGGGACATCAGTAAC
1 GATATGTGATT-TCGTGTAAGACCACGTCTGGGACATTGGCATC
* * * *
35809069 G-TATTTGA-TTCGTGTAAGACC-CTATCTGGGACAATGGTATC
1 GATATGTGATTTCGTGTAAGACCAC-GTCTGGGACATTGGCATC
* * * *
35809110 GATATGTGATTACATGTAAGACCATGTCTGGGACGTTGGCAT
1 GATATGTGATTTCGTGTAAGACCACGTCTGGGACATTGGCAT
35809152 TGTACGATAT
Statistics
Matches: 97, Mismatches: 23, Indels: 12
0.73 0.17 0.09
Matches are distributed among these distances:
40 1 0.01
41 24 0.25
42 12 0.12
43 57 0.59
44 3 0.03
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.32
Consensus pattern (43 bp):
GATATGTGATTTCGTGTAAGACCACGTCTGGGACATTGGCATC
Found at i:35815664 original size:19 final size:19
Alignment explanation
Indices: 35815642--35815683 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
35815632 AGATAAAATT
*
35815642 AAAAGGTAAG-AAGAAAAGG
1 AAAAGG-AAGAAAGAAAAAG
*
35815661 AAAATGAAGAAAGAAAAAG
1 AAAAGGAAGAAAGAAAAAG
35815680 AAAA
1 AAAA
35815684 AAGTTAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 3 0.15
19 17 0.85
ACGTcount: A:0.71, C:0.00, G:0.24, T:0.05
Consensus pattern (19 bp):
AAAAGGAAGAAAGAAAAAG
Found at i:35829698 original size:69 final size:68
Alignment explanation
Indices: 35829617--35829751 Score: 207
Period size: 68 Copynumber: 2.0 Consensus size: 68
35829607 TAATTAAAAG
* *
35829617 TAATCACTTTAATATTAAATTAATATAATACTTATCAAGATAAATATTACATTAAATTTAATATT
1 TAATCACTTTAATATTAAATTAATAAAATAC-TATCAAGATAAATATTAAATTAAATTTAATATT
35829682 AAGA
65 AAGA
* * * *
35829686 TAATCACTTTAATATTAAATTCATAAAATACTATTAAGATAAGTATTAAATTTAATTTAATATTA
1 TAATCACTTTAATATTAAATTAATAAAATACTATCAAGATAAATATTAAATTAAATTTAATATTA
35829751 A
66 A
35829752 ATATATTAAA
Statistics
Matches: 60, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
68 31 0.52
69 29 0.48
ACGTcount: A:0.49, C:0.07, G:0.03, T:0.41
Consensus pattern (68 bp):
TAATCACTTTAATATTAAATTAATAAAATACTATCAAGATAAATATTAAATTAAATTTAATATTA
AGA
Found at i:35829767 original size:68 final size:69
Alignment explanation
Indices: 35829626--35829770 Score: 177
Period size: 68 Copynumber: 2.1 Consensus size: 69
35829616 GTAATCACTT
* *
35829626 TAATATTAAATTAATATAATACTTATCAAGATAAATATTACATTAAATTTAATATTAAGATAATC
1 TAATATTAAATTAATAAAATACTTATCAAGATAAATATTAAATTAAATTTAATATTAAGATAATC
***
35829691 ACTT
66 AAAA
* * * *
35829695 TAATATTAAATTCATAAAATAC-TATTAAGATAAGTATTAAATTTAATTTAATATTAA-ATATAT
1 TAATATTAAATTAATAAAATACTTATCAAGATAAATATTAAATTAAATTTAATATTAAGATA-AT
*
35829758 TAAAA
65 CAAAA
35829763 TAATATTA
1 TAATATTA
35829771 TTTTTAGAAT
Statistics
Matches: 65, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
67 3 0.05
68 42 0.65
69 20 0.31
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.41
Consensus pattern (69 bp):
TAATATTAAATTAATAAAATACTTATCAAGATAAATATTAAATTAAATTTAATATTAAGATAATC
AAAA
Found at i:35839741 original size:35 final size:35
Alignment explanation
Indices: 35839687--35839757 Score: 106
Period size: 35 Copynumber: 2.0 Consensus size: 35
35839677 AAGAAAATAT
* * *
35839687 ATTTTGTTTAACTTGACTTGCAAGCAGTCTCTTAG
1 ATTTTGTTTAAATTAACTTGCAAGCAATCTCTTAG
*
35839722 ATTTTGTTTAAATTAACTTGCAAGTAATCTCTTAG
1 ATTTTGTTTAAATTAACTTGCAAGCAATCTCTTAG
35839757 A
1 A
35839758 ATATGGGTCA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.28, C:0.14, G:0.14, T:0.44
Consensus pattern (35 bp):
ATTTTGTTTAAATTAACTTGCAAGCAATCTCTTAG
Done.