Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 282 of 318
Found at i:90228035 original size:61 final size:61
Alignment explanation
Indices: 90227969--90228136 Score: 169
Period size: 61 Copynumber: 2.7 Consensus size: 61
90227959 TTCAAAAATA
* * ** *
90227969 ATATTATTTTAATAGATTTAATATTAAATTTAATTTAATACTTATCTAT-TTTATTAATTTT
1 ATATTAATTTAATAGATTTAATATTAAATTTAATTTAATATTTATCT-TCTAAATAAATTTT
** * * * * *
90228030 ATATTAAAGTGAT-TATATTAATATTTAATTTAATTTAATTTTTGTCTTCTAAATAAATTTT
1 ATATTAATTTAATAGAT-TTAATATTAAATTTAATTTAATATTTATCTTCTAAATAAATTTT
* *
90228091 CTATTAATTTAATAAGATTTAATATTAAATTTAATCTAATATTTAT
1 ATATTAATTTAAT-AGATTTAATATTAAATTTAATTTAATATTTAT
90228137 ATTGATAAGT
Statistics
Matches: 82, Mismatches: 21, Indels: 7
0.75 0.19 0.06
Matches are distributed among these distances:
60 3 0.04
61 53 0.65
62 24 0.29
63 2 0.02
ACGTcount: A:0.39, C:0.04, G:0.03, T:0.54
Consensus pattern (61 bp):
ATATTAATTTAATAGATTTAATATTAAATTTAATTTAATATTTATCTTCTAAATAAATTTT
Found at i:90230038 original size:16 final size:16
Alignment explanation
Indices: 90230014--90230044 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
90230004 ATTAAAATAT
*
90230014 TAAGGACTAAAATGTA
1 TAAGAACTAAAATGTA
90230030 TAAGAACTAAAATGT
1 TAAGAACTAAAATGT
90230045 TGCTTTTGGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.06, G:0.16, T:0.26
Consensus pattern (16 bp):
TAAGAACTAAAATGTA
Found at i:90236090 original size:24 final size:25
Alignment explanation
Indices: 90236021--90236094 Score: 71
Period size: 24 Copynumber: 3.0 Consensus size: 25
90236011 TGTAAGCTTG
* *
90236021 TAACGGAAAGCTTATCTGG-GCTTAA
1 TAACAGAAAGCTTAT-AGGAGCTTAA
* *
90236046 TAACAGGAAGCTTATAAGAGCTTAA
1 TAACAGAAAGCTTATAGGAGCTTAA
* *
90236071 -ATCAGAAAGCTTATGGGAGCTTAA
1 TAACAGAAAGCTTATAGGAGCTTAA
90236095 CGGGTAACTC
Statistics
Matches: 40, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
24 21 0.52
25 19 0.47
ACGTcount: A:0.38, C:0.14, G:0.23, T:0.26
Consensus pattern (25 bp):
TAACAGAAAGCTTATAGGAGCTTAA
Found at i:90242438 original size:15 final size:15
Alignment explanation
Indices: 90242418--90242448 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
90242408 ACACAAAGCC
90242418 TCATAAGGTGTCATT
1 TCATAAGGTGTCATT
90242433 TCATAAGGTGTCATT
1 TCATAAGGTGTCATT
90242448 T
1 T
90242449 GGATGATAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.26, C:0.13, G:0.19, T:0.42
Consensus pattern (15 bp):
TCATAAGGTGTCATT
Found at i:90253869 original size:20 final size:20
Alignment explanation
Indices: 90253827--90253875 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
90253817 TCCCCCTTAA
* *
90253827 ATTGTTTTATTTATAAGATT
1 ATTGTTTTATTTATAAAAAT
90253847 ATTGTTTTATTTATAAAAAT
1 ATTGTTTTATTTATAAAAAT
*
90253867 ATTATTTTA
1 ATTGTTTTA
90253876 ATAATTAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.59
Consensus pattern (20 bp):
ATTGTTTTATTTATAAAAAT
Found at i:90261216 original size:11 final size:11
Alignment explanation
Indices: 90261202--90261247 Score: 51
Period size: 11 Copynumber: 4.3 Consensus size: 11
90261192 AAATGGTAGC
90261202 AAAATAAGAAA
1 AAAATAAGAAA
* *
90261213 AAAACAATAAA
1 AAAATAAGAAA
90261224 AAAAT-AGCAAA
1 AAAATAAG-AAA
90261235 AAAA-AAGAAA
1 AAAATAAGAAA
90261245 AAA
1 AAA
90261248 GAAAACTGAA
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
10 7 0.24
11 22 0.76
ACGTcount: A:0.83, C:0.04, G:0.07, T:0.07
Consensus pattern (11 bp):
AAAATAAGAAA
Found at i:90261227 original size:22 final size:21
Alignment explanation
Indices: 90261202--90261247 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 21
90261192 AAATGGTAGC
*
90261202 AAAATAAG-AAAAAAACAATAAA
1 AAAAT-AGCAAAAAAA-AAGAAA
90261224 AAAATAGCAAAAAAAAAGAAA
1 AAAATAGCAAAAAAAAAGAAA
90261245 AAA
1 AAA
90261248 GAAAACTGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.83, C:0.04, G:0.07, T:0.07
Consensus pattern (21 bp):
AAAATAGCAAAAAAAAAGAAA
Found at i:90262626 original size:18 final size:17
Alignment explanation
Indices: 90262592--90262678 Score: 61
Period size: 18 Copynumber: 4.9 Consensus size: 17
90262582 AAATGGTAAC
*
90262592 AATTTATTTTAAATTTTG
1 AATTTA-TTTAATTTTTG
* *
90262610 AATATTATTTAGTTTTTTT
1 AAT-TTATTTA-ATTTTTG
* *
90262629 CATTTATGT-ATTTTT-
1 AATTTATTTAATTTTTG
*
90262644 AATTAATTTTAATTTTTG
1 AATTTA-TTTAATTTTTG
90262662 AATATTATTTAATTTTT
1 AAT-TTATTTAATTTTT
90262679 TTTTCATTTA
Statistics
Matches: 53, Mismatches: 10, Indels: 12
0.71 0.13 0.16
Matches are distributed among these distances:
15 4 0.08
16 7 0.13
17 6 0.11
18 25 0.47
19 11 0.21
ACGTcount: A:0.30, C:0.01, G:0.05, T:0.64
Consensus pattern (17 bp):
AATTTATTTAATTTTTG
Found at i:90262654 original size:52 final size:54
Alignment explanation
Indices: 90262592--90262706 Score: 180
Period size: 54 Copynumber: 2.2 Consensus size: 54
90262582 AAATGGTAAC
* *
90262592 AATTTATTTTAAATTTTGAATATTATTT-A-GTTTTTTTCATTTATGTATTTTT
1 AATTAATTTTAAATTTTGAATATTATTTAATGTTTTTTTCATTTATGTAATTTT
* *
90262644 AATTAATTTTAATTTTTGAATATTATTTAATTTTTTTTTCATTTATGTAATTTT
1 AATTAATTTTAAATTTTGAATATTATTTAATGTTTTTTTCATTTATGTAATTTT
90262698 AATTAATTT
1 AATTAATTT
90262707 GTATTTTATA
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
52 26 0.46
53 1 0.02
54 30 0.53
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.64
Consensus pattern (54 bp):
AATTAATTTTAAATTTTGAATATTATTTAATGTTTTTTTCATTTATGTAATTTT
Found at i:90264063 original size:31 final size:31
Alignment explanation
Indices: 90264025--90264090 Score: 105
Period size: 31 Copynumber: 2.1 Consensus size: 31
90264015 CATCCAAGAG
*
90264025 TTAGCGTGCACCCCGGATTACATACCATGGT
1 TTAGCGTGCACCCCGAATTACATACCATGGT
* *
90264056 TTAGCGTGCACCCCGAATTATATGCCATGGT
1 TTAGCGTGCACCCCGAATTACATACCATGGT
90264087 TTAG
1 TTAG
90264091 GATCTATAGC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.29
Consensus pattern (31 bp):
TTAGCGTGCACCCCGAATTACATACCATGGT
Found at i:90264312 original size:18 final size:18
Alignment explanation
Indices: 90264289--90264325 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
90264279 TGCCAGGTGC
*
90264289 TATCCTAGCCCTTATATG
1 TATCCTAACCCTTATATG
90264307 TATCCTAACCCTTATATG
1 TATCCTAACCCTTATATG
90264325 T
1 T
90264326 TTCTTTTTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.24, C:0.27, G:0.08, T:0.41
Consensus pattern (18 bp):
TATCCTAACCCTTATATG
Found at i:90270715 original size:46 final size:44
Alignment explanation
Indices: 90270663--90270748 Score: 127
Period size: 44 Copynumber: 1.9 Consensus size: 44
90270653 ACAGAAATGA
*
90270663 GCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGGATTGG
1 GCCATGTAAGTCCATATT--AAATATGGCATTGGAGACAGGATTGG
* *
90270709 GCCATGTAAGTCCATATTATATATGGCATTGGAGATAGGA
1 GCCATGTAAGTCCATATTAAATATGGCATTGGAGACAGGA
90270749 ATAATTCATG
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
44 19 0.51
46 18 0.49
ACGTcount: A:0.31, C:0.13, G:0.27, T:0.29
Consensus pattern (44 bp):
GCCATGTAAGTCCATATTAAATATGGCATTGGAGACAGGATTGG
Found at i:90270759 original size:44 final size:45
Alignment explanation
Indices: 90270653--90270786 Score: 126
Period size: 46 Copynumber: 3.0 Consensus size: 45
90270643 ACAGGACAGA
* * *
90270653 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATAAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* ** *
90270699 ACAGGATTGGGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATAAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
90270743 ATAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATAAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
90270787 CAGGGTATTG
Statistics
Matches: 71, Mismatches: 15, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
44 34 0.48
45 1 0.01
46 36 0.51
ACGTcount: A:0.34, C:0.13, G:0.25, T:0.28
Consensus pattern (45 bp):
ACAGGAATAAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:90275359 original size:27 final size:27
Alignment explanation
Indices: 90275329--90275402 Score: 121
Period size: 27 Copynumber: 2.7 Consensus size: 27
90275319 AAATGGTACT
*
90275329 AGTGCCGCCTATCAGATATGGGTCACC
1 AGTGCCGCCTATCAGATAGGGGTCACC
*
90275356 AGTGCCGCCTATCAGATAGGGGTCACT
1 AGTGCCGCCTATCAGATAGGGGTCACC
*
90275383 GGTGCCGCCTATCAGATAGG
1 AGTGCCGCCTATCAGATAGG
90275403 CACGATACCC
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 44 1.00
ACGTcount: A:0.22, C:0.27, G:0.30, T:0.22
Consensus pattern (27 bp):
AGTGCCGCCTATCAGATAGGGGTCACC
Found at i:90279204 original size:26 final size:25
Alignment explanation
Indices: 90279154--90279205 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 25
90279144 GATGATTATT
*
90279154 ATTATTGTTATTAAATTTTAATAAA
1 ATTATTGTTAATAAATTTTAATAAA
* *
90279179 ATTATTGTTAAATATATTTTATTAAA
1 ATTATTGTT-AATAAATTTTAATAAA
90279205 A
1 A
90279206 ATAATAAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 9 0.39
26 14 0.61
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (25 bp):
ATTATTGTTAATAAATTTTAATAAA
Found at i:90281189 original size:91 final size:91
Alignment explanation
Indices: 90281029--90281211 Score: 339
Period size: 91 Copynumber: 2.0 Consensus size: 91
90281019 ATTTATGATA
* *
90281029 TTCGATTCATCGTCATCTATCACATTACTAGGTAATCCTTCTCCCAACTCCTCTTCAATAGGAGA
1 TTCGATTCATCGTCATCTATCACAGTACTAGGTAATCCTTCTCCCAACTCCGCTTCAATAGGAGA
90281094 AAGACTCATATAAGTTCGAATAAAAT
66 AAGACTCATATAAGTTCGAATAAAAT
*
90281120 TTCGGTTCATCGTCATCTATCACAGTACTAGGTAATCCTTCTCCCAACTCCGCTTCAATAGGAGA
1 TTCGATTCATCGTCATCTATCACAGTACTAGGTAATCCTTCTCCCAACTCCGCTTCAATAGGAGA
90281185 AAGACTCATATAAGTTCGAATAAAAT
66 AAGACTCATATAAGTTCGAATAAAAT
90281211 T
1 T
90281212 ATGGAGCAAA
Statistics
Matches: 89, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
91 89 1.00
ACGTcount: A:0.32, C:0.24, G:0.13, T:0.31
Consensus pattern (91 bp):
TTCGATTCATCGTCATCTATCACAGTACTAGGTAATCCTTCTCCCAACTCCGCTTCAATAGGAGA
AAGACTCATATAAGTTCGAATAAAAT
Found at i:90283753 original size:18 final size:18
Alignment explanation
Indices: 90283730--90283766 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
90283720 ATAAAACAAG
*
90283730 ACCTCCTCTAATCTATCA
1 ACCTCCTCTAATCCATCA
90283748 ACCTCCTCTAATCCATCA
1 ACCTCCTCTAATCCATCA
90283766 A
1 A
90283767 TTATTAGTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.30, C:0.41, G:0.00, T:0.30
Consensus pattern (18 bp):
ACCTCCTCTAATCCATCA
Found at i:90285267 original size:21 final size:21
Alignment explanation
Indices: 90285241--90285281 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
90285231 TCATTTAGGC
90285241 ACAATTTGCTTTGCTAGTTTT
1 ACAATTTGCTTTGCTAGTTTT
90285262 ACAATTTGCTTTGCTAGTTT
1 ACAATTTGCTTTGCTAGTTT
90285282 ATATCCAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.20, C:0.15, G:0.15, T:0.51
Consensus pattern (21 bp):
ACAATTTGCTTTGCTAGTTTT
Found at i:90298896 original size:10 final size:10
Alignment explanation
Indices: 90298869--90298918 Score: 50
Period size: 10 Copynumber: 5.0 Consensus size: 10
90298859 TTAAATTCTA
*
90298869 AAAGATAATT
1 AAAGATAAAT
90298879 ACAA-ATAAAT
1 A-AAGATAAAT
*
90298889 AAAGATAATT
1 AAAGATAAAT
90298899 AAAGATAAAT
1 AAAGATAAAT
90298909 GAAA-ATAAAT
1 -AAAGATAAAT
90298919 CCTAAAATTA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
9 2 0.06
10 27 0.79
11 5 0.15
ACGTcount: A:0.66, C:0.02, G:0.08, T:0.24
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:90298916 original size:20 final size:20
Alignment explanation
Indices: 90298869--90298908 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
90298859 TTAAATTCTA
90298869 AAAGATAATTACAAATAAAT
1 AAAGATAATTACAAATAAAT
90298889 AAAGATAATTA-AAGATAAAT
1 AAAGATAATTACAA-ATAAAT
90298909 GAAAATAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.11
20 17 0.89
ACGTcount: A:0.65, C:0.03, G:0.07, T:0.25
Consensus pattern (20 bp):
AAAGATAATTACAAATAAAT
Found at i:90305896 original size:34 final size:34
Alignment explanation
Indices: 90305851--90305915 Score: 112
Period size: 34 Copynumber: 1.9 Consensus size: 34
90305841 TTCAGTACAT
*
90305851 AATGGGCTGTACAAGCTTAACCTAATTAACTGTC
1 AATGGGCTGTACAAGCTTAACCTAACTAACTGTC
*
90305885 AATGGGTTGTACAAGCTTAACCTAACTAACT
1 AATGGGCTGTACAAGCTTAACCTAACTAACT
90305916 CGTCCTACAC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (34 bp):
AATGGGCTGTACAAGCTTAACCTAACTAACTGTC
Found at i:90308789 original size:30 final size:30
Alignment explanation
Indices: 90308754--90308811 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
90308744 CACGTCCATG
* *
90308754 ACACACGGGCGTGTAG-TCTACCCGTGTGTC
1 ACACACGGGCATGTGGCTC-ACCCGTGTGTC
90308784 ACACACGGGCATGTGGCTCACCCGTGTG
1 ACACACGGGCATGTGGCTCACCCGTGTG
90308812 GAAGTGCCTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 23 0.92
31 2 0.08
ACGTcount: A:0.17, C:0.31, G:0.31, T:0.21
Consensus pattern (30 bp):
ACACACGGGCATGTGGCTCACCCGTGTGTC
Found at i:90323506 original size:205 final size:205
Alignment explanation
Indices: 90323134--90323617 Score: 675
Period size: 205 Copynumber: 2.4 Consensus size: 205
