Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D06
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: 62964862
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 132689 characters in sequence are not A, C, G, or T
File 63 of 207
Found at i:18127706 original size:73 final size:71
Alignment explanation
Indices: 18127616--18127787 Score: 227
Period size: 73 Copynumber: 2.4 Consensus size: 71
18127606 CTAAGCATTA
* ** * *
18127616 GCGGCGCTTTCTTAAAAACGTCGCTAAATCCCTGAAAGCTCACAAAACGACATTATTGGGCTTAG
1 GCGGCGCTTT-TTAAAAACGCCGCTAAATCCCCAAAAGCTCACAAAACGACATCATTAGGCTTAG
18127681 GTTTTTTT
65 G-TTTTTT
* * *
18127689 GCGGCGCTTTTTCAAAAACGCCGCTAAATCCCCAAAAGCTCAGAAAACGACGTCGTTAGGCTTAG
1 GCGGCGCTTTTT-AAAAACGCCGCTAAATCCCCAAAAGCTCACAAAACGACATCATTAGGCTTAG
18127754 GTTTTTT
65 GTTTTTT
*
18127761 GCGGCGCTTTTTGGAAAACGCCGCTAA
1 GCGGCGCTTTTT-AAAAACGCCGCTAA
18127788 TGCTTATTTT
Statistics
Matches: 88, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
72 33 0.38
73 55 0.62
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.28
Consensus pattern (71 bp):
GCGGCGCTTTTTAAAAACGCCGCTAAATCCCCAAAAGCTCACAAAACGACATCATTAGGCTTAGG
TTTTTT
Found at i:18129898 original size:20 final size:20
Alignment explanation
Indices: 18129838--18129907 Score: 86
Period size: 20 Copynumber: 3.5 Consensus size: 20
18129828 TACGGGATTA
*
18129838 CACTTTGGTGCCTCTACTTG
1 CACTTTGGTGCCTCTGCTTG
* * * *
18129858 TACTTCGGTGCCGCTGTTTG
1 CACTTTGGTGCCTCTGCTTG
*
18129878 CACTTTGGTGCCTTTGCTTG
1 CACTTTGGTGCCTCTGCTTG
18129898 CACTTTGGTG
1 CACTTTGGTG
18129908 TGTTTGGGAA
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.07, C:0.26, G:0.26, T:0.41
Consensus pattern (20 bp):
CACTTTGGTGCCTCTGCTTG
Found at i:18130701 original size:30 final size:30
Alignment explanation
Indices: 18130667--18130730 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 30
18130657 CACGGGCTGT
* * *
18130667 CACACGATTGTGTGCAACACATGGTCACAC
1 CACACGACTGTGTCCAACACACGGTCACAC
*
18130697 CACACGGCTGTGTCCAACACACGGTCACAC
1 CACACGACTGTGTCCAACACACGGTCACAC
18130727 CACA
1 CACA
18130731 TGGCCATGTG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.30, C:0.36, G:0.19, T:0.16
Consensus pattern (30 bp):
CACACGACTGTGTCCAACACACGGTCACAC
Found at i:18131852 original size:27 final size:27
Alignment explanation
Indices: 18131815--18131941 Score: 170
Period size: 27 Copynumber: 4.7 Consensus size: 27
18131805 ATAACATTAA
18131815 GCAT-ATAGTCATTTTATAACATAGGG
1 GCATAATAGTCATTTTATAACATAGGG
* *
18131841 GCATAATAGTCATTTTACAATATAGGG
1 GCATAATAGTCATTTTATAACATAGGG
18131868 GCATAACT-GTCATTTTATAACATAGGG
1 GCATAA-TAGTCATTTTATAACATAGGG
***
18131895 GCATAATAGTCATTTTGCCACAT-GAGG
1 GCATAATAGTCATTTTATAACATAG-GG
18131922 GCATAATAGTCATTTTATAA
1 GCATAATAGTCATTTTATAA
18131942 TAGTTTGGGG
Statistics
Matches: 87, Mismatches: 10, Indels: 7
0.84 0.10 0.07
Matches are distributed among these distances:
26 6 0.07
27 80 0.92
28 1 0.01
ACGTcount: A:0.35, C:0.13, G:0.18, T:0.34
Consensus pattern (27 bp):
GCATAATAGTCATTTTATAACATAGGG
Found at i:18131881 original size:54 final size:54
Alignment explanation
Indices: 18131815--18131941 Score: 188
Period size: 54 Copynumber: 2.4 Consensus size: 54
18131805 ATAACATTAA
*
18131815 GCAT-ATAGTCATTTTATAACATAGGGGCATAATAGTCATTTTACAATAT-AGGG
1 GCATAATAGTCATTTTATAACATAGGGGCATAATAGTCATTTTACAACATGA-GG
* *
18131868 GCATAACT-GTCATTTTATAACATAGGGGCATAATAGTCATTTTGCCACATGAGG
1 GCATAA-TAGTCATTTTATAACATAGGGGCATAATAGTCATTTTACAACATGAGG
18131922 GCATAATAGTCATTTTATAA
1 GCATAATAGTCATTTTATAA
18131942 TAGTTTGGGG
Statistics
Matches: 67, Mismatches: 3, Indels: 7
0.87 0.04 0.09
Matches are distributed among these distances:
53 5 0.07
54 60 0.90
55 2 0.03
ACGTcount: A:0.35, C:0.13, G:0.18, T:0.34
Consensus pattern (54 bp):
GCATAATAGTCATTTTATAACATAGGGGCATAATAGTCATTTTACAACATGAGG
Found at i:18141110 original size:50 final size:50
Alignment explanation
Indices: 18141045--18141340 Score: 243
Period size: 50 Copynumber: 5.8 Consensus size: 50
18141035 TCTTGTACTA
* **
18141045 CCAATGCCATATCCCAGATATGGTCTTACAAGAGAGTTCTCATATAGGTG
1 CCAATGCCATATCCCAGACATGGTCTTACAAGAGACCTCTCATATAGGTG
* * * * *
18141095 TCC-ATGCCATGTCCCAGACATGGTCTTACGAGGGACCTCTCATCTTGGTG
1 -CCAATGCCATATCCCAGACATGGTCTTACAAGAGACCTCTCATATAGGTG
* * * * *
18141145 CCAATGCCATATCCCAGACATGGTCTTACATGGGACCTCTCATCTCGATG
1 CCAATGCCATATCCCAGACATGGTCTTACAAGAGACCTCTCATATAGGTG
*** * * * * * * *
18141195 CCAACAACATGTCCGAGACATGGTCTTACATGGGACCTCTCATCTCGCTG
1 CCAATGCCATATCCCAGACATGGTCTTACAAGAGACCTCTCATATAGGTG
* * * * *
18141245 CCAACGCCATGTCCCAAACATGGTCTTACATGAGACCTCTCATAATCTCAATGATG
1 CCAATGCCATATCCCAGACATGGTCTTACAAGAGACCTCTCAT-A--T--A-GGTG
* * *
18141301 CCAATGCCATGTCCCAGACATGGTCTTACATGAGATCTCT
1 CCAATGCCATATCCCAGACATGGTCTTACAAGAGACCTCT
18141341 TTACCCAAAT
Statistics
Matches: 208, Mismatches: 30, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
49 2 0.01
50 163 0.78
51 2 0.01
53 1 0.00
56 40 0.19
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.26
Consensus pattern (50 bp):
CCAATGCCATATCCCAGACATGGTCTTACAAGAGACCTCTCATATAGGTG
Found at i:18141155 original size:100 final size:100
Alignment explanation
Indices: 18141045--18141332 Score: 323
Period size: 100 Copynumber: 2.8 Consensus size: 100
18141035 TCTTGTACTA
* * ** *
18141045 CCAATGCCATATCCCAGATATGGTCTTACAAGAGAGTTCTCATATAGGTGTCCATGCCATGTCCC
1 CCAATGCCATATCCCAGACATGGTCTTACATGAGACCTCTCATATAGATGTCCATGCCATGTCCC
* *
18141110 AGACATGGTCTTACGA-GGGACCTCTCATCTTGGTG
66 AGACATGGTCTTAC-ATGGGACCTCTCATCTCGCTG
* * * *
18141145 CCAATGCCATATCCCAGACATGGTCTTACATGGGACCTCTCATCTCGATG-CCA-ACAACATGTC
1 CCAATGCCATATCCCAGACATGGTCTTACATGAGACCTCTCATATAGATGTCCATGC--CATGTC
*
18141208 CGAGACATGGTCTTACATGGGACCTCTCATCTCGCTG
64 CCAGACATGGTCTTACATGGGACCTCTCATCTCGCTG
* * *
18141245 CCAACGCCATGTCCCAAACATGGTCTTACATGAGACCTCTCATAATCTCA-ATGATGCCAATGCC
1 CCAATGCCATATCCCAGACATGGTCTTACATGAGACCTCTCAT-A--T-AGATG-T-CC-ATGCC
18141309 ATGTCCCAGACATGGTCTTACATG
59 ATGTCCCAGACATGGTCTTACATG
18141333 AGATCTCTTT
Statistics
Matches: 156, Mismatches: 20, Indels: 18
0.80 0.10 0.09
Matches are distributed among these distances:
98 1 0.01
99 4 0.03
100 119 0.76
103 4 0.03
106 26 0.17
107 1 0.01
108 1 0.01
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (100 bp):
CCAATGCCATATCCCAGACATGGTCTTACATGAGACCTCTCATATAGATGTCCATGCCATGTCCC
AGACATGGTCTTACATGGGACCTCTCATCTCGCTG
Found at i:18147976 original size:50 final size:49
Alignment explanation
Indices: 18147859--18148099 Score: 239
Period size: 50 Copynumber: 4.9 Consensus size: 49
18147849 GAATATACCA
* * * ** * * * *
18147859 TGCCAAAGCTATGTCCCAGACATAGTCTTACATGGGATGTTTCTTGTAC
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATAG
* * * * * **
18147908 TACCAATGCCATATCCCAGATATGGTCTTACATGAGAGTTCTCATATAAG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAT-AG
* * ** * *
18147958 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAT-AG
*
18148008 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATAG
*
18148057 ATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
18148100 TTACCCAAAT
Statistics
Matches: 158, Mismatches: 32, Indels: 3
0.82 0.17 0.02
Matches are distributed among these distances:
49 36 0.23
50 122 0.77
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.27
Consensus pattern (49 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATAG
Found at i:18151490 original size:25 final size:25
Alignment explanation
Indices: 18151444--18151492 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
18151434 TTGTTTTTGA
* *
18151444 TAGTATATCCTGAAACTGCTATAGG
1 TAGTATATACTGAAACTACTATAGG
* *
18151469 TAGTATATATTGAGACTACTATAG
1 TAGTATATACTGAAACTACTATAG
18151493 ATACATTGTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (25 bp):
TAGTATATACTGAAACTACTATAGG
Found at i:18159442 original size:43 final size:44
Alignment explanation
Indices: 18159355--18159451 Score: 187
Period size: 43 Copynumber: 2.2 Consensus size: 44
18159345 TCAATAATTG
18159355 TATATACCACAAGTTCAATGAGAGTAAGGTTCTATATTTGGTTT
1 TATATACCACAAGTTCAATGAGAGTAAGGTTCTATATTTGGTTT
18159399 TATATACCACAAGTTCAATGAGAGT-AGGTTCTATATTTGGTTT
1 TATATACCACAAGTTCAATGAGAGTAAGGTTCTATATTTGGTTT
18159442 TATATACCAC
1 TATATACCAC
18159452 TACTTATCAA
Statistics
Matches: 53, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
43 28 0.53
44 25 0.47
ACGTcount: A:0.32, C:0.13, G:0.16, T:0.38
Consensus pattern (44 bp):
TATATACCACAAGTTCAATGAGAGTAAGGTTCTATATTTGGTTT
Found at i:18165290 original size:25 final size:25
Alignment explanation
Indices: 18165254--18165328 Score: 114
Period size: 25 Copynumber: 3.0 Consensus size: 25
18165244 TGTATATTCC
18165254 ACAGCTCGTGAGAGCATACCAATTT
1 ACAGCTCGTGAGAGCATACCAATTT
* *
18165279 ACAGCTCATGAGAGCATATCAATTT
1 ACAGCTCGTGAGAGCATACCAATTT
*
18165304 ACAGCTCGTGAGAGTATACCGAATT
1 ACAGCTCGTGAGAGCATACC-AATT
18165329 ATAACTCCTG
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
25 40 0.91
26 4 0.09
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.25
Consensus pattern (25 bp):
ACAGCTCGTGAGAGCATACCAATTT
Found at i:18176459 original size:25 final size:25
Alignment explanation
Indices: 18176431--18176515 Score: 89
Period size: 25 Copynumber: 3.4 Consensus size: 25
18176421 CCTGTACATG
*
18176431 TATGCTCACACGAGTTGTAAATTGA
1 TATGCTCTCACGAGTTGTAAATTGA
* * * *
18176456 TATGTTCTCACGAGCTATAAATTGG
1 TATGCTCTCACGAGTTGTAAATTGA
* * * *
18176481 TATGCTTTCACGAGTTGTATATCGG
1 TATGCTCTCACGAGTTGTAAATTGA
18176506 TATGCTCTCA
1 TATGCTCTCA
18176516 TGAGCTGTGG
Statistics
Matches: 48, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 48 1.00
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.36
Consensus pattern (25 bp):
TATGCTCTCACGAGTTGTAAATTGA
Found at i:18182132 original size:21 final size:21
Alignment explanation
Indices: 18182093--18182178 Score: 86
Period size: 21 Copynumber: 4.0 Consensus size: 21
18182083 CCTGATCAGT
18182093 ATACGACACATAAGTGCCTGA
1 ATACGACACATAAGTGCCTGA
*
18182114 A-ACGACACATGAGGTGCCT-A
1 ATACGACACAT-AAGTGCCTGA
*
18182134 ATAGGACACATAAAGTGCCTGA
1 ATACGACACAT-AAGTGCCTGA
* *
18182156 TGTACGAAACATAAAGTGCCTGA
1 -ATACGACACAT-AAGTGCCTGA
18182179 TCGGCAAAGC
Statistics
Matches: 54, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
20 11 0.20
21 23 0.43
22 1 0.02
23 19 0.35
ACGTcount: A:0.38, C:0.21, G:0.22, T:0.19
Consensus pattern (21 bp):
ATACGACACATAAGTGCCTGA
Found at i:18182420 original size:36 final size:37
Alignment explanation
Indices: 18182380--18182468 Score: 101
Period size: 36 Copynumber: 2.4 Consensus size: 37
18182370 CTCTTCAAAT
* *
18182380 TCACATTTCAATTCAACTTCACTTTTTCACTTTCAA-
1 TCACATTTCAATTCAAATTCACTTTTCCACTTTCAAG
* * *
18182416 TCACAATTCAATTCAAATTTACTTTTCCATTTTCAAG
1 TCACATTTCAATTCAAATTCACTTTTCCACTTTCAAG
*
18182453 TCA-ATATTCATTTCAA
1 TCACAT-TTCAATTCAA
18182469 TTCCACACAT
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
36 32 0.73
37 12 0.27
ACGTcount: A:0.31, C:0.24, G:0.01, T:0.44
Consensus pattern (37 bp):
TCACATTTCAATTCAAATTCACTTTTCCACTTTCAAG
Found at i:18183340 original size:25 final size:27
Alignment explanation
Indices: 18183303--18183362 Score: 75
Period size: 27 Copynumber: 2.1 Consensus size: 27
18183293 ATAGTATAGT
*
18183303 TATTTTGAATTAATTTAATATAATTTATAA
1 TATTTT-AATTAA-ATAATAT-ATTTATAA
*
18183333 TATTTTAATTAAATAATATTTTTATAA
1 TATTTTAATTAAATAATATATTTATAA
18183360 TAT
1 TAT
18183363 AAATCAAGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
27 10 0.36
28 6 0.21
29 6 0.21
30 6 0.21
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (27 bp):
TATTTTAATTAAATAATATATTTATAA
Found at i:18183364 original size:16 final size:17
Alignment explanation
Indices: 18183328--18183364 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
18183318 TAATATAATT
18183328 TATAATATTTTAATTAA
1 TATAATATTTTAATTAA
*
18183345 -ATAATATTTTTA-TAA
1 TATAATATTTTAATTAA
18183360 TATAA
1 TATAA
18183365 ATCAAGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
15 3 0.17
16 15 0.83
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
TATAATATTTTAATTAA
Found at i:18189531 original size:23 final size:23
Alignment explanation
Indices: 18189461--18189569 Score: 147
Period size: 23 Copynumber: 5.0 Consensus size: 23
18189451 CCTGATCAGT
18189461 ATACGACACAT-AAGTGCCTGA-
1 ATACGACACATAAAGTGCCTGAG
** *
18189482 A-ACGACACACGAGGTGCCT--G
1 ATACGACACATAAAGTGCCTGAG
*
18189502 ATACGACACATAAAGTGTCTGAG
1 ATACGACACATAAAGTGCCTGAG
18189525 ATACGACACATAAAGTGCCTGAG
1 ATACGACACATAAAGTGCCTGAG
18189548 ATACGACACATAAAGTGCCTGA
1 ATACGACACATAAAGTGCCTGA
18189570 TCGGCAAAGC
Statistics
Matches: 76, Mismatches: 7, Indels: 8
0.84 0.08 0.09
Matches are distributed among these distances:
20 9 0.12
21 22 0.29
23 45 0.59
ACGTcount: A:0.38, C:0.23, G:0.22, T:0.17
Consensus pattern (23 bp):
ATACGACACATAAAGTGCCTGAG
Found at i:18189799 original size:25 final size:27
Alignment explanation
Indices: 18189762--18189821 Score: 75
Period size: 27 Copynumber: 2.1 Consensus size: 27
18189752 ATAGTATAGT
*
18189762 TATTTTGAATTAATTTAATATAATTTATAA
1 TATTTT-AATTAA-ATAATAT-ATTTATAA
*
18189792 TATTTTAATTAAATAATATTTTTATAA
1 TATTTTAATTAAATAATATATTTATAA
18189819 TAT
1 TAT
18189822 AAATCAAGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
27 10 0.36
28 6 0.21
29 6 0.21
30 6 0.21
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (27 bp):
TATTTTAATTAAATAATATATTTATAA
Found at i:18189823 original size:16 final size:17
Alignment explanation
Indices: 18189787--18189823 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
18189777 TAATATAATT
18189787 TATAATATTTTAATTAA
1 TATAATATTTTAATTAA
*
18189804 -ATAATATTTTTA-TAA
1 TATAATATTTTAATTAA
18189819 TATAA
1 TATAA
18189824 ATCAAGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
15 3 0.17
16 15 0.83
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
TATAATATTTTAATTAA
Found at i:18191095 original size:18 final size:19
Alignment explanation
Indices: 18191072--18191109 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
18191062 CGTGCGTGAC
18191072 TTTCTTT-TCTTC-TTTCTT
1 TTTCTTTCT-TTCTTTTCTT
18191090 TTTCTTTCTTTCTTTTCTT
1 TTTCTTTCTTTCTTTTCTT
18191109 T
1 T
18191110 CTAATTTGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (19 bp):
TTTCTTTCTTTCTTTTCTT
Found at i:18191106 original size:13 final size:13
Alignment explanation
Indices: 18191071--18191111 Score: 66
Period size: 13 Copynumber: 3.2 Consensus size: 13
18191061 TCGTGCGTGA
18191071 CTTTCTTTTC-TT
1 CTTTCTTTTCTTT
18191083 CTTTCTTTTTCTTT
1 CTTTC-TTTTCTTT
18191097 CTTTCTTTTCTTT
1 CTTTCTTTTCTTT
18191110 CT
1 CT
18191112 AATTTGTATG
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
12 5 0.19
13 15 0.56
14 7 0.26
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (13 bp):
CTTTCTTTTCTTT
Found at i:18196264 original size:83 final size:83
Alignment explanation
Indices: 18196125--18196294 Score: 290
Period size: 83 Copynumber: 2.0 Consensus size: 83
18196115 AGAAGTTTTT
*
18196125 TAAAATAGTTACGTATTTGAGTAAATTTTATTAAAACTTTTGGTTCTTTTTAAAAACTCGATTAT
1 TAAAACAGTTACGTATTTGAGTAAATTTTATTAAAACTTTTGGTTCTTTTTAAAAACTCGATTAT
*
18196190 CTCTACTACTAGTC-ATTA
66 CCCTACTACTAG-CAATTA
18196208 TAAAACAGTTACGTATTTGAGTAAATTTTATTAAAA-TGTTTGGTTCTTTTTAAAAACTCGATTA
1 TAAAACAGTTACGTATTTGAGTAAATTTTATTAAAACT-TTTGGTTCTTTTTAAAAACTCGATTA
18196272 TCCCTACTACTAGCAATTA
65 TCCCTACTACTAGCAATTA
18196291 TAAA
1 TAAA
18196295 TCAAAACAAT
Statistics
Matches: 83, Mismatches: 2, Indels: 4
0.93 0.02 0.04
Matches are distributed among these distances:
82 2 0.02
83 81 0.98
ACGTcount: A:0.35, C:0.12, G:0.10, T:0.42
Consensus pattern (83 bp):
TAAAACAGTTACGTATTTGAGTAAATTTTATTAAAACTTTTGGTTCTTTTTAAAAACTCGATTAT
CCCTACTACTAGCAATTA
Found at i:18198993 original size:100 final size:100
Alignment explanation
Indices: 18198820--18199090 Score: 395
Period size: 100 Copynumber: 2.7 Consensus size: 100
18198810 AACTTTTGGA
** * * * *
18198820 AAGTAAGATTCGCCATTGTGGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCATGATTCGCTG
1 AAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGAGGAAGCAAGATTCACTG
*
18198885 TTGTGGCTTTAATCTGTTCCACTACA-TCGCCTAG-G
66 ATGTGGCTTTAATCTGTTCCACTACACT-GCC-AGAG
*
18198920 AAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGAGGAAGCAAGATTCACAG
1 AAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGAGGAAGCAAGATTCACTG
*
18198985 ATGTGGCTTTAATCTGTTCCACTGCACTGCCAGAG
66 ATGTGGCTTTAATCTGTTCCACTACACTGCCAGAG
* *
18199020 AAATAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGT-AAGGGAAGCAAGATTCACT
1 AAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGA-GGAAGCAAGATTCACT
18199084 GATGTGG
65 GATGTGG
18199091 GTATTACACC
Statistics
Matches: 156, Mismatches: 12, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
99 3 0.02
100 152 0.97
101 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.23, T:0.34
Consensus pattern (100 bp):
AAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGAGGAAGCAAGATTCACTG
ATGTGGCTTTAATCTGTTCCACTACACTGCCAGAG
Found at i:18199059 original size:50 final size:50
Alignment explanation
Indices: 18198820--18199090 Score: 233
Period size: 50 Copynumber: 5.4 Consensus size: 50
18198810 AACTTTTGGA
** * * *
18198820 AAGTAAGATTCGCCATTGTGGCTTTAATCTTTTTAACTGCAATGTCGGGG
1 AAGTAAGATTCGCTGTTGTGGCTTTAATCTTTTTAACTGCAATGCCAGAG
* * * ** *
18198870 AAGCATGATTCGCTGTTGTGGCTTTAATCTGTTCCACTAC-ATCGCCTAG-G
1 AAGTAAGATTCGCTGTTGTGGCTTTAATCTTTTTAACTGCAAT-GCC-AGAG
* *
18198920 AAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTC-GAGG
1 AAGTAAGATTCGCTGTTGTGGCTTTAATCTTTTTAACTGCAATGCCAGA-G
* * * * * ** *
18198970 AAGCAAGATTCACAGATGTGGCTTTAATCTGTTCCACTGCACTGCCAGAG
1 AAGTAAGATTCGCTGTTGTGGCTTTAATCTTTTTAACTGCAATGCCAGAG
* * ** *
18199020 AAATAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTAAGGG
1 AAGTAAGATTCGCTGTTGTGGCTTTAATCTTTTTAACTGCAATGCCAGAG
* * *
18199070 AAGCAAGATTCACTGATGTGG
1 AAGTAAGATTCGCTGTTGTGG
18199091 GTATTACACC
Statistics
Matches: 169, Mismatches: 46, Indels: 12
0.74 0.20 0.05
Matches are distributed among these distances:
48 1 0.01
49 2 0.01
50 161 0.95
51 5 0.03
ACGTcount: A:0.26, C:0.18, G:0.23, T:0.34
Consensus pattern (50 bp):
AAGTAAGATTCGCTGTTGTGGCTTTAATCTTTTTAACTGCAATGCCAGAG
Found at i:18203651 original size:20 final size:20
Alignment explanation
Indices: 18203626--18203668 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
18203616 ATACAATAAA
18203626 ATTTCAATTTCATATTGAAT
1 ATTTCAATTTCATATTGAAT
18203646 ATTTCAATTTCATATTGAAT
1 ATTTCAATTTCATATTGAAT
18203666 ATT
1 ATT
18203669 GAATATTTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.35, C:0.09, G:0.05, T:0.51
Consensus pattern (20 bp):
ATTTCAATTTCATATTGAAT
Found at i:18205663 original size:30 final size:31
Alignment explanation
Indices: 18205622--18205689 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 31
18205612 GTACAAAAAT
** *
18205622 GTCATTGAACTAT-TTGAAAGTTTCATTTAA
1 GTCATTGAACTATATAAAAAATTTCATTTAA
* *
18205652 GTCATTTAACTATATAAAAAATTTTATTTAA
1 GTCATTGAACTATATAAAAAATTTCATTTAA
18205683 GTCATTG
1 GTCATTG
18205690 GGTTGTTAAG
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
30 12 0.39
31 19 0.61
ACGTcount: A:0.37, C:0.09, G:0.10, T:0.44
Consensus pattern (31 bp):
GTCATTGAACTATATAAAAAATTTCATTTAA
Found at i:18206952 original size:17 final size:17
Alignment explanation
Indices: 18206910--18206952 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
18206900 TAATCATTTA
18206910 AAAATTA-TAAAAAAAT
1 AAAATTATTAAAAAAAT
* *
18206926 ATAAACTATTAAAATAAT
1 A-AAATTATTAAAAAAAT
18206944 AAAATTATT
1 AAAATTATT
18206953 TTTTACTATC
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
16 1 0.05
17 12 0.55
18 9 0.41
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (17 bp):
AAAATTATTAAAAAAAT
Found at i:18208155 original size:11 final size:10
Alignment explanation
Indices: 18208113--18208173 Score: 77
Period size: 11 Copynumber: 5.6 Consensus size: 10
18208103 CAACTAAATT
18208113 ATTTCTCTCA
1 ATTTCTCTCA
18208123 ATTTCTCTCTA
1 ATTTCTCTC-A
18208134 ATATTCTCTCA
1 AT-TTCTCTCA
18208145 ATTTCCTCTCA
1 ATTT-CTCTCA
18208156 ATTTCCTCTCAA
1 ATTT-CTCTC-A
18208168 ATTTCT
1 ATTTCT
18208174 ATTTAAAAGA
Statistics
Matches: 47, Mismatches: 0, Indels: 7
0.87 0.00 0.13
Matches are distributed among these distances:
10 11 0.23
11 24 0.51
12 12 0.26
ACGTcount: A:0.21, C:0.30, G:0.00, T:0.49
Consensus pattern (10 bp):
ATTTCTCTCA
Found at i:18213022 original size:126 final size:126
Alignment explanation
Indices: 18212797--18213087 Score: 474
Period size: 126 Copynumber: 2.3 Consensus size: 126
18212787 AGGCCAATGC
* *
18212797 GCTACTGTAGCAAAAGCGCATCCATGTGGGAGCTTCTTTCAGTACTTCTGCTGACAAAACATCCT
1 GCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAGTACTTCTGCTGACAAAACATCCT
* *
18212862 ACTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCGAAATTATTTTTTCAGGA
66 ACTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCAAAATTATTTTTTCAGAA
* * * *
18212923 GCTACTGAAGCAAAAACGCGTCCACATGGGAGCTTCTTTCAGTACTTCTGCTGACAAAGCATCCT
1 GCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAGTACTTCTGCTGACAAAACATCCT
*
18212988 GCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCAAAATTATTTTTTCAGAA
66 ACTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCAAAATTATTTTTTCAGAA
* * *
18213049 GCTATTGTAGCAAAAGTGGGTCCACGTGGGAGCTTCTTT
1 GCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTT
18213088 AAATCAACAA
Statistics
Matches: 150, Mismatches: 15, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
126 150 1.00
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (126 bp):
GCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAGTACTTCTGCTGACAAAACATCCT
ACTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCAAAATTATTTTTTCAGAA
Found at i:18213285 original size:94 final size:95
Alignment explanation
Indices: 18213162--18213353 Score: 262
Period size: 94 Copynumber: 2.0 Consensus size: 95
18213152 TTAAAAACCT
** *
18213162 AAACCCTAAACCTTAAACCCTAATCTAATTTTAT-AAAAATTTATAATTAATTTACTCAAGTAAC
1 AAACCCTAAACCTTAAACCCTAATCTAATTTTATAAAAAAAAT-TAATTAAATTACTCAAGTAAC
* * *
18213226 CCTGAACCCTAATTTATTTGA-TTTTCCTTA
65 CCTAAACCCTAATTTAATTAATTTTTCCTTA
* * * *
18213256 AAACCCTTAACTTTAAACCTTAATCTAATTTTTTAAAAAAAATTAATTAAATTACTCAAGTAACC
1 AAACCCTAAACCTTAAACCCTAATCTAATTTTATAAAAAAAATTAATTAAATTACTCAAGTAACC
*
18213321 CTAAACCCTAATTTAATTAATTTTTTCTTA
66 CTAAACCCTAATTTAATTAATTTTTCCTTA
18213351 AAA
1 AAA
18213354 AATAATAAAC
Statistics
Matches: 85, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
94 68 0.80
95 17 0.20
ACGTcount: A:0.41, C:0.18, G:0.02, T:0.39
Consensus pattern (95 bp):
AAACCCTAAACCTTAAACCCTAATCTAATTTTATAAAAAAAATTAATTAAATTACTCAAGTAACC
CTAAACCCTAATTTAATTAATTTTTCCTTA
Found at i:18214496 original size:10 final size:9
Alignment explanation
Indices: 18214462--18214616 Score: 60
Period size: 10 Copynumber: 15.9 Consensus size: 9
18214452 ACAAGTTAAA
18214462 TATAAAAAT
1 TATAAAAAT
**
18214471 TATTAGAACTT
1 TA-TA-AAAAT
18214482 TATAAATAAT
1 TATAAA-AAT
18214492 TATAAAAAT
1 TATAAAAAT
18214501 TATAGAAAATT
1 TATA-AAAA-T
* *
18214512 TTTAAATAT
1 TATAAAAAT
18214521 TATAAAAAATT
1 TAT-AAAAA-T
*
18214532 TAGAAAAAT
1 TATAAAAAT
*
18214541 TATTGAAACAT
1 TA-T-AAAAAT
* *
18214552 CATTAAATAT
1 TA-TAAAAAT
*
18214562 TATAAATTAT
1 TATAAA-AAT
18214572 TATAAAAA-
1 TATAAAAAT
*
18214580 TAGCATAAAAT
1 TA-TA-AAAAT
* *
18214591 TTTAGAAAT
1 TATAAAAAT
*
18214600 TATTAAAAT
1 TATAAAAAT
*
18214609 TACAAAAA
1 TATAAAAA
18214617 AACTACAAAT
Statistics
Matches: 109, Mismatches: 24, Indels: 26
0.69 0.15 0.16
Matches are distributed among these distances:
8 2 0.02
9 39 0.36
10 47 0.43
11 21 0.19
ACGTcount: A:0.56, C:0.03, G:0.04, T:0.37
Consensus pattern (9 bp):
TATAAAAAT
Found at i:18214522 original size:29 final size:30
Alignment explanation
Indices: 18214462--18214543 Score: 98
Period size: 30 Copynumber: 2.8 Consensus size: 30
18214452 ACAAGTTAAA
*
18214462 TATAAAAATTATTAG-AACTTTATAAATAAT
1 TATAAAAATTA-TAGAAAATTTATAAATAAT
*
18214492 TATAAAAATTATAGAAAATTTTTAAAT-AT
1 TATAAAAATTATAGAAAATTTATAAATAAT
*
18214521 TATAAAAAATT-TAGAAAAATTAT
1 TAT-AAAAATTATAGAAAATTTAT
18214544 TGAAACATCA
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
29 18 0.39
30 28 0.61
ACGTcount: A:0.56, C:0.01, G:0.04, T:0.39
Consensus pattern (30 bp):
TATAAAAATTATAGAAAATTTATAAATAAT
Found at i:18215315 original size:18 final size:19
Alignment explanation
Indices: 18215294--18215348 Score: 58
Period size: 20 Copynumber: 2.9 Consensus size: 19
18215284 TATAAGATTT
* *
18215294 AAATTTTTCTATA-TTTTA
1 AAATTTTTATAAATTTTTA
18215312 AAATTTTTATAAATTTTTA
1 AAATTTTTATAAATTTTTA
* *
18215331 ATATTTTTTATGAATTTT
1 A-AATTTTTATAAATTTT
18215349 ATAATTTATA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
18 11 0.35
19 6 0.19
20 14 0.45
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.62
Consensus pattern (19 bp):
AAATTTTTATAAATTTTTA
Found at i:18215340 original size:20 final size:21
Alignment explanation
Indices: 18215315--18215353 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
18215305 TATTTTAAAA
18215315 TTTTTATAAATTTT-TAATAT
1 TTTTTATAAATTTTATAATAT
*
18215335 TTTTTATGAATTTTATAAT
1 TTTTTATAAATTTTATAAT
18215354 TTATATATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (21 bp):
TTTTTATAAATTTTATAATAT
Found at i:18215355 original size:19 final size:19
Alignment explanation
Indices: 18215306--18215355 Score: 50
Period size: 20 Copynumber: 2.6 Consensus size: 19
18215296 ATTTTTCTAT
*
18215306 ATTTTA-AAATTTTTATAA
1 ATTTTATAATTTTTTATAA
*
18215324 ATTTT-TAATATTTTTTATGA
1 ATTTTAT-A-ATTTTTTATAA
18215344 ATTTTATAATTT
1 ATTTTATAATTT
18215356 ATATATTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 7
0.74 0.06 0.20
Matches are distributed among these distances:
18 5 0.19
19 5 0.19
20 15 0.58
21 1 0.04
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (19 bp):
ATTTTATAATTTTTTATAA
Found at i:18216738 original size:16 final size:16
Alignment explanation
Indices: 18216694--18216740 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
18216684 TACTATAAAA
*
18216694 TATAATTTAACATA-AT
1 TATAA-TTAAAATATAT
*
18216710 TATTATT-AAATATAT
1 TATAATTAAAATATAT
18216725 TATAATTAAAATATAT
1 TATAATTAAAATATAT
18216741 AATTTAATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 4 0.15
15 10 0.38
16 12 0.46
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (16 bp):
TATAATTAAAATATAT
Found at i:18216858 original size:16 final size:16
Alignment explanation
Indices: 18216814--18216860 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
18216804 TACTATAAAA
*
18216814 TATAATTTAACATA-AT
1 TATAA-TTAAAATATAT
*
18216830 TATTATT-AAATATAT
1 TATAATTAAAATATAT
18216845 TATAATTAAAATATAT
1 TATAATTAAAATATAT
18216861 AATTTAATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 4 0.15
15 10 0.38
16 12 0.46
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (16 bp):
TATAATTAAAATATAT
Found at i:18217243 original size:120 final size:120
Alignment explanation
Indices: 18216577--18217234 Score: 1174
Period size: 120 Copynumber: 5.5 Consensus size: 120
18216567 ATTTAATCAT
* *
18216577 ATTTAAACATAATTATTATTAAATAAATTATAATTAAATTATATAATTTAATAAAATTCTTAATA
1 ATTT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
18216642 ATCAATATTCTTATATGAATTTATTCAAATCATAATATATGATACTATAAAATATA
65 ATCAATATTCTTATATGAATTTATTCAAATCATAATATATGATACTATAAAATATA
18216698 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
1 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
*
18216763 TCAATATTCTTATATGAATTTATTCAAATAATAATATATGATACTATAAAATATA
66 TCAATATTCTTATATGAATTTATTCAAATCATAATATATGATACTATAAAATATA
18216818 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
1 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
18216883 TCAATATTCTTATATGAATTTATTCAAATCATAATATATGATACTATAAAATATA
66 TCAATATTCTTATATGAATTTATTCAAATCATAATATATGATACTATAAAATATA
*
18216938 ATTTAACATAATTATTATTAAGTATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
1 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
* * *
18217003 TTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
66 TCAATATTCTTATATGAATTTATTCAAATCATAATATATGATACTATAAAATATA
*
18217058 ATTTAACATAATTACTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
1 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
* *
18217123 TCAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATA
66 TCAATATTCTTATATGAATTTATTCAAATCATAATATATGATACTATAAAATATA
* * *
18217178 ATTTGAA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 ATTT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATT
18217235 TAAAATAATT
Statistics
Matches: 520, Mismatches: 16, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
120 514 0.99
121 6 0.01
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (120 bp):
ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
TCAATATTCTTATATGAATTTATTCAAATCATAATATATGATACTATAAAATATA
Found at i:18217285 original size:47 final size:46
Alignment explanation
Indices: 18217216--18217384 Score: 154
Period size: 47 Copynumber: 3.7 Consensus size: 46
18217206 TTAATTAAAA
*
18217216 TATATG-ATTTAATAAAATTTAAAATAATTATAACTAATAAATTTTCT
1 TATATGAATTT-ATATAATTTAAAATAATTATAA-TAATAAATTTTCT
* * *
18217263 TATATGAATTTGTATAATTTAAAATAATTAT--TATTAAATATAAT-T
1 TATATGAATTTATATAATTTAAAATAATTATAATAATAAAT-T-TTCT
* * * *
18217308 TA-AT-AATGATATATAATTTCATAA-AATTCTTGATAATAAATTTTCT
1 TATATGAAT-TTATATAATTT-AAAATAATT-ATAATAATAAATTTTCT
18217354 TATATGAATTTATATAATTTAAAATAATTAT
1 TATATGAATTTATATAATTTAAAATAATTAT
18217385 TATTAAATAA
Statistics
Matches: 97, Mismatches: 13, Indels: 25
0.72 0.10 0.19
Matches are distributed among these distances:
43 3 0.03
44 22 0.23
45 9 0.09
46 9 0.09
47 47 0.48
48 7 0.07
ACGTcount: A:0.47, C:0.03, G:0.04, T:0.47
Consensus pattern (46 bp):
TATATGAATTTATATAATTTAAAATAATTATAATAATAAATTTTCT
Found at i:18219096 original size:20 final size:20
Alignment explanation
Indices: 18219071--18219110 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
18219061 CGTAAAATAA
*
18219071 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
18219091 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
18219111 GAAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:18219100 original size:34 final size:35
Alignment explanation
Indices: 18219056--18219122 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
18219046 CAGTAAAATA
* *
18219056 TTTTCCGTAAAATAATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATAATTTACTGAAAAATATTTTAC
* *
18219090 TTTTCTGTAAAATGATTTACTGAAAAATATTTT
1 TTTTCCGTAAAATAATTTACTGAAAAATATTTT
18219123 CTGGTGTTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 16 0.57
35 12 0.43
ACGTcount: A:0.34, C:0.09, G:0.10, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATAATTTACTGAAAAATATTTTAC
Found at i:18219350 original size:51 final size:50
Alignment explanation
Indices: 18219289--18219393 Score: 174
Period size: 51 Copynumber: 2.1 Consensus size: 50
18219279 ATAATACTCA
18219289 ATTATTAAACTACAATATTAATCGTTATAAATTGAAAAAAAATACATTCTT
1 ATTATTAAACTACAATATTAATCGTTATAAATT-AAAAAAAATACATTCTT
* **
18219340 ATTATTAAACTACAATATTAATCGTTATAAATTTAAAAAAATGTATTCTT
1 ATTATTAAACTACAATATTAATCGTTATAAATTAAAAAAAATACATTCTT
18219390 ATTA
1 ATTA
18219394 GTTGGAAAAA
Statistics
Matches: 51, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
50 18 0.35
51 33 0.65
ACGTcount: A:0.48, C:0.09, G:0.04, T:0.40
Consensus pattern (50 bp):
ATTATTAAACTACAATATTAATCGTTATAAATTAAAAAAAATACATTCTT
Found at i:18219892 original size:111 final size:111
Alignment explanation
Indices: 18219698--18219919 Score: 444
Period size: 111 Copynumber: 2.0 Consensus size: 111
18219688 TGATGAAGTA
18219698 TTGTTGTCTAAGAGAGAGAGTAGTGATATATGTATACCATATAAACATACACTACTTTTTCTAAA
1 TTGTTGTCTAAGAGAGAGAGTAGTGATATATGTATACCATATAAACATACACTACTTTTTCTAAA
18219763 TGTCTGTACATATTAACAAACTTTAATACAACAATACAACTACATG
66 TGTCTGTACATATTAACAAACTTTAATACAACAATACAACTACATG
18219809 TTGTTGTCTAAGAGAGAGAGTAGTGATATATGTATACCATATAAACATACACTACTTTTTCTAAA
1 TTGTTGTCTAAGAGAGAGAGTAGTGATATATGTATACCATATAAACATACACTACTTTTTCTAAA
18219874 TGTCTGTACATATTAACAAACTTTAATACAACAATACAACTACATG
66 TGTCTGTACATATTAACAAACTTTAATACAACAATACAACTACATG
18219920 CATGGTATTG
Statistics
Matches: 111, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
111 111 1.00
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (111 bp):
TTGTTGTCTAAGAGAGAGAGTAGTGATATATGTATACCATATAAACATACACTACTTTTTCTAAA
TGTCTGTACATATTAACAAACTTTAATACAACAATACAACTACATG
Found at i:18229364 original size:62 final size:61
Alignment explanation
Indices: 18229257--18229470 Score: 185
Period size: 62 Copynumber: 3.4 Consensus size: 61
18229247 CATGGGCAAC
* * * ** * *
18229257 GGACACGAGCGTGTGCCTGAACCGTGTAACTCACTATTTGTGGTATAATACCACACGGCCAG
1 GGACACGGGCGTGTGCCTG-GCCGTGTAACTCACTGTTTACGGTATAAAACCACACGGCCAA
* *
18229319 GGACACGGGCGTGTGCCTTGGCTGTGTAACTCACTGTTTACGGTATAAAACCACACGGTCAA
1 GGACACGGGCGTGTGCC-TGGCCGTGTAACTCACTGTTTACGGTATAAAACCACACGGCCAA
* * * * * * * * * *
18229381 AGACATGGACGTGTAACCAGGCCGTGTAACTCACTGTTTATGCTTTGAAACCACACGGGCAA
1 GGACACGGGCGTGT-GCCTGGCCGTGTAACTCACTGTTTACGGTATAAAACCACACGGCCAA
* * *
18229443 GGCACATGGGTGTGTGACCAGGCCGTGT
1 GG-ACACGGGCGTGTG-CCTGGCCGTGT
18229471 GTCATGTTAT
Statistics
Matches: 124, Mismatches: 24, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
62 99 0.80
63 25 0.20
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.23
Consensus pattern (61 bp):
GGACACGGGCGTGTGCCTGGCCGTGTAACTCACTGTTTACGGTATAAAACCACACGGCCAA
Found at i:18230536 original size:38 final size:38
Alignment explanation
Indices: 18230485--18230560 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
18230475 TCATAATGTA
18230485 TGAGAAAAGTAGTTTAATAATAATTTAGTATTTGAATT
1 TGAGAAAAGTAGTTTAATAATAATTTAGTATTTGAATT
18230523 TGAGAAAAGTAGTTTAATAATAATTTAGTATTTGAATT
1 TGAGAAAAGTAGTTTAATAATAATTTAGTATTTGAATT
18230561 AATATAGAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.42, C:0.00, G:0.16, T:0.42
Consensus pattern (38 bp):
TGAGAAAAGTAGTTTAATAATAATTTAGTATTTGAATT
Found at i:18233283 original size:16 final size:17
Alignment explanation
Indices: 18233256--18233290 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
18233246 AGAGAGTTGA
18233256 GAGAGAGGATGAGAGAT
1 GAGAGAGGATGAGAGAT
*
18233273 GAGAG-GGATGAGGGAT
1 GAGAGAGGATGAGAGAT
18233289 GA
1 GA
18233291 AGGATGATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.37, C:0.00, G:0.51, T:0.11
Consensus pattern (17 bp):
GAGAGAGGATGAGAGAT
Found at i:18236879 original size:13 final size:13
Alignment explanation
Indices: 18236861--18236885 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18236851 CATCTTCTTC
18236861 GTTTGGTACAGGA
1 GTTTGGTACAGGA
18236874 GTTTGGTACAGG
1 GTTTGGTACAGG
18236886 TACGGGTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.08, G:0.40, T:0.32
Consensus pattern (13 bp):
GTTTGGTACAGGA
Found at i:18237594 original size:14 final size:15
Alignment explanation
Indices: 18237563--18237595 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
18237553 GAAACAGTTT
*
18237563 GAATTAAAAATGTTA
1 GAATTAAAAATGTGA
18237578 GAATTAAAAATG-GA
1 GAATTAAAAATGTGA
18237592 GAAT
1 GAAT
18237596 ATTAGAGGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.55, C:0.00, G:0.18, T:0.27
Consensus pattern (15 bp):
GAATTAAAAATGTGA
Found at i:18239049 original size:22 final size:22
Alignment explanation
Indices: 18239024--18239095 Score: 56
Period size: 22 Copynumber: 3.2 Consensus size: 22
18239014 ACAATTTTTA
18239024 TTATTTATAGCAAATTAAAGAG
1 TTATTTATAGCAAATTAAAGAG
* *** ***
18239046 TTATTAATTTAAAATTCTATTTA-
1 TTATTTATAGCAAA-T-TAAAGAG
18239069 TTATTTATAGCAAATTAAAGAG
1 TTATTTATAGCAAATTAAAGAG
18239091 TTATT
1 TTATT
18239096 AATTTAAAAG
Statistics
Matches: 33, Mismatches: 14, Indels: 6
0.62 0.26 0.11
Matches are distributed among these distances:
21 3 0.09
22 16 0.48
23 11 0.33
24 3 0.09
ACGTcount: A:0.42, C:0.04, G:0.08, T:0.46
Consensus pattern (22 bp):
TTATTTATAGCAAATTAAAGAG
Found at i:18242943 original size:9 final size:9
Alignment explanation
Indices: 18242894--18242941 Score: 73
Period size: 9 Copynumber: 5.6 Consensus size: 9
18242884 AGCAAATTAG
18242894 CAATTAATA
1 CAATTAATA
18242903 CAATTAATA
1 CAATTAATA
18242912 CAATTAATA
1 CAATTAATA
18242921 CAATTAATA
1 CAATTAATA
*
18242930 -ATTTAATA
1 CAATTAATA
18242938 -AATT
1 CAATT
18242942 TACTAATCAA
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
8 10 0.27
9 27 0.73
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (9 bp):
CAATTAATA
Found at i:18243024 original size:16 final size:16
Alignment explanation
Indices: 18243003--18243043 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
18242993 ATAATTTCAA
* *
18243003 AATTTTACTACCAATT
1 AATTTTAATAACAATT
18243019 AATTTTAATAACAATT
1 AATTTTAATAACAATT
*
18243035 AGTTTTAAT
1 AATTTTAAT
18243044 TTTATTAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.41, C:0.10, G:0.02, T:0.46
Consensus pattern (16 bp):
AATTTTAATAACAATT
Found at i:18243032 original size:59 final size:64
Alignment explanation
Indices: 18242897--18243035 Score: 157
Period size: 66 Copynumber: 2.2 Consensus size: 64
18242887 AAATTAGCAA
18242897 TTAAT-ACAATTAATACAATTAATACAATTAATAATTTAATAAATTTACTAATCAAATGTTAGAT
1 TTAATAACAATTAATACAATTAATA-AATTAATAATTTAATAAATTTACTAATCAAA-GTTAGAT
18242961 T
64 T
* * *
18242962 TTATTACAACAATTAATACAATTAAT-AATTAATAATTTCAA-AATTTTACT-A-CCAA-TTA-A
1 TTA--ATAACAATTAATACAATTAATAAATTAATAATTT-AATAAATTTACTAATCAAAGTTAGA
18243021 TT
63 TT
18243023 TTAATAACAATTA
1 TTAATAACAATTA
18243036 GTTTTAATTT
Statistics
Matches: 66, Mismatches: 4, Indels: 14
0.79 0.05 0.17
Matches are distributed among these distances:
59 9 0.14
61 6 0.09
62 3 0.05
64 3 0.05
65 4 0.06
66 20 0.30
67 3 0.05
68 18 0.27
ACGTcount: A:0.49, C:0.09, G:0.01, T:0.40
Consensus pattern (64 bp):
TTAATAACAATTAATACAATTAATAAATTAATAATTTAATAAATTTACTAATCAAAGTTAGATT
Found at i:18245051 original size:62 final size:61
Alignment explanation
Indices: 18244919--18245113 Score: 187
Period size: 62 Copynumber: 3.1 Consensus size: 61
18244909 CGTGTGTTTG
* * * * * *
18244919 GGCCATGTAACTCACTGTTTATGGTATAAGACCACATGGCCAGGGACACGGGAGTGTGCTTTA
1 GGCCGTGTAACTCACTGTTTATGGTATAAAACCACACGGCCAGGGACACGGGCGTGTAC--CA
* *
18244982 -GCCGTGTAACTCACTGTTTGTGGTATAAAACCACACGGTCAGGGACACGGGCGTGTAACCA
1 GGCCGTGTAACTCACTGTTTATGGTATAAAACCACACGGCCAGGGACACGGGCGTGT-ACCA
* * * * * * *
18245043 GGCTGTGTAATTCACTGTTTAT-ATTTCAAAACCACACGGGCAAGGCACATGGGCGTGTGACCA
1 GGCCGTGTAACTCACTGTTTATGGTAT-AAAACCACAC-GGCCAGGGACACGGGCGTGT-ACCA
18245106 GGCCGTGT
1 GGCCGTGT
18245114 GTCATGTTAT
Statistics
Matches: 109, Mismatches: 19, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
61 3 0.03
62 78 0.72
63 28 0.26
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (61 bp):
GGCCGTGTAACTCACTGTTTATGGTATAAAACCACACGGCCAGGGACACGGGCGTGTACCA
Found at i:18247286 original size:17 final size:17
Alignment explanation
Indices: 18247264--18247297 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
18247254 TTTTACTTGG
18247264 ATTTTTAGATT-TTTATT
1 ATTTTTA-ATTATTTATT
18247281 ATTTTTAATTATTTATT
1 ATTTTTAATTATTTATT
18247298 TAATTATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 3 0.19
17 13 0.81
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (17 bp):
ATTTTTAATTATTTATT
Found at i:18250562 original size:19 final size:20
Alignment explanation
Indices: 18250538--18250578 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
18250528 AGTGATTAAG
*
18250538 AAAAAT-AGAAAATTGGGAA
1 AAAAATAAGAAAATTGAGAA
*
18250557 AAAAATAAGAAAGTTGAGAA
1 AAAAATAAGAAAATTGAGAA
18250577 AA
1 AA
18250579 TTTTTATTGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 6 0.32
20 13 0.68
ACGTcount: A:0.66, C:0.00, G:0.20, T:0.15
Consensus pattern (20 bp):
AAAAATAAGAAAATTGAGAA
Found at i:18253965 original size:23 final size:22
Alignment explanation
Indices: 18253923--18253966 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
18253913 ATATATATTA
*
18253923 ATATATAGAGTATTTTATATCG
1 ATATATAGAGTATTTGATATCG
18253945 ATATAATAGAG-ATATTGATATC
1 ATAT-ATAGAGTAT-TTGATATC
18253967 AACTAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.41, C:0.05, G:0.14, T:0.41
Consensus pattern (22 bp):
ATATATAGAGTATTTGATATCG
Found at i:18255191 original size:35 final size:36
Alignment explanation
Indices: 18255128--18255198 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
18255118 CATAAAAGAA
18255128 AAAAAATTAAATTGTTCTAAAGGAAAAAATATAGGG
1 AAAAAATTAAATTGTTCTAAAGGAAAAAATATAGGG
18255164 AAAAAATTAAATTGTTCTAAAGG-AAAAATATAGGG
1 AAAAAATTAAATTGTTCTAAAGGAAAAAATATAGGG
18255199 GCCAATTGTA
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
35 12 0.34
36 23 0.66
ACGTcount: A:0.55, C:0.03, G:0.17, T:0.25
Consensus pattern (36 bp):
AAAAAATTAAATTGTTCTAAAGGAAAAAATATAGGG
Found at i:18255230 original size:34 final size:34
Alignment explanation
Indices: 18255187--18255257 Score: 124
Period size: 34 Copynumber: 2.1 Consensus size: 34
18255177 GTTCTAAAGG
* *
18255187 AAAAATATAGGGGCCAATTGTAGAATTTAATCTA
1 AAAAATATAGGGACCAATTGTAGAATTTAAGCTA
18255221 AAAAATATAGGGACCAATTGTAGAATTTAAGCTA
1 AAAAATATAGGGACCAATTGTAGAATTTAAGCTA
18255255 AAA
1 AAA
18255258 TTTTCGTTTG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.48, C:0.08, G:0.17, T:0.27
Consensus pattern (34 bp):
AAAAATATAGGGACCAATTGTAGAATTTAAGCTA
Found at i:18255366 original size:31 final size:29
Alignment explanation
Indices: 18255328--18255399 Score: 81
Period size: 29 Copynumber: 2.4 Consensus size: 29
18255318 TTAACGGCTC
*
18255328 AGTGACTAAAATGTTACAACACGATAACATA
1 AGTGACTAAAATGTAACAACAC-A-AACATA
* ***
18255359 AGTGACTAAAACGTAACATTTCAAACATA
1 AGTGACTAAAATGTAACAACACAAACATA
18255388 AGTGACTAAAAT
1 AGTGACTAAAAT
18255400 ATAATTTAAG
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
29 17 0.49
30 1 0.03
31 17 0.49
ACGTcount: A:0.49, C:0.15, G:0.12, T:0.24
Consensus pattern (29 bp):
AGTGACTAAAATGTAACAACACAAACATA
Found at i:18259104 original size:18 final size:19
Alignment explanation
Indices: 18259081--18259126 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
18259071 TGCACATGAT
*
18259081 CATGGTCATGA-TGATGGA
1 CATGGTCATGAGTCATGGA
18259099 CATGGTCAT-AGTCATGGA
1 CATGGTCATGAGTCATGGA
*
18259117 CATGGACATG
1 CATGGTCATG
18259127 GGCATGAGCA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 1 0.04
18 23 0.96
ACGTcount: A:0.28, C:0.15, G:0.30, T:0.26
Consensus pattern (19 bp):
CATGGTCATGAGTCATGGA
Found at i:18259132 original size:18 final size:18
Alignment explanation
Indices: 18259094--18259132 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
18259084 GGTCATGATG
* *
18259094 ATGGACATGGTCATAGTC
1 ATGGACATGGACATAGGC
*
18259112 ATGGACATGGACATGGGC
1 ATGGACATGGACATAGGC
18259130 ATG
1 ATG
18259133 AGCATGGAGG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.15, G:0.33, T:0.23
Consensus pattern (18 bp):
ATGGACATGGACATAGGC
Found at i:18259291 original size:15 final size:15
Alignment explanation
Indices: 18259271--18259313 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
18259261 ATTATTTTTA
18259271 TTATATTTTAATTAC
1 TTATATTTTAATTAC
* * *
18259286 TTATATTTGAAAT-G
1 TTATATTTTAATTAC
18259300 TTATATTTTAATTA
1 TTATATTTTAATTA
18259314 TTTACGTTAT
Statistics
Matches: 22, Mismatches: 5, Indels: 2
0.76 0.17 0.07
Matches are distributed among these distances:
14 11 0.50
15 11 0.50
ACGTcount: A:0.35, C:0.02, G:0.05, T:0.58
Consensus pattern (15 bp):
TTATATTTTAATTAC
Found at i:18267360 original size:24 final size:24
Alignment explanation
Indices: 18267311--18267365 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
18267301 TAAAGTAGGT
* *
18267311 TATA-TATTATTTTTATAATATTA
1 TATATTATGATTTTTATAATATCA
18267334 TATATTATGATTTTTATTAAT-TCA
1 TATATTATGATTTTTA-TAATATCA
*
18267358 TATGTTAT
1 TATATTAT
18267366 TAATGATTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 4 0.15
24 19 0.70
25 4 0.15
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.60
Consensus pattern (24 bp):
TATATTATGATTTTTATAATATCA
Found at i:18270568 original size:14 final size:14
Alignment explanation
Indices: 18270549--18270583 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
18270539 GACATTTTTT
* *
18270549 TTCTAATGATATTA
1 TTCTAACGATACTA
18270563 TTCTAACGATACTA
1 TTCTAACGATACTA
18270577 TTCTAAC
1 TTCTAAC
18270584 ATGTAATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.34, C:0.17, G:0.06, T:0.43
Consensus pattern (14 bp):
TTCTAACGATACTA
Found at i:18271235 original size:6 final size:6
Alignment explanation
Indices: 18271224--18271251 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
18271214 ATAGAGGTCA
18271224 AGCCAG AGCCAG AGCCAG AGCCAG AGCC
1 AGCCAG AGCCAG AGCCAG AGCCAG AGCC
18271252 CCAGCCCCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.32, C:0.36, G:0.32, T:0.00
Consensus pattern (6 bp):
AGCCAG
Found at i:18271894 original size:48 final size:48
Alignment explanation
Indices: 18271830--18271921 Score: 148
Period size: 48 Copynumber: 1.9 Consensus size: 48
18271820 TAACATTTCA
* *
18271830 ACATTAAAACACTAAAACTTGGAACAAATTTTGTAATATAAATTAAAT
1 ACATTAAAACACTAAAAATTGGAACAAACTTTGTAATATAAATTAAAT
* *
18271878 ACATTACAACATTAAAAATTGGAACAAACTTTGTAATATAAATT
1 ACATTAAAACACTAAAAATTGGAACAAACTTTGTAATATAAATT
18271922 TTGTTATATA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 40 1.00
ACGTcount: A:0.51, C:0.11, G:0.07, T:0.32
Consensus pattern (48 bp):
ACATTAAAACACTAAAAATTGGAACAAACTTTGTAATATAAATTAAAT
Found at i:18271931 original size:62 final size:62
Alignment explanation
Indices: 18271855--18272045 Score: 355
Period size: 62 Copynumber: 3.1 Consensus size: 62
18271845 AACTTGGAAC
*
18271855 AAATTTTGTAATATAAATTAAATACATTACAACATTAAAAATTGGAACAAACTTTGTAATAT
1 AAATTTTGTTATATAAATTAAATACATTACAACATTAAAAATTGGAACAAACTTTGTAATAT
* *
18271917 AAATTTTGTTATATAAATTAAATACATTGCAACATTAAAAATTGGAACAAACTTTATAATAT
1 AAATTTTGTTATATAAATTAAATACATTACAACATTAAAAATTGGAACAAACTTTGTAATAT
18271979 AAATTTTGTTATATAAATTAAATACATTACAACATTAAAAATTGGAACAAACTTTGTAATAT
1 AAATTTTGTTATATAAATTAAATACATTACAACATTAAAAATTGGAACAAACTTTGTAATAT
18272041 AAATT
1 AAATT
18272046 AGATACATTG
Statistics
Matches: 124, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
62 124 1.00
ACGTcount: A:0.49, C:0.08, G:0.06, T:0.37
Consensus pattern (62 bp):
AAATTTTGTTATATAAATTAAATACATTACAACATTAAAAATTGGAACAAACTTTGTAATAT
Found at i:18273343 original size:16 final size:16
Alignment explanation
Indices: 18273322--18273390 Score: 120
Period size: 16 Copynumber: 4.3 Consensus size: 16
18273312 TTGGTTCACT
18273322 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
*
18273338 GTAATGGAATAGAAGC
1 GTAATGGAATAGAGGC
*
18273354 GTAATGGAATAGATGC
1 GTAATGGAATAGAGGC
18273370 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
18273386 GTAAT
1 GTAAT
18273391 AGGTAATTCT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.39, C:0.06, G:0.33, T:0.22
Consensus pattern (16 bp):
GTAATGGAATAGAGGC
Found at i:18273458 original size:44 final size:46
Alignment explanation
Indices: 18273372--18273464 Score: 154
Period size: 44 Copynumber: 2.1 Consensus size: 46
18273362 ATAGATGCGT
* *
18273372 AATGGAATAGAGGCGTAATAGGTAATTCTTTTGTTTGGTTGAATGG
1 AATGGAATAGAAGCGTAATAGGTAATTCTTGTGTTTGGTTGAATGG
18273418 AATGGAATAGAAGCGTAAT-GGT-ATTCTTGTGTTTGGTTGAATGG
1 AATGGAATAGAAGCGTAATAGGTAATTCTTGTGTTTGGTTGAATGG
18273462 AAT
1 AAT
18273465 AGAGGTGTAA
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
44 24 0.53
45 3 0.07
46 18 0.40
ACGTcount: A:0.29, C:0.04, G:0.30, T:0.37
Consensus pattern (46 bp):
AATGGAATAGAAGCGTAATAGGTAATTCTTGTGTTTGGTTGAATGG
Found at i:18273460 original size:39 final size:44
Alignment explanation
Indices: 18273372--18273477 Score: 123
Period size: 39 Copynumber: 2.5 Consensus size: 44
18273362 ATAGATGCGT
* *
18273372 AATGGAATAGAGGCGTAATAGGTAATTCTTTTGTTTGGTTGAATGG
1 AATGGAATAGAAGCGTAATAGGTAATTCTTGTGTTTGGTT--ATGG
18273418 AATGGAATAGAAGCGTAAT-GGT-ATTCTTGTGTTTGG-T-T-G
1 AATGGAATAGAAGCGTAATAGGTAATTCTTGTGTTTGGTTATGG
* *
18273457 AATGGAATAGAGGTGTAATAG
1 AATGGAATAGAAGCGTAATAG
18273478 CATAAGTAAA
Statistics
Matches: 55, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
39 18 0.33
40 2 0.04
43 1 0.02
44 13 0.24
45 3 0.05
46 18 0.33
ACGTcount: A:0.30, C:0.04, G:0.31, T:0.35
Consensus pattern (44 bp):
AATGGAATAGAAGCGTAATAGGTAATTCTTGTGTTTGGTTATGG
Found at i:18283458 original size:21 final size:21
Alignment explanation
Indices: 18283432--18283472 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
18283422 ATCTGCTCAA
* *
18283432 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
18283453 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
18283473 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:18309518 original size:28 final size:28
Alignment explanation
Indices: 18309439--18309539 Score: 94
Period size: 28 Copynumber: 3.4 Consensus size: 28
18309429 ATATGACATG
* * **
18309439 CAGTAACAGTCTGGGCCTGAGCCTTATA
1 CAGTAACAGTATGGGCCTTAGCCAAATA
18309467 CAGTAACAGTATAGTGTGGGCCTTAGCCAAATA
1 CAGTAACAG--TA---TGGGCCTTAGCCAAATA
* *
18309500 CAGTAACAGTATGGGCCTTATCCCAATA
1 CAGTAACAGTATGGGCCTTAGCCAAATA
*
18309528 CAGTATCAGTAT
1 CAGTAACAGTAT
18309540 AATGCAATAA
Statistics
Matches: 61, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
28 35 0.57
30 1 0.02
31 2 0.03
33 23 0.38
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.26
Consensus pattern (28 bp):
CAGTAACAGTATGGGCCTTAGCCAAATA
Found at i:18309669 original size:26 final size:26
Alignment explanation
Indices: 18309640--18309693 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 26
18309630 AACACACCAA
* * *
18309640 TATCGCAGCAAAGTTGCCAGTAATAG
1 TATCACAGCAAAGCTGCCAGTAACAG
* *
18309666 TATCACAGCGAAGCTGCTAGTAACAG
1 TATCACAGCAAAGCTGCCAGTAACAG
18309692 TA
1 TA
18309694 AATGTGGCAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.22
Consensus pattern (26 bp):
TATCACAGCAAAGCTGCCAGTAACAG
Found at i:18309961 original size:27 final size:28
Alignment explanation
Indices: 18309883--18309964 Score: 114
Period size: 27 Copynumber: 3.0 Consensus size: 28
18309873 GGGGTATACC
*
18309883 AGTCATTTTACCCTATGAGGGTATTT-T
1 AGTCATTTTACCCTATGAGGGTATTTCG
18309910 AGTCATTTTACCCTATGAGGGTATTTCG
1 AGTCATTTTACCCTATGAGGGTATTTCG
* **
18309938 A-TCTTTTTACCCTATGAGATTATTTCG
1 AGTCATTTTACCCTATGAGGGTATTTCG
18309965 GGGGTATTTT
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
27 49 0.98
28 1 0.02
ACGTcount: A:0.22, C:0.17, G:0.17, T:0.44
Consensus pattern (28 bp):
AGTCATTTTACCCTATGAGGGTATTTCG
Found at i:18310027 original size:65 final size:65
Alignment explanation
Indices: 18309901--18310029 Score: 168
Period size: 65 Copynumber: 2.0 Consensus size: 65
18309891 TACCCTATGA
* * *
18309901 GGGTATTTTAGTCATTTTACCCTATGAGGGTATTTCGATCTTTTTACCCTATGAGATTATTTCGG
1 GGGTATTTTAGTCAATTTACCCTATGAGGGTATTTCGATCATTTTACCCTATGAGAGTATTTCGG
* * * * * * *
18309966 GGGTATTTTGGTCAATTTACCTTATGAGGGTATTTTGGTCATTTTACTCTATGGGGGTATTTCG
1 GGGTATTTTAGTCAATTTACCCTATGAGGGTATTTCGATCATTTTACCCTATGAGAGTATTTCG
18310030 ATCATTTATC
Statistics
Matches: 54, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
65 54 1.00
ACGTcount: A:0.19, C:0.13, G:0.23, T:0.45
Consensus pattern (65 bp):
GGGTATTTTAGTCAATTTACCCTATGAGGGTATTTCGATCATTTTACCCTATGAGAGTATTTCGG
Found at i:18310034 original size:27 final size:27
Alignment explanation
Indices: 18309964--18310036 Score: 94
Period size: 27 Copynumber: 2.7 Consensus size: 27
18309954 AGATTATTTC
*
18309964 GGGGGTATTTTGGTCAATTTACCTTAT
1 GGGGGTATTTTGGTCATTTTACCTTAT
*
18309991 GAGGGTATTTTGGTCATTTTA-CTCTAT
1 GGGGGTATTTTGGTCATTTTACCT-TAT
* *
18310018 GGGGGTATTTCGATCATTT
1 GGGGGTATTTTGGTCATTT
18310037 ATCGGCCTCT
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
26 2 0.05
27 38 0.95
ACGTcount: A:0.18, C:0.11, G:0.26, T:0.45
Consensus pattern (27 bp):
GGGGGTATTTTGGTCATTTTACCTTAT
Found at i:18311478 original size:50 final size:50
Alignment explanation
Indices: 18311419--18311542 Score: 124
Period size: 50 Copynumber: 2.5 Consensus size: 50
18311409 CATTGAGATT
* * *
18311419 ATGAAAGGTCCCATGTAAGACCATGGCTACG-ACATGGCGTTGGCACCGAG
1 ATGAGAGGTCCCATGTAAGACCATGGCT-CGAACATGGCATGGGCACCGAG
**** * * *
18311469 ATGAGAGGTCCCCCAAAAGACCATGTCTGGAACATGGCATGGGCACCGAT
1 ATGAGAGGTCCCATGTAAGACCATGGCTCGAACATGGCATGGGCACCGAG
**
18311519 ATGAGAACTCCCATGTAAGACCAT
1 ATGAGAGGTCCCATGTAAGACCAT
18311543 ATCTGGGATA
Statistics
Matches: 57, Mismatches: 16, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
49 1 0.02
50 56 0.98
ACGTcount: A:0.31, C:0.25, G:0.27, T:0.18
Consensus pattern (50 bp):
ATGAGAGGTCCCATGTAAGACCATGGCTCGAACATGGCATGGGCACCGAG
Found at i:18311548 original size:50 final size:49
Alignment explanation
Indices: 18311485--18311602 Score: 141
Period size: 49 Copynumber: 2.4 Consensus size: 49
18311475 GGTCCCCCAA
* * *
18311485 AAGACCATGTCTGGAACATGGCATGGGCACCG-ATATGAGAAC-TCCCATGT
1 AAGACCATGTCