Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
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: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 92 of 313
Found at i:30642715 original size:15 final size:15
Alignment explanation
Indices: 30642681--30642728 Score: 60
Period size: 15 Copynumber: 3.1 Consensus size: 15
30642671 ATAAATAAAT
*
30642681 TATATAAATACAACAA
1 TATATAAA-AAAACAA
*
30642697 TATATAAAAAAAGAA
1 TATATAAAAAAACAA
30642712 TATATAAAAATAACAA
1 TATATAAAAA-AACAA
30642728 T
1 T
30642729 TGATATAGCA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
15 15 0.54
16 13 0.46
ACGTcount: A:0.67, C:0.06, G:0.02, T:0.25
Consensus pattern (15 bp):
TATATAAAAAAACAA
Found at i:30642829 original size:17 final size:17
Alignment explanation
Indices: 30642809--30642848 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
30642799 AATACCCCAA
*
30642809 AATAATTTAAAATAAAT-
1 AATAATATAAAA-AAATG
30642826 AATAATATAAAAAAATG
1 AATAATATAAAAAAATG
30642843 AATAAT
1 AATAAT
30642849 GACTCCTTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 4 0.19
17 17 0.81
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.30
Consensus pattern (17 bp):
AATAATATAAAAAAATG
Found at i:30643540 original size:55 final size:54
Alignment explanation
Indices: 30643462--30643567 Score: 149
Period size: 55 Copynumber: 1.9 Consensus size: 54
30643452 CATCTCCGAC
* * * * *
30643462 GGGGCTTTAATCGGATCCTCAGGGATCCATCTGCCTTTGGACTGGAGGAGCCGG
1 GGGGCTTTAACCGAATCCCCAGGGATCCATCTGCCCTTGGACCGGAGGAGCCGG
*
30643516 GGGGACTTTAACCGAATCCCCAGGGATCCGTCTGCCCTTGGACCGGAGGAGC
1 GGGG-CTTTAACCGAATCCCCAGGGATCCATCTGCCCTTGGACCGGAGGAGC
30643568 AAACGTCAAC
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
54 4 0.09
55 41 0.91
ACGTcount: A:0.18, C:0.27, G:0.34, T:0.21
Consensus pattern (54 bp):
GGGGCTTTAACCGAATCCCCAGGGATCCATCTGCCCTTGGACCGGAGGAGCCGG
Found at i:30644724 original size:44 final size:43
Alignment explanation
Indices: 30644655--30644902 Score: 175
Period size: 44 Copynumber: 5.6 Consensus size: 43
30644645 ACATCAGTTG
*
30644655 GCTCCCTTGCTACCTCA-GGATGATAAGACTACAATCATTAGCCT
1 GCTCCCTTGCTACCTCAGGGA-GATAAGACTACAATC-TTAGTCT
* * *
30644699 GCTCCCTTGCTACCTCAGGGAGATAAGGCT--AATGGCTAAAATCT
1 GCTCCCTTGCTACCTCAGGGAGATAAGACTACAAT--CT-TAGTCT
* * * * * * *
30644743 GCTCCCCTGCTACCTTAGGAAGATAAGATTCGCCATCTTTGATCT
1 GCTCCCTTGCTACCTCAGGGAGATAAGACT-ACAATCTTAG-TCT
* * *
30644788 GCTCCAC-TACTA-CTTAGGGAGATAAGATCTACAATCTTCAATCT
1 GCTCC-CTTGCTACCTCAGGGAGATAAGA-CTACAATCTT-AGTCT
* * **
30644832 GCTCCCTTGTTACCTTAGTAAGATAAGACTACAATCATTAG-CTT
1 GCTCCCTTGCTACCTCAGGGAGATAAGACTACAATC-TTAGTC-T
*
30644876 CCTCCCTTGCTACCTCAGGGAGATAAG
1 GCTCCCTTGCTACCTCAGGGAGATAAG
30644903 GCTAGTGGCT
Statistics
Matches: 159, Mismatches: 30, Indels: 30
0.73 0.14 0.14
Matches are distributed among these distances:
42 3 0.02
43 3 0.02
44 117 0.74
45 33 0.21
46 1 0.01
47 2 0.01
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.29
Consensus pattern (43 bp):
GCTCCCTTGCTACCTCAGGGAGATAAGACTACAATCTTAGTCT
Found at i:30644840 original size:177 final size:176
Alignment explanation
Indices: 30644544--30644996 Score: 574
Period size: 177 Copynumber: 2.6 Consensus size: 176
30644534 TATCAGAGAA
* * *
30644544 ATAAGGCTTGTGGCTAAAATCTGCTCCCCTGCTACCTTAGGAAAATAAGATTCACCGCTTTCGAT
1 ATAAGGCTAGTGGCTAAAATCTGCTCCCCTGCTACCTTAGGAAGATAAGATTCACCACTTTCGAT
* ** * * *
30644609 CTG-TCCCATTGTTATCTCAAGGAGACAAAATCTGAAACATCAGTTGGCTCCCTTGCTACCTCAG
66 CTGCT-CCACTACTA-CTTAGGGAGACAAAATCTGAAACATCAATTGGCTCCCTTGCTACCTCAG
* *
30644673 GATGATAAGACTACAATCATTAGCCTGCTCCCTTGCTACCTCAGGGAG
129 GAAGATAAGACTACAATCATTAGCCTCCTCCCTTGCTACCTCAGGGAG
* *
30644721 ATAAGGCTAATGGCTAAAATCTGCTCCCCTGCTACCTTAGGAAGATAAGATTCGCCATCTTT-GA
1 ATAAGGCTAGTGGCTAAAATCTGCTCCCCTGCTACCTTAGGAAGATAAGATTCACCA-CTTTCGA
* * * * *
30644785 TCTGCTCCACTACTACTTAGGGAGATAAGATCT-ACAATCTTCAATCT-GCTCCCTTGTTACCTT
65 TCTGCTCCACTACTACTTAGGGAGACAAAATCTGA-AA-CATCAAT-TGGCTCCCTTGCTACCTC
* *
30644848 AGTAAGATAAGACTACAATCATTAGCTTCCTCCCTTGCTACCTCAGGGAG
127 AGGAAGATAAGACTACAATCATTAGCCTCCTCCCTTGCTACCTCAGGGAG
**
30644898 ATAAGGCTAGTGGCTAAAATCTGC-CCCCTGCTACCTCGGGAAGATAAGATTCACCACTTTCGAT
1 ATAAGGCTAGTGGCTAAAATCTGCTCCCCTGCTACCTTAGGAAGATAAGATTCACCACTTTCGAT
* * * * *
30644962 TTACTCCACTTCTGCTTAGGGAGACAAACTCTGAA
66 CTGCTCCACTACTACTTAGGGAGACAAAATCTGAA
30644997 TTCACCAATA
Statistics
Matches: 238, Mismatches: 31, Indels: 15
0.84 0.11 0.05
Matches are distributed among these distances:
175 5 0.02
176 74 0.31
177 153 0.64
178 6 0.03
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (176 bp):
ATAAGGCTAGTGGCTAAAATCTGCTCCCCTGCTACCTTAGGAAGATAAGATTCACCACTTTCGAT
CTGCTCCACTACTACTTAGGGAGACAAAATCTGAAACATCAATTGGCTCCCTTGCTACCTCAGGA
AGATAAGACTACAATCATTAGCCTCCTCCCTTGCTACCTCAGGGAG
Found at i:30657269 original size:21 final size:21
Alignment explanation
Indices: 30657243--30657292 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
30657233 AAATTAACAC
** * *
30657243 AAATGAAATGTAACAAGTTTA
1 AAATGAAATAAAAAAAGGTTA
30657264 AAATGATAATAAAAAAAGGTTA
1 AAATGA-AATAAAAAAAGGTTA
30657286 AAATGAA
1 AAATGAA
30657293 TAATATGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 7 0.29
22 17 0.71
ACGTcount: A:0.60, C:0.02, G:0.14, T:0.24
Consensus pattern (21 bp):
AAATGAAATAAAAAAAGGTTA
Found at i:30663071 original size:17 final size:17
Alignment explanation
Indices: 30663051--30663087 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
30663041 GGCAAAGTTT
*
30663051 TGTTTGGGGTGAAGTAA
1 TGTTTAGGGTGAAGTAA
30663068 TG-TTAGGGTGAAGTAA
1 TGTTTAGGGTGAAGTAA
30663084 TGTT
1 TGTT
30663088 AAGCATTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 15 0.83
17 3 0.17
ACGTcount: A:0.24, C:0.00, G:0.38, T:0.38
Consensus pattern (17 bp):
TGTTTAGGGTGAAGTAA
Found at i:30663078 original size:16 final size:16
Alignment explanation
Indices: 30663057--30663088 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
30663047 GTTTTGTTTG
30663057 GGGTGAAGTAATGTTA
1 GGGTGAAGTAATGTTA
30663073 GGGTGAAGTAATGTTA
1 GGGTGAAGTAATGTTA
30663089 AGCATTTAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.38, T:0.31
Consensus pattern (16 bp):
GGGTGAAGTAATGTTA
Found at i:30666314 original size:24 final size:24
Alignment explanation
Indices: 30666257--30666314 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
30666247 TTATTTTCAT
* *
30666257 TATTATTATTGTGTTTATTTTTAC
1 TATTATTATTGTATTTATTATTAC
* *
30666281 TACTATTATTGTATTTATTATTAG
1 TATTATTATTGTATTTATTATTAC
*
30666305 TATTAGTATT
1 TATTATTATT
30666315 ATAATTACTA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.26, C:0.03, G:0.09, T:0.62
Consensus pattern (24 bp):
TATTATTATTGTATTTATTATTAC
Found at i:30666541 original size:16 final size:16
Alignment explanation
Indices: 30666497--30666560 Score: 64
Period size: 16 Copynumber: 4.2 Consensus size: 16
30666487 TTCTAATGTG
30666497 TATGTAT-TATATATAT
1 TATGTATATAT-TATAT
* *
30666513 T-TTTA-ATACTATAT
1 TATGTATATATTATAT
30666527 TATGTATATATTATAT
1 TATGTATATATTATAT
*
30666543 TATATATATA-TATAT
1 TATGTATATATTATAT
30666558 TAT
1 TAT
30666561 ATTTTTATGT
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
14 6 0.15
15 16 0.40
16 18 0.45
ACGTcount: A:0.39, C:0.02, G:0.03, T:0.56
Consensus pattern (16 bp):
TATGTATATATTATAT
Found at i:30666545 original size:39 final size:39
Alignment explanation
Indices: 30666501--30666577 Score: 102
Period size: 39 Copynumber: 2.0 Consensus size: 39
30666491 AATGTGTATG
* *
30666501 TATTATATATATTTTTAATACTA-TATTATGTATATATTA
1 TATTATATATATATATAATA-TATTATTATGTATATATTA
* *
30666540 TATTATATATATATATATTATATTTTTATGTATATATT
1 TATTATATATATATATAATATATTATTATGTATATATT
30666578 TTTAATATCA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
38 2 0.06
39 31 0.94
ACGTcount: A:0.38, C:0.01, G:0.03, T:0.58
Consensus pattern (39 bp):
TATTATATATATATATAATATATTATTATGTATATATTA
Found at i:30666585 original size:23 final size:23
Alignment explanation
Indices: 30666504--30666576 Score: 69
Period size: 25 Copynumber: 3.0 Consensus size: 23
30666494 GTGTATGTAT
30666504 TATA-TATATTTTTAATACTATAT-
1 TATATTATATTTTT-ATA-TATATA
*
30666527 TATGTATATATTATATTATATATATA
1 TATAT-TATATT-T-TTATATATATA
*
30666553 TATATTATATTTTTATGTATATA
1 TATATTATATTTTTATATATATA
30666576 T
1 T
30666577 TTTTAATATC
Statistics
Matches: 42, Mismatches: 3, Indels: 10
0.76 0.05 0.18
Matches are distributed among these distances:
23 14 0.33
24 1 0.02
25 17 0.40
26 8 0.19
27 2 0.05
ACGTcount: A:0.38, C:0.01, G:0.03, T:0.58
Consensus pattern (23 bp):
TATATTATATTTTTATATATATA
Found at i:30666760 original size:3 final size:3
Alignment explanation
Indices: 30666752--30666819 Score: 75
Period size: 3 Copynumber: 22.0 Consensus size: 3
30666742 TAAATTCATA
* *
30666752 TAT TAT TAT CAT TAT TTT CTACGT TAT -AT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT -TA--T TAT TAT TAT TAT TAT TAT TAT TAT
*
30666799 TAT TAT TAT TAT TAT CAT TAT
1 TAT TAT TAT TAT TAT TAT TAT
30666820 CATTGCCATT
Statistics
Matches: 55, Mismatches: 6, Indels: 8
0.80 0.09 0.12
Matches are distributed among these distances:
2 2 0.04
3 49 0.89
4 1 0.02
5 2 0.04
6 1 0.02
ACGTcount: A:0.31, C:0.06, G:0.01, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:30674133 original size:32 final size:32
Alignment explanation
Indices: 30674092--30674156 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
30674082 GTCCAAAACC
30674092 ACGAGGATGAGCCTCCAGCTAACGATCGGAAG
1 ACGAGGATGAGCCTCCAGCTAACGATCGGAAG
*
30674124 ACGAGGATGAGCCTCCAGCTGACGATCGGAAG
1 ACGAGGATGAGCCTCCAGCTAACGATCGGAAG
30674156 A
1 A
30674157 GGGGCCCTAC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.31, C:0.25, G:0.32, T:0.12
Consensus pattern (32 bp):
ACGAGGATGAGCCTCCAGCTAACGATCGGAAG
Found at i:30679321 original size:44 final size:44
Alignment explanation
Indices: 30679255--30679869 Score: 761
Period size: 44 Copynumber: 14.2 Consensus size: 44
30679245 TCCTTGAAAC
*
30679255 AGATAACAGATTTGGCGTCTCTGTAGTGGCGGAGAGCAGATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
* ** *
30679299 ATATAACAGATTTGGCACCTCTGTAGCGGCAGAGAGCAGATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
* **
30679343 AGATAACAGATTTGACGTCTCTGTAGCGGCGGAGAGCAGATTAA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
* * **
30679387 AGAT----GATTTGGCATCT-TAGTAGCGACGGAGAGCAGATTAA
1 AGATAACAGATTTGGCGTCTCT-GTAGCGGCGGAGAGCAGATCGA
* ** *
30679427 AGAT----GATTTGGCATCTCTGTAGCGATGGAGAGCAAATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
* *
30679467 AAATAACAGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
** *
30679511 AGATAGTAGATTTGGAGTCTCTGTAGCGGCGGAGAGCAGATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
* *
30679555 AGATAATAGATTTGGCGTCTCTGTAGTGGCGGAGAGCAGATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
* * * *
30679599 AGATAACAGATTTGGCGTTTCCGTAGCGGCAGAGAGCAGATTGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
* * * *
30679643 AGATAACAGATTTGGTGTCTCCGTAACGGCGGAGAGCAGATAGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
*
30679687 AGATAACAGATTTGGCGTTTCTGTAGCGGCGGAGAGCAGATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
* * *
30679731 AGAT----GATTTGGCATCTCTGTAGCGGCGGAGAACAAATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
* *
30679771 AGATAACAGATTTGGCGTCTCTGTAGCAGCAGAGAGCAGATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
* * *
30679815 AGATAACTGATTTGGCGTCTCTGTAGTGGCAGAGAGCAGATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
*
30679859 AAATAACAGAT
1 AGATAACAGAT
30679870 CGATGTTCCT
Statistics
Matches: 500, Mismatches: 61, Indels: 20
0.86 0.10 0.03
Matches are distributed among these distances:
39 1 0.00
40 104 0.21
41 1 0.00
44 394 0.79
ACGTcount: A:0.30, C:0.16, G:0.31, T:0.23
Consensus pattern (44 bp):
AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
Found at i:30679808 original size:260 final size:253
Alignment explanation
Indices: 30679255--30679869 Score: 804
Period size: 260 Copynumber: 2.4 Consensus size: 253
30679245 TCCTTGAAAC
* * * **
30679255 AGATAACAGATTTGGCGTCTCTGTAGTGGCGGAGAGCAGATCGAATATAACAGATTTGGCACCTC
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAATAGATTTGGCGTCTC
* * *
30679320 TGTAGCGGCAGAGAGCAGATCGAAGATAACAGATTTGACGTCTCTGTAGCGGCGGAGAGCAGATT
66 TGTAGTGGCAGAGAGCAGATCGAAGATAACAGATTTGACGTCTCCGTAGCGGCAGAGAGCAGATT
* *
30679385 AAAGATGATTTGGCATCTTAGTAGCGACGGAGAGCAGATTAAAGATGATTTGGCATCTCTGTAGC
131 AAAGATGATTTGGCATCTCAGTAACGACGGAGAGCAGATTAAAGATGATTTGGCATCTCTGTAGC
* * *
30679450 GATGGAGAGCAAATCGAAAATAACAGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGA
196 GACGGAGAGCAAATCGAAAAT---AGATTTGGCATCTCTGTAGCGGCGGAGAACAAATCGA
** *
30679511 AGATAGTAGATTTGGAGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAATAGATTTGGCGTCTC
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAATAGATTTGGCGTCTC
* * *
30679576 TGTAGTGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTTTCCGTAGCGGCAGAGAGCAGATT
66 TGTAGTGGCAGAGAGCAGATCGAAGATAACAGATTTGACGTCTCCGTAGCGGCAGAGAGCAGATT
* ** * * *
30679641 GAAGATAACAGATTTGGTGTCTCCGTAACGGCGGAGAGCAGA-TAGAAGATAACAGATTTGGCGT
131 AAAGAT----GATTTGGCATCTCAGTAACGACGGAGAGCAGATTA-AAGAT----GATTTGGCAT
* * * *
30679705 TTCTGTAGCGGCGGAGAGCAGATCGAAGAT-GATTTGGCATCTCTGTAGCGGCGGAGAACAAATC
187 CTCTGTAGCGACGGAGAGCAAATCGAAAATAGATTTGGCATCTCTGTAGCGGCGGAGAACAAATC
30679769 GA
252 GA
* *
30679771 AGATAACAGATTTGGCGTCTCTGTAGCAGCAGAGAGCAGATCGAAGATAACT-GATTTGGCGTCT
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAA-TAGATTTGGCGTCT
*
30679835 CTGTAGTGGCAGAGAGCAGATCGAAAATAACAGAT
65 CTGTAGTGGCAGAGAGCAGATCGAAGATAACAGAT
30679870 CGATGTTCCT
Statistics
Matches: 313, Mismatches: 36, Indels: 16
0.86 0.10 0.04
Matches are distributed among these distances:
256 121 0.39
259 2 0.01
260 155 0.50
261 1 0.00
264 34 0.11
ACGTcount: A:0.30, C:0.16, G:0.31, T:0.23
Consensus pattern (253 bp):
AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAATAGATTTGGCGTCTC
TGTAGTGGCAGAGAGCAGATCGAAGATAACAGATTTGACGTCTCCGTAGCGGCAGAGAGCAGATT
AAAGATGATTTGGCATCTCAGTAACGACGGAGAGCAGATTAAAGATGATTTGGCATCTCTGTAGC
GACGGAGAGCAAATCGAAAATAGATTTGGCATCTCTGTAGCGGCGGAGAACAAATCGA
Found at i:30679817 original size:128 final size:129
Alignment explanation
Indices: 30679255--30679859 Score: 690
Period size: 128 Copynumber: 4.7 Consensus size: 129
30679245 TCCTTGAAAC
* * **
30679255 AGATAACAGATTTGGCGTCTCTGTAGTGGCGGAGAGCAGATCGAATATAACAGATTTGGCACCTC
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTC
* * * *
30679320 TGTAGCGGCAGAGAGCAGATCGAAGATAACAGATTTGACGTCTCTGTAGCGGCGGAGAGCAGATT
66 TGTAGCGGCGGAGAGCAGATCGAAGAT---AGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATC
*
30679385 AA
128 GA
* * ** *
30679387 AGAT----GATTTGGCATCT-TAGTAGCGACGGAGAGCAGATTAAAGAT----GATTTGGCATCT
1 AGATAACAGATTTGGCGTCTCT-GTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCT
** * *
30679443 CTGTAGCGATGGAGAGCAAATCGAAAATAACAGATTTGGCATCTCTGTAGCGGCGGAGAGCAGAT
65 CTGTAGCGGCGGAGAGCAGATCGAAGAT---AGATTTGGCATCTCTGTAGCGGCGGAGAGCAGAT
30679508 CGA
127 CGA
** * *
30679511 AGATAGTAGATTTGGAGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAATAGATTTGGCGTCTC
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTC
* * * * * *
30679576 TGTAGTGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTTTCCGTAGCGGCAGAGAGCAGATT
66 TGTAGCGGCGGAGAGCAGATCGAAGAT---AGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATC
30679641 GA
128 GA
* * * * *
30679643 AGATAACAGATTTGGTGTCTCCGTAACGGCGGAGAGCAGATAGAAGATAACAGATTTGGCGTTTC
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTC
* *
30679708 TGTAGCGGCGGAGAGCAGATCGAAGAT-GATTTGGCATCTCTGTAGCGGCGGAGAACAAATCGA
66 TGTAGCGGCGGAGAGCAGATCGAAGATAGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGA
* * *
30679771 AGATAACAGATTTGGCGTCTCTGTAGCAGCAGAGAGCAGATCGAAGATAACTGATTTGGCGTCTC
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTC
* *
30679836 TGTAGTGGCAGAGAGCAGATCGAA
66 TGTAGCGGCGGAGAGCAGATCGAA
30679860 AATAACAGAT
Statistics
Matches: 405, Mismatches: 58, Indels: 24
0.83 0.12 0.05
Matches are distributed among these distances:
124 74 0.18
127 1 0.00
128 173 0.43
129 1 0.00
132 156 0.39
ACGTcount: A:0.30, C:0.16, G:0.31, T:0.23
Consensus pattern (129 bp):
AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTC
TGTAGCGGCGGAGAGCAGATCGAAGATAGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGA
Found at i:30693526 original size:26 final size:26
Alignment explanation
Indices: 30693497--30693547 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
30693487 ATAAAAGGTC
*
30693497 TAAAATAAATAATATAGAAAAAATAT
1 TAAAATAAATAATATACAAAAAATAT
* *
30693523 TAAAGTAAATAATATACATAAAATA
1 TAAAATAAATAATATACAAAAAATA
30693548 AAAATATTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.27
Consensus pattern (26 bp):
TAAAATAAATAATATACAAAAAATAT
Found at i:30693583 original size:19 final size:18
Alignment explanation
Indices: 30693519--30693593 Score: 75
Period size: 19 Copynumber: 4.3 Consensus size: 18
30693509 TATAGAAAAA
*
30693519 ATAT-TAAAGTAAATAAT
1 ATATATAAAATAAATAAT
*
30693536 ATACATAAAATAAA-AAT
1 ATATATAAAATAAATAAT
* *
30693553 AT-TTTAATATAAATAAT
1 ATATATAAAATAAATAAT
30693570 ATATATGAAAATAAATAAT
1 ATATAT-AAAATAAATAAT
*
30693589 TTATA
1 ATATA
30693594 AAGAGTTTAA
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
16 8 0.17
17 13 0.28
18 10 0.22
19 15 0.33
ACGTcount: A:0.60, C:0.01, G:0.03, T:0.36
Consensus pattern (18 bp):
ATATATAAAATAAATAAT
Found at i:30695512 original size:15 final size:15
Alignment explanation
Indices: 30695461--30695515 Score: 65
Period size: 16 Copynumber: 3.5 Consensus size: 15
30695451 AGATTGGAAA
* *
30695461 GAAAATTAGAATGAT
1 GAAAAATAGAAGGAT
*
30695476 GAAAAATTGAAGAGAT
1 GAAAAATAGAAG-GAT
30695492 GAAAAACTAGAAGGAT
1 GAAAAA-TAGAAGGAT
30695508 GAAAAATA
1 GAAAAATA
30695516 CATAAAAGAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
15 11 0.32
16 18 0.53
17 5 0.15
ACGTcount: A:0.58, C:0.02, G:0.22, T:0.18
Consensus pattern (15 bp):
GAAAAATAGAAGGAT
Found at i:30699482 original size:49 final size:47
Alignment explanation
Indices: 30699374--30699502 Score: 150
Period size: 49 Copynumber: 2.7 Consensus size: 47
30699364 GTGGTTGCCA
*
30699374 ACCTAGTTAACAACTAACATGTCCTACCAGTGGCCCAACATACACGCC
1 ACCTAGTTAGCAACTAACATG-CCTACCAGTGGCCCAACATACACGCC
* * * * *
30699422 ACTCTGGTTAGCAACCAACATGCCCTACTAGTGGCCCATCATACACTCC
1 AC-CTAGTTAGCAACTAACATG-CCTACCAGTGGCCCAACATACACGCC
* *
30699471 TACCTATTTAGCAACTAGCATGCCTACCAGTG
1 -ACCTAGTTAGCAACTAACATGCCTACCAGTG
30699503 ATCCGTCGTA
Statistics
Matches: 67, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
48 11 0.16
49 54 0.81
50 2 0.03
ACGTcount: A:0.29, C:0.34, G:0.14, T:0.22
Consensus pattern (47 bp):
ACCTAGTTAGCAACTAACATGCCTACCAGTGGCCCAACATACACGCC
Found at i:30728071 original size:22 final size:21
Alignment explanation
Indices: 30728030--30728083 Score: 81
Period size: 22 Copynumber: 2.5 Consensus size: 21
30728020 ATATTATCAT
*
30728030 AACAGTTCAGATAAAATATAG
1 AACAGATCAGATAAAATATAG
*
30728051 AGCAGATCAGATACAAATATAG
1 AACAGATCAGATA-AAATATAG
30728073 AACAGATCAGA
1 AACAGATCAGA
30728084 ATCAGATGCA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
21 11 0.38
22 18 0.62
ACGTcount: A:0.52, C:0.13, G:0.17, T:0.19
Consensus pattern (21 bp):
AACAGATCAGATAAAATATAG
Found at i:30731755 original size:26 final size:26
Alignment explanation
Indices: 30731726--30731776 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
30731716 ATTCAGAAAC
30731726 TTCCAAGAGATTTCAGAAATTCCTAA
1 TTCCAAGAGATTTCAGAAATTCCTAA
30731752 TTCCAAGAGATTTCAGAAATTCCTA
1 TTCCAAGAGATTTCAGAAATTCCTA
30731777 CTCCCCTTAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.37, C:0.20, G:0.12, T:0.31
Consensus pattern (26 bp):
TTCCAAGAGATTTCAGAAATTCCTAA
Found at i:30732477 original size:25 final size:25
Alignment explanation
Indices: 30732448--30732498 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
30732438 ATTCCAAATT
* *
30732448 GGATGAGATTGAAAAGTAATATTAG
1 GGATGAGACTGAAAAGTAAAATTAG
*
30732473 GGATGAGACTGAAGAGTAAAATTAG
1 GGATGAGACTGAAAAGTAAAATTAG
30732498 G
1 G
30732499 AGTTCAATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.43, C:0.02, G:0.31, T:0.24
Consensus pattern (25 bp):
GGATGAGACTGAAAAGTAAAATTAG
Found at i:30733676 original size:8 final size:8
Alignment explanation
Indices: 30733665--30733700 Score: 54
Period size: 8 Copynumber: 4.4 Consensus size: 8
30733655 AATTTTTTAG
30733665 ATTTTAAA
1 ATTTTAAA
30733673 ATTTTAAA
1 ATTTTAAA
*
30733681 AATTTAAA
1 ATTTTAAA
30733689 ATTATTAAA
1 ATT-TTAAA
30733698 ATT
1 ATT
30733701 ATTTTAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
8 17 0.68
9 8 0.32
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (8 bp):
ATTTTAAA
Found at i:30742394 original size:24 final size:22
Alignment explanation
Indices: 30742367--30742419 Score: 52
Period size: 22 Copynumber: 2.3 Consensus size: 22
30742357 GTAACACTAG
30742367 TTATCATATTATTAAATTAATATA
1 TTATCATATTA-TAAATT-ATATA
** * *
30742391 TTATGTTATTATATATTTTATA
1 TTATCATATTATAAATTATATA
30742413 TTATCAT
1 TTATCAT
30742420 TAAATTTAAA
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
22 9 0.39
23 5 0.22
24 9 0.39
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.57
Consensus pattern (22 bp):
TTATCATATTATAAATTATATA
Found at i:30742767 original size:44 final size:44
Alignment explanation
Indices: 30742704--30742792 Score: 160
Period size: 44 Copynumber: 2.0 Consensus size: 44
30742694 TGACTGTTCA
*
30742704 ACTATAAATTCAAGTTTTTTTAAGTTTGGGTTAGATTAATCTCG
1 ACTATAAATTCAAGCTTTTTTAAGTTTGGGTTAGATTAATCTCG
*
30742748 ACTATAAATTTAAGCTTTTTTAAGTTTGGGTTAGATTAATCTCG
1 ACTATAAATTCAAGCTTTTTTAAGTTTGGGTTAGATTAATCTCG
30742792 A
1 A
30742793 ACTCGAAATG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.30, C:0.09, G:0.16, T:0.45
Consensus pattern (44 bp):
ACTATAAATTCAAGCTTTTTTAAGTTTGGGTTAGATTAATCTCG
Found at i:30747818 original size:28 final size:30
Alignment explanation
Indices: 30747757--30747819 Score: 73
Period size: 28 Copynumber: 2.2 Consensus size: 30
30747747 TCCTCCATTT
*
30747757 TTTTATTTCTATTAAAAATGCCCGTTATAA
1 TTTTCTTTCTATTAAAAATGCCCGTTATAA
30747787 --TTCTTTCT-TTAAAAATGTCCC-TT-TAA
1 TTTTCTTTCTATTAAAAATG-CCCGTTATAA
30747813 TTTTCTT
1 TTTTCTT
30747820 GATTTCACAT
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
26 3 0.10
27 11 0.38
28 15 0.52
ACGTcount: A:0.27, C:0.16, G:0.05, T:0.52
Consensus pattern (30 bp):
TTTTCTTTCTATTAAAAATGCCCGTTATAA
Found at i:30748165 original size:18 final size:18
Alignment explanation
Indices: 30748138--30748175 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
30748128 CAAAAGCAAC
30748138 TTTCTCGATGCTATTAAA
1 TTTCTCGATGCTATTAAA
*
30748156 TTTCTTGATGCTATTAAA
1 TTTCTCGATGCTATTAAA
30748174 TT
1 TT
30748176 GTAGCTTGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.26, C:0.13, G:0.11, T:0.50
Consensus pattern (18 bp):
TTTCTCGATGCTATTAAA
Found at i:30749835 original size:2 final size:2
Alignment explanation
Indices: 30749828--30749857 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
30749818 TACACAAAAC
30749828 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
30749858 AAAGTCAAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:30752085 original size:16 final size:16
Alignment explanation
Indices: 30752064--30752098 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
30752054 AACATAAAGA
*
30752064 TTTATTATTAATTATT
1 TTTATTATTAATAATT
*
30752080 TTTATTGTTAATAATT
1 TTTATTATTAATAATT
30752096 TTT
1 TTT
30752099 TAGTATAATC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.69
Consensus pattern (16 bp):
TTTATTATTAATAATT
Found at i:30758304 original size:13 final size:14
Alignment explanation
Indices: 30758286--30758318 Score: 59
Period size: 13 Copynumber: 2.4 Consensus size: 14
30758276 CGCGTGGGCC
30758286 GAAAAACAGAT-AA
1 GAAAAACAGATAAA
30758299 GAAAAACAGATAAA
1 GAAAAACAGATAAA
30758313 GAAAAA
1 GAAAAA
30758319 GAATGAAACC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 11 0.58
14 8 0.42
ACGTcount: A:0.73, C:0.06, G:0.15, T:0.06
Consensus pattern (14 bp):
GAAAAACAGATAAA
Found at i:30768839 original size:74 final size:74
Alignment explanation
Indices: 30768412--30769051 Score: 838
Period size: 76 Copynumber: 8.6 Consensus size: 74
30768402 ATTTCTACGG
* * * * * * * *
30768412 TTCAAAAAAACAGCTCATATTGCGAGAGGTGAGCTGAGCCTTGACTGACATGTTGAGGTTTTTTT
1 TTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-TCA-AGACACGTTGAGGTATTTTC
*
30768477 AATTTCTGCCT
64 AATTTCTGTCT
* * *
30768488 TTC-AAAAATCAACTCATACTGCAAGAAGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAA
1 TTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAA
30768552 TTTCTGTCT
66 TTTCTGTCT
* * *
30768561 TTCAAAAAAATTCAACTCATACTGCAAGACGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTC
1 TTC-AAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTC
30768626 AATTTCTGTCT
64 AATTTCTGTCT
* * * *
30768637 TTCAAAAAAATTCAACTCATACTGCAAGAAGTGAGTTGAGCCTCAAGACACGTTGCGGTATTTTC
1 TTC-AAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTC
30768702 AATTTCTGTCT
64 AATTTCTGTCT
* * *
30768713 TTCAAAAAAGTTCAACTCATACTGCAAGAAGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTC
1 TTCAAAAAA--TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTC
30768778 AATTTCTGTCT
64 AATTTCTGTCT
* **
30768789 TTCAAAAGATCAACTCACGTTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAA
1 TTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAA
30768854 TTTCTGTCT
66 TTTCTGTCT
* * *
30768863 TTCAAAAGATCAACTCATGTTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAA
1 TTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAA
30768928 TTTCTGTCT
66 TTTCTGTCT
* * *
30768937 TTCAAAATAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTT-
1 TTCAAAA-AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGT-ATTTTC
* *
30769001 GATCTCTGT-T
64 AATTTCTGTCT
* * *
30769011 TTC-AGAAATCAACTCATATTACGAGAGGTGAGTAGAGCCTC
1 TTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
30769052 GGATCACATG
Statistics
Matches: 522, Mismatches: 36, Indels: 16
0.91 0.06 0.03
Matches are distributed among these distances:
72 32 0.06
73 31 0.06
74 145 0.28
75 93 0.18
76 221 0.42
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.31
Consensus pattern (74 bp):
TTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAA
TTTCTGTCT
Found at i:30769187 original size:87 final size:86
Alignment explanation
Indices: 30769016--30769241 Score: 224
Period size: 87 Copynumber: 2.6 Consensus size: 86
30769006 CTGTTTTCAG
* * * *
30769016 AAATCAACTCATATTACGAGAGGTGAGTAGAGCCTCGGATCACATGTCGAGGTATTTTCAAAATC
1 AAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGATCACATGTCGAGCTATTTTCAAAATC
*
30769081 TGTTTTACAAATTTTGTTTTAA
66 TGTTTTA-AAATTTAGTTTTAA
* * * * **
30769103 AAATCAACTCATTTTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTG-CTGAGCTATTTTCAATTT
1 AAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGATCACATGTC-GAGCTATTTTCAAAAT
*
30769167 CTGTTTT-TAATGTCTAGTTTTAA
65 CTGTTTTAAAAT-T-TAGTTTTAA
* * * * *
30769190 AGAGTCAATTCATATTGCGAGAAATGAGTTAAG-CTCAGGATCACATGCCGAG
1 A-AATCAACTCATATTGCGAGAAGTGAGTTGAGCCTC-GGATCACATGTCGAG
30769242 TAAAGAATAA
Statistics
Matches: 113, Mismatches: 20, Indels: 11
0.78 0.14 0.08
Matches are distributed among these distances:
85 3 0.03
86 2 0.02
87 70 0.62
88 37 0.33
89 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.34
Consensus pattern (86 bp):
AAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGATCACATGTCGAGCTATTTTCAAAATC
TGTTTTAAAATTTAGTTTTAA
Found at i:30769888 original size:18 final size:18
Alignment explanation
Indices: 30769865--30769918 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
30769855 CCACCACCAA
30769865 CTCCACTAGCCACACTTG
1 CTCCACTAGCCACACTTG
*
30769883 CTCCACCA-CCA-A----
1 CTCCACTAGCCACACTTG
30769895 CTCCACTAGCCACACTTG
1 CTCCACTAGCCACACTTG
30769913 CTCCAC
1 CTCCAC
30769919 CGCCTACTCC
Statistics
Matches: 28, Mismatches: 2, Indels: 12
0.67 0.05 0.29
Matches are distributed among these distances:
12 7 0.25
13 3 0.11
14 1 0.04
16 1 0.04
17 3 0.11
18 13 0.46
ACGTcount: A:0.24, C:0.50, G:0.07, T:0.19
Consensus pattern (18 bp):
CTCCACTAGCCACACTTG
Found at i:30769891 original size:30 final size:30
Alignment explanation
Indices: 30769855--30769941 Score: 156
Period size: 30 Copynumber: 2.9 Consensus size: 30
30769845 TTAGCCTTTG
30769855 CCACCACCAACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
30769885 CCACCACCAACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
* *
30769915 CCACCGCCTACTCCACTAGCCACACTT
1 CCACCACCAACTCCACTAGCCACACTT
30769942 NCAAAGGGTT
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 55 1.00
ACGTcount: A:0.25, C:0.51, G:0.07, T:0.17
Consensus pattern (30 bp):
CCACCACCAACTCCACTAGCCACACTTGCT
Found at i:30770878 original size:19 final size:22
Alignment explanation
Indices: 30770832--30770881 Score: 61
Period size: 19 Copynumber: 2.4 Consensus size: 22
30770822 AAATTTTGAG
30770832 CTAAATAAATTATATAATTCAAA
1 CTAAAT-AATTATATAATTCAAA
*
30770855 TTAAATAATT-TAT-ATT-AAA
1 CTAAATAATTATATAATTCAAA
30770874 CTAAATAA
1 CTAAATAA
30770882 AATATAAAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
19 10 0.40
20 3 0.12
21 3 0.12
22 4 0.16
23 5 0.20
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (22 bp):
CTAAATAATTATATAATTCAAA
Found at i:30770887 original size:19 final size:20
Alignment explanation
Indices: 30770832--30770887 Score: 51
Period size: 19 Copynumber: 2.7 Consensus size: 20
30770822 AAATTTTGAG
30770832 CTAAATAAATTATATAATTCAAA
1 CTAAATAAA--ATAT-ATTCAAA
* **
30770855 TTAAATAATTTATATT-AAA
1 CTAAATAAAATATATTCAAA
30770874 CTAAATAAAATATA
1 CTAAATAAAATATA
30770888 AAAGAAATTT
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
19 14 0.52
20 3 0.11
21 3 0.11
23 7 0.26
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (20 bp):
CTAAATAAAATATATTCAAA
Found at i:30774950 original size:94 final size:91
Alignment explanation
Indices: 30774821--30775025 Score: 257
Period size: 94 Copynumber: 2.2 Consensus size: 91
30774811 AACGGAAGCC
* * *
30774821 AATATTCAGAACAAACAAATCTAAAACTTTCTTTTAGAAAATATTCTACTTCACTATTAGACTTT
1 AATATTCAGAACAAATAAATATAAAACTTTCTTTTAGAAAATAGTCTACTTCACTATTAGAC-TT
* *
30774886 CTTTTAAAATATTTTTTTCATTCTTGATA
65 CTTCTAAAATA--TTTTTCATTCCTGATA
* * * * * *
30774915 AATATTTAGAACAAATAAATATGAATCTTTTTTTTAGAAAATAGTCTATTTCACTTTTAGACTTC
1 AATATTCAGAACAAATAAATATAAAACTTTCTTTTAGAAAATAGTCTACTTCACTATTAGACTTC
*
30774980 TTCTAAAATATTTTTCATTCCTGTTA
66 TTCTAAAATATTTTTCATTCCTGATA
* *
30775006 AACATTGAGAACAAATAAAT
1 AATATTCAGAACAAATAAAT
30775026 CTAAGCTTCA
Statistics
Matches: 97, Mismatches: 14, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
91 32 0.33
93 12 0.12
94 53 0.55
ACGTcount: A:0.39, C:0.13, G:0.06, T:0.42
Consensus pattern (91 bp):
AATATTCAGAACAAATAAATATAAAACTTTCTTTTAGAAAATAGTCTACTTCACTATTAGACTTC
TTCTAAAATATTTTTCATTCCTGATA
Found at i:30787435 original size:31 final size:31
Alignment explanation
Indices: 30787400--30787462 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
30787390 TTCTTCCGTG
30787400 TAAGTTTTTTTTGGTTGTTGTTGCTAGTTCA
1 TAAGTTTTTTTTGGTTGTTGTTGCTAGTTCA
30787431 TAAGTTTTTTTTGGTTGTTGTTGCTAGTTCA
1 TAAGTTTTTTTTGGTTGTTGTTGCTAGTTCA
30787462 T
1 T
30787463 TTTTCCCTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.13, C:0.06, G:0.22, T:0.59
Consensus pattern (31 bp):
TAAGTTTTTTTTGGTTGTTGTTGCTAGTTCA
Found at i:30790044 original size:82 final size:81
Alignment explanation
Indices: 30789953--30790202 Score: 177
Period size: 82 Copynumber: 3.1 Consensus size: 81
30789943 CATATAAGAA
*
30789953 TATTAATTATTAAGAATTTTATTAAATTATATATTTTAAGTATAATATATTTAATAATAATTATG
1 TATTTATTATTAAGAATTTTATTAAATTATATATTTTAA-TATAATATATTTAATAATAATTATG
30790018 TTTAAATATGATTAAAT
65 TTTAAATATGATTAAAT
* * * * * * * *
30790035 TATTTATTATT---CATATTAATAATCTTATCAAAATTTAA-ATAACA-A--TAACAATAA-TA-
1 TATTTATTATTAAGAATTTTATTAA-ATTAT-ATATTTTAATATAATATATTTAATAATAATTAT
* *
30790091 ATTTACCAA-A--A-CAAAT
64 GTTTA--AATATGATTAAAT
* *
30790107 T-TCTGGTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATGTTTAATAATAAT
1 TAT-T--T-ATTATTAAGAATTTTATTAAATTATATATTTTAA-TATAATATATTTAATAATAAT
*
30790171 TATGTTTAAATATGATTAAAA
61 TATGTTTAAATATGATTAAAT
*
30790192 TATTCATTATT
1 TATTTATTATT
30790203 GATAATAATA
Statistics
Matches: 120, Mismatches: 25, Indels: 46
0.63 0.13 0.24
Matches are distributed among these distances:
71 1 0.01
72 6 0.05
73 1 0.01
74 5 0.04
75 9 0.08
76 17 0.14
77 4 0.03
78 13 0.11
79 13 0.11
80 4 0.03
81 17 0.14
82 19 0.16
83 4 0.03
84 1 0.01
85 5 0.04
86 1 0.01
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (81 bp):
TATTTATTATTAAGAATTTTATTAAATTATATATTTTAATATAATATATTTAATAATAATTATGT
TTAAATATGATTAAAT
Found at i:30790122 original size:157 final size:157
Alignment explanation
Indices: 30789956--30790265 Score: 530
Period size: 157 Copynumber: 2.0 Consensus size: 157
30789946 ATAAGAATAT
*
30789956 TAATTATTAAGAATTTTATTAAATTATATATTTTAAGTATAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAAGTAAAATATATTTAATAATAATTATGTTT
* * *
30790021 AAATATGATTAAATTATTTATTATTCATATTAATAATCTTATCAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTCATTATTCATAATAATAATCTTATCAAAATTTAAATAACAATAACAA
30790086 TAATAATTTACCAAAACAAATTTCTGG
131 TAATAATTTACCAAAACAAATTTCTGG
* *
30790113 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATGTTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAAGTAAAATATATTTAATAATAATTATGTTT
* *
30790178 AAATATGATTAAAATATTCATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTCATTATTCATAATAATAATCTTATCAAAATTTAAATAACAATAACAA
* *
30790243 TAATCATTTACCAAAATAAATTT
131 TAATAATTTACCAAAACAAATTT
30790266 ATGCTAAGGG
Statistics
Matches: 143, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
157 143 1.00
ACGTcount: A:0.47, C:0.05, G:0.04, T:0.44
Consensus pattern (157 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAAGTAAAATATATTTAATAATAATTATGTTT
AAATATGATTAAAATATTCATTATTCATAATAATAATCTTATCAAAATTTAAATAACAATAACAA
TAATAATTTACCAAAACAAATTTCTGG
Found at i:30790416 original size:16 final size:16
Alignment explanation
Indices: 30790395--30790462 Score: 109
Period size: 16 Copynumber: 4.2 Consensus size: 16
30790385 GATTTGCTAT
30790395 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
30790411 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
* *
30790427 TACACTTCTAACCCAA
1 TACACCTCTAATCCAA
*
30790443 TACATCTCTAATCCAA
1 TACACCTCTAATCCAA
30790459 TACA
1 TACA
30790463 GCGAACCAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 47 1.00
ACGTcount: A:0.38, C:0.35, G:0.00, T:0.26
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:30799612 original size:15 final size:15
Alignment explanation
Indices: 30799592--30799621 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
30799582 TAACATTTGG
*
30799592 CTATTATTATTATTA
1 CTATTATAATTATTA
30799607 CTATTATAATTATTA
1 CTATTATAATTATTA
30799622 TTAACTTTTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.57
Consensus pattern (15 bp):
CTATTATAATTATTA
Found at i:30803050 original size:40 final size:40
Alignment explanation
Indices: 30802953--30803177 Score: 222
Period size: 40 Copynumber: 5.7 Consensus size: 40
30802943 TTGAATGCTG
* * ** * *
30802953 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGCGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
** * *
30802993 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
30803033 TCCTGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* **
30803073 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
30803113 TCCGGGTTATGTCCCGAAGGCA-TTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
30803152 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
30803178 AACGAGGAGC
Statistics
Matches: 159, Mismatches: 22, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
39 34 0.21
40 117 0.74
41 8 0.05
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:30803157 original size:39 final size:40
Alignment explanation
Indices: 30803006--30803175 Score: 225
Period size: 40 Copynumber: 4.3 Consensus size: 40
30802996 GGACTAAGAT
* * * *
30803006 CCGAAGGCCTTTGTGCGAGATACTAAATCCTGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
*
30803046 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
** *
30803086 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
* * * *
30803126 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
30803165 CCGAAGGCATT
1 CCGAAGGCATT
30803176 TGAACGAGGA
Statistics
Matches: 118, Mismatches: 12, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 34 0.29
40 84 0.71
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
Found at i:30803195 original size:79 final size:79
Alignment explanation
Indices: 30803028--30803210 Score: 215
Period size: 79 Copynumber: 2.3 Consensus size: 79
30803018 GTGCGAGATA
* * *
30803028 CTAAATCCTGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCC-GGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
30803093 CATTCGTGCGAGTTG
65 CATTCGAACGAGGAG
* * * *
30803108 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCC-GGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
30803172 CATTTGAACGAGGAG
65 CATTCGAACGAGGAG
* *
30803187 CTATATCCGGTTAAATCCCGAAGG
1 CTAAATCCGGTTAAGTCCCGAAGG
30803211 TACGTGATTT
Statistics
Matches: 86, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
78 14 0.16
79 46 0.53
80 26 0.30
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
CTAAATCCGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGC
ATTCGAACGAGGAG
Found at i:30814660 original size:45 final size:44
Alignment explanation
Indices: 30814551--30814977 Score: 233
Period size: 44 Copynumber: 9.5 Consensus size: 44
30814541 CCCTCTAAAA
* * * *
30814551 TTGCAGTAGAGCAGGTTGAAGACACAAGTCTTATCTTCCTGAAG
1 TTGCAGTAGAGCAGATTGAAGATACAAATCTTATCTCCCTGAAG
* * * *
30814595 TTGTAGTGGAGCAGACTGAAGATAGCAAATCTTATTTCCCTGAAG
1 TTGCAGTAGAGCAGATTGAAGATA-CAAATCTTATCTCCCTGAAG
* * * * *
30814640 TTGCTA-TAGAACAGATTGAAGCTATGAATAAATAGATCTTATCTCTCTAAAT
1 TTGC-AGTAGAGCAGATTG-A---A-G-ATACA-A-ATCTTATCTCCCTGAAG
* * * * * *
30814692 TTGCAATAGAGTAGA-TCAA-A-ACAAACCTTATCTCTCTGAAA
1 TTGCAGTAGAGCAGATTGAAGATACAAATCTTATCTCCCTGAAG
* * * * *
30814733 TTACAATAGAGCAGGTTGAAGACACAAATCTTATCTCCCTAAAG
1 TTGCAGTAGAGCAGATTGAAGATACAAATCTTATCTCCCTGAAG
* * *
30814777 TTGCAGTAGAGCAGACTGAAGATAGCGAATCTTATTTCCCTGAAG
1 TTGCAGTAGAGCAGATTGAAGATA-CAAATCTTATCTCCCTGAAG
* * * * * *
30814822 TTGCAGTGGAACAGATTGAAGCTATAATTACAGACCTTATCTCTCTAAAG
1 TTGCAGTAGAGCAGATTGAAG-----A-TACAAATCTTATCTCCCTGAAG
* * * * *
30814872 TTGCAGTAGAGCAGA-TCAA-A-ACAAACCTTATCTCTCTAAAT
1 TTGCAGTAGAGCAGATTGAAGATACAAATCTTATCTCCCTGAAG
* * * *
30814913 TTGCAGTAGAGCAGGTT-AAAATTACAAGTCTTATCTCCCTAAAG
1 TTGCAGTAGAGCAGATTGAAGA-TACAAATCTTATCTCCCTGAAG
*
30814957 TTGCAGT-GCAACAGATTGAAG
1 TTGCAGTAG-AGCAGATTGAAG
30814978 CTATAAATAA
Statistics
Matches: 294, Mismatches: 62, Indels: 53
0.72 0.15 0.13
Matches are distributed among these distances:
41 61 0.21
42 6 0.02
43 5 0.02
44 86 0.29
45 66 0.22
46 2 0.01
47 1 0.00
49 4 0.01
50 31 0.11
51 8 0.03
52 24 0.08
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.28
Consensus pattern (44 bp):
TTGCAGTAGAGCAGATTGAAGATACAAATCTTATCTCCCTGAAG
Found at i:30814704 original size:182 final size:182
Alignment explanation
Indices: 30814385--30814964 Score: 812
Period size: 182 Copynumber: 3.2 Consensus size: 182
30814375 GCAAGATTGG
* * * * * * *
30814385 TGAAGACACAAGTCTTATCTACTTGAAGTTGCAGCGGAGAAAAGTGAAGATAGCAAATCTTATTT
1 TGAAGACACAAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATTT
* * *
30814450 CCCTAAAGTTACAGTGGAATAGATTGAAGCTATGAATAAACAGATCTTATCTCTCTGAAATTAT-
66 CCCTGAAGTTGCAGTGGAACAGATTGAAGCTATGAATAAACAGATCTTATCTCTCT-AAATT-TG
*
30814514 -AGTAGAGTAGATCAAAACAAACCTTATCCCTCTAAAATTGCAGTAGAGCAGGT
129 CAGTAGAGTAGATCAAAACAAACCTTATCTCTCTAAAATTGCAGTAGAGCAGGT
* * *
30814567 TGAAGACACAAGTCTTATCTTCCTGAAGTTGTAGTGGAGCAGACTGAAGATAGCAAATCTTATTT
1 TGAAGACACAAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATTT
* *
30814632 CCCTGAAGTTGCTA-TAGAACAGATTGAAGCTATGAATAAATAGATCTTATCTCTCTAAATTTGC
66 CCCTGAAGTTGC-AGTGGAACAGATTGAAGCTATGAATAAACAGATCTTATCTCTCTAAATTTGC
* * * *
30814696 AATAGAGTAGATCAAAACAAACCTTATCTCTCTGAAATTACAATAGAGCAGGT
130 AGTAGAGTAGATCAAAACAAACCTTATCTCTCTAAAATTGCAGTAGAGCAGGT
* * *
30814749 TGAAGACACAAATCTTATCTCCCTAAAGTTGCAGTAGAGCAGACTGAAGATAGCGAATCTTATTT
1 TGAAGACACAAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATTT
* * *
30814814 CCCTGAAGTTGCAGTGGAACAGATTGAAGCTAT-AAT-TACAGACCTTATCTCTCTAAAGTTGCA
66 CCCTGAAGTTGCAGTGGAACAGATTGAAGCTATGAATAAACAGATCTTATCTCTCTAAATTTGCA
* *
30814877 GTAGAGCAGATCAAAACAAACCTTATCTCTCTAAATTTGCAGTAGAGCAGGT
131 GTAGAGTAGATCAAAACAAACCTTATCTCTCTAAAATTGCAGTAGAGCAGGT
* *
30814929 T-AAAATTACAAGTCTTATCTCCCTAAAGTTGCAGTG
1 TGAAGA-CACAAGTCTTATCTCCCTAAAGTTGCAGTG
30814965 CAACAGATTG
Statistics
Matches: 355, Mismatches: 38, Indels: 12
0.88 0.09 0.03
Matches are distributed among these distances:
179 3 0.01
180 98 0.28
181 9 0.03
182 244 0.69
183 1 0.00
ACGTcount: A:0.36, C:0.17, G:0.18, T:0.28
Consensus pattern (182 bp):
TGAAGACACAAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATTT
CCCTGAAGTTGCAGTGGAACAGATTGAAGCTATGAATAAACAGATCTTATCTCTCTAAATTTGCA
GTAGAGTAGATCAAAACAAACCTTATCTCTCTAAAATTGCAGTAGAGCAGGT
Found at i:30814956 original size:85 final size:85
Alignment explanation
Indices: 30814676--30814963 Score: 258
Period size: 85 Copynumber: 3.3 Consensus size: 85
30814666 AATAAATAGA
* * * * * *
30814676 TCTTATCTCTCTAAATTTGCAATAGAGTAGATCAAAACAAACCTTATCTCTCTGAAATTACAATA
1 TCTTATCTCCCTAAAGTTGCAGTAGAGCAGATCAAAACAAACCTTATCTCTCT-AAATTGCAGTA
* * *
30814741 GAGCAGGTTGAAGA-CACAAA
65 GAGCAGGTTGAAAATTACAAG
* * * * * *
30814761 TCTTATCTCCCTAAAGTTGCAGTAGAGCAGACTGAAGATAGCGAATCTTATTTCCCTGAAGTTGC
1 TCTTATCTCCCTAAAGTTGCAGTAGAGCAGA-TCAA-A-A-CAAACCTTATCTCTCT-AAATTGC
* * *
30814826 AGTGGAACAGATTGAAGCTATAATTAC-AG
61 AGTAGAGCAGGTTG-A---A-AATTACAAG
* *
30814855 ACCTTATCTCTCTAAAGTTGCAGTAGAGCAGATCAAAACAAACCTTATCTCTCTAAATTTGCAGT
1 -TCTTATCTCCCTAAAGTTGCAGTAGAGCAGATCAAAACAAACCTTATCTCTCTAAA-TTGCAGT
30814920 AGAGCAGGTT-AAAATTACAAG
64 AGAGCAGGTTGAAAATTACAAG
30814941 TCTTATCTCCCTAAAGTTGCAGT
1 TCTTATCTCCCTAAAGTTGCAGT
30814964 GCAACAGATT
Statistics
Matches: 159, Mismatches: 31, Indels: 26
0.74 0.14 0.12
Matches are distributed among these distances:
85 54 0.34
86 6 0.04
87 1 0.01
88 1 0.01
89 29 0.18
90 3 0.02
91 26 0.16
92 1 0.01
93 2 0.01
94 5 0.03
95 31 0.19
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.29
Consensus pattern (85 bp):
TCTTATCTCCCTAAAGTTGCAGTAGAGCAGATCAAAACAAACCTTATCTCTCTAAATTGCAGTAG
AGCAGGTTGAAAATTACAAG
Found at i:30814975 original size:135 final size:138
Alignment explanation
Indices: 30814710--30815061 Score: 367
Period size: 137 Copynumber: 2.6 Consensus size: 138
30814700 GAGTAGATCA
* * * * * *
30814710 AAACAAACCTTATCTCTCTGAAA-TTACAATAGAGCAGGTTGAAGACACAAATCTTATCTCCCTA
1 AAACAGACCTTATCTCTCT-AAAGTTGCAGTAGAGCA-GATCAA-A-ACAAACCTTATCTCCCTA
* * * *
30814774 AAGTTGCAGTAGAGCAGACTGAAGATAGCGAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATT
62 AAGTTGCAGTAGAGCAGACTGAAAATAGCGAATCTTATCTCCCTAAAGTTGCAGTGCAACAGATT
30814839 GAAGCTAT-AAT
127 GAAGCTATAAAT
* * *
30814850 -TACAGACCTTATCTCTCTAAAGTTGCAGTAGAGCAGATCAAAACAAACCTTATCTCTCTAAATT
1 AAACAGACCTTATCTCTCTAAAGTTGCAGTAGAGCAGATCAAAACAAACCTTATCTCCCTAAAGT
* *
30814914 TGCAGTAGAGCAG-GTTAAAATTA-C-AAGTCTTATCTCCCTAAAGTTGCAGTGCAACAGATTGA
66 TGCAGTAGAGCAGACTGAAAA-TAGCGAA-TCTTATCTCCCTAAAGTTGCAGTGCAACAGATTGA
30814976 AGCTATAAAT
129 AGCTATAAAT
* * * * * ** * *
30814986 AAACATATCTTATCTCTCTGAAGTTGCAGTAAAGTAGATCTTAGCAAACCTTATCT-CCTCGAAG
1 AAACAGACCTTATCTCTCTAAAGTTGCAGTAGAGCAGATCAAAACAAACCTTATCTCCCT-AAAG
*
30815050 TTGCAGTGGAGC
65 TTGCAGTAGAGC
30815062 GATTAAAATG
Statistics
Matches: 178, Mismatches: 28, Indels: 15
0.81 0.13 0.07
Matches are distributed among these distances:
134 2 0.01
135 43 0.24
136 39 0.22
137 60 0.34
138 7 0.04
139 27 0.15
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (138 bp):
AAACAGACCTTATCTCTCTAAAGTTGCAGTAGAGCAGATCAAAACAAACCTTATCTCCCTAAAGT
TGCAGTAGAGCAGACTGAAAATAGCGAATCTTATCTCCCTAAAGTTGCAGTGCAACAGATTGAAG
CTATAAAT
Found at i:30816685 original size:3 final size:3
Alignment explanation
Indices: 30816672--30816906 Score: 74
Period size: 3 Copynumber: 76.7 Consensus size: 3
30816662 TTATTTAAAA
* * *
30816672 TAT TGT TAT TAT TAT TAT CT-C TAT TAT TTT TAT TAT GGTAT T-T TAT
1 TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT --TAT TAT TAT
* * * *
30816718 TAT TAT GT-T TAT TAT TAG TAT TAG TAT TAAT TAT AAT TAT TAT TAC
1 TAT TAT -TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT
* * * * * * * *
30816764 CAT TA- TATT TAT TAC TAA TAT TAG TAT AAT TAT T-T TCTT TAG TAC
1 TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT
* * * * *
30816809 TAT TAC TGT TAT TA- TAT TAT T-T GTCT TAT TAAT GTAC TGT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT T-AT -TAT TAT TAT TAT
* * *
30816855 T-T CCTACT TAAC TAT TAT TAT TAT TAT TAT T-T TAC TAT TAT AAT TAT
1 TAT --TA-T T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
30816902 TAT TA
1 TAT TA
30816907 ACCTTTACCC
Statistics
Matches: 167, Mismatches: 42, Indels: 46
0.65 0.16 0.18
Matches are distributed among these distances:
2 14 0.08
3 131 0.78
4 16 0.10
5 5 0.03
6 1 0.01
ACGTcount: A:0.30, C:0.06, G:0.05, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:30821874 original size:14 final size:14
Alignment explanation
Indices: 30821850--30821891 Score: 52
Period size: 14 Copynumber: 3.0 Consensus size: 14
30821840 ATGTTTAAGA
30821850 ACTTTTTATTTATT
1 ACTTTTTATTTATT
30821864 A-TTTATTATTT-TT
1 ACTTT-TTATTTATT
30821877 ACTTTTATATTTATT
1 ACTTTT-TATTTATT
30821892 TATCTTCTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
13 7 0.29
14 15 0.62
15 2 0.08
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.71
Consensus pattern (14 bp):
ACTTTTTATTTATT
Found at i:30824338 original size:14 final size:15
Alignment explanation
Indices: 30824319--30824348 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
30824309 ATATTTGACT
30824319 TGTTCTTAATT-ATG
1 TGTTCTTAATTCATG
30824333 TGTTCTTAATTCATG
1 TGTTCTTAATTCATG
30824348 T
1 T
30824349 TTTAATATTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.20, C:0.10, G:0.13, T:0.57
Consensus pattern (15 bp):
TGTTCTTAATTCATG
Found at i:30824618 original size:54 final size:54
Alignment explanation
Indices: 30824531--30824639 Score: 191
Period size: 54 Copynumber: 2.0 Consensus size: 54
30824521 TTAATGTAAC
* * *
30824531 ACTATGGTGTTAATTGGAAAGAGATTTCAATTAATCAACTTAGGGTTAGACGTT
1 ACTAGGGTGTTAATTAGAAAGAGATTTCAATTAATCAACCTAGGGTTAGACGTT
30824585 ACTAGGGTGTTAATTAGAAAGAGATTTCAATTAATCAACCTAGGGTTAGACGTT
1 ACTAGGGTGTTAATTAGAAAGAGATTTCAATTAATCAACCTAGGGTTAGACGTT
30824639 A
1 A
30824640 TTAGTCTCAA
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.35, C:0.10, G:0.22, T:0.33
Consensus pattern (54 bp):
ACTAGGGTGTTAATTAGAAAGAGATTTCAATTAATCAACCTAGGGTTAGACGTT
Found at i:30831799 original size:33 final size:33
Alignment explanation
Indices: 30831761--30831827 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
30831751 TAGTTGGCAT
30831761 GTCATAGGATTGTTTGTGTATGGGTTATACTTC
1 GTCATAGGATTGTTTGTGTATGGGTTATACTTC
30831794 GTCATAGGATTGTTTGTGTATGGGTTATACTTC
1 GTCATAGGATTGTTTGTGTATGGGTTATACTTC
30831827 G
1 G
30831828 GTTATATATC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.18, C:0.09, G:0.28, T:0.45
Consensus pattern (33 bp):
GTCATAGGATTGTTTGTGTATGGGTTATACTTC
Found at i:30832163 original size:9 final size:9
Alignment explanation
Indices: 30832149--30832225 Score: 91
Period size: 9 Copynumber: 8.6 Consensus size: 9
30832139 ATAAGTATAA
30832149 AATTAACCG
1 AATTAACCG
*
30832158 AATTAACCA
1 AATTAACCG
*
30832167 AATTAATCG
1 AATTAACCG
**
30832176 AATTAACTA
1 AATTAACCG
*
30832185 AATTACCCG
1 AATTAACCG
* *
30832194 AATTACCCA
1 AATTAACCG
30832203 AATTAACCG
1 AATTAACCG
30832212 AATTAACCG
1 AATTAACCG
30832221 AATTA
1 AATTA
30832226 TTTGTATAAA
Statistics
Matches: 56, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
9 56 1.00
ACGTcount: A:0.47, C:0.21, G:0.06, T:0.26
Consensus pattern (9 bp):
AATTAACCG
Found at i:30832171 original size:18 final size:18
Alignment explanation
Indices: 30832148--30832225 Score: 111
Period size: 18 Copynumber: 4.3 Consensus size: 18
30832138 AATAAGTATA
30832148 AAATTAACCGAATTAACC
1 AAATTAACCGAATTAACC
* *
30832166 AAATTAATCGAATTAACT
1 AAATTAACCGAATTAACC
* *
30832184 AAATTACCCGAATTACCC
1 AAATTAACCGAATTAACC
30832202 AAATTAACCGAATTAACC
1 AAATTAACCGAATTAACC
*
30832220 GAATTA
1 AAATTA
30832226 TTTGTATAAA
Statistics
Matches: 51, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 51 1.00
ACGTcount: A:0.47, C:0.21, G:0.06, T:0.26
Consensus pattern (18 bp):
AAATTAACCGAATTAACC
Found at i:30834287 original size:12 final size:12
Alignment explanation
Indices: 30834264--30834295 Score: 55
Period size: 12 Copynumber: 2.6 Consensus size: 12
30834254 AATATATTGT
30834264 ATATATTTTAGGC
1 ATATA-TTTAGGC
30834277 ATATATTTAGGC
1 ATATATTTAGGC
30834289 ATATATT
1 ATATATT
30834296 ATATATCTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 14 0.74
13 5 0.26
ACGTcount: A:0.34, C:0.06, G:0.12, T:0.47
Consensus pattern (12 bp):
ATATATTTAGGC
Found at i:30834314 original size:31 final size:31
Alignment explanation
Indices: 30834276--30834338 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
30834266 ATATTTTAGG
*
30834276 CATATATTTAGGCATATATTATATATCTTTC
1 CATATATTTAGGAATATATTATATATCTTTC
30834307 CATATATTTAGGAATATATTATATATCTTTC
1 CATATATTTAGGAATATATTATATATCTTTC
30834338 C
1 C
30834339 TATTCTCACG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.33, C:0.13, G:0.06, T:0.48
Consensus pattern (31 bp):
CATATATTTAGGAATATATTATATATCTTTC
Found at i:30835447 original size:28 final size:28
Alignment explanation
Indices: 30835408--30835476 Score: 77
Period size: 28 Copynumber: 2.5 Consensus size: 28
30835398 TTATTTATTA
* * *
30835408 TTTAGAATTTTTATGCATTTTTTGATTAT
1 TTTATAATTTTTATGCAGTTTTT-AATAT
* *
30835437 TTTA-ATTTTTTATGTAGTTTTTAATAT
1 TTTATAATTTTTATGCAGTTTTTAATAT
30835464 TTTATAATTTTTA
1 TTTATAATTTTTA
30835477 AAAATTTTGT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
27 8 0.24
28 22 0.65
29 4 0.12
ACGTcount: A:0.26, C:0.01, G:0.07, T:0.65
Consensus pattern (28 bp):
TTTATAATTTTTATGCAGTTTTTAATAT
Found at i:30835764 original size:19 final size:19
Alignment explanation
Indices: 30835724--30835765 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
30835714 TGAATAATTT
*
30835724 AAAATAAAAATTTTAAAGA
1 AAAATAAAAATTTAAAAGA
*
30835743 AAAAT-AAAATATTAAAATA
1 AAAATAAAAAT-TTAAAAGA
30835762 AAAA
1 AAAA
30835766 AATATTAAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.24
Consensus pattern (19 bp):
AAAATAAAAATTTAAAAGA
Found at i:30835769 original size:16 final size:16
Alignment explanation
Indices: 30835729--30835795 Score: 57
Period size: 16 Copynumber: 4.1 Consensus size: 16
30835719 AATTTAAAAT
* *
30835729 AAAAATTTTAAAGAAAA
1 AAAAATATTAAA-ATAA
30835746 ATAAAATATTAAAATAA
1 A-AAAATATTAAAATAA
*
30835763 AAAAATATT-AAGTGAA
1 AAAAATATTAAAAT-AA
*
30835779 AAAAAT-TTAAAAGAA
1 AAAAATATTAAAATAA
30835794 AA
1 AA
30835796 TTGAAATGTT
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
15 9 0.21
16 18 0.43
17 5 0.12
18 10 0.24
ACGTcount: A:0.70, C:0.00, G:0.06, T:0.24
Consensus pattern (16 bp):
AAAAATATTAAAATAA
Found at i:30835931 original size:30 final size:30
Alignment explanation
Indices: 30835891--30835968 Score: 97
Period size: 31 Copynumber: 2.6 Consensus size: 30
30835881 GTTTTAGTTT
*
30835891 TTTATTTTTCATTTTAAC-TTTTCTCTTCTTC
1 TTTATTTTTCATTTTAACGTTTT-ACTT-TTC
*
30835922 TTT-TTTTTCATTTTAACGTTTTAGTTTTC
1 TTTATTTTTCATTTTAACGTTTTACTTTTC
30835951 TTTATATTTTCATTTTAA
1 TTTAT-TTTTCATTTTAA
30835969 ATTAAGAAAC
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
29 6 0.14
30 17 0.40
31 19 0.45
ACGTcount: A:0.17, C:0.13, G:0.03, T:0.68
Consensus pattern (30 bp):
TTTATTTTTCATTTTAACGTTTTACTTTTC
Found at i:30835964 original size:31 final size:30
Alignment explanation
Indices: 30835881--30835968 Score: 103
Period size: 30 Copynumber: 3.0 Consensus size: 30
30835871 ATGCAACAAT
30835881 GTTTTAG-TTT-TTTATTTTTCATTTTAAC
1 GTTTTAGTTTTCTTTATTTTTCATTTTAAC
**
30835909 -TTTTCTCTTCTTCTTT-TTTTTCATTTTAAC
1 GTTTT-AGTT-TTCTTTATTTTTCATTTTAAC
30835939 GTTTTAGTTTTCTTTATATTTTCATTTTAA
1 GTTTTAGTTTTCTTTAT-TTTTCATTTTAA
30835969 ATTAAGAAAC
Statistics
Matches: 49, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
27 4 0.08
29 7 0.14
30 19 0.39
31 19 0.39
ACGTcount: A:0.16, C:0.11, G:0.05, T:0.68
Consensus pattern (30 bp):
GTTTTAGTTTTCTTTATTTTTCATTTTAAC
Found at i:30836603 original size:2 final size:2
Alignment explanation
Indices: 30836596--30836639 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
30836586 TTACAGCTAG
30836596 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
30836638 CT
1 CT
30836640 AATGATTTGG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:30845556 original size:23 final size:23
Alignment explanation
Indices: 30845526--30845573 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
30845516 ACATATGGTT
30845526 TTTCATTGAAATTCTTTGAATCA
1 TTTCATTGAAATTCTTTGAATCA
30845549 TTTCATTGAAATTCTTTGAATCA
1 TTTCATTGAAATTCTTTGAATCA
30845572 TT
1 TT
30845574 CTTTAGGGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.29, C:0.12, G:0.08, T:0.50
Consensus pattern (23 bp):
TTTCATTGAAATTCTTTGAATCA
Found at i:30853195 original size:31 final size:31
Alignment explanation
Indices: 30853160--30853219 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
30853150 ACCAAAACTA
30853160 TATATATCAACTTTAGTTTAACATGTAATAT
1 TATATATCAACTTTAGTTTAACATGTAATAT
* *
30853191 TATATATCAATTTTGGTTTAACATGTAAT
1 TATATATCAACTTTAGTTTAACATGTAAT
30853220 TCTATAAATG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.37, C:0.08, G:0.08, T:0.47
Consensus pattern (31 bp):
TATATATCAACTTTAGTTTAACATGTAATAT
Found at i:30859055 original size:7 final size:7
Alignment explanation
Indices: 30859033--30859069 Score: 51
Period size: 7 Copynumber: 5.6 Consensus size: 7
30859023 TCTGTTATGG
30859033 AGTT-TT
1 AGTTATT
30859039 AGTT-TT
1 AGTTATT
30859045 AGTTATT
1 AGTTATT
30859052 AGTTATT
1 AGTTATT
*
30859059 AGTTATC
1 AGTTATT
30859066 AGTT
1 AGTT
30859070 TCAGGTACCT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
6 10 0.34
7 19 0.66
ACGTcount: A:0.24, C:0.03, G:0.16, T:0.57
Consensus pattern (7 bp):
AGTTATT
Found at i:30859101 original size:33 final size:33
Alignment explanation
Indices: 30859003--30859102 Score: 90
Period size: 33 Copynumber: 3.2 Consensus size: 33
30858993 CATTTTAATA
30859003 TTCAGTTTCAGGTACCTAAATCTGTTATGGAGT
1 TTCAGTTTCAGGTACCTAAATCTGTTATGGAGT
* * *
30859036 TTTAGTTTTA-GT---T--AT-TAGTTAT-TAGT
1 TTCAGTTTCAGGTACCTAAATCT-GTTATGGAGT
*
30859062 TATCAGTTTCAGGTACCTAAATCTCTTATGGAGT
1 T-TCAGTTTCAGGTACCTAAATCTGTTATGGAGT
30859096 TTCAGTT
1 TTCAGTT
30859103 ATTAGTTATT
Statistics
Matches: 50, Mismatches: 7, Indels: 20
0.65 0.09 0.26
Matches are distributed among these distances:
26 5 0.10
27 14 0.28
28 2 0.04
29 1 0.02
31 1 0.02
32 2 0.04
33 20 0.40
34 5 0.10
ACGTcount: A:0.24, C:0.12, G:0.18, T:0.46
Consensus pattern (33 bp):
TTCAGTTTCAGGTACCTAAATCTGTTATGGAGT
Found at i:30864804 original size:16 final size:16
Alignment explanation
Indices: 30864783--30864821 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
30864773 AAATAAAAAA
30864783 AAATTATACTACAATT
1 AAATTATACTACAATT
* *
30864799 AAATTATATTATAATT
1 AAATTATACTACAATT
30864815 -AATTATA
1 AAATTATA
30864822 AATCTAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 7 0.33
16 14 0.67
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (16 bp):
AAATTATACTACAATT
Found at i:30865943 original size:10 final size:10
Alignment explanation
Indices: 30865928--30866009 Score: 59
Period size: 10 Copynumber: 8.4 Consensus size: 10
30865918 TCCAAGAATT
30865928 TTTTTAATAA
1 TTTTTAATAA
30865938 TTTTTAA-ATA
1 TTTTTAATA-A
*
30865948 TTTTT--TAC
1 TTTTTAATAA
*
30865956 TTTTAAATAAA
1 TTTTTAAT-AA
30865967 TTTTT-ATAA
1 TTTTTAATAA
30865976 TTTCTT-ATAA
1 TTT-TTAATAA
30865986 TTTTTAA-AA
1 TTTTTAATAA
*
30865995 GTTTTGAATAA
1 -TTTTTAATAA
30866006 TTTT
1 TTTT
30866010 ATAACTTTTC
Statistics
Matches: 58, Mismatches: 5, Indels: 18
0.72 0.06 0.22
Matches are distributed among these distances:
8 4 0.07
9 11 0.19
10 36 0.62
11 7 0.12
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.60
Consensus pattern (10 bp):
TTTTTAATAA
Found at i:30865970 original size:18 final size:17
Alignment explanation
Indices: 30865939--30865972 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
30865929 TTTTAATAAT
*
30865939 TTTTAAATATTTTTTAC
1 TTTTAAATAATTTTTAC
30865956 TTTTAAATAAATTTTTA
1 TTTTAAAT-AATTTTTA
30865973 TAATTTCTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (17 bp):
TTTTAAATAATTTTTAC
Found at i:30867473 original size:5 final size:5
Alignment explanation
Indices: 30867457--30867532 Score: 61
Period size: 5 Copynumber: 15.0 Consensus size: 5
30867447 TTCTTTTGTT
* *
30867457 ATATA TATATA ATATA ATATT ATAATA ATATA ATATA ATA-A CATACTT
1 ATATA -ATATA ATATA ATATA AT-ATA ATATA ATATA ATATA -ATA-TA
30867505 AT-TA AT-TA ACTA-A ATATA ATATA ATATA
1 ATATA ATATA A-TATA ATATA ATATA ATATA
30867533 TATTTTAAAT
Statistics
Matches: 59, Mismatches: 4, Indels: 15
0.76 0.05 0.19
Matches are distributed among these distances:
4 9 0.15
5 39 0.66
6 11 0.19
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (5 bp):
ATATA
Found at i:30867487 original size:21 final size:21
Alignment explanation
Indices: 30867455--30867496 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
30867445 CTTTCTTTTG
30867455 TTATATATATATAATATAATA
1 TTATATATATATAATATAATA
30867476 TTATA-ATAATATAATATAATA
1 TTATATAT-ATATAATATAATA
30867497 ACATACTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 2 0.10
21 18 0.90
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (21 bp):
TTATATATATATAATATAATA
Found at i:30867536 original size:29 final size:27
Alignment explanation
Indices: 30867457--30867536 Score: 85
Period size: 29 Copynumber: 2.9 Consensus size: 27
30867447 TTCTTTTGTT
30867457 ATATATATATAATATAATATTA-TAATA
1 ATATA-ATATAATATAATATTATTAATA
30867484 ATATAATATAATA-ACATACTTATTAATTA
1 ATATAATATAATATA-ATA-TTATTAA-TA
30867513 ACTA-AATATAATATAATATATATT
1 A-TATAATATAATATAATAT-TATT
30867537 TTAAATTAAA
Statistics
Matches: 46, Mismatches: 0, Indels: 12
0.79 0.00 0.21
Matches are distributed among these distances:
25 1 0.02
26 11 0.24
27 8 0.17
28 4 0.09
29 19 0.41
30 3 0.07
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (27 bp):
ATATAATATAATATAATATTATTAATA
Found at i:30873223 original size:54 final size:56
Alignment explanation
Indices: 30873151--30873260 Score: 179
Period size: 54 Copynumber: 2.0 Consensus size: 56
30873141 CCTCAACCTT
*
30873151 TGGGGGCTTTTGGCTATATGCCCCTAACC-TTTTTT-TTCTAAAATCAACCCCTAA
1 TGGGGGCTTTTGGATATATGCCCCTAACCTTTTTTTCTTCTAAAATCAACCCCTAA
**
30873205 TGGGGGCTTTTGGATATATGCCCCTAACCTTTTTTTCTTCTAAAATCGGCCCCTAA
1 TGGGGGCTTTTGGATATATGCCCCTAACCTTTTTTTCTTCTAAAATCAACCCCTAA
30873261 CGTAATGGAT
Statistics
Matches: 51, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
54 28 0.55
55 6 0.12
56 17 0.33
ACGTcount: A:0.21, C:0.25, G:0.16, T:0.37
Consensus pattern (56 bp):
TGGGGGCTTTTGGATATATGCCCCTAACCTTTTTTTCTTCTAAAATCAACCCCTAA
Found at i:30874970 original size:51 final size:51
Alignment explanation
Indices: 30874822--30874971 Score: 194
Period size: 51 Copynumber: 2.9 Consensus size: 51
30874812 GCTGCTAGTG
* * * * *
30874822 AATATGCTAGTGATTTTGCAACATCAGATGGAGTGGATAATATTGCAGATG
1 AATATGCTGGTGATTTTGCAACATCAGATGGAGTGGATAATGTTACTGATA
* * *
30874873 AATATGTTGGTGATTTTGCAACATCAGATGGAGTAGATAATGTTACTTATA
1 AATATGCTGGTGATTTTGCAACATCAGATGGAGTGGATAATGTTACTGATA
* *
30874924 AATATGCTGGTGATTTTACAACATCTA-ATGGACTGGATAATGTTACTG
1 AATATGCTGGTGATTTTGCAACATC-AGATGGAGTGGATAATGTTACTG
30874972 CTGCACGTAG
Statistics
Matches: 85, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
51 84 0.99
52 1 0.01
ACGTcount: A:0.33, C:0.10, G:0.23, T:0.35
Consensus pattern (51 bp):
AATATGCTGGTGATTTTGCAACATCAGATGGAGTGGATAATGTTACTGATA
Found at i:30879949 original size:14 final size:14
Alignment explanation
Indices: 30879927--30879956 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
30879917 AAATATTAGG
*
30879927 TAAATTTTTTATTT
1 TAAACTTTTTATTT
30879941 TAAACTTTTTATTT
1 TAAACTTTTTATTT
30879955 TA
1 TA
30879957 TTTTGTCCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (14 bp):
TAAACTTTTTATTT
Found at i:30882083 original size:16 final size:16
Alignment explanation
Indices: 30882062--30882107 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
30882052 GAATGCTAAC
*
30882062 GATTTAGGTATTTCAA
1 GATTTAGGGATTTCAA
*
30882078 GATTTAGGGATTTGAA
1 GATTTAGGGATTTCAA
30882094 GATTGCTAGGGATT
1 GATT--TAGGGATT
30882108 CAATAAAGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
16 18 0.69
18 8 0.31
ACGTcount: A:0.28, C:0.04, G:0.28, T:0.39
Consensus pattern (16 bp):
GATTTAGGGATTTCAA
Found at i:30882559 original size:20 final size:20
Alignment explanation
Indices: 30882512--30882550 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
30882502 CGTTGGAGCT
*
30882512 AAAATATCGATACCATATAG
1 AAAATATTGATACCATATAG
30882532 AAAATATTGATACCATATA
1 AAAATATTGATACCATATA
30882551 AAAGGTATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.51, C:0.13, G:0.08, T:0.28
Consensus pattern (20 bp):
AAAATATTGATACCATATAG
Found at i:30882564 original size:20 final size:20
Alignment explanation
Indices: 30882521--30882565 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
30882511 TAAAATATCG
*
30882521 ATACCATATAGAAAATATTG
1 ATACCATATAGAAAATATTA
*
30882541 ATACCATATA-AAAGGTATTA
1 ATACCATATAGAAA-ATATTA
30882561 ATACC
1 ATACC
30882566 GGACCGATAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 3 0.14
20 19 0.86
ACGTcount: A:0.49, C:0.13, G:0.09, T:0.29
Consensus pattern (20 bp):
ATACCATATAGAAAATATTA
Found at i:30886334 original size:143 final size:143
Alignment explanation
Indices: 30886046--30886317 Score: 336
Period size: 143 Copynumber: 1.9 Consensus size: 143
30886036 GTTAATAATA
* * *
30886046 AAAATTAGGATAGATTATTGATTACTAATTAAGGATAAAAAGTATATGTTAATAATTAAGGAAAT
1 AAAATTAGGATAAATTATTGATTACTAATTAAGGATAAAAAGTATAAGGTAATAATTAAGGAAAT
* * *
30886111 ATTTTGGAACTTAAAAAGAAAAAACCTAAAACTCAAAGCTTCCTAAAATAATCGTGTTTCTTATT
66 ATTTTAGAACTTAAAAAGAAAAAACCTAAAACTCAAAGCTTCCTAAAATAATCATGTTCCTTATT
*
30886176 TTGTATTAGGGAT
131 TTGTATTAAGGAT
* * *
30886189 AAAATTAGGATAAATTATTGATTATTAATTAAGGATAAAACA-TATAAGGTAATAATTAGGGAAG
1 AAAATTAGGATAAATTATTGATTACTAATTAAGGATAAAA-AGTATAAGGTAATAATTAAGGAAA
* * ** * ** **
30886253 TATTTTAGAAC-T-CAAATAACTAACCTAGAACTCAAAG-TTTTTAAAATGCTCATGTTCCTTAT
65 TATTTTAGAACTTAAAAAGAAAAAACCTAAAACTCAAAGCTTCCTAAAATAATCATGTTCCTTAT
30886315 TTT
130 TTT
30886318 AGATATATAA
Statistics
Matches: 110, Mismatches: 18, Indels: 5
0.83 0.14 0.04
Matches are distributed among these distances:
140 22 0.20
141 20 0.18
142 1 0.01
143 66 0.60
144 1 0.01
ACGTcount: A:0.43, C:0.08, G:0.13, T:0.35
Consensus pattern (143 bp):
AAAATTAGGATAAATTATTGATTACTAATTAAGGATAAAAAGTATAAGGTAATAATTAAGGAAAT
ATTTTAGAACTTAAAAAGAAAAAACCTAAAACTCAAAGCTTCCTAAAATAATCATGTTCCTTATT
TTGTATTAAGGAT
Found at i:30886572 original size:16 final size:15
Alignment explanation
Indices: 30886543--30886589 Score: 58
Period size: 17 Copynumber: 2.9 Consensus size: 15
30886533 TTATGCTTTC
30886543 TTTTAAATTTTTTAT
1 TTTTAAATTTTTTAT
30886558 TTTTAAATATTTTTATAAT
1 TTTT-AA-ATTTTT-T-AT
30886577 TTTTAAATTTTTT
1 TTTTAAATTTTTT
30886590 TGTGCAATGA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
15 4 0.14
16 3 0.11
17 12 0.43
18 3 0.11
19 6 0.21
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (15 bp):
TTTTAAATTTTTTAT
Found at i:30886915 original size:14 final size:14
Alignment explanation
Indices: 30886896--30886924 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
30886886 TTTATATTAA
30886896 TAATATATATAATT
1 TAATATATATAATT
30886910 TAATATATATAATT
1 TAATATATATAATT
30886924 T
1 T
30886925 GTTAAGGATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
TAATATATATAATT
Found at i:30894754 original size:20 final size:18
Alignment explanation
Indices: 30894729--30894765 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
30894719 ATTGCTAAGT
30894729 TGTAAAATGAGTTGTAAATG
1 TGTAAAAT-AGTTG-AAATG
30894749 TGTAAAATAGTTGAAAT
1 TGTAAAATAGTTGAAAT
30894766 TATGAGTTGC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 5 0.29
20 8 0.47
ACGTcount: A:0.43, C:0.00, G:0.22, T:0.35
Consensus pattern (18 bp):
TGTAAAATAGTTGAAATG
Found at i:30898076 original size:46 final size:44
Alignment explanation
Indices: 30898023--30898243 Score: 171
Period size: 46 Copynumber: 4.9 Consensus size: 44
30898013 GACAAGGGCT
* *
30898023 AGTGTAAGACATGTTTGGGACATGCATCAGCCACAGTATGAGATCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACAG-ATGTGA-CC
* * *
30898069 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTTAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCAC-AGATGTGA-CC
* * ** * * *
30898115 AATGTCAGACATGTCTGGGACATGCATTGGCTACGGGATGTG-CT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCAC-AGATGTGACC
* * *
30898159 AGTGTAAGACATGTCTGGGACATGCGTCAG-CACGGTTACATGTG-TC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCAC----AGATGTGACC
* *
30898205 AGTGTAAGACCTGTCTGGGACATGGCATC-GGCACAGATG
1 AGTGTAAGACATGTCTGGGACAT-GCATCAGCCACAGATG
30898244 GATGAGAGCT
Statistics
Matches: 141, Mismatches: 28, Indels: 15
0.77 0.15 0.08
Matches are distributed among these distances:
43 6 0.04
44 26 0.18
46 100 0.71
47 9 0.06
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.24
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCACAGATGTGACC
Found at i:30904786 original size:15 final size:16
Alignment explanation
Indices: 30904740--30904795 Score: 55
Period size: 16 Copynumber: 3.5 Consensus size: 16
30904730 CTATTTATTC
*
30904740 TATTCTATT-TATATTT
1 TATT-TATTATATATAT
30904756 TATTATATGT-TATATAT
1 TATT-TAT-TATATATAT
30904773 T-TTTATTATATATAT
1 TATTTATTATATATAT
30904788 TATTTATT
1 TATTTATT
30904796 TTACCATATT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
14 1 0.03
15 11 0.31
16 15 0.43
17 8 0.23
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (16 bp):
TATTTATTATATATAT
Found at i:30917607 original size:44 final size:44
Alignment explanation
Indices: 30917507--30917913 Score: 593
Period size: 44 Copynumber: 9.3 Consensus size: 44
30917497 GATCTAAGAT
* * * *
30917507 GATTTGGCATCTCTGTATTGTCAGAGAACAAATCAAA-AAAGCA
1 GATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCAAAGATAGCA
* * *
30917550 GATTTGGCGTCTCTGTATTGTCAGAGAGCATATCGAAGGTAGCA
1 GATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCAAAGATAGCA
30917594 GATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCAAAGATAGCA
1 GATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCAAAGATAGCA
30917638 GATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCAAAGATAGCA
1 GATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCAAAGATAGCA
* * * *
30917682 GATTTGGCGTCTCTGTATTATTAGAGAGCAGATCGAAGGTAGCA
1 GATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCAAAGATAGCA
*
30917726 GATTTGGCGTCTCCGTATTGTCAGAGAGCAGATCAAAGATAGCA
1 GATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCAAAGATAGCA
* * * * *
30917770 GATTTGGCATCTCTGTATTGTCAGTGAACAAATCGAAGAT-GCA
1 GATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCAAAGATAGCA
* * * *
30917813 GATTTGGTGTTTCTGTATTGTCAGAGAGCAGATCGAAGGTAGCA
1 GATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCAAAGATAGCA
* *
30917857 GATTTGGCATCTCTGTATTGTCAGAGAGCAGATCAAAGATAACA
1 GATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCAAAGATAGCA
30917901 GATTTGGCGTCTC
1 GATTTGGCGTCTC
30917914 AGTCAAGATA
Statistics
Matches: 324, Mismatches: 38, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
43 69 0.21
44 255 0.79
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.29
Consensus pattern (44 bp):
GATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCAAAGATAGCA
Found at i:30917956 original size:114 final size:114
Alignment explanation
Indices: 30917811--30918021 Score: 368
Period size: 114 Copynumber: 1.9 Consensus size: 114
30917801 ATCGAAGATG
* * * *
30917811 CAGATTTGGTGTTTCTGTATTGTCAGAGAGCAGATCGAAGGTAGCAGATTTGGCATCTCTGTATT
1 CAGATTTGGCGTCTCTGTATTGCCAGAGAGCAGATCGAAGGTAGCAGATTTGGCATCTCTATATT
30917876 GTCAGAGAGCAGATCAAAGATAACAGATTTGGCGTCTCAGTCAAGATAA
66 GTCAGAGAGCAGATCAAAGATAACAGATTTGGCGTCTCAGTCAAGATAA
*
30917925 CAGATTTGGCGTCTCTGTATTGCCAGAGAGCAGATCGAAGGTAGCAGATTTGGCGTCTCTATATT
1 CAGATTTGGCGTCTCTGTATTGCCAGAGAGCAGATCGAAGGTAGCAGATTTGGCATCTCTATATT
*
30917990 GTCAGAGAGCAGATCAAAGATAGCAGATTTGG
66 GTCAGAGAGCAGATCAAAGATAACAGATTTGG
30918022 TATCTCTGTA
Statistics
Matches: 91, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
114 91 1.00
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.28
Consensus pattern (114 bp):
CAGATTTGGCGTCTCTGTATTGCCAGAGAGCAGATCGAAGGTAGCAGATTTGGCATCTCTATATT
GTCAGAGAGCAGATCAAAGATAACAGATTTGGCGTCTCAGTCAAGATAA
Found at i:30917990 original size:44 final size:44
Alignment explanation
Indices: 30917918--30918143 Score: 326
Period size: 44 Copynumber: 5.1 Consensus size: 44
30917908 CGTCTCAGTC
* * *
30917918 AAGATAACAGATTTGGCGTCTCTGTATTGCCAGAGAGCAGATCG
1 AAGATAGCAGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCG
* * * *
30917962 AAGGTAGCAGATTTGGCGTCTCTATATTGTCAGAGAGCAGATCA
1 AAGATAGCAGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCG
* * *
30918006 AAGATAGCAGATTTGGTATCTCTGTATTGTCAAAGAGCAAATCG
1 AAGATAGCAGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCG
* * *
30918050 AAGACAGCAGATTTGGTATCTCTGTATTGTCAGAGAGCAAATCG
1 AAGATAGCAGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCG
*
30918094 AAGATAGCAGATTTGGCATCTTTGTATTGTCAGAGAGCAGATCG
1 AAGATAGCAGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCG
30918138 AAGATA
1 AAGATA
30918144 TCAACATGGT
Statistics
Matches: 164, Mismatches: 18, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 164 1.00
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.27
Consensus pattern (44 bp):
AAGATAGCAGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCG
Found at i:30918061 original size:158 final size:157
Alignment explanation
Indices: 30917761--30918065 Score: 439
Period size: 158 Copynumber: 1.9 Consensus size: 157
30917751 GAGCAGATCA
* * * * *
30917761 AAGATAGCAGATTTGGCATCTCTGTATTGTCAGTGAACAAATCGAAGATGCAGATTTGGTGTTTC
1 AAGATAACAGATTTGGCATCTCTGTATTGCCAGAGAACAAATCGAAGATGCAGATTTGGCGTCTC
* * * * *
30917826 TGTATTGTCAGAGAGCAGATCGAAGGTAGCAGATTTGGCATCTCTGTATTGTCAGAGAGCAGATC
66 TATATTGTCAGAGAGCAGATCAAAGATAGCAGATTTGGCATCTCTGTATTGTCAAAGAGCAAATC
*
30917891 AAAGATAACAGATTTGGCGTCTCAGTC
131 AAAGACAACAGATTTGGCGTCTCAGTC
* * * *
30917918 AAGATAACAGATTTGGCGTCTCTGTATTGCCAGAGAGCAGATCGAAGGTAGCAGATTTGGCGTCT
1 AAGATAACAGATTTGGCATCTCTGTATTGCCAGAGAACAAATCGAAGAT-GCAGATTTGGCGTCT
*
30917983 CTATATTGTCAGAGAGCAGATCAAAGATAGCAGATTTGGTATCTCTGTATTGTCAAAGAGCAAAT
65 CTATATTGTCAGAGAGCAGATCAAAGATAGCAGATTTGGCATCTCTGTATTGTCAAAGAGCAAAT
* *
30918048 CGAAGACAGCAGATTTGG
130 CAAAGACAACAGATTTGG
30918066 TATCTCTGTA
Statistics
Matches: 129, Mismatches: 18, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
157 42 0.33
158 87 0.67
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.28
Consensus pattern (157 bp):
AAGATAACAGATTTGGCATCTCTGTATTGCCAGAGAACAAATCGAAGATGCAGATTTGGCGTCTC
TATATTGTCAGAGAGCAGATCAAAGATAGCAGATTTGGCATCTCTGTATTGTCAAAGAGCAAATC
AAAGACAACAGATTTGGCGTCTCAGTC
Found at i:30919661 original size:21 final size:21
Alignment explanation
Indices: 30919616--30919674 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 21
30919606 TAAGTATTAT
*
30919616 ATATATTATTTTTTATATATAA
1 ATATA-TATTATTTATATATAA
30919638 ATAGTA-ATTATTTATATA-ATA
1 ATA-TATATTATTTATATATA-A
30919659 ATATATATTA-TTATAT
1 ATATATATTATTTATAT
30919675 GTCTTTATAA
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
20 9 0.27
21 19 0.58
22 3 0.09
23 2 0.06
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (21 bp):
ATATATATTATTTATATATAA
Found at i:30919740 original size:20 final size:18
Alignment explanation
Indices: 30919686--30919781 Score: 71
Period size: 16 Copynumber: 5.4 Consensus size: 18
30919676 TCTTTATAAA
30919686 TTTTATTATATGTTATA-T
1 TTTTATTATAT-TTATATT
*
30919704 TTTTA--ATATATACTATT
1 TTTTATTATATTTA-TATT
30919721 TATTCTATTATATTTATA--
1 T-TT-TATTATATTTATATT
30919739 TTTTATTATATGTTATATAT
1 TTTTATTATAT-TTATAT-T
30919759 TTTTATTATA--TATATT
1 TTTTATTATATTTATATT
*
30919775 ATTTATT
1 TTTTATT
30919782 TTACCATATT
Statistics
Matches: 65, Mismatches: 3, Indels: 22
0.72 0.03 0.24
Matches are distributed among these distances:
15 2 0.03
16 21 0.32
17 14 0.22
18 8 0.12
19 2 0.03
20 12 0.18
21 6 0.09
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (18 bp):
TTTTATTATATTTATATT
Found at i:30919757 original size:25 final size:25
Alignment explanation
Indices: 30919685--30919773 Score: 76
Period size: 25 Copynumber: 3.5 Consensus size: 25
30919675 GTCTTTATAA
*
30919685 ATTTTATTATATGTTATATTTTTAAT
1 ATTTTATTATATGTTATATATTT-AT
*
30919711 ATATACTATT-TAT-TCTATTATATTTAT
1 AT-T-TTATTATATGT-TA-TATATTTAT
*
30919738 ATTTTATTATATGTTATATATTTTT
1 ATTTTATTATATGTTATATATTTAT
*
30919763 ATTATA-TATAT
1 ATTTTATTATAT
30919774 TATTTATTTT
Statistics
Matches: 52, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
24 5 0.10
25 17 0.33
26 9 0.17
27 11 0.21
28 10 0.19
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (25 bp):
ATTTTATTATATGTTATATATTTAT
Found at i:30919796 original size:41 final size:42
Alignment explanation
Indices: 30919710--30919797 Score: 99
Period size: 41 Copynumber: 2.1 Consensus size: 42
30919700 ATATTTTTAA
* **
30919710 TATATACTATTTATTCTATTATATTTATATTTTATTATATGT
1 TATATACTATTTATTATATTATATTTATATTTTACCATATGT
* * *
30919752 TATATA-TTTTTATTATA-TATATTATTTATTTTACCATATTT
1 TATATACTATTTATTATATTATATT-TATATTTTACCATATGT
30919793 TATAT
1 TATAT
30919798 GTAAAATTAT
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
40 6 0.15
41 27 0.69
42 6 0.15
ACGTcount: A:0.32, C:0.05, G:0.01, T:0.62
Consensus pattern (42 bp):
TATATACTATTTATTATATTATATTTATATTTTACCATATGT
Found at i:30926037 original size:40 final size:40
Alignment explanation
Indices: 30925954--30926216 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
30925944 TTGAATGCTG
* * * * * *
30925954 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
30925994 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
30926034 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
30926074 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
30926114 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
30926154 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
30926193 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
30926217 TGAACGAGGA
Statistics
Matches: 201, Mismatches: 19, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.17
40 158 0.79
41 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:30926236 original size:79 final size:80
Alignment explanation
Indices: 30925993--30926251 Score: 256
Period size: 80 Copynumber: 3.3 Consensus size: 80
30925983 AAGTGAATAT
* * * * * *
30925993 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAT
** * *
30926057 TCGTGCGAGTTA-TTAA
65 TCGAACGAG-GAGCTAA
* * *
30926073 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
** ** *
30926138 CGTGCGAGTTGTTAA
66 CGAACGAGGAGCTAA
* * *
30926153 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
* *
30926217 TGAACGAGGAGCTAT
66 CGAACGAGGAGCTAA
*
30926232 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
30926252 TACGTGATTT
Statistics
Matches: 156, Mismatches: 21, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
78 14 0.09
79 48 0.31
80 94 0.60
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (80 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
CGAACGAGGAGCTAA
Found at i:30930326 original size:40 final size:40
Alignment explanation
Indices: 30930269--30930499 Score: 322
Period size: 40 Copynumber: 5.8 Consensus size: 40
30930259 GGATATAGCT
* * *
30930269 ACTCGCTCAAATGCCTTCGGGACATAGCCCGG-TTAGAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATT-TAGTA
* *
30930309 ACTCGCACAATTTCCTTCGGGACTTAGCCCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
*
30930349 ACTTGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
30930389 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* ** *
30930429 ACTCGCACAAATGCCTTCGGGACTT-GCCCCGAACTAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* * *
30930468 ACTAGCGCAGATGCCTTCGGGACTTAGCCCGG
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG
30930500 TTATCATCCA
Statistics
Matches: 172, Mismatches: 17, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 32 0.19
40 138 0.80
41 2 0.01
ACGTcount: A:0.23, C:0.29, G:0.23, T:0.24
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
Found at i:30939063 original size:27 final size:26
Alignment explanation
Indices: 30939032--30939209 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 26
30939022 TAAATTGTAC
30939032 AGCACTAAGTGTGCGATTCGACTATGT
1 AGCACTAAGTGTGCGATT-GACTATGT
* * *
30939059 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCG-ATTGACTATGT
* *
30939085 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCG-ATTGACTATGT
*
30939113 GGCACTAAGTGTGCGAGTCTGACTATGT
1 AGCACTAAGTGTGCGA-T-TGACTATGT
* *
30939141 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGA-TTGACTATGT
* *
30939168 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGA-TTGACTATGT
*
30939195 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
30939210 GGCTCAATAT
Statistics
Matches: 128, Mismatches: 18, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
26 1 0.01
27 102 0.80
28 25 0.20
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (26 bp):
AGCACTAAGTGTGCGATTGACTATGT
Found at i:30939148 original size:82 final size:81
Alignment explanation
Indices: 30939033--30939188 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
30939023 AAATTGTACA
* * *
30939033 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
30939097 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
30939114 GCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGAGTC-GACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
30939179 TGCGAGTTGA
65 TGCGAATTGA
30939189 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 17 0.26
82 48 0.73
83 1 0.02
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:30939200 original size:82 final size:81
Alignment explanation
Indices: 30939029--30939209 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
30939019 GATTAAATTG
* * *
30939029 TACAGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
30939094 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
30939110 TGCGGCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGAGTC-GACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
30939174 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
30939192 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
30939210 GGCTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 20 0.24
82 63 0.76
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:30939220 original size:27 final size:27
Alignment explanation
Indices: 30939114--30939220 Score: 79
Period size: 27 Copynumber: 3.9 Consensus size: 27
30939104 TGACCATGCG
* * *
30939114 GCACTAAGTGTGCGAGTCTGACTATGTA
1 GCACTAAGTGTGCGAG-CTCAATATATA
** * * **
30939142 GCACTAAGTGTGCGATTTGATTACGTA
1 GCACTAAGTGTGCGAGCTCAATATATA
* * *
30939169 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAGCTCAATATATA
* *
30939196 GCACTGAGTGTGCGGGCTCAATATA
1 GCACTAAGTGTGCGAGCTCAATATA
30939221 CATTCGTGAA
Statistics
Matches: 67, Mismatches: 12, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
27 52 0.78
28 15 0.22
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTCAATATATA
Found at i:30947100 original size:27 final size:26
Alignment explanation
Indices: 30947067--30947244 Score: 169
Period size: 27 Copynumber: 6.6 Consensus size: 26
30947057 TAAATTGTAC
30947067 AGCACTAAGTGTGCGATTCGACTATGT
1 AGCACTAAGTGTGCGATT-GACTATGT
* * * *
30947094 TGTACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCG-ATTGACTATGT
* *
30947120 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCG-ATTGACTATGT
*
30947148 GGCACTAAGTGTGCGAGTCTGACTATGT
1 AGCACTAAGTGTGCGA-T-TGACTATGT
* *
30947176 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGA-TTGACTATGT
* *
30947203 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGA-TTGACTATGT
*
30947230 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
30947245 GGCTCAATAT
Statistics
Matches: 126, Mismatches: 20, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
26 1 0.01
27 100 0.79
28 25 0.20
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (26 bp):
AGCACTAAGTGTGCGATTGACTATGT
Found at i:30947185 original size:82 final size:81
Alignment explanation
Indices: 30947068--30947223 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
30947058 AAATTGTACA
* * * *
30947068 GCACTAAGTGTGCGATTCGACTATGTTGTACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
30947132 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
30947149 GCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGAGTC-GACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
30947214 TGCGAGTTGA
65 TGCGAATTGA
30947224 TTATATAGCA
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 17 0.26
82 47 0.72
83 1 0.02
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:30947235 original size:82 final size:81
Alignment explanation
Indices: 30947064--30947244 Score: 211
Period size: 82 Copynumber: 2.2 Consensus size: 81
30947054 GATTAAATTG
* * * *
30947064 TACAGCACTAAGTGTGCGATTCGACTATGTTGTACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
30947129 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
30947145 TGCGGCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGAGTC-GACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
30947209 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
30947227 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
30947245 GGCTCAATAT
Statistics
Matches: 82, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
81 20 0.24
82 62 0.76
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:30947255 original size:27 final size:27
Alignment explanation
Indices: 30947149--30947255 Score: 79
Period size: 27 Copynumber: 3.9 Consensus size: 27
30947139 TGACCATGCG
* * *
30947149 GCACTAAGTGTGCGAGTCTGACTATGTA
1 GCACTAAGTGTGCGAG-CTCAATATATA
** * * **
30947177 GCACTAAGTGTGCGATTTGATTACGTA
1 GCACTAAGTGTGCGAGCTCAATATATA
* * *
30947204 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAGCTCAATATATA
* *
30947231 GCACTGAGTGTGCGGGCTCAATATA
1 GCACTAAGTGTGCGAGCTCAATATA
30947256 CATTCGTGAA
Statistics
Matches: 67, Mismatches: 12, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
27 52 0.78
28 15 0.22
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTCAATATATA
Found at i:30955140 original size:27 final size:26
Alignment explanation
Indices: 30955107--30955284 Score: 160
Period size: 27 Copynumber: 6.6 Consensus size: 26
30955097 TAAATTGTAC
30955107 AGCACTAAGTGTGCGATTCGACTATGT
1 AGCACTAAGTGTGCGATT-GACTATGT
* * * *
30955134 TGTACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCG-ATTGACTATGT
* *
30955160 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCG-ATTGACTATGT
*
30955188 GGCACTAAGTGTGCGAGTCTGACTATGT
1 AGCACTAAGTGTGCGA-T-TGACTATGT
* *
30955216 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGA-TTGACTATGT
* * *
30955243 AGCACTAAGTGTGCGAGTGGATTATAT
1 AGCACTAAGTGTGCGA-TTGACTATGT
*
30955270 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
30955285 GGCTCAATAT
Statistics
Matches: 125, Mismatches: 21, Indels: 10
0.80 0.13 0.06
Matches are distributed among these distances:
26 1 0.01
27 99 0.79
28 25 0.20
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.29
Consensus pattern (26 bp):
AGCACTAAGTGTGCGATTGACTATGT
Found at i:30955225 original size:82 final size:81
Alignment explanation
Indices: 30955108--30955258 Score: 214
Period size: 82 Copynumber: 1.9 Consensus size: 81
30955098 AAATTGTACA
* * * *
30955108 GCACTAAGTGTGCGATTCGACTATGTTGTACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
30955172 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
30955189 GCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGAGTC-GACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
30955254 TGCGA
65 TGCGA
30955259 GTGGATTATA
Statistics
Matches: 61, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
81 17 0.28
82 43 0.70
83 1 0.02
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:30955275 original size:82 final size:81
Alignment explanation
Indices: 30955104--30955284 Score: 202
Period size: 82 Copynumber: 2.2 Consensus size: 81
30955094 GATTAAATTG
* * * *
30955104 TACAGCACTAAGTGTGCGATTCGACTATGTTGTACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
*
30955169 GTGTGCGAATTGACCA
66 GTGTGCGAATGGACCA
* * ** *
30955185 TGCGGCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGAGTC-GACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
30955249 AAGTGTGCGAGTGGATTA
64 AAGTGTGCGAATGGACCA
* *
30955267 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
30955285 GGCTCAATAT
Statistics
Matches: 81, Mismatches: 17, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
81 20 0.25
82 61 0.75
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATGGACCA
Found at i:30961684 original size:44 final size:43
Alignment explanation
Indices: 30961546--30961706 Score: 134
Period size: 43 Copynumber: 3.7 Consensus size: 43
30961536 TATAATGCCA
* * * *
30961546 ATGTCCCAGACATGGTCTTACATGT-AATTCAGTATTGATGCCT
1 ATGTCCCAGACATGGTCTTACACGTAAATTCA-AATCGATGCGT
* * * ** *
30961589 CTATCCCAGACAGGGTCTTATGCG-AAA-TCAGATGCGATGCCG-
1 ATGTCCCAGACATGGTCTTACACGTAAATTCAAAT-CGATG-CGT
30961631 ATGTCCCAGACATGGTCTTACACGTAAATTTCAAATCGATGCGT
1 ATGTCCCAGACATGGTCTTACACGTAAA-TTCAAATCGATGCGT
* *
30961675 GTGTCCCAGACACGGTCTTACACG-ATAATTCA
1 ATGTCCCAGACATGGTCTTACACGTA-AATTCA
30961707 GATTAATACC
Statistics
Matches: 93, Mismatches: 17, Indels: 16
0.74 0.13 0.13
Matches are distributed among these distances:
41 2 0.02
42 26 0.28
43 31 0.33
44 29 0.31
45 5 0.05
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.28
Consensus pattern (43 bp):
ATGTCCCAGACATGGTCTTACACGTAAATTCAAATCGATGCGT
Found at i:30969299 original size:46 final size:43
Alignment explanation
Indices: 30969225--30969476 Score: 193
Period size: 46 Copynumber: 5.5 Consensus size: 43
30969215 GTTGATGCCG
* * *
30969225 TGTCCCAGACAGGTCTTACACT-GACACATGTAACCGTGTCGATGCA
1 TGTCCCAGACATGTCTTACACTAG-CACATCT---CGTGGCGATGCA
* * * *
30969271 TGTCCCAAACATGTCTTACACTAGCACATCTCATAGCCGACGCA
1 TGTCCCAGACATGTCTTACACTAGCACATCTCGT-GGCGATGCA
* *
30969315 TGTCCCAGACATGTCTGACACTAGCTAACATCTCGAGCGCGATGCA
1 TGTCCCAGACATGTCTTACACTAGC--ACATCTCGTG-GCGATGCA
* *
30969361 TGTCCCAGACATGTCTTACACTGGCTC-TCATACTGTGGCTGATGCA
1 TGTCCCAGACATGTCTTACACTAGCACATC-T-C-GTGGC-GATGCA
* * * * *
30969407 TGTCCTAGACATGTCTTACACTAGCCCTCGTCTCAATGCCGATGCCA
1 TGTCCCAGACATGTCTTACACTAG--CACATCTC-GTGGCGATG-CA
30969454 TGTCCCAGACATGGTCTTACACT
1 TGTCCCAGACAT-GTCTTACACT
30969477 GGAACACAAA
Statistics
Matches: 170, Mismatches: 22, Indels: 26
0.78 0.10 0.12
Matches are distributed among these distances:
43 4 0.02
44 32 0.19
45 4 0.02
46 96 0.56
47 18 0.11
48 14 0.08
49 2 0.01
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.26
Consensus pattern (43 bp):
TGTCCCAGACATGTCTTACACTAGCACATCTCGTGGCGATGCA
Found at i:30969450 original size:92 final size:90
Alignment explanation
Indices: 30969264--30969478 Score: 236
Period size: 92 Copynumber: 2.3 Consensus size: 90
30969254 GTAACCGTGT
* *
30969264 CGATGCATGTCCCAAACATGTCTTACACTAGCACATCTCATAGCCGACGCATGTCCCAGACATGT
1 CGATGCATGTCCCAGACATGTCTTACACTGGCACATCTCATAGCCGACGCATGTCCCAGACATGT
* *
30969329 CTGACACTAGCTAACATCTCGAGCG
66 CTGACACTAGCCAACATCTCAAGCG
* * * * * *
30969354 CGATGCATGTCCCAGACATGTCTTACACTGGCTC-TCATACTGTGGCTGATGCATGTCCTAGACA
1 CGATGCATGTCCCAGACATGTCTTACACTGGCACATC-T-C-ATAGCCGACGCATGTCCCAGACA
* ** *
30969418 TGTCTTACACTAGCCCTCGTCTCAATGC-
63 TGTCTGACACTAGCCAACATCTCAA-GCG
30969446 CGATGCCATGTCCCAGACATGGTCTTACACTGG
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGG
30969479 AACACAAATC
Statistics
Matches: 105, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
89 2 0.02
90 32 0.30
91 1 0.01
92 42 0.40
93 16 0.15
94 12 0.11
ACGTcount: A:0.24, C:0.31, G:0.20, T:0.26
Consensus pattern (90 bp):
CGATGCATGTCCCAGACATGTCTTACACTGGCACATCTCATAGCCGACGCATGTCCCAGACATGT
CTGACACTAGCCAACATCTCAAGCG
Found at i:30972380 original size:27 final size:27
Alignment explanation
Indices: 30972340--30972453 Score: 153
Period size: 27 Copynumber: 4.2 Consensus size: 27
30972330 AGGAAGCGTC
30972340 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTATGCCACAATTATCTGAT
*
30972367 CTGGTGGCTCTGCCAC-ATATATCTG-T
1 CTGGTGGCTATGCCACAAT-TATCTGAT
*
30972393 CCTGGTGGCTATGCCACAATTATCTGTT
1 -CTGGTGGCTATGCCACAATTATCTGAT
*
30972421 CTGGTGGCTCTGCCACAA-TATCTGTAT
1 CTGGTGGCTATGCCACAATTATCTG-AT
30972448 CTGGTG
1 CTGGTG
30972454 ACTTCGTCAC
Statistics
Matches: 78, Mismatches: 4, Indels: 10
0.85 0.04 0.11
Matches are distributed among these distances:
26 9 0.12
27 66 0.85
28 3 0.04
ACGTcount: A:0.18, C:0.25, G:0.24, T:0.34
Consensus pattern (27 bp):
CTGGTGGCTATGCCACAATTATCTGAT
Found at i:30972453 original size:54 final size:54
Alignment explanation
Indices: 30972337--30972445 Score: 202
Period size: 54 Copynumber: 2.0 Consensus size: 54
30972327 TGGAGGAAGC
30972337 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
*
30972391 GTCCTGGTGGCTATGCCACAATTATCTGTTCTGGTGGCTCTGCCACA-ATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
30972444 GT
1 GT
30972446 ATCTGGTGAC
Statistics
Matches: 54, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
53 8 0.15
54 46 0.85
ACGTcount: A:0.17, C:0.26, G:0.23, T:0.34
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
Found at i:30972464 original size:27 final size:26
Alignment explanation
Indices: 30972340--30972471 Score: 131
Period size: 27 Copynumber: 4.9 Consensus size: 26
30972330 AGGAAGCGTC
* * *
30972340 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGACTCTGCCACAA-TATCTGTT
* *
30972367 CTGGTGGCTCTGCCACATATATCTGTC
1 CTGGTGACTCTGCCACA-ATATCTGTT
* *
30972394 CTGGTGGCTATGCCACAATTATCTGTT
1 CTGGTGACTCTGCCACAA-TATCTGTT
*
30972421 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGACTCTGCCACAATATCTGT-T
*
30972448 CTGGTGACT-TCGTCACAATATCTG
1 CTGGTGACTCT-GCCACAATATCTG
30972472 GCAGTCTCGC
Statistics
Matches: 93, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
26 9 0.10
27 83 0.89
28 1 0.01
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.34
Consensus pattern (26 bp):
CTGGTGACTCTGCCACAATATCTGTT
Found at i:30977677 original size:25 final size:22
Alignment explanation
Indices: 30977626--30977670 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
30977616 TTCATGAAGA
30977626 TCATGTTGCTGCCTATTAAGGT
1 TCATGTTGCTGCCTATTAAGGT
*
30977648 TCATGTTGTTGCCTATTAAGGT
1 TCATGTTGCTGCCTATTAAGGT
30977670 T
1 T
30977671 TCTCATGAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.18, C:0.16, G:0.22, T:0.44
Consensus pattern (22 bp):
TCATGTTGCTGCCTATTAAGGT
Found at i:30983181 original size:17 final size:20
Alignment explanation
Indices: 30983147--30983186 Score: 59
Period size: 17 Copynumber: 2.1 Consensus size: 20
30983137 TATTTCTCTC
30983147 TTTTTCTTTTCTTCGTTTTG
1 TTTTTCTTTTCTTCGTTTTG
30983167 TTTTT-TTTT-TT-GTTTTG
1 TTTTTCTTTTCTTCGTTTTG
30983184 TTT
1 TTT
30983187 GAATTTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 9 0.45
18 2 0.10
19 4 0.20
20 5 0.25
ACGTcount: A:0.00, C:0.07, G:0.10, T:0.82
Consensus pattern (20 bp):
TTTTTCTTTTCTTCGTTTTG
Found at i:30986038 original size:5 final size:5
Alignment explanation
Indices: 30986028--30986052 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
30986018 ACTTTTGAAA
30986028 ATTAT ATTAT ATTAT ATTAT ATTAT
1 ATTAT ATTAT ATTAT ATTAT ATTAT
30986053 TTTAAATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
ATTAT
Found at i:30991379 original size:32 final size:31
Alignment explanation
Indices: 30991305--30991387 Score: 105
Period size: 31 Copynumber: 2.7 Consensus size: 31
30991295 GTTTAGTTAT
* *
30991305 TTAAATAAAATTTTTTAAATAATTTAGTGAC
1 TTAAATAAAAATTTTTAAATAATTTAATGAC
* *
30991336 TTGAATGAAAATTTTTAAATAATTTAATGA-
1 TTAAATAAAAATTTTTAAATAATTTAATGAC
*
30991366 TCTAAATAAAAAATTTTAAATA
1 T-TAAATAAAAATTTTTAAATA
30991388 CTTCACAATG
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
30 1 0.02
31 43 0.98
ACGTcount: A:0.49, C:0.02, G:0.06, T:0.42
Consensus pattern (31 bp):
TTAAATAAAAATTTTTAAATAATTTAATGAC
Done.