90323124 GGGAACATCC
* * * * *
90323134 GAAAGTCAAATCTGCTATGTCTTTGATTTGTTCCTTGTAAGCACAAGGATGCCAGATCC-TATTG
1 GAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCA-AACCATCTTG
* * * ** *
90323198 GATCTAGCTTCAATATAAACATCTGAAGGTCAGATCTGCTATGTATCTGCTCTCCATTGAAGTGG
65 GATC-AGCTTCAACATAAACATCCGAAGGTCAGATCTACTATGTATCTGCTCTCCATCAAAGTGA
* * *
90323263 AGATGCCAGACTTCGATTTGTTCTCTGAAAATACAGAGACGACAAATCATCTTAGATTTGTTTCA
129 AGATGCCAAACTTCGATTCGTTCTCTGAAAATACAGAGACGACAAATCATCTTAGATTTGCTTCA
90323328 ACGTAAACACGT
194 ACGTAAACACGT
*
90323340 GAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTTGG
1 GAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGG
* * * *
90323405 ATCCGCTTCAGCATAAACATCCGAAGG-CGAGATCTACTATGTGTTTGCTCTCCATCAAAGTGAA
66 ATCAGCTTCAACATAAACATCCGAAGGTC-AGATCTACTATGTATCTGCTCTCCATCAAAGTGAA
* * *
90323469 GATGCCAAACTTTGATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCAT
130 GATGCCAAACTTCGATTCGTTCTCTGAAAATACAGAGACGACAAATCATCTTAGATTTGCTTCAA
** *
90323534 CGTAAGTATGT
195 CGTAAACACGT
* *
90323545 GAAAGCCAAATCAGCTATGCCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTTGG
1 GAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGG
*
90323610 ATCTGCTT
66 ATCAGCTT
90323618 TAACCAGATC
Statistics
Matches: 247, Mismatches: 29, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
204 1 0.00
205 188 0.76
206 58 0.23
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.31
Consensus pattern (205 bp):
GAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGG
ATCAGCTTCAACATAAACATCCGAAGGTCAGATCTACTATGTATCTGCTCTCCATCAAAGTGAAG
ATGCCAAACTTCGATTCGTTCTCTGAAAATACAGAGACGACAAATCATCTTAGATTTGCTTCAAC
GTAAACACGT
Found at i:90323831 original size:87 final size:86
Alignment explanation
Indices: 90323735--90323977 Score: 297
Period size: 88 Copynumber: 2.8 Consensus size: 86
90323725 CAACCTATTA
* **
90323735 CCCTACTGCTTAGGGATTTAAGGTCTGTAAATTTGGCTTGTTACCCTACTGCTTAGGGGGTTAAA
1 CCCTACTGCTTAGGG-TTTAAGATCTGTAAATTCAGCTTGTTACCCTACTGCTTAGGGGGTTAAA
* * *
90323800 GCTCATTATCTTTGATCTGTTT
65 GCTCATCACCTTCGATCTGTTT
* * *
90323822 CCCTACTGCTTAGGGTGATAAGATCTATGAACTTCAGCTTGTTACCCTACTGCTTAGGGGGTTAA
1 CCCTACTGCTTAGGGT-TTAAGATCTGT-AAATTCAGCTTGTTACCCTACTGCTTAGGGGGTTAA
* *
90323887 AGCTCGTCGCCTTCGATCTGTTT
64 AGCTCATCACCTTCGATCTGTTT
* * * * * *
90323910 CCCTATTGCCTAGGGGGTTAAGATCTGTAAATTCAACCTGTTACCCTCCTGCTTAGGGGGTTAAA
1 CCCTACTGCTTA-GGGTTTAAGATCTGTAAATTCAGCTTGTTACCCTACTGCTTAGGGGGTTAAA
90323975 GCT
65 GCT
90323978 TGGTGAATTC
Statistics
Matches: 133, Mismatches: 20, Indels: 6
0.84 0.13 0.04
Matches are distributed among these distances:
86 1 0.01
87 59 0.44
88 70 0.53
89 3 0.02
ACGTcount: A:0.20, C:0.22, G:0.23, T:0.35
Consensus pattern (86 bp):
CCCTACTGCTTAGGGTTTAAGATCTGTAAATTCAGCTTGTTACCCTACTGCTTAGGGGGTTAAAG
CTCATCACCTTCGATCTGTTT
Found at i:90323968 original size:43 final size:43
Alignment explanation
Indices: 90323686--90323973 Score: 177
Period size: 44 Copynumber: 6.6 Consensus size: 43
90323676 CGCATTTGAT
* * ** *
90323686 CTGTTTCCCTATTGCTTAGGGGGTTTTGAT-TCGTACATTCAAC
1 CTGTTACCCTACTGCTTAGGGGGTTAAGATCT-GTAAATTCAAC
* ** * ***
90323729 CTATTACCCTACTGCTTAGGGATTTAAGGTCTGTAAATTTGGC
1 CTGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAAC
* * ** ** *
90323772 TTGTTACCCTACTGCTTAGGGGGTTAAAGCTCAT-TATCTTTGAT
1 CTGTTACCCTACTGCTTAGGGGGTT-AAGATC-TGTAAATTCAAC
* * * * * *
90323816 CTGTTTCCCTACTGCTTAGGGTGATAAGATCTATGAACTTCAGC
1 CTGTTACCCTACTGCTTAGGGGGTTAAGATCTGT-AAATTCAAC
* * *** * *
90323860 TTGTTACCCTACTGCTTAGGGGGTTAA-AGCTCGTCGCCTTCGAT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGATCT-GT-AAATTCAAC
* * *
90323904 CTGTTTCCCTATTGCCTAGGGGGTTAAGATCTGTAAATTCAAC
1 CTGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAAC
*
90323947 CTGTTACCCTCCTGCTTAGGGGGTTAA
1 CTGTTACCCTACTGCTTAGGGGGTTAA
90323974 AGCTTGGTGA
Statistics
Matches: 181, Mismatches: 57, Indels: 14
0.72 0.23 0.06
Matches are distributed among these distances:
42 1 0.01
43 86 0.48
44 90 0.50
45 4 0.02
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.37
Consensus pattern (43 bp):
CTGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAAC
Found at i:90336206 original size:22 final size:20
Alignment explanation
Indices: 90336165--90336207 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 20
90336155 GATAATAGAT
*
90336165 ATAAAATTTTAAAGTAAATA
1 ATAAAATTTTAAAATAAATA
*
90336185 ATAAAATGATTTAAAATGAATA
1 ATAAAAT--TTTAAAATAAATA
90336207 A
1 A
90336208 CACATAAAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 7 0.37
22 12 0.63
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (20 bp):
ATAAAATTTTAAAATAAATA
Found at i:90338164 original size:215 final size:215
Alignment explanation
Indices: 90337793--90338223 Score: 826
Period size: 215 Copynumber: 2.0 Consensus size: 215
90337783 CGCGTGGAAG
*
90337793 AGGCGACGGTCAAGGGCGTGGTGGCCGAGGTGGCATGCGCGGTGGTTCAGCATGCGTGGGGTAAG
1 AGGCGACGGTCAAGGGCGTGGTGGCCGAGGTGGCATGCGCGGTGGTTCAGCATGCATGGGGTAAG
*
90337858 CGGCGGCTGAAGAAAGAGGCTAAGGTTGCTGAAACAATTTGGGTAGTTGGGCTAGGGTTAGTTTT
66 CGGCGGCTGAAGAAAGAGACTAAGGTTGCTGAAACAATTTGGGTAGTTGGGCTAGGGTTAGTTTT
*
90337923 AGGCCTATTGGGTCTGGGCTTGTGAAATTATTTGTTGGGCTGTTATATTTTATTTTTTTATGGGC
131 AGGCCTATTGGGTCTGGGCTTGTGAAATTATTTGTTGGGCTGTTATATTTTATTTGTTTATGGGC
90337988 CCGGGCAATATTGGGCTTGT
196 CCGGGCAATATTGGGCTTGT
*
90338008 AGGCGACGGTCAAGGGCGTGGTGGCTGAGGTGGCATGCGCGGTGGTTCAGCATGCATGGGGTAAG
1 AGGCGACGGTCAAGGGCGTGGTGGCCGAGGTGGCATGCGCGGTGGTTCAGCATGCATGGGGTAAG
90338073 CGGCGGCTGAAGAAAGAGACTAAGGTTGCTGAAACAATTTGGGTAGTTGGGCTAGGGTTAGTTTT
66 CGGCGGCTGAAGAAAGAGACTAAGGTTGCTGAAACAATTTGGGTAGTTGGGCTAGGGTTAGTTTT
90338138 AGGCCTATTGGGTCTGGGCTTGTGAAATTATTTGTTGGGCTGTTATATTTTATTTGTTTATGGGC
131 AGGCCTATTGGGTCTGGGCTTGTGAAATTATTTGTTGGGCTGTTATATTTTATTTGTTTATGGGC
90338203 CCGGGCAATATTGGGCTTGT
196 CCGGGCAATATTGGGCTTGT
90338223 A
1 A
90338224 CACAAATTTT
Statistics
Matches: 212, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
215 212 1.00
ACGTcount: A:0.19, C:0.13, G:0.37, T:0.31
Consensus pattern (215 bp):
AGGCGACGGTCAAGGGCGTGGTGGCCGAGGTGGCATGCGCGGTGGTTCAGCATGCATGGGGTAAG
CGGCGGCTGAAGAAAGAGACTAAGGTTGCTGAAACAATTTGGGTAGTTGGGCTAGGGTTAGTTTT
AGGCCTATTGGGTCTGGGCTTGTGAAATTATTTGTTGGGCTGTTATATTTTATTTGTTTATGGGC
CCGGGCAATATTGGGCTTGT
Found at i:90350480 original size:45 final size:45
Alignment explanation
Indices: 90350426--90350587 Score: 197
Period size: 45 Copynumber: 3.7 Consensus size: 45
90350416 CTGATGTCTT
90350426 AGACATGGTCTTACACGTAACCACATATATCGATGCCAACGTCCC
1 AGACATGGTCTTACACGTAACCACATATATCGATGCCAACGTCCC
* * * * * * *
90350471 AGACGTGGTCTTACACG-AATC-GA-ATA-CGATACCGATGTCTC
1 AGACATGGTCTTACACGTAACCACATATATCGATGCCAACGTCCC
*
90350512 AGACATGGTCTTACACGTAACCACATATATCGATGCCAACGTCCT
1 AGACATGGTCTTACACGTAACCACATATATCGATGCCAACGTCCC
* * *
90350557 AGACATGGTCTTACATGAAATCACATATATC
1 AGACATGGTCTTACACGTAACCACATATATC
90350588 AAAATCCTAT
Statistics
Matches: 95, Mismatches: 18, Indels: 8
0.79 0.15 0.07
Matches are distributed among these distances:
41 27 0.28
42 6 0.06
43 2 0.02
44 6 0.06
45 54 0.57
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.25
Consensus pattern (45 bp):
AGACATGGTCTTACACGTAACCACATATATCGATGCCAACGTCCC
Found at i:90350491 original size:86 final size:86
Alignment explanation
Indices: 90350366--90350571 Score: 308
Period size: 86 Copynumber: 2.4 Consensus size: 86
90350356 ATGCTATCTC
* * * * * *
90350366 ATATCGATGTC-ACTGTCCCAGACAG-GGTCTTACATGAATCGAATTCGATGCTGATGTCTTAGA
1 ATATCGATGCCAAC-GTCCCAGAC-GTGGTCTTACACGAATCGAATACGATACCGATGTCTCAGA
90350429 CATGGTCTTACACGTAACCACAT
64 CATGGTCTTACACGTAACCACAT
90350452 ATATCGATGCCAACGTCCCAGACGTGGTCTTACACGAATCGAATACGATACCGATGTCTCAGACA
1 ATATCGATGCCAACGTCCCAGACGTGGTCTTACACGAATCGAATACGATACCGATGTCTCAGACA
90350517 TGGTCTTACACGTAACCACAT
66 TGGTCTTACACGTAACCACAT
* *
90350538 ATATCGATGCCAACGTCCTAGACATGGTCTTACA
1 ATATCGATGCCAACGTCCCAGACGTGGTCTTACA
90350572 TGAAATCACA
Statistics
Matches: 110, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
85 1 0.01
86 107 0.97
87 2 0.02
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (86 bp):
ATATCGATGCCAACGTCCCAGACGTGGTCTTACACGAATCGAATACGATACCGATGTCTCAGACA
TGGTCTTACACGTAACCACAT
Found at i:90350523 original size:41 final size:41
Alignment explanation
Indices: 90350379--90350571 Score: 152
Period size: 45 Copynumber: 4.5 Consensus size: 41
90350369 TCGATGTCAC
* * * *
90350379 TGTCCCAGACAGGGTCTTACATGAATCGAATTCGATGCTGA
1 TGTCCCAGACATGGTCTTACACGAATCGAATACGATGCCGA
** * * *
90350420 TGTCTTAGACATGGTCTTACACGTAACCACATATATCGATGCCAA
1 TGTCCCAGACATGGTCTTACACG-AATC-GA-ATA-CGATGCCGA
* * *
90350465 CGTCCCAGACGTGGTCTTACACGAATCGAATACGATACCGA
1 TGTCCCAGACATGGTCTTACACGAATCGAATACGATGCCGA
* * * *
90350506 TGTCTCAGACATGGTCTTACACGTAACCACATATATCGATGCCAA
1 TGTCCCAGACATGGTCTTACACG-AATC-GA-ATA-CGATGCCGA
* *
90350551 CGTCCTAGACATGGTCTTACA
1 TGTCCCAGACATGGTCTTACA
90350572 TGAAATCACA
Statistics
Matches: 117, Mismatches: 27, Indels: 12
0.75 0.17 0.08
Matches are distributed among these distances:
41 46 0.39
42 9 0.08
43 3 0.03
44 8 0.07
45 51 0.44
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (41 bp):
TGTCCCAGACATGGTCTTACACGAATCGAATACGATGCCGA
Found at i:90351701 original size:14 final size:15
Alignment explanation
Indices: 90351684--90351712 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
90351674 TCATGAAAAT
90351684 TTCACACAT-ATAAA
1 TTCACACATAATAAA
90351698 TTCACACATAATAAA
1 TTCACACATAATAAA
90351713 CACAGAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:90352542 original size:15 final size:16
Alignment explanation
Indices: 90352515--90352551 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
90352505 ATCAATTAGC
*
90352515 CACATACCAAACAACT
1 CACATACCAAACAAAT
90352531 CACATA-CAAACAAAT
1 CACATACCAAACAAAT
90352546 CACATA
1 CACATA
90352552 TAGTAGACTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 14 0.70
16 6 0.30
ACGTcount: A:0.54, C:0.32, G:0.00, T:0.14
Consensus pattern (16 bp):
CACATACCAAACAAAT
Found at i:90352951 original size:36 final size:36
Alignment explanation
Indices: 90352901--90352979 Score: 104
Period size: 36 Copynumber: 2.2 Consensus size: 36
90352891 CTACCTACAT
* * **
90352901 GGTCTGCACGATTTCACAAGATTGTGTGGCCCACAC
1 GGTCTACACAATTTCACAAGACCGTGTGGCCCACAC
* *
90352937 GGTCTACACAATTTCACACGACCGTGTGGTCCACAC
1 GGTCTACACAATTTCACAAGACCGTGTGGCCCACAC
90352973 GGTCTAC
1 GGTCTAC
90352980 CTACACAATC
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.23, C:0.30, G:0.23, T:0.24
Consensus pattern (36 bp):
GGTCTACACAATTTCACAAGACCGTGTGGCCCACAC
Found at i:90355157 original size:3 final size:3
Alignment explanation
Indices: 90355149--90355198 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
90355139 CACATCTTTT
90355149 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
90355197 TA
1 TA
90355199 GTGATAATTA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:90357237 original size:13 final size:13
Alignment explanation
Indices: 90357198--90357241 Score: 61
Period size: 13 Copynumber: 3.3 Consensus size: 13
90357188 ATCCTAACAC
90357198 AATTTTAATTTTA
1 AATTTTAATTTTA
*
90357211 ATATTTTTATTTTA
1 A-ATTTTAATTTTA
*
90357225 AATTCTAATTTTA
1 AATTTTAATTTTA
90357238 AATT
1 AATT
90357242 GATAGATTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
13 15 0.56
14 12 0.44
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.61
Consensus pattern (13 bp):
AATTTTAATTTTA
Found at i:90357311 original size:20 final size:21
Alignment explanation
Indices: 90357286--90357324 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
90357276 TTTATGGAAA
*
90357286 TTTAATTTA-AATAATATATT
1 TTTAATTTATAAAAATATATT
90357306 TTTAATTTATAAAAATATA
1 TTTAATTTATAAAAATATA
90357325 GTTTAAAGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
TTTAATTTATAAAAATATATT
Found at i:90357329 original size:20 final size:20
Alignment explanation
Indices: 90357286--90357330 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
90357276 TTTATGGAAA
* *
90357286 TTTAATTTAAATAATATATT
1 TTTAATTTAAAAAATATATG
90357306 TTTAATTTATAAAAATATA-G
1 TTTAATTTA-AAAAATATATG
90357326 TTTAA
1 TTTAA
90357331 AGTTCAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 14 0.64
21 8 0.36
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (20 bp):
TTTAATTTAAAAAATATATG
Found at i:90357804 original size:10 final size:10
Alignment explanation
Indices: 90357791--90357816 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
90357781 TTTTTAAAAT
90357791 ATTTTTTATA
1 ATTTTTTATA
90357801 ATTTTTTATA
1 ATTTTTTATA
90357811 ATTTTT
1 ATTTTT
90357817 AAATTTAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (10 bp):
ATTTTTTATA
Found at i:90372033 original size:18 final size:18
Alignment explanation
Indices: 90372012--90372054 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
90372002 TCCTTCTCTG
*
90372012 TTTTTTTCTATTCT-TTTC
1 TTTTATTCT-TTCTGTTTC
*
90372030 TTTTATTCTTTTTGTTTC
1 TTTTATTCTTTCTGTTTC
90372048 TTTTATT
1 TTTTATT
90372055 ATTGTTATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 3 0.14
18 19 0.86
ACGTcount: A:0.07, C:0.12, G:0.02, T:0.79
Consensus pattern (18 bp):
TTTTATTCTTTCTGTTTC
Found at i:90387356 original size:30 final size:28
Alignment explanation
Indices: 90387275--90387357 Score: 78
Period size: 30 Copynumber: 2.8 Consensus size: 28
90387265 TATATACATA
*
90387275 TGTACATAAAATATACACTAATATAATAAT
1 TGTA-ATAATATATACAC-AATATAATAAT
* *
90387305 AGTTATAATA-ATACTAGCAATAGTAATAATT
1 TGTAATAATATATAC-A-CAATA-TAATAA-T
90387336 TGTAATAATATATACACAATAT
1 TGTAATAATATATACACAATAT
90387358 GGTATTTAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 11
0.73 0.08 0.19
Matches are distributed among these distances:
28 4 0.09
29 11 0.26
30 14 0.33
31 10 0.23
32 4 0.09
ACGTcount: A:0.51, C:0.08, G:0.06, T:0.35
Consensus pattern (28 bp):
TGTAATAATATATACACAATATAATAAT
Found at i:90388711 original size:88 final size:85
Alignment explanation
Indices: 90388595--90389028 Score: 327
Period size: 88 Copynumber: 5.0 Consensus size: 85
90388585 GACTCTCTAA
* *
90388595 AAACAGACATTAAAAACAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACCTCT
1 AAACAGA-ATTAAAAACAGATATTGAAAATACCTC-GCACGTGAGCCAAGGCTCAACTCACCTCT
90388660 CGCAATATGAGTTGATTTTTTG
64 CGCAATATGAGTTGATTTTTTG
** * * * * * *
90388682 AAACTTAACTTGAAAAGCAGATTTTGAAAATACCTCGATATGTGA-CTGAAGGTTCAACTCACCT
1 AAACAGAA-TT-AAAAACAGATATTGAAAATACCTCG-CACGTGAGC-CAAGGCTCAACTCACCT
90388746 CTCGCAATATGAGTTGA-TTTTTG
62 CTCGCAATATGAGTTGATTTTTTG
** * * * ** *** *
90388769 AAAAACAGAAATTAAAAGACTCA-ACT-CAACT--CTCGCA-GAAATTAAAAAGCTCAACTCACC
1 --AAACAG-AATTAAAA-ACAGATATTGAAAATACCTCGCACGTGA-GCCAAGGCTCAACTCACC
90388829 TCTCGCAATATGAGTTGAATTTTTTTG
61 TCTCGCAATATGAGTTG-A-TTTTTTG
* * *
90388856 -AA-A-AA--AAAAACAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACTTCTC
1 AAACAGAATTAAAAACAGATATTGAAAATACCTC-GCACGTGAGCCAAGGCTCAACTCACCTCTC
90388916 GCAATATGAGTTGA-TTTTTG
65 GCAATATGAGTTGATTTTTTG
* * * * *
90388936 AAAACAGAATCTGAAAAACAGATTTTGAAAATACCTCGACATGTGACCCGAGGCTCAACTCACAT
1 -AAACAGAAT-T-AAAAACAGATATTGAAAATACCTCG-CACGTGAGCCAAGGCTCAACTCACCT
* *
90389001 ATCGCAATGTGAGTTGATTTTTTTG
62 CTCGCAATATGAGTTGA-TTTTTTG
90389026 AAA
1 AAA
90389029 AATATAAATT
Statistics
Matches: 270, Mismatches: 47, Indels: 58
0.72 0.13 0.15
Matches are distributed among these distances:
78 3 0.01
79 6 0.02
80 9 0.03
81 2 0.01
82 6 0.02
83 37 0.14
84 37 0.14
85 5 0.02
86 1 0.00
87 25 0.09
88 120 0.44
89 11 0.04
90 8 0.03
ACGTcount: A:0.38, C:0.19, G:0.16, T:0.27
Consensus pattern (85 bp):
AAACAGAATTAAAAACAGATATTGAAAATACCTCGCACGTGAGCCAAGGCTCAACTCACCTCTCG
CAATATGAGTTGATTTTTTG
Found at i:90388810 original size:30 final size:30
Alignment explanation
Indices: 90388774--90388835 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
90388764 TTTTGAAAAA
90388774 CAGAAATT-AAAAGACTCAACTCAACTCTCG
1 CAGAAATTAAAAAG-CTCAACTCAACTCTCG
*
90388804 CAGAAATTAAAAAGCTCAACTCACCTCTCG
1 CAGAAATTAAAAAGCTCAACTCAACTCTCG
90388834 CA
1 CA
90388836 ATATGAGTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 25 0.83
31 5 0.17
ACGTcount: A:0.42, C:0.29, G:0.10, T:0.19
Consensus pattern (30 bp):
CAGAAATTAAAAAGCTCAACTCAACTCTCG
Found at i:90389076 original size:79 final size:77
Alignment explanation
Indices: 90388947--90389201 Score: 262
Period size: 79 Copynumber: 3.3 Consensus size: 77
90388937 AAACAGAATC
** ** * * * * *
90388947 TGAAAAACAGATTTTGAAAATACCTC-GACATGTGACCCGAGGCTCAACTCACATATCGCAATGT
1 TGAAAAACAGAAATTGAAAATACCTCAG-CGCGTGAGCCAAGGCTCAACTCACTTCTCGCAATAT
90389011 GAGTTGATTTTTT
65 GAGTTGATTTTTT
* * * * * *
90389024 TGAAAAATATAAATTGAAAAAATACCTCAGTGTGTGATCTGAA-GCTCAACTCACTTCTCGCAAT
1 TGAAAAACAGAAATTG--AAAATACCTCAGCGCGTGAGC-CAAGGCTCAACTCACTTCTCGCAAT
90389088 ATGAGTTGATTTTTT
63 ATGAGTTGATTTTTT
* * *
90389103 TGAAAGACAGAAATTGAAAATAGCTCTGCGCGTGAGCCAAGGCTCAACTCACTTCTCGCAATATG
1 TGAAAAACAGAAATTGAAAATACCTCAGCGCGTGAGCCAAGGCTCAACTCACTTCTCGCAATATG
90389168 AGTTGATTTTTTTT
66 AGTTGA--TTTTTT
**
90389182 TGAAAGGCAGAAATTGAAAA
1 TGAAAAACAGAAATTGAAAA
90389202 ACGGAAATTG
Statistics
Matches: 149, Mismatches: 22, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
76 2 0.01
77 58 0.39
79 87 0.58
80 2 0.01
ACGTcount: A:0.35, C:0.17, G:0.18, T:0.30
Consensus pattern (77 bp):
TGAAAAACAGAAATTGAAAATACCTCAGCGCGTGAGCCAAGGCTCAACTCACTTCTCGCAATATG
AGTTGATTTTTT
Found at i:90389159 original size:77 final size:78
Alignment explanation
Indices: 90388986--90389201 Score: 265
Period size: 79 Copynumber: 2.7 Consensus size: 78
90388976 ATGTGACCCG
* * * * * *
90388986 AGGCTCAACTCACATATCGCAATGTGAGTTGATTTTTTTGAAAAATATAAATTGAAAAAATACCT
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTG--AAAATACCT
* * * *
90389051 CAGTGTGTGATCTGA
64 CAGCGCGTGAGCTCA
* *
90389066 A-GCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAATAGCTCT
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAATACCTCA
90389130 GCGCGTGAGC-CA
66 GCGCGTGAGCTCA
*
90389142 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTTTGAAAGGCAGAAATTGAAAA
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGA--TTTTTTTGAAAGACAGAAATTGAAAA
90389202 ACGGAAATTG
Statistics
Matches: 120, Mismatches: 13, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
76 2 0.02
77 46 0.38
79 71 0.59
80 1 0.01
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.31
Consensus pattern (78 bp):
AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAATACCTCA
GCGCGTGAGCTCA
Found at i:90389264 original size:93 final size:93
Alignment explanation
Indices: 90389102--90389273 Score: 238
Period size: 93 Copynumber: 1.8 Consensus size: 93
90389092 GTTGATTTTT
* * * * * *
90389102 TTGAAAGACAGAAATTGAAAATAGCTCTGCGCGTGAGCCAAGGCTCAACTCACTTCTCGCAATAT
1 TTGAAAAACAGAAATTGAAAATACCTCGGCGCGTGAGCCAAGGCTCAACTCACCTCTCACAATAC
90389167 GAGTTGATTTTTTTTTGAAAGGCAGAAA
66 GAGTTGATTTTTTTTTGAAAGGCAGAAA
* * * *
90389195 TTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGA-CCTGAGGCTCAACTCGCCTCTCACAATA
1 TTGAAAAACAGAAATTGAAAATACCTCGGCGCGTGAGCC-AAGGCTCAACTCACCTCTCACAATA
90389259 CGAGTTGATTTTTTT
65 CGAGTTGATTTTTTT
90389274 GACAACAGAA
Statistics
Matches: 68, Mismatches: 10, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
92 2 0.03
93 66 0.97
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.28
Consensus pattern (93 bp):
TTGAAAAACAGAAATTGAAAATACCTCGGCGCGTGAGCCAAGGCTCAACTCACCTCTCACAATAC
GAGTTGATTTTTTTTTGAAAGGCAGAAA
Found at i:90389268 original size:170 final size:165
Alignment explanation
Indices: 90389042--90389366 Score: 420
Period size: 170 Copynumber: 1.9 Consensus size: 165
90389032 ATAAATTGAA
* * * * *
90389042 AAAATACCTCAGTGTGTGATCTGAAGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTGAA
1 AAAATACCTCAGCGTGTGACCTGAAGCTCAACTCACCTCTCACAATACGAGTTGATTTTTTTGAA
*
90389107 AGACAGAAATTGAAAATAGCTCTGC-GCGTGAGC-CAAGGCTCAACTCACTTCTCGCAATATGAG
66 A-ACAGAAATTGAAAATA-C-CT-CAGCGTG-GCTCAAGGCTCAACTCACCTCTCGCAATATGAG
**
90389170 TTGATTTTTTTTTGAAAGGCAGAAATTGAAAAACGGAAATTG
126 TTGA--TTTTTTTGAAAAACAGAAATTGAAAAACGGAAATTG
* * * *
90389212 AAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCACAATACGAGTTGATTTTTTTGAC
1 AAAATACCTCAGCGTGTGACCTGAAGCTCAACTCACCTCTCACAATACGAGTTGATTTTTTTGAA
* * ** *
90389277 AACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTTAACTCACCTCTCGCAATATGAGTTGAT
66 AACAGAAATTGAAAATACCTCAGCGTGGCTCAAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
90389342 TTTTTTGAAAAACAGAAATTGAAAA
131 TTTTTTGAAAAACAGAAATTGAAAA
90389367 TACCTCAGCA
Statistics
Matches: 136, Mismatches: 17, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
165 24 0.18
166 2 0.01
167 37 0.27
168 1 0.01
169 15 0.11
170 57 0.42
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.30
Consensus pattern (165 bp):
AAAATACCTCAGCGTGTGACCTGAAGCTCAACTCACCTCTCACAATACGAGTTGATTTTTTTGAA
AACAGAAATTGAAAATACCTCAGCGTGGCTCAAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
TTTTTTGAAAAACAGAAATTGAAAAACGGAAATTG
Found at i:90389321 original size:244 final size:247
Alignment explanation
Indices: 90388606--90389443 Score: 847
Period size: 255 Copynumber: 3.4 Consensus size: 247
90388596 AACAGACATT
* * *
90388606 AAAAACAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAAACAGAAATTGAAAATAGCTCTGCGCGTGAGCCAAGGCTCAACTCACTTCTCGCAATATGAG
** * * ** * *
90388671 TTGA---TTTTTTG-AAACTTAACTTGAAAAGCAGATTTTGAAAATACCTCGATATGTGA-CTGA
66 TTGATTTTTTTTTGAAAACAGAAATTGAAAAACAGAAATTGAAAATACCTCGACATGTGACCCG-
* * * * * *
90388731 AGGTTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAGAAATT-AAAAGACTCAA
130 AGGCTCAACTCACATATCACAATACGAGTTGATTTTTTTGAAAAACAGAAATTGAAAA-A-T-AC
* * * *
90388793 CTCAACTCTCGCAGAAAT-TAAAAAGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTTG
192 CTCAGC-GT-G-TG--ATCT--GAAGCTCAACTCACCTCTCGCAATATGAGTTG-ATTTTTTTG
* *
90388856 AAAAAAAAAACAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACTTCTCGCAAT
1 -----AAAAACAGAAATTGAAAATAGCTCTGCGCGTGAGCCAAGGCTCAACTCACTTCTCGCAAT
**
90388921 ATGAGTTGA----TTTTTGAAAACAG-AATCTGAAAAACAGATTTTGAAAATACCTCGACATGTG
61 ATGAGTTGATTTTTTTTTGAAAACAGAAAT-TGAAAAACAGAAATTGAAAATACCTCGACATGTG
* ** * *
90388981 ACCCGAGGCTCAACTCACATATCGCAATGTGAGTTGATTTTTTTGAAAAATATAAATTGAAAAAA
125 ACCCGAGGCTCAACTCACATATCACAATACGAGTTGATTTTTTTGAAAAACAGAAATTG-AAAAA
* *
90389046 TACCTCAGTGTGTGATCTGAAGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTG
189 TACCTCAGCGTGTGATCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
*
90389105 AAAGACAGAAATTGAAAATAGCTCTGCGCGTGAGCCAAGGCTCAACTCACTTCTCGCAATATGAG
1 AAAAACAGAAATTGAAAATAGCTCTGCGCGTGAGCCAAGGCTCAACTCACTTCTCGCAATATGAG
* * * * *
90389170 TTGATTTTTTTTTGAAAGGCAGAAATTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGACCTG
66 TTGATTTTTTTTTGAAA-ACAGAAATTGAAAAACAGAAATTGAAAATACCTCGACATGTGACCCG
* * * * *
90389235 AGGCTCAACTCGCCTCTCACAATACGAGTTGATTTTTTTG-ACAACAGAAATTG-AAATTACCTC
130 AGGCTCAACTCACATATCACAATACGAGTTGATTTTTTTGAAAAACAGAAATTGAAAAATACCTC
* * *
90389298 AGCGTGT-CT-TGAGGCTTAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
195 AGCGTGTGATCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
* * ** * *
90389349 AAAAACAGAAATTGAAAATA-C-CT-CAGCATG-TCTTGAGGCTCAACTCATTTCTCACAATATG
1 AAAAACAGAAATTGAAAATAGCTCTGC-GCGTGAGC-CAAGGCTCAACTCACTTCTCGCAATATG
90389410 AGTTGATTTTTTTTTGAAAAACAGAAATTGAAAA
64 AGTTGATTTTTTTTTG-AAAACAGAAATTGAAAA
90389444 TACCTAAGCA
Statistics
Matches: 513, Mismatches: 53, Indels: 47
0.84 0.09 0.08
Matches are distributed among these distances:
241 2 0.00
242 59 0.12
243 4 0.01
244 124 0.24
245 1 0.00
246 15 0.03
248 19 0.04
249 79 0.15
250 33 0.06
251 2 0.00
252 1 0.00
253 1 0.00
254 9 0.02
255 134 0.26
256 7 0.01
257 18 0.04
258 1 0.00
259 4 0.01
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.29
Consensus pattern (247 bp):
AAAAACAGAAATTGAAAATAGCTCTGCGCGTGAGCCAAGGCTCAACTCACTTCTCGCAATATGAG
TTGATTTTTTTTTGAAAACAGAAATTGAAAAACAGAAATTGAAAATACCTCGACATGTGACCCGA
GGCTCAACTCACATATCACAATACGAGTTGATTTTTTTGAAAAACAGAAATTGAAAAATACCTCA
GCGTGTGATCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
Found at i:90389456 original size:77 final size:75
Alignment explanation
Indices: 90389195--90389547 Score: 444
Period size: 77 Copynumber: 4.7 Consensus size: 75
90389185 AAGGCAGAAA
* * * *** *
90389195 TTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCACAATAC
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGT--CTTGAGGCTCAACTCATTTCTCACAATAT
90389260 GAGTTGATTTTT
64 GAGTTGATTTTT
* * * ** *
90389272 TTG-ACAACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTTAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCACAATATGA
90389336 GTTGATTTTT
66 GTTGATTTTT
*
90389346 TTGAAAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCACAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCACAATATGA
90389411 GTTGATTTTTTT
66 GTTGA--TTTTT
* * * * *
90389423 TTGAAAAACAGAAATTGAAAATACCTAAGCATGTCTTGAGGCTCAACTAATTTCTCGCAATATGC
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCACAATATGA
*
90389488 GTTGA--ATT
66 GTTGATTTTT
* *
90389496 TTG-AAAACAGAAATTGAAATTACCTCAGCGTGTCTTAAGGCTCAACTCATTT
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTT
90389548 TGAACAAAAA
Statistics
Matches: 247, Mismatches: 26, Indels: 11
0.87 0.09 0.04
Matches are distributed among these distances:
72 44 0.18
73 5 0.02
74 39 0.16
75 59 0.24
76 26 0.11
77 74 0.30
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (75 bp):
TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCACAATATGA
GTTGATTTTT
Found at i:90389520 original size:149 final size:148
Alignment explanation
Indices: 90389195--90389547 Score: 458
Period size: 149 Copynumber: 2.4 Consensus size: 148
90389185 AAGGCAGAAA
* * * ***
90389195 TTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCACAATAC
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGT--CTTGAGGCTCAACTCATTTCTCACAATAC
* * * * * *
90389260 GAGTTGATTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTTAACTCACCTC
64 GAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCTAAGCATGTCTTGAGGCTCAACTAACCTC
*
90389325 TCGCAATATGAGTTGATTTTT
129 TCGCAATATGAGTTGA-TATT
* *
90389346 TTGAAAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCACAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCACAATACGA
**
90389411 GTTGATTTTTTTTTGAAAAACAGAAATTGAAAATACCTAAGCATGTCTTGAGGCTCAACTAATTT
66 GTTGA--TTTTTTTG-AAAACAGAAATTGAAAATACCTAAGCATGTCTTGAGGCTCAACTAACCT
*
90389476 CTCGCAATATGCGTTGA-ATT
128 CTCGCAATATGAGTTGATATT
* *
90389496 TTG-AAAACAGAAATTGAAATTACCTCAGCGTGTCTTAAGGCTCAACTCATTT
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTT
90389548 TGAACAAAAA
Statistics
Matches: 178, Mismatches: 21, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
149 77 0.43
150 5 0.03
151 39 0.22
152 57 0.32
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (148 bp):
TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCACAATACGA
GTTGATTTTTTTGAAAACAGAAATTGAAAATACCTAAGCATGTCTTGAGGCTCAACTAACCTCTC
GCAATATGAGTTGATATT
Found at i:90389567 original size:49 final size:49
Alignment explanation
Indices: 90389501--90389596 Score: 165
Period size: 49 Copynumber: 2.0 Consensus size: 49
90389491 GAATTTTGAA
* *
90389501 AACAGAAATTGAAATTACCTCAGCGTGTCTTAAGGCTCAACTCATTTTG
1 AACAAAAATTGAAATTACCTCAACGTGTCTTAAGGCTCAACTCATTTTG
*
90389550 AACAAAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTT
1 AACAAAAATTGAAATTACCTCAACGTGTCTTAAGGCTCAACTCATTT
90389597 CTCGCAATAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 44 1.00
ACGTcount: A:0.34, C:0.21, G:0.15, T:0.30
Consensus pattern (49 bp):
AACAAAAATTGAAATTACCTCAACGTGTCTTAAGGCTCAACTCATTTTG
Found at i:90389582 original size:121 final size:121
Alignment explanation
Indices: 90389429--90389789 Score: 634
Period size: 121 Copynumber: 3.0 Consensus size: 121
90389419 TTTTTTGAAA
* * * *
90389429 AACAGAAATTGAAAATACCT-AAGCATGTCTTGAGGCTCAACTAATTTCTCGCAATATGCGTTGA
1 AACAGAAATTGAAATTACCTCAA-CGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
*
90389493 ATTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCTTAAGGCTCAACTCATTTTG
65 ATTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCATTTTG
*
90389550 AACAAAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
1 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
*
90389615 TTTTGAAAACAGAAATTTAAATTACCTCAGCGTGTCTTGAGGCTCAACTCATTTTG
66 TTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCATTTTG
90389671 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
1 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
*
90389736 TTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTT
66 TTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCATTT
90389790 CTCGCAATAT
Statistics
Matches: 229, Mismatches: 10, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
121 227 0.99
122 2 0.01
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (121 bp):
AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
TTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCATTTTG
Found at i:90389688 original size:49 final size:49
Alignment explanation
Indices: 90389622--90389717 Score: 174
Period size: 49 Copynumber: 2.0 Consensus size: 49
90389612 GAATTTTGAA
* *
90389622 AACAGAAATTTAAATTACCTCAGCGTGTCTTGAGGCTCAACTCATTTTG
1 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTTG
90389671 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTT
1 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTT
90389718 CTCGCAATAT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 45 1.00
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.31
Consensus pattern (49 bp):
AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTTG
Found at i:90389751 original size:72 final size:72
Alignment explanation
Indices: 90389671--90389896 Score: 285
Period size: 72 Copynumber: 3.0 Consensus size: 72
90389661 ACTCATTTTG
90389671 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
1 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
90389736 TTTTGAA
66 TTTTGAA
90389743 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
1 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
90389808 TTTTTTTTTTGAA
66 ------TTTTGAA
* * * * ** *
90389821 AGACAGAAATTGAAAATACCTCAGCATGTGAAC-CGAGGCTCAACTCACATCTCGCAATATGAGC
1 A-ACAGAAATTGAAATTACCTCA--ACGTG-TCTTGAGGCTCAACTCATTTCTCGCAATATGAGT
90389885 TG-ATTTTGAA
62 TGAATTTTGAA
90389895 AA
1 AA
90389897 AGTAGAAATT
Statistics
Matches: 137, Mismatches: 7, Indels: 19
0.84 0.04 0.12
Matches are distributed among these distances:
72 65 0.47
73 1 0.01
74 8 0.06
78 8 0.06
79 20 0.15
80 1 0.01
81 33 0.24
82 1 0.01
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.31
Consensus pattern (72 bp):
AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
TTTTGAA
Found at i:90389971 original size:13 final size:13
Alignment explanation
Indices: 90389944--90389977 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
90389934 TGAGTGATTC
*
90389944 TTGAACAACATAAA
1 TTGAA-AACAGAAA
90389958 TTGAAAACAGAAA
1 TTGAAAACAGAAA
90389971 TTGAAAA
1 TTGAAAA
90389978 TACCTCAGCG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.59, C:0.09, G:0.12, T:0.21
Consensus pattern (13 bp):
TTGAAAACAGAAA
Found at i:90390099 original size:54 final size:54
Alignment explanation
Indices: 90389999--90390104 Score: 135
Period size: 54 Copynumber: 1.9 Consensus size: 54
90389989 GACCTGAGGC
*
90389999 TCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATT-AAAAGGT
1 TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTA-AAATTGAAAAGGT
* * *
90390053 TCAACCCACTTCTCGCAATATGAGTTGATTCTTGAACAACGT-AAATTGAAAA
1 TCAACCCACCTCTCGCAATATGAGCTGATT-TTGAA-AAAGTAAAATTGAAAA
90390105 CAGAAATTGA
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
54 32 0.71
55 9 0.20
56 4 0.09
ACGTcount: A:0.38, C:0.19, G:0.15, T:0.28
Consensus pattern (54 bp):
TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAAAATTGAAAAGGT
Found at i:90390146 original size:140 final size:140
Alignment explanation
Indices: 90389816--90391859 Score: 1441
Period size: 140 Copynumber: 14.6 Consensus size: 140
90389806 AATTTTTTTT
*
90389816 TTGAAAGACAGAAATTGAAAATACCTCAGCATGTGAACC-GAGGCTCAACTCACATCTCGCAATA
1 TTGAAA-ACAGAAATTGAAAATACCTCAGC--GTG-ACCTGAGGCTCAACTCACCTCTCGCAATA
*
90389880 TGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCACAATATGAG-TGATTC
62 TGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTC
*
90389944 TTGAACAACATAAA
127 TTGAACAACGTAAA
90389958 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
*
90390023 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACTTCTCGCAATATGAGTTGATTCTTGA
66 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGA
90390088 ACAACGTAAA
131 ACAACGTAAA
*
90390098 TTGAAAACAGAAATTGAAAATACCTTAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
90390163 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGA
66 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGA
90390228 ACAACGTAAA
131 ACAACGTAAA
90390238 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
90390303 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGA
66 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGA
90390368 ACAACGTAAA
131 ACAACGTAAA
90390378 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
* ** * * *** * *** *** * ** * *
90390443 TTGAAATT-AAAACA-CAAAAATTGAAAATACCTCAGCGTGCC-C-CG-AGGCTCAACTCACCTC
66 CTGATTTTGAAAA-AGTAGAAATT-AAAA-GGTTCAACCCACCTCTCGCAATATGAGTTGA-TTC
* * **
90390503 TAGCAATATGA-GTTGATT
127 TTG-AACA--ACG-T-AAA
* * * ** * * * * *
90390521 TTGAAAAAGTAGAAATT-AAAAGGTTCAACC-CACCTCTCGCAATATGA-GTTGATTCTTGAACA
1 TTG-AAAA-CAGAAATTGAAAA---T--ACCTCAGC-GT-G--ACCTGAGGCTCA-AC-T-CACC
* * * * ** * * ** * *** * *
90390583 ACAT--AAAT-TGAAAACAGAAATTGAAAATACCT-CAGCGTGACCTGAGGCTCAACTCACCTCT
52 TC-TCGCAATATG--AGCTGATTTTGAAAA-A-GTAGA-AATTAAAA--GGTTCAACCCACCTCT
* *
90390644 CGCAATATGAGCTGATT-TTGAA-AAAGTAGAAA
109 CGCAATATGAGTTGATTCTTGAACAACGT--AAA
* * *** * * ** ** * * * * * ** *
90390676 TT--AAA-AG--GTTCAACCCACTTC-TCGCAATATGA-GTTGATTCTTGAAC-AACGTAA-ATT
1 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCA-AC-TCACCTCTCGCAATA-T
* * ** * ** * ** * * *
90390732 GAAAACAGAAATTGAAAATACCTTAG-CGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGC
63 G--AGCTGATTTTGAAAA-A--GTAGAAATTA--AAAGGTTCAACCCACCTCTCGCAATATGAGT
*
90390796 TGATT-TTGAA-AAAGTAGAAA
121 TGATTCTTGAACAACGT--AAA
* * *** * ** ** * * * * * ** *
90390816 TT--AAA-AG--GTTCAACCCACCTC-TCGCAATATGA-GTTGATTCTTGAAC-AACGTAA-ATT
1 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCA-AC-TCACCTCTCGCAATA-T
* ** * ** * ** * *
90390872 GAAAACAT-AAATTGAAAATACCTCAG-CGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
63 G--AGC-TGATTTTGAAAA-A-GT-AGAAATTA--AAAGGTTCAACCCACCTCTCGCAATATGAG
* *
90390935 CTGATT-TTGAA-AAAGTAGAAA
120 TTGATTCTTGAACAACGT--AAA
* * *** * ** ** * * * * * ** *
90390956 TT--AAA-AG--GTTCAACCCACCTC-TCGCAATATGA-GTTGATTCTTGAAC-AACGTAA-ATT
1 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCA-AC-TCACCTCTCGCAATA-T
* * ** * ** * * * *
90391012 GAAAACAGAAATTGAAAATACCTCAG--CGTAACCTGAGGCTCAACTCACCTCTCACAATATGA-
63 G--AGCTGATTTTGAAAA-A-GT-AGAAATTAA---AAGGTTCAACCCACCTCTCGCAATATGAG
*
90391074 --G----TTG-A-AA--TTAA
120 TTGATTCTTGAACAACGTAAA
* * * * * *
90391085 ---AACACAAAAATTGAAAATACCTCAACGTGTCCCGAGGCTCAACTCACCTCTAGCAATATGAG
1 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
* *
90391147 TTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGATTTGATTCTTGA
66 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGA
*
90391212 ACAACATAAA
131 ACAACGTAAA
90391222 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
*
90391287 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACTTCTCGCAATATGAGTTGATTCTTGA
66 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGA
90391352 ACAACGTAAA
131 ACAACGTAAA
*
90391362 TTGAAAACAGAAATTGAAAATACCTTAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
90391427 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGA
66 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGA
90391492 ACAACGTAAA
131 ACAACGTAAA
* *
90391502 TTGAAAACAGAAATTGAAAATACCTCAGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATAAG
1 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
* *
90391567 CTGATTTTGAAAAAGTATAAATTAAAAGGTTCAACCCACTTCTCGCAATATGAGTTGATTCTTGA
66 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGA
90391632 ACAACGTAAA
131 ACAACGTAAA
*
90391642 TTGAAAACAGAAATTGAAAATACCTTAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
*
90391707 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTTGCAATATGAGTTGATTCTTGA
66 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGA
90391772 ACAACGTAAA
131 ACAACGTAAA
*
90391782 TTGAAAACAGAAATTGAAAATACCTCAGCGAGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
90391847 CTGATTTTGAAAA
66 CTGATTTTGAAAA
90391860 CAGAAATAAA
Statistics
Matches: 1661, Mismatches: 163, Indels: 158
0.84 0.08 0.08
Matches are distributed among these distances:
126 24 0.01
127 2 0.00
128 3 0.00
129 8 0.00
130 10 0.01
131 13 0.01
132 10 0.01
133 10 0.01
134 4 0.00
135 2 0.00
137 4 0.00
138 8 0.00
139 105 0.06
140 1315 0.79
141 32 0.02
142 8 0.00
143 4 0.00
144 11 0.01
145 8 0.00
147 1 0.00
148 5 0.00
149 6 0.00
150 3 0.00
151 3 0.00
152 10 0.01
153 4 0.00
154 12 0.01
155 11 0.01
156 3 0.00
157 10 0.01
158 3 0.00
159 3 0.00
160 6 0.00
ACGTcount: A:0.38, C:0.20, G:0.17, T:0.25
Consensus pattern (140 bp):
TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGA
ACAACGTAAA
Found at i:90390239 original size:54 final size:54
Alignment explanation
Indices: 90390139--90390244 Score: 144
Period size: 54 Copynumber: 1.9 Consensus size: 54
90390129 GACCTGAGGC
*
90390139 TCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATT-AAAAGGT
1 TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTA-AAATTGAAAAGGT
* *
90390193 TCAACCCACCTCTCGCAATATGAGTTGATTCTTGAACAACGT-AAATTGAAAA
1 TCAACCCACCTCTCGCAATATGAGCTGATT-TTGAA-AAAGTAAAATTGAAAA
90390245 CAGAAATTGA
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
54 33 0.72
55 9 0.20
56 4 0.09
ACGTcount: A:0.38, C:0.20, G:0.15, T:0.27
Consensus pattern (54 bp):
TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAAAATTGAAAAGGT
Found at i:90390379 original size:54 final size:54
Alignment explanation
Indices: 90390279--90390384 Score: 144
Period size: 54 Copynumber: 1.9 Consensus size: 54
90390269 GACCTGAGGC
*
90390279 TCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATT-AAAAGGT
1 TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTA-AAATTGAAAAGGT
* *
90390333 TCAACCCACCTCTCGCAATATGAGTTGATTCTTGAACAACGT-AAATTGAAAA
1 TCAACCCACCTCTCGCAATATGAGCTGATT-TTGAA-AAAGTAAAATTGAAAA
90390385 CAGAAATTGA
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
54 33 0.72
55 9 0.20
56 4 0.09
ACGTcount: A:0.38, C:0.20, G:0.15, T:0.27
Consensus pattern (54 bp):
TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAAAATTGAAAAGGT
Found at i:90390509 original size:72 final size:71
Alignment explanation
Indices: 90390375--90390518 Score: 234
Period size: 72 Copynumber: 2.0 Consensus size: 71
90390365 TGAACAACGT
* * * *
90390375 AAATTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATAT
1 AAATTAAAAACAAAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTAGCAATAT
90390440 GAGTTG
66 GAGTTG
*
90390446 AAATTAAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAATA
1 AAATTAAAA-ACAAAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTAGCAATA
90390511 TGAGTTG
65 TGAGTTG
90390518 A
1 A
90390519 TTTTGAAAAA
Statistics
Matches: 67, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
71 8 0.12
72 59 0.88
ACGTcount: A:0.38, C:0.24, G:0.17, T:0.22
Consensus pattern (71 bp):
AAATTAAAAACAAAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTAGCAATAT
GAGTTG
Found at i:90390591 original size:54 final size:55
Alignment explanation
Indices: 90390491--90390596 Score: 144
Period size: 54 Copynumber: 1.9 Consensus size: 55
90390481 GCCCCGAGGC
* *
90390491 TCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAAGTAGAAATT-AAAAGGT
1 TCAACCCACCTCTAGCAATATGAGTTGATTTTGAAAAAGCAGAAATTGAAAAGGT
* * *
90390545 TCAACCCACCTCTCGCAATATGAGTTGATTCTTGAACAA-CATAAATTGAAAA
1 TCAACCCACCTCTAGCAATATGAGTTGATT-TTGAAAAAGCAGAAATTGAAAA
90390597 CAGAAATTGA
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
54 34 0.76
55 11 0.24
ACGTcount: A:0.40, C:0.18, G:0.14, T:0.28
Consensus pattern (55 bp):
TCAACCCACCTCTAGCAATATGAGTTGATTTTGAAAAAGCAGAAATTGAAAAGGT
Found at i:90390603 original size:13 final size:13
Alignment explanation
Indices: 90390576--90390609 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
90390566 GAGTTGATTC
*
90390576 TTGAACAACATAAA
1 TTGAA-AACAGAAA
90390590 TTGAAAACAGAAA
1 TTGAAAACAGAAA
90390603 TTGAAAA
1 TTGAAAA
90390610 TACCTCAGCG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.59, C:0.09, G:0.12, T:0.21
Consensus pattern (13 bp):
TTGAAAACAGAAA
Found at i:90390731 original size:54 final size:54
Alignment explanation
Indices: 90390631--90390736 Score: 135
Period size: 54 Copynumber: 1.9 Consensus size: 54
90390621 GACCTGAGGC
*
90390631 TCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATT-AAAAGGT
1 TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTA-AAATTGAAAAGGT
* * *
90390685 TCAACCCACTTCTCGCAATATGAGTTGATTCTTGAACAACGT-AAATTGAAAA
1 TCAACCCACCTCTCGCAATATGAGCTGATT-TTGAA-AAAGTAAAATTGAAAA
90390737 CAGAAATTGA
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
54 32 0.71
55 9 0.20
56 4 0.09
ACGTcount: A:0.38, C:0.19, G:0.15, T:0.28
Consensus pattern (54 bp):
TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAAAATTGAAAAGGT
Found at i:90390752 original size:352 final size:351
Alignment explanation
Indices: 90390095--90390794 Score: 1301
Period size: 352 Copynumber: 2.0 Consensus size: 351
90390085 TGAACAACGT
* * * * *
90390095 AAATTGAAAACAGAAATTGAAAATACCTTAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATAT
1 AAATTAAAAACAAAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTAGCAATAT
90390160 GAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCT
66 GAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCT
*
90390225 TGAACAACGTAAATTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCT
131 TGAACAACATAAATTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCT
90390290 CTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATG
196 CTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATG
90390355 AGTTGATTCTTGAACAACGTAAATTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCT
261 AGTTGATTCTTGAACAACGTAAATTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCT
90390420 CAACTCACCTCTCGCAATATGAGTTG
326 CAACTCACCTCTCGCAATATGAGTTG
*
90390446 AAATTAAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAATA
1 AAATTAAAA-ACAAAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTAGCAATA
*
90390511 TGAGTTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTC
65 TGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTC
90390576 TTGAACAACATAAATTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACC
130 TTGAACAACATAAATTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACC
*
90390641 TCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACTTCTCGCAATAT
195 TCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATAT
*
90390706 GAGTTGATTCTTGAACAACGTAAATTGAAAACAGAAATTGAAAATACCTTAGCGTGACCTGAGGC
260 GAGTTGATTCTTGAACAACGTAAATTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGC
90390771 TCAACTCACCTCTCGCAATATGAG
325 TCAACTCACCTCTCGCAATATGAG
90390795 CTGATTTTGA
Statistics
Matches: 338, Mismatches: 10, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
351 8 0.02
352 330 0.98
ACGTcount: A:0.38, C:0.21, G:0.17, T:0.25
Consensus pattern (351 bp):
AAATTAAAAACAAAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTAGCAATAT
GAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCT
TGAACAACATAAATTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCT
CTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATG
AGTTGATTCTTGAACAACGTAAATTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCT
CAACTCACCTCTCGCAATATGAGTTG
Found at i:90390871 original size:54 final size:54
Alignment explanation
Indices: 90390771--90390876 Score: 144
Period size: 54 Copynumber: 1.9 Consensus size: 54
90390761 GACCTGAGGC
*
90390771 TCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATT-AAAAGGT
1 TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTA-AAATTGAAAAGGT
* *
90390825 TCAACCCACCTCTCGCAATATGAGTTGATTCTTGAACAACGT-AAATTGAAAA
1 TCAACCCACCTCTCGCAATATGAGCTGATT-TTGAA-AAAGTAAAATTGAAAA
90390877 CATAAATTGA
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
54 33 0.72
55 9 0.20
56 4 0.09
ACGTcount: A:0.38, C:0.20, G:0.15, T:0.27
Consensus pattern (54 bp):
TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAAAATTGAAAAGGT
Found at i:90390884 original size:13 final size:13
Alignment explanation
Indices: 90390856--90390889 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
90390846 GAGTTGATTC
*
90390856 TTGAACAACGTAAA
1 TTGAA-AACATAAA
90390870 TTGAAAACATAAA
1 TTGAAAACATAAA
90390883 TTGAAAA
1 TTGAAAA
90390890 TACCTCAGCG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.56, C:0.09, G:0.12, T:0.24
Consensus pattern (13 bp):
TTGAAAACATAAA
Found at i:90391011 original size:54 final size:54
Alignment explanation
Indices: 90390911--90391016 Score: 144
Period size: 54 Copynumber: 1.9 Consensus size: 54
90390901 GACCTGAGGC
*
90390911 TCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATT-AAAAGGT
1 TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTA-AAATTGAAAAGGT
* *
90390965 TCAACCCACCTCTCGCAATATGAGTTGATTCTTGAACAACGT-AAATTGAAAA
1 TCAACCCACCTCTCGCAATATGAGCTGATT-TTGAA-AAAGTAAAATTGAAAA
90391017 CAGAAATTGA
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
54 33 0.72
55 9 0.20
56 4 0.09
ACGTcount: A:0.38, C:0.20, G:0.15, T:0.27
Consensus pattern (54 bp):
TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAAAATTGAAAAGGT
Found at i:90391098 original size:352 final size:351
Alignment explanation
Indices: 90390727--90391426 Score: 1256
Period size: 352 Copynumber: 2.0 Consensus size: 351
90390717 TGAACAACGT
* * * * * *
90390727 AAATTGAAAACAGAAATTGAAAATACCTTAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATAT
1 AAATTAAAAACAAAAATTGAAAATACCTCAACGTGACCCGAGGCTCAACTCACCTCTAGCAATAT
90390792 GAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCT
66 GAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCT
* *
90390857 TGAACAACGTAAATTGAAAACATAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCT
131 TGAACAACATAAATTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCT
90390922 CTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATG
196 CTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATG
90390987 AGTTGATTCTTGAACAACGTAAATTGAAAACAGAAATTGAAAATACCTCAGCGTAACCTGAGGCT
261 AGTTGATTCTTGAACAACGTAAATTGAAAACAGAAATTGAAAATACCTCAGCGTAACCTGAGGCT
90391052 CAACTCACCTCTCACAATATGAGTTG
326 CAACTCACCTCTCACAATATGAGTTG
*
90391078 AAATTAAAACACAAAAATTGAAAATACCTCAACGTGTCCCGAGGCTCAACTCACCTCTAGCAATA
1 AAATTAAAA-ACAAAAATTGAAAATACCTCAACGTGACCCGAGGCTCAACTCACCTCTAGCAATA
* *
90391143 TGAGTTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGATTTGATTC
65 TGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTC
90391208 TTGAACAACATAAATTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACC
130 TTGAACAACATAAATTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACC
*
90391273 TCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACTTCTCGCAATAT
195 TCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATAT
* *
90391338 GAGTTGATTCTTGAACAACGTAAATTGAAAACAGAAATTGAAAATACCTTAGCGTGACCTGAGGC
260 GAGTTGATTCTTGAACAACGTAAATTGAAAACAGAAATTGAAAATACCTCAGCGTAACCTGAGGC
*
90391403 TCAACTCACCTCTCGCAATATGAG
325 TCAACTCACCTCTCACAATATGAG
90391427 CTGATTTTGA
Statistics
Matches: 333, Mismatches: 15, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
351 8 0.02
352 325 0.98
ACGTcount: A:0.38, C:0.21, G:0.16, T:0.25
Consensus pattern (351 bp):
AAATTAAAAACAAAAATTGAAAATACCTCAACGTGACCCGAGGCTCAACTCACCTCTAGCAATAT
GAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCT
TGAACAACATAAATTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCT
CTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATG
AGTTGATTCTTGAACAACGTAAATTGAAAACAGAAATTGAAAATACCTCAGCGTAACCTGAGGCT
CAACTCACCTCTCACAATATGAGTTG
Found at i:90391142 original size:72 final size:71
Alignment explanation
Indices: 90391007--90391150 Score: 209
Period size: 72 Copynumber: 2.0 Consensus size: 71
90390997 TGAACAACGT
* * * *
90391007 AAATTGAAAACAGAAATTGAAAATACCTCAGCGTAACCTGAGGCTCAACTCACCTCTCACAATAT
1 AAATTAAAAACAAAAATTGAAAATACCTCAACGTAACCCGAGGCTCAACTCACCTCTCACAATAT
90391072 GAGTTG
66 GAGTTG
**
90391078 AAATTAAAACACAAAAATTGAAAATACCTCAACGTGTCCCGAGGCTCAACTCACCTCT-AGCAAT
1 AAATTAAAA-ACAAAAATTGAAAATACCTCAACGTAACCCGAGGCTCAACTCACCTCTCA-CAAT
90391142 ATGAGTTG
64 ATGAGTTG
90391150 A
1 A
90391151 TTTTGAAAAA
Statistics
Matches: 65, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
71 9 0.14
72 56 0.86
ACGTcount: A:0.40, C:0.23, G:0.15, T:0.22
Consensus pattern (71 bp):
AAATTAAAAACAAAAATTGAAAATACCTCAACGTAACCCGAGGCTCAACTCACCTCTCACAATAT
GAGTTG
Found at i:90391143 original size:632 final size:632
Alignment explanation
Indices: 90389738--90391706 Score: 3598
Period size: 632 Copynumber: 3.1 Consensus size: 632
90389728 GAGTTGAATT
* * * * **
90389738 TTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
* * * * * *
90389803 TTGAATTTTTTTTTTGAAAGACAGAAATTGAAAATACCTCAGCATGTGAACCGAGGCTCAACTCA
66 TTGAA-------ATTAAAACACAAAAATTGAAAATACCTCA--ACGTGACCCGAGGCTCAACTCA
* * * *
90389868 CATCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCACAAT
122 CCTCTAGCAATATGAGTTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAAT
90389933 ATGAG-TGATTCTTGAACAACATAAATTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAG
187 ATGAGTTGATTCTTGAACAACATAAATTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAG
90389997 GCTCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCAC
252 GCTCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCAC
90390062 TTCTCGCAATATGAGTTGATTCTTGAACAACGTAAATTGAAAACAGAAATTGAAAATACCTTAGC
317 TTCTCGCAATATGAGTTGATTCTTGAACAACGTAAATTGAAAACAGAAATTGAAAATACCTTAGC
90390127 GTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATTAAAAGG
382 GTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATTAAAAGG
90390192 TTCAACCCACCTCTCGCAATATGAGTTGATTCTTGAACAACGTAAATTGAAAACAGAAATTGAAA
447 TTCAACCCACCTCTCGCAATATGAGTTGATTCTTGAACAACGTAAATTGAAAACAGAAATTGAAA
90390257 ATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGA
512 ATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGA
90390322 AATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGAACAACGTAAA
577 AATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGAACAACGTAAA
90390378 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
* *
90390443 TTGAAATTAAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCA
66 TTGAAATTAAAACACAAAAATTGAAAATACCTCAACGTGACCCGAGGCTCAACTCACCTCTAGCA
90390508 ATATGAGTTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGA
131 ATATGAGTTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGA
90390573 TTCTTGAACAACATAAATTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTC
196 TTCTTGAACAACATAAATTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTC
90390638 ACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACTTCTCGCAA
261 ACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACTTCTCGCAA
90390703 TATGAGTTGATTCTTGAACAACGTAAATTGAAAACAGAAATTGAAAATACCTTAGCGTGACCTGA
326 TATGAGTTGATTCTTGAACAACGTAAATTGAAAACAGAAATTGAAAATACCTTAGCGTGACCTGA
90390768 GGCTCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCA
391 GGCTCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCA
*
90390833 CCTCTCGCAATATGAGTTGATTCTTGAACAACGTAAATTGAAAACATAAATTGAAAATACCTCAG
456 CCTCTCGCAATATGAGTTGATTCTTGAACAACGTAAATTGAAAACAGAAATTGAAAATACCTCAG
90390898 CGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATTAAAAG
521 CGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATTAAAAG
90390963 GTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGAACAACGTAAA
586 GTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGAACAACGTAAA
* *
90391010 TTGAAAACAGAAATTGAAAATACCTCAGCGTAACCTGAGGCTCAACTCACCTCTCACAATATGAG
1 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
*
90391075 TTGAAATTAAAACACAAAAATTGAAAATACCTCAACGTGTCCCGAGGCTCAACTCACCTCTAGCA
66 TTGAAATTAAAACACAAAAATTGAAAATACCTCAACGTGACCCGAGGCTCAACTCACCTCTAGCA
*
90391140 ATATGAGTTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGATTTGA
131 ATATGAGTTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGA
90391205 TTCTTGAACAACATAAATTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTC
196 TTCTTGAACAACATAAATTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTC
90391270 ACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACTTCTCGCAA
261 ACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACTTCTCGCAA
90391335 TATGAGTTGATTCTTGAACAACGTAAATTGAAAACAGAAATTGAAAATACCTTAGCGTGACCTGA
326 TATGAGTTGATTCTTGAACAACGTAAATTGAAAACAGAAATTGAAAATACCTTAGCGTGACCTGA
90391400 GGCTCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCA
391 GGCTCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCA
90391465 CCTCTCGCAATATGAGTTGATTCTTGAACAACGTAAATTGAAAACAGAAATTGAAAATACCTCAG
456 CCTCTCGCAATATGAGTTGATTCTTGAACAACGTAAATTGAAAACAGAAATTGAAAATACCTCAG
* * *
90391530 TGTGACCTGAGGCTCAACTCACCTCTCGCAATATAAGCTGATTTTGAAAAAGTATAAATTAAAAG
521 CGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATTAAAAG
*
90391595 GTTCAACCCACTTCTCGCAATATGAGTTGATTCTTGAACAACGTAAA
586 GTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGAACAACGTAAA
*
90391642 TTGAAAACAGAAATTGAAAATACCTTAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
90391707 CTGATTTTGA
Statistics
Matches: 1296, Mismatches: 32, Indels: 10
0.97 0.02 0.01
Matches are distributed among these distances:
631 84 0.06
632 1123 0.87
633 25 0.02
640 64 0.05
ACGTcount: A:0.37, C:0.20, G:0.16, T:0.26
Consensus pattern (632 bp):
TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
TTGAAATTAAAACACAAAAATTGAAAATACCTCAACGTGACCCGAGGCTCAACTCACCTCTAGCA
ATATGAGTTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGA
TTCTTGAACAACATAAATTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTC
ACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACTTCTCGCAA
TATGAGTTGATTCTTGAACAACGTAAATTGAAAACAGAAATTGAAAATACCTTAGCGTGACCTGA
GGCTCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCA
CCTCTCGCAATATGAGTTGATTCTTGAACAACGTAAATTGAAAACAGAAATTGAAAATACCTCAG
CGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATTAAAAG
GTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGAACAACGTAAA
Found at i:90391223 original size:54 final size:55
Alignment explanation
Indices: 90391123--90391228 Score: 135
Period size: 54 Copynumber: 1.9 Consensus size: 55
90391113 GTCCCGAGGC
* *
90391123 TCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAAGTAGAAATT-AAAAGGT
1 TCAACCCACCTCTAGCAATATGAGTTGATTTTGAAAAAGCAGAAATTGAAAAGGT
* * * *
90391177 TCAACCCACCTCTCGCAATATGATTTGATTCTTGAACAA-CATAAATTGAAAA
1 TCAACCCACCTCTAGCAATATGAGTTGATT-TTGAAAAAGCAGAAATTGAAAA
90391229 CAGAAATTGA
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
54 33 0.75
55 11 0.25
ACGTcount: A:0.40, C:0.18, G:0.13, T:0.29
Consensus pattern (55 bp):
TCAACCCACCTCTAGCAATATGAGTTGATTTTGAAAAAGCAGAAATTGAAAAGGT
Found at i:90391235 original size:13 final size:13
Alignment explanation
Indices: 90391208--90391241 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
90391198 GATTTGATTC
*
90391208 TTGAACAACATAAA
1 TTGAA-AACAGAAA
90391222 TTGAAAACAGAAA
1 TTGAAAACAGAAA
90391235 TTGAAAA
1 TTGAAAA
90391242 TACCTCAGCG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.59, C:0.09, G:0.12, T:0.21
Consensus pattern (13 bp):
TTGAAAACAGAAA
Found at i:90391363 original size:54 final size:54
Alignment explanation
Indices: 90391263--90391368 Score: 135
Period size: 54 Copynumber: 1.9 Consensus size: 54
90391253 GACCTGAGGC
*
90391263 TCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATT-AAAAGGT
1 TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTA-AAATTGAAAAGGT
* * *
90391317 TCAACCCACTTCTCGCAATATGAGTTGATTCTTGAACAACGT-AAATTGAAAA
1 TCAACCCACCTCTCGCAATATGAGCTGATT-TTGAA-AAAGTAAAATTGAAAA
90391369 CAGAAATTGA
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
54 32 0.71
55 9 0.20
56 4 0.09
ACGTcount: A:0.38, C:0.19, G:0.15, T:0.28
Consensus pattern (54 bp):
TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAAAATTGAAAAGGT
Found at i:90391503 original size:54 final size:54
Alignment explanation
Indices: 90391403--90391508 Score: 144
Period size: 54 Copynumber: 1.9 Consensus size: 54
90391393 GACCTGAGGC
*
90391403 TCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATT-AAAAGGT
1 TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTA-AAATTGAAAAGGT
* *
90391457 TCAACCCACCTCTCGCAATATGAGTTGATTCTTGAACAACGT-AAATTGAAAA
1 TCAACCCACCTCTCGCAATATGAGCTGATT-TTGAA-AAAGTAAAATTGAAAA
90391509 CAGAAATTGA
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
54 33 0.72
55 9 0.20
56 4 0.09
ACGTcount: A:0.38, C:0.20, G:0.15, T:0.27
Consensus pattern (54 bp):
TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAAAATTGAAAAGGT
Found at i:90391524 original size:492 final size:488
Alignment explanation
Indices: 90390094--90391563 Score: 2204
Period size: 492 Copynumber: 3.0 Consensus size: 488
90390084 TTGAACAACG
*
90390094 TAAATTGAAAACAGAAATTGAAAATACCTTAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATA
1 TAAATTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATA
90390159 TGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTC
66 TGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTC
90390224 TTGAACAACGTAAATTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACC
131 TTGAACAACGTAAATTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACC
90390289 TCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATAT
196 TCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATAT
90390354 GAGTTGATTCTTGAACAACGTAAATTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGC
261 GAGTTGATTCTTGAACAACGTAAATTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGC
* ** * *
90390419 TCAACTCACCTCTCGCAATATGAGTTGAAATT-AAAACA-CAAAAATTGAAAATACCTCAGCGTG
326 TCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAA-AGTAGAAATT---AA-A----AG-GT-
* * *
90390482 CCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATT-TTGAA-AAAGTAGAAATT--AAA-A
380 ---------TCAACCCACCTCTCGCAATATGAGTTGATTCTTGAACAACGT--AAATTGAAAACA
* * *** * * ** ** * *
90390542 G--GTTCAACCCACCTC-TCGCAATATGA-G-TTGA-T--TCT-TGA-ACA-A-CA
434 GAAATTGAAAATACCTCAGCGTAACCTGAGGCTCAACTCACCTCTCACA-ATATCA
90390586 TAAATTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATA
1 TAAATTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATA
*
90390651 TGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACTTCTCGCAATATGAGTTGATTC
66 TGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTC
*
90390716 TTGAACAACGTAAATTGAAAACAGAAATTGAAAATACCTTAGCGTGACCTGAGGCTCAACTCACC
131 TTGAACAACGTAAATTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACC
90390781 TCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATAT
196 TCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATAT
*
90390846 GAGTTGATTCTTGAACAACGTAAATTGAAAACATAAATTGAAAATACCTCAGCGTGACCTGAGGC
261 GAGTTGATTCTTGAACAACGTAAATTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGC
90390911 TCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCT
326 TCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCT
90390976 CTCGCAATATGAGTTGATTCTTGAACAACGTAAATTGAAAACAGAAATTGAAAATACCTCAGCGT
391 CTCGCAATATGAGTTGATTCTTGAACAACGTAAATTGAAAACAGAAATTGAAAATACCTCAGCGT
*
90391041 AACCTGAGGCTCAACTCACCTCTCACAATATGA
456 AACCTGAGGCTCAACTCACCTCTCACAATATCA
* * * * * *
90391074 GTTGAAATTAAAACACAAAAATTGAAAATACCTCAACGTGTCCCGAGGCTCAACTCACCTCTAGC
1 --T-AAATTGAAA-ACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGC
* *
90391139 AATATGAGTTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGATTTG
62 AATATGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTG
*
90391204 ATTCTTGAACAACATAAATTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACT
127 ATTCTTGAACAACGTAAATTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACT
*
90391269 CACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACTTCTCGCA
192 CACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCA
*
90391334 ATATGAGTTGATTCTTGAACAACGTAAATTGAAAACAGAAATTGAAAATACCTTAGCGTGACCTG
257 ATATGAGTTGATTCTTGAACAACGTAAATTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTG
90391399 AGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCC
322 AGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCC
90391464 ACCTCTCGCAATATGAGTTGATTCTTGAACAACGTAAATTGAAAACAGAAATTGAAAATACCTCA
387 ACCTCTCGCAATATGAGTTGATTCTTGAACAACGTAAATTGAAAACAGAAATTGAAAATACCTCA
* * *
90391529 GTGTGACCTGAGGCTCAACTCACCTCTCGCAATAT
452 GCGTAACCTGAGGCTCAACTCACCTCTCACAATAT
90391564 AAGCTGATTT
Statistics
Matches: 912, Mismatches: 43, Indels: 46
0.91 0.04 0.05
Matches are distributed among these distances:
474 33 0.04
475 5 0.01
476 7 0.01
477 2 0.00
479 9 0.01
480 7 0.01
481 1 0.00
482 2 0.00
483 1 0.00
484 2 0.00
485 4 0.00
486 3 0.00
487 2 0.00
488 1 0.00
489 1 0.00
490 3 0.00
491 8 0.01
492 811 0.89
493 10 0.01
ACGTcount: A:0.38, C:0.21, G:0.16, T:0.25
Consensus pattern (488 bp):
TAAATTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATA
TGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTC
TTGAACAACGTAAATTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACC
TCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATAT
GAGTTGATTCTTGAACAACGTAAATTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGC
TCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCT
CTCGCAATATGAGTTGATTCTTGAACAACGTAAATTGAAAACAGAAATTGAAAATACCTCAGCGT
AACCTGAGGCTCAACTCACCTCTCACAATATCA
Found at i:90391642 original size:54 final size:54
Alignment explanation
Indices: 90391543--90391648 Score: 126
Period size: 54 Copynumber: 1.9 Consensus size: 54
90391533 GACCTGAGGC
*
90391543 TCAACTCACCTCTCGCAATATAAGCTGATTTTGAAAAAGTATAAATT-AAAAGGT
1 TCAACCCACCTCTCGCAATATAAGCTGATTTTGAAAAAG-ATAAATTGAAAAGGT
* * * *
90391597 TCAACCCACTTCTCGCAATATGAGTTGATTCTTGAACAACG-TAAATTGAAAA
1 TCAACCCACCTCTCGCAATATAAGCTGATT-TTGAA-AAAGATAAATTGAAAA
90391649 CAGAAATTGA
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
54 32 0.73
55 9 0.20
56 3 0.07
ACGTcount: A:0.39, C:0.19, G:0.13, T:0.29
Consensus pattern (54 bp):
TCAACCCACCTCTCGCAATATAAGCTGATTTTGAAAAAGATAAATTGAAAAGGT
Found at i:90391783 original size:54 final size:54
Alignment explanation
Indices: 90391683--90391788 Score: 135
Period size: 54 Copynumber: 1.9 Consensus size: 54
90391673 GACCTGAGGC
*
90391683 TCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATT-AAAAGGT
1 TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTA-AAATTGAAAAGGT
* * *
90391737 TCAACCCACCTCTTGCAATATGAGTTGATTCTTGAACAACGT-AAATTGAAAA
1 TCAACCCACCTCTCGCAATATGAGCTGATT-TTGAA-AAAGTAAAATTGAAAA
90391789 CAGAAATTGA
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
54 32 0.71
55 9 0.20
56 4 0.09
ACGTcount: A:0.38, C:0.19, G:0.15, T:0.28
Consensus pattern (54 bp):
TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAAAATTGAAAAGGT
Found at i:90402225 original size:35 final size:36
Alignment explanation
Indices: 90402186--90402269 Score: 89
Period size: 39 Copynumber: 2.3 Consensus size: 36
90402176 ATATATATGT
* * *
90402186 ATATATAATA-GTATTTAAGAATATATACATAAGAA
1 ATATATAATAGGCATTAAAAAATATATACATAAGAA
*
90402221 ATATATAACTAATGGCATTAAAAAATATATACATAATAA
1 ATATATAA-T-A-GGCATTAAAAAATATATACATAAGAA
*
90402260 ATATAAAATA
1 ATATATAATA
90402270 CCTAAAAAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
35 8 0.20
36 1 0.03
37 2 0.05
38 1 0.03
39 28 0.70
ACGTcount: A:0.57, C:0.05, G:0.06, T:0.32
Consensus pattern (36 bp):
ATATATAATAGGCATTAAAAAATATATACATAAGAA
Found at i:90402785 original size:25 final size:23
Alignment explanation
Indices: 90402751--90402802 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 23
90402741 GGTTTCTTGG
*
90402751 TTTTTTTTTTGGGGTTAGGTTTT
1 TTTTTTTTTTTGGGTTAGGTTTT
90402774 TCTTTTTTTTTTGGGTTAGGTTTT
1 T-TTTTTTTTTTGGGTTAGGTTTT
90402798 TTTTT
1 TTTTT
90402803 GGGGGGCTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 5 0.19
24 22 0.81
ACGTcount: A:0.04, C:0.02, G:0.21, T:0.73
Consensus pattern (23 bp):
TTTTTTTTTTTGGGTTAGGTTTT
Found at i:90403127 original size:21 final size:21
Alignment explanation
Indices: 90403101--90403141 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
90403091 TTACATGAAC
*
90403101 TAATTTTAAAT-TATTTGGTAG
1 TAATTTAAAATCTA-TTGGTAG
90403122 TAATTTAAAATCTATTGGTA
1 TAATTTAAAATCTATTGGTA
90403142 CATATGGGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.37, C:0.02, G:0.12, T:0.49
Consensus pattern (21 bp):
TAATTTAAAATCTATTGGTAG
Found at i:90406323 original size:19 final size:21
Alignment explanation
Indices: 90406301--90406349 Score: 57
Period size: 19 Copynumber: 2.4 Consensus size: 21
90406291 GTGGGAGTCA
90406301 ACACGCCCATGAGG-AGGA-C
1 ACACGCCCATGAGGAAGGAGC
* *
90406320 ACACACCCATGTGGAAGGAGGC
1 ACACGCCCATGAGGAAGGA-GC
90406342 ACACGCCC
1 ACACGCCC
90406350 GTGTGACCCA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
19 12 0.50
20 4 0.17
22 8 0.33
ACGTcount: A:0.31, C:0.35, G:0.29, T:0.06
Consensus pattern (21 bp):
ACACGCCCATGAGGAAGGAGC
Found at i:90406354 original size:22 final size:23
Alignment explanation
Indices: 90406312--90406354 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
90406302 CACGCCCATG
90406312 AGGAGGACACACACCCATGTGGA
1 AGGAGGACACACACCCATGTGGA
* *
90406335 AGGAGG-CACACGCCCGTGTG
1 AGGAGGACACACACCCATGTG
90406355 ACCCAAGGAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.28, C:0.28, G:0.35, T:0.09
Consensus pattern (23 bp):
AGGAGGACACACACCCATGTGGA
Found at i:90413415 original size:18 final size:18
Alignment explanation
Indices: 90413388--90413422 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
90413378 CAAAATTGAA
* *
90413388 TCAAATTAATTATTTAAG
1 TCAAAATAATTAATTAAG
90413406 TCAAAATAATTAATTAA
1 TCAAAATAATTAATTAA
90413423 ATTAATTGAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.51, C:0.06, G:0.03, T:0.40
Consensus pattern (18 bp):
TCAAAATAATTAATTAAG
Found at i:90414894 original size:16 final size:16
Alignment explanation
Indices: 90414873--90414903 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
90414863 CATGCCATAA
90414873 TTATATTTAAAATTTC
1 TTATATTTAAAATTTC
90414889 TTATATTTAAAATTT
1 TTATATTTAAAATTT
90414904 TAATACATTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (16 bp):
TTATATTTAAAATTTC
Found at i:90415414 original size:26 final size:26
Alignment explanation
Indices: 90415378--90415428 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
90415368 CATCTGATGG
*
90415378 TTAACTTTAATAGTTGACCATTAAAC
1 TTAACTTTAATAGTTGACAATTAAAC
90415404 TTAACTTTAATAGTTGACAATTAAA
1 TTAACTTTAATAGTTGACAATTAAA
90415429 GCAGTTGACA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.41, C:0.12, G:0.08, T:0.39
Consensus pattern (26 bp):
TTAACTTTAATAGTTGACAATTAAAC
Found at i:90415436 original size:16 final size:16
Alignment explanation
Indices: 90415415--90415445 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
90415405 TAACTTTAAT
90415415 AGTTGACAATTAAAGC
1 AGTTGACAATTAAAGC
90415431 AGTTGACAATTAAAG
1 AGTTGACAATTAAAG
90415446 TTAATTGTCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.45, C:0.10, G:0.19, T:0.26
Consensus pattern (16 bp):
AGTTGACAATTAAAGC
Found at i:90415585 original size:20 final size:20
Alignment explanation
Indices: 90415537--90415595 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
90415527 TAAAAATCAA
* *
90415537 TAAAAATT-ATAAAGATTAT
1 TAAAAATTAATAAAAAATAT
**
90415556 TAAATTTTAATAAAAAATAT
1 TAAAAATTAATAAAAAATAT
90415576 TAAAAATTAA-AAAAATATAT
1 TAAAAATTAATAAAAA-ATAT
90415596 ATATTGTAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
19 11 0.34
20 21 0.66
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.36
Consensus pattern (20 bp):
TAAAAATTAATAAAAAATAT
Found at i:90415617 original size:28 final size:29
Alignment explanation
Indices: 90415586--90415653 Score: 70
Period size: 28 Copynumber: 2.4 Consensus size: 29
90415576 TAAAAATTAA
90415586 AAAAATATATATATTGTA-AAAAAACCAT
1 AAAAATATATATATTGTATAAAAAACCAT
* * * *
90415614 AAAAATGTA-AAATTTTATAAAAAATCAT
1 AAAAATATATATATTGTATAAAAAACCAT
*
90415642 AAAAGTAT-TATA
1 AAAAATATATATA
90415654 AATTAAAAAA
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
27 6 0.19
28 25 0.81
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.31
Consensus pattern (29 bp):
AAAAATATATATATTGTATAAAAAACCAT
Found at i:90415992 original size:29 final size:30
Alignment explanation
Indices: 90415941--90416015 Score: 75
Period size: 30 Copynumber: 2.6 Consensus size: 30
90415931 ATTTCCATAT
* * *
90415941 ATTTTATAATTTTT-TCTATTTTTACT-AA
1 ATTTAATAATTTTTATATTTTTTTACTAAA
* *
90415969 TTTTAA-ATATTTTTATATTTTTTTATTAAA
1 ATTTAATA-ATTTTTATATTTTTTTACTAAA
90415999 ATTTAATAATTTTTATA
1 ATTTAATAATTTTTATA
90416016 GCTTTTATTG
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
27 1 0.03
28 10 0.27
29 9 0.24
30 16 0.43
31 1 0.03
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (30 bp):
ATTTAATAATTTTTATATTTTTTTACTAAA
Found at i:90416354 original size:16 final size:16
Alignment explanation
Indices: 90416303--90416354 Score: 52
Period size: 16 Copynumber: 3.1 Consensus size: 16
90416293 ATTCAAAAAG
90416303 AATAATTT-AAAATTA
1 AATAATTTCAAAATTA
* *
90416318 TAAAAATACTCAAATATTA
1 -AATAAT-TTCAAA-ATTA
90416337 AATAATTTCAAAATTA
1 AATAATTTCAAAATTA
90416353 AA
1 AA
90416355 AAAAGTTAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
16 11 0.38
17 6 0.21
18 8 0.28
19 4 0.14
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.35
Consensus pattern (16 bp):
AATAATTTCAAAATTA
Found at i:90416549 original size:25 final size:24
Alignment explanation
Indices: 90416511--90416571 Score: 63
Period size: 25 Copynumber: 2.5 Consensus size: 24
90416501 TAACATTTTT
90416511 TTAAAAAT-TGAAAG-CCAAATTTAA
1 TTAAAAATAT-AAAGACCAAA-TTAA
*
90416535 CTTAAAAATATAAAGATCAAATTAA
1 -TTAAAAATATAAAGACCAAATTAA
90416560 TTAAAATATATA
1 TTAAAA-ATATA
90416572 TAAAAATTGA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
24 6 0.19
25 21 0.66
26 5 0.16
ACGTcount: A:0.57, C:0.07, G:0.05, T:0.31
Consensus pattern (24 bp):
TTAAAAATATAAAGACCAAATTAA
Found at i:90425439 original size:26 final size:25
Alignment explanation
Indices: 90425410--90425458 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
90425400 AAATAATTTA
*
90425410 ATAAATAAAAATAAAATTCTAAAACT
1 ATAAATAAAAAT-AAAGTCTAAAACT
* *
90425436 ATAACTAAAACTAAAGTCTAAAA
1 ATAAATAAAAATAAAGTCTAAAA
90425459 GTCTAAACTC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 10 0.50
26 10 0.50
ACGTcount: A:0.63, C:0.10, G:0.02, T:0.24
Consensus pattern (25 bp):
ATAAATAAAAATAAAGTCTAAAACT
Found at i:90426301 original size:57 final size:58
Alignment explanation
Indices: 90426145--90426301 Score: 201
Period size: 58 Copynumber: 2.7 Consensus size: 58
90426135 TGCATGTTGT
* * *
90426145 TATAAATTGAATTAAAGTTGTTGTTTGAGTGTTTCAAATTGGGCATTTTCATACTGTC
1 TATAAATTGAATTAAAGTTGCTGTTTTAGTGTTTCAAATTGAGCATTTTCATACTGTC
* * * * *
90426203 TTAAAAATTGAA-TCAAGCTGCTATTTTAGTGTTTCAAATTGAGCATTTTCATCCTGTC
1 -TATAAATTGAATTAAAGTTGCTGTTTTAGTGTTTCAAATTGAGCATTTTCATACTGTC
* *
90426261 -ATAAATTGAATTAAAGTTGGTGTTTTAGTGTATCAAATTGA
1 TATAAATTGAATTAAAGTTGCTGTTTTAGTGTTTCAAATTGA
90426302 TCATGCTGCC
Statistics
Matches: 83, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
56 9 0.11
57 25 0.30
58 39 0.47
59 10 0.12
ACGTcount: A:0.31, C:0.10, G:0.17, T:0.43
Consensus pattern (58 bp):
TATAAATTGAATTAAAGTTGCTGTTTTAGTGTTTCAAATTGAGCATTTTCATACTGTC
Found at i:90428978 original size:149 final size:149
Alignment explanation
Indices: 90428707--90429005 Score: 535
Period size: 149 Copynumber: 2.0 Consensus size: 149
90428697 TCATCATAAG
* **
90428707 AAGACATCAAAAAGATTGAAGAACAAATCCAAGAGCTTGACAAGATTGAAAATGGTATATTTATT
1 AAGACATCAAAAAGATTGAAGAACAAATCCAAGAGCTTCACAAGATTGAAAATGACATATTTATT
* *
90428772 GTTTTATTTTAATAGTTTCAATTTTTTTACCGTATCACTCCTACTTATTTAATTGATTCAATGTT
66 GTTTTATTTTAATAGTTTCAATTTTTTTACCATATCACTCCTACTTATTTAACTGATTCAATGTT
90428837 TAGACTTTTCTTGGAATGC
131 TAGACTTTTCTTGGAATGC
*
90428856 AAGACATCAAAAAGATTGAAGAACAAATCCAAGAGCTTCACTAGATTGAAAATGACATATTTATT
1 AAGACATCAAAAAGATTGAAGAACAAATCCAAGAGCTTCACAAGATTGAAAATGACATATTTATT
*
90428921 GTTTTATTTTATTAGTTTCAATTTTTTTACCATATCACTCCTACTTATTTAACTGATTCAATGTT
66 GTTTTATTTTAATAGTTTCAATTTTTTTACCATATCACTCCTACTTATTTAACTGATTCAATGTT
90428986 TAGACTTTTCTTGGAATGC
131 TAGACTTTTCTTGGAATGC
90429005 A
1 A
90429006 TCAGAGCCTA
Statistics
Matches: 143, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
149 143 1.00
ACGTcount: A:0.34, C:0.14, G:0.12, T:0.39
Consensus pattern (149 bp):
AAGACATCAAAAAGATTGAAGAACAAATCCAAGAGCTTCACAAGATTGAAAATGACATATTTATT
GTTTTATTTTAATAGTTTCAATTTTTTTACCATATCACTCCTACTTATTTAACTGATTCAATGTT
TAGACTTTTCTTGGAATGC
Found at i:90429284 original size:17 final size:17
Alignment explanation
Indices: 90429264--90429324 Score: 50
Period size: 17 Copynumber: 3.4 Consensus size: 17
90429254 ATTTCAAGAC
90429264 TTATGTAATGTTTTTAA
1 TTATGTAATGTTTTTAA
* ***
90429281 TTATGTAGTGATTCAAAGA
1 TTATGTAATG-TTTTTA-A
*
90429300 CTTATATAATGTTTTTAA
1 -TTATGTAATGTTTTTAA
90429318 TTATGTA
1 TTATGTA
90429325 GTGATTCAAT
Statistics
Matches: 31, Mismatches: 10, Indels: 6
0.66 0.21 0.13
Matches are distributed among these distances:
17 15 0.48
18 4 0.13
19 4 0.13
20 8 0.26
ACGTcount: A:0.33, C:0.03, G:0.13, T:0.51
Consensus pattern (17 bp):
TTATGTAATGTTTTTAA
Found at i:90429300 original size:37 final size:37
Alignment explanation
Indices: 90429259--90429333 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
90429249 TGTTAATTTC
*
90429259 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
1 AAGACTTATATAATGTTTTTAATTATGTAGTGATTCA
90429296 AAGACTTATATAATGTTTTTAATTATGTAGTGATTCA
1 AAGACTTATATAATGTTTTTAATTATGTAGTGATTCA
90429333 A
1 A
90429334 TTTGGTTAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.35, C:0.05, G:0.15, T:0.45
Consensus pattern (37 bp):
AAGACTTATATAATGTTTTTAATTATGTAGTGATTCA
Found at i:90429369 original size:9 final size:9
Alignment explanation
Indices: 90429332--90429371 Score: 53
Period size: 9 Copynumber: 4.4 Consensus size: 9
90429322 GTAGTGATTC
*
90429332 AATTTGGTT
1 AATTCGGTT
*
90429341 AATTCGGGT
1 AATTCGGTT
90429350 AATTCGGTT
1 AATTCGGTT
*
90429359 AATTCGATT
1 AATTCGGTT
90429368 AATT
1 AATT
90429372 TTTAACTAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.28, C:0.07, G:0.20, T:0.45
Consensus pattern (9 bp):
AATTCGGTT
Found at i:90429370 original size:18 final size:18
Alignment explanation
Indices: 90429327--90429371 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
90429317 ATTATGTAGT
*
90429327 GATTCAATTTGGTTAATTC
1 GATT-AATTCGGTTAATTC
**
90429346 GGGTAATTCGGTTAATTC
1 GATTAATTCGGTTAATTC
90429364 GATTAATT
1 GATTAATT
90429372 TTTAACTAAA
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
18 19 0.90
19 2 0.10
ACGTcount: A:0.27, C:0.09, G:0.20, T:0.44
Consensus pattern (18 bp):
GATTAATTCGGTTAATTC
Found at i:90429679 original size:4 final size:4
Alignment explanation
Indices: 90429670--90429703 Score: 59
Period size: 4 Copynumber: 8.5 Consensus size: 4
90429660 CTTTATACTG
*
90429670 TTTA TTTA TTTA TTTA TTCA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT
90429704 ACTTCCTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:90436911 original size:138 final size:138
Alignment explanation
Indices: 90436672--90436926 Score: 300
Period size: 138 Copynumber: 1.8 Consensus size: 138
90436662 AAAAATAACA
* * * *
90436672 AATCTTATCTTCCTGAAGTTGCAGTGGAGTAGATTGAAATTATAAATCCCATACCCCTGAAGTTG
1 AATCTTATCTCCCTGAAATTGCAGTGGAGCAGATTGAAATGATAAATCCCATACCCCTGAAGTTG
* * * * * * *
90436737 CAGTGGGATGGATTGAAGTTATAATGGCGAATCTTATCTCCCTAAAGTTGCAATAGAGCAGATTG
66 CAGTAGGATGGATTCAAATTACAATAGCGAACCTTATATCCCTAAAGTTGCAATAGAGCAGATTG
90436802 AAGCCACT
131 AAGCCACT
* * **
90436810 AATCTTATCTCCCTGAAATTGCAGTGGAGCAGATTGAAATGATAAGTCCTATACCTTTGAAGTTG
1 AATCTTATCTCCCTGAAATTGCAGTGGAGCAGATTGAAATGATAAATCCCATACCCCTGAAGTTG
* * *
90436875 CAGTAGG-TCGGA-TCAAATCTACCATAGC-AAGCCTTATATCCTTGAAGTTGCA
66 CAGTAGGAT-GGATTCAAAT-TACAATAGCGAA-CCTTATATCCCTAAAGTTGCA
90436927 GTGGAATAGA
Statistics
Matches: 96, Mismatches: 18, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
137 7 0.07
138 89 0.93
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.30
Consensus pattern (138 bp):
AATCTTATCTCCCTGAAATTGCAGTGGAGCAGATTGAAATGATAAATCCCATACCCCTGAAGTTG
CAGTAGGATGGATTCAAATTACAATAGCGAACCTTATATCCCTAAAGTTGCAATAGAGCAGATTG
AAGCCACT
Found at i:90437059 original size:45 final size:44
Alignment explanation
Indices: 90436952--90437061 Score: 130
Period size: 44 Copynumber: 2.5 Consensus size: 44
90436942 GCTACAAGCT
* * * * *
90436952 ACAAATCTTTTCTCCCTAAAGTTGTAGTGGGGTGGGTTAAAGTC
1 ACAAATCTTATCTCCCTAAAGTTGTAGTGGAGTGGATAAAAATC
* * *
90436996 ACAAACCTTATCTACCTAAATTTGTAGTGGAGTAGGATAAAAATC
1 ACAAATCTTATCTCCCTAAAGTTGTAGTGGAGT-GGATAAAAATC
*
90437041 ACAAATCTCATCTCCCTAAAG
1 ACAAATCTTATCTCCCTAAAG
90437062 CTGCAGGGGA
Statistics
Matches: 53, Mismatches: 12, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
44 28 0.53
45 25 0.47
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.30
Consensus pattern (44 bp):
ACAAATCTTATCTCCCTAAAGTTGTAGTGGAGTGGATAAAAATC
Found at i:90438608 original size:20 final size:19
Alignment explanation
Indices: 90438585--90438627 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 19
90438575 CTTTATACTG
90438585 TTTATTTATT-CATTCATTT
1 TTTATTTATTAC-TTCATTT
90438604 ATTTATTTATTACTTCATTT
1 -TTTATTTATTACTTCATTT
90438624 TTTA
1 TTTA
90438628 CACTTAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 4 0.18
20 17 0.77
21 1 0.05
ACGTcount: A:0.23, C:0.09, G:0.00, T:0.67
Consensus pattern (19 bp):
TTTATTTATTACTTCATTT
Found at i:90438866 original size:25 final size:24
Alignment explanation
Indices: 90438809--90438858 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 24
90438799 TTACCTTATT
* *
90438809 TATTTTATTATTATAATCATATTA
1 TATTTTATTATTATTATCATAGTA
90438833 TATTATTATTATTATTATCATAGTA
1 TATT-TTATTATTATTATCATAGTA
90438858 T
1 T
90438859 TCCTTTATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 4 0.17
25 19 0.83
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.58
Consensus pattern (24 bp):
TATTTTATTATTATTATCATAGTA
Found at i:90442621 original size:29 final size:29
Alignment explanation
Indices: 90442589--90442652 Score: 94
Period size: 29 Copynumber: 2.2 Consensus size: 29
90442579 GGGTAGATTG
* *
90442589 AAAGATTGAAGATTT-AAAGTTGGCTTGAT
1 AAAGATTAAAGATTTGAAA-TTGGCTGGAT
90442618 AAAGATTAAAGATTTGAAATTGGCTGGAT
1 AAAGATTAAAGATTTGAAATTGGCTGGAT
90442647 AAAGAT
1 AAAGAT
90442653 CAAATTATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
29 29 0.91
30 3 0.09
ACGTcount: A:0.42, C:0.03, G:0.23, T:0.31
Consensus pattern (29 bp):
AAAGATTAAAGATTTGAAATTGGCTGGAT
Found at i:90444528 original size:6 final size:6
Alignment explanation
Indices: 90444498--90444622 Score: 78
Period size: 6 Copynumber: 20.3 Consensus size: 6
90444488 AAGAAACATT
* * *
90444498 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATCAGA ATCAG- GTGACAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
* * * * * *
90444547 ATCAGA ATCAGA ATTAGA ATCAGA ATTAG- GTGACAGA ATCAAA ACCAGT
1 ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA ATCAGA
90444596 ATCAGGTA A-CAGA ATCAGA ATCAGA AT
1 ATCA-G-A ATCAGA ATCAGA ATCAGA AT
90444623 GTGAATGCAA
Statistics
Matches: 90, Mismatches: 18, Indels: 22
0.69 0.14 0.17
Matches are distributed among these distances:
5 5 0.06
6 73 0.81
7 9 0.10
8 3 0.03
ACGTcount: A:0.48, C:0.14, G:0.19, T:0.18
Consensus pattern (6 bp):
ATCAGA
Found at i:90444548 original size:19 final size:19
Alignment explanation
Indices: 90444524--90444587 Score: 78
Period size: 19 Copynumber: 3.4 Consensus size: 19
90444514 AAATGAGAAT
90444524 CAGAATCAGAATCAGGTGA
1 CAGAATCAGAATCAGGTGA
*
90444543 CAGAATCAGAATCA-G-AA
1 CAGAATCAGAATCAGGTGA
* *
90444560 TTAGAATCAGAATTAGGTGA
1 -CAGAATCAGAATCAGGTGA
90444580 CAGAATCA
1 CAGAATCA
90444588 AAACCAGTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
17 1 0.03
18 13 0.35
19 22 0.59
20 1 0.03
ACGTcount: A:0.45, C:0.14, G:0.22, T:0.19
Consensus pattern (19 bp):
CAGAATCAGAATCAGGTGA
Found at i:90444548 original size:37 final size:37
Alignment explanation
Indices: 90444507--90444613 Score: 135
Period size: 37 Copynumber: 2.9 Consensus size: 37
90444497 TATCAGAACT
*
90444507 AGAATCAAAATGAGAATCAGAATCAGAATCAGGTGAC
1 AGAATCAAAATCAGAATCAGAATCAGAATCAGGTGAC
* * *
90444544 AGAATCAGAATCAGAATTAGAATCAGAATTAGGTGAC
1 AGAATCAAAATCAGAATCAGAATCAGAATCAGGTGAC
* *
90444581 AGAATCAAAACCAGTATCAGGTAA-CAGAATCAG
1 AGAATCAAAATCAGAATCA-G-AATCAGAATCAG
90444614 AATCAGAATG
Statistics
Matches: 59, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
37 48 0.81
38 9 0.15
39 2 0.03
ACGTcount: A:0.48, C:0.14, G:0.21, T:0.18
Consensus pattern (37 bp):
AGAATCAAAATCAGAATCAGAATCAGAATCAGGTGAC
Found at i:90444556 original size:31 final size:31
Alignment explanation
Indices: 90444519--90444622 Score: 97
Period size: 31 Copynumber: 3.4 Consensus size: 31
90444509 AATCAAAATG
*
90444519 AGAATCAGAATCAGAATCAGGTGACAGAATC
1 AGAATCAGAATCAGAATCAGGTAACAGAATC
* * *
90444550 AGAATCAGAATTAGAATCA-G-AATTAG-GTGAC
1 AGAATCAGAATCAGAATCAGGTAA-CAGAAT--C
* * *
90444581 AGAATCAAAACCAGTATCAGGTAACAGAATC
1 AGAATCAGAATCAGAATCAGGTAACAGAATC
90444612 AGAATCAGAAT
1 AGAATCAGAAT
90444623 GTGAATGCAA
Statistics
Matches: 55, Mismatches: 12, Indels: 12
0.70 0.15 0.15
Matches are distributed among these distances:
29 2 0.04
30 3 0.05
31 44 0.80
32 3 0.05
33 3 0.05
ACGTcount: A:0.47, C:0.14, G:0.20, T:0.18
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGGTAACAGAATC
Found at i:90444583 original size:25 final size:25
Alignment explanation
Indices: 90444555--90444622 Score: 82
Period size: 25 Copynumber: 2.7 Consensus size: 25
90444545 GAATCAGAAT
* * *
90444555 CAGAATTAGAATCAGAATTAGGTGA
1 CAGAATCAGAATCAGAATCAGGTAA
* * *
90444580 CAGAATCAAAACCAGTATCAGGTAA
1 CAGAATCAGAATCAGAATCAGGTAA
90444605 CAGAATCAGAATCAGAAT
1 CAGAATCAGAATCAGAAT
90444623 GTGAATGCAA
Statistics
Matches: 34, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.47, C:0.15, G:0.19, T:0.19
Consensus pattern (25 bp):
CAGAATCAGAATCAGAATCAGGTAA
Found at i:90444912 original size:22 final size:22
Alignment explanation
Indices: 90444884--90444939 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
90444874 AACAGCACAC
90444884 AGCCATAATCAGGTTGGCATAA
1 AGCCATAATCAGGTTGGCATAA
* **
90444906 AGCCAT-ATGTAGGTTGGTGTAA
1 AGCCATAAT-CAGGTTGGCATAA
90444928 AGCCATAATCAG
1 AGCCATAATCAG
90444940 AATAATTGGC
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
21 2 0.07
22 24 0.86
23 2 0.07
ACGTcount: A:0.34, C:0.16, G:0.25, T:0.25
Consensus pattern (22 bp):
AGCCATAATCAGGTTGGCATAA
Found at i:90445476 original size:27 final size:27
Alignment explanation
Indices: 90445446--90445560 Score: 126
Period size: 27 Copynumber: 4.3 Consensus size: 27
90445436 GGCAAAATAA
* *
90445446 TAATTTTACCCCACAAGGGTATCTCAG
1 TAATTTTACCCTACAAGGGTATTTCAG
* *
90445473 TAATTCTACCCTACAGGGGTATTTC-G
1 TAATTTTACCCTACAAGGGTATTTCAG
*
90445499 -ATATTTCTACCCTACAAGGGTATTTTAG
1 TA-ATTT-TACCCTACAAGGGTATTTCAG
* * *
90445527 TAATTCTACCCTACAGGGGTATTTCAA
1 TAATTTTACCCTACAAGGGTATTTCAG
90445554 TAATTTT
1 TAATTTT
90445561 GTAAATCGAG
Statistics
Matches: 72, Mismatches: 12, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
25 1 0.01
26 4 0.06
27 62 0.86
28 4 0.06
29 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.15, T:0.37
Consensus pattern (27 bp):
TAATTTTACCCTACAAGGGTATTTCAG
Found at i:90445510 original size:54 final size:53
Alignment explanation
Indices: 90445448--90445560 Score: 172
Period size: 54 Copynumber: 2.1 Consensus size: 53
90445438 CAAAATAATA
90445448 ATTTTACCCCACAAGGGTATCTCAGTAATTCTACCCTACAGGGGTATTTCGAT
1 ATTTTACCCCACAAGGGTATCTCAGTAATTCTACCCTACAGGGGTATTTCGAT
* * * *
90445501 ATTTCTACCCTACAAGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTCAAT
1 ATTT-TACCCCACAAGGGTATCTCAGTAATTCTACCCTACAGGGGTATTTCGAT
90445555 AATTTT
1 -ATTTT
90445561 GTAAATCGAG
Statistics
Matches: 54, Mismatches: 4, Indels: 3
0.89 0.07 0.05
Matches are distributed among these distances:
53 4 0.07
54 46 0.85
55 4 0.07
ACGTcount: A:0.27, C:0.21, G:0.15, T:0.36
Consensus pattern (53 bp):
ATTTTACCCCACAAGGGTATCTCAGTAATTCTACCCTACAGGGGTATTTCGAT
Found at i:90447649 original size:6 final size:6
Alignment explanation
Indices: 90447619--90447731 Score: 63
Period size: 6 Copynumber: 18.3 Consensus size: 6
90447609 AAGAAACATT
* * *
90447619 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATCAGA ATCAG- GTGACAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
* * * *
90447668 ATCAAA ATCAGA ATTAGGCG A-CAGA ATCAGA ATCAGT ATCAGGTA A-CAGA
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA
*
90447718 ATCAAA ATCAGA AT
1 ATCAGA ATCAGA AT
90447732 ATGAATGCAA
Statistics
Matches: 80, Mismatches: 16, Indels: 22
0.68 0.14 0.19
Matches are distributed among these distances:
5 5 0.06
6 63 0.79
7 9 0.11
8 3 0.04
ACGTcount: A:0.49, C:0.15, G:0.19, T:0.18
Consensus pattern (6 bp):
ATCAGA
Found at i:90447676 original size:25 final size:25
Alignment explanation
Indices: 90447640--90447731 Score: 130
Period size: 25 Copynumber: 3.7 Consensus size: 25
90447630 AATCAAAATG
*
90447640 AGAATCAGAATCAGAATCAGGTGAC
1 AGAATCAAAATCAGAATCAGGTGAC
* *
90447665 AGAATCAAAATCAGAATTAGGCGAC
1 AGAATCAAAATCAGAATCAGGTGAC
* * *
90447690 AGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAAAATCAGAATCAGGTGAC
90447715 AGAATCAAAATCAGAAT
1 AGAATCAAAATCAGAAT
90447732 ATGAATGCAA
Statistics
Matches: 57, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 57 1.00
ACGTcount: A:0.48, C:0.15, G:0.20, T:0.17
Consensus pattern (25 bp):
AGAATCAAAATCAGAATCAGGTGAC
Found at i:90448021 original size:22 final size:22
Alignment explanation
Indices: 90447993--90448048 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 22
90447983 AACGGCACAC
90447993 AGCCATAATCAGGTTAGCAG-AA
1 AGCCATAATCAGGTTAGC-GCAA
* *
90448015 AGCCAT-ATGTAGGTTGGCGCAA
1 AGCCATAAT-CAGGTTAGCGCAA
90448037 AGCCATAATCAG
1 AGCCATAATCAG
90448049 AATAATTGGC
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
21 3 0.11
22 23 0.82
23 2 0.07
ACGTcount: A:0.36, C:0.20, G:0.25, T:0.20
Consensus pattern (22 bp):
AGCCATAATCAGGTTAGCGCAA
Found at i:90448592 original size:27 final size:27
Alignment explanation
Indices: 90448562--90448668 Score: 124
Period size: 27 Copynumber: 4.0 Consensus size: 27
90448552 GGGGCAAAAT
* * *
90448562 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
90448589 GGTAATTCTATCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
90448616 GGTATTTATACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
** *
90448643 AATAATTCTACCCTACAGGGGTATTT
1 GGTAATTCTACCCTACAAGGGTATTT
90448669 TAATAATTTT
Statistics
Matches: 66, Mismatches: 14, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
27 66 1.00
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:90448664 original size:54 final size:53
Alignment explanation
Indices: 90448566--90448668 Score: 152
Period size: 54 Copynumber: 1.9 Consensus size: 53
90448556 CAAAATGGTA
** *
90448566 ATTTTACCCCACAAGGGTATCTCGGTAATTCTATCCTACAGGGGTATTTCGGT
1 ATTTTACCCCACAAGGGTATCTCAATAATTCTACCCTACAGGGGTATTTCGGT
* *
90448619 ATTTATACCCTACAAGGGTATTTCAATAATTCTACCCTACAGGGGTATTT
1 ATTT-TACCCCACAAGGGTATCTCAATAATTCTACCCTACAGGGGTATTT
90448669 TAATAATTTT
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
53 4 0.09
54 40 0.91
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.35
Consensus pattern (53 bp):
ATTTTACCCCACAAGGGTATCTCAATAATTCTACCCTACAGGGGTATTTCGGT
Found at i:90453319 original size:16 final size:16
Alignment explanation
Indices: 90453298--90453329 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
90453288 AAGGTACATC
90453298 TGAGATTACTTTGTTA
1 TGAGATTACTTTGTTA
*
90453314 TGAGATTATTTTGTTA
1 TGAGATTACTTTGTTA
90453330 CCTGAGTGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.03, G:0.19, T:0.53
Consensus pattern (16 bp):
TGAGATTACTTTGTTA
Found at i:90456450 original size:3 final size:3
Alignment explanation
Indices: 90456442--90456473 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
90456432 ATCACATGTT
90456442 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
90456474 TGGATGTAAT
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:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:90456593 original size:73 final size:73
Alignment explanation
Indices: 90456474--90456659 Score: 345
Period size: 73 Copynumber: 2.5 Consensus size: 73
90456464 TATTATTATT
*
90456474 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
1 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
90456539 ATTTTAAG
66 ATTTTAAG
* *
90456547 TGGATATAATGATGAAACTTAGTTGTATTCTAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
1 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
90456612 ATTTTAAG
66 ATTTTAAG
90456620 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTT
1 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTT
90456660 GTCAAGTTGT
Statistics
Matches: 108, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
73 108 1.00
ACGTcount: A:0.28, C:0.06, G:0.24, T:0.41
Consensus pattern (73 bp):
TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
ATTTTAAG
Found at i:90460888 original size:3 final size:3
Alignment explanation
Indices: 90460880--90460917 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
90460870 ATCACATGTT
90460880 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
90460918 TGGATGTAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Done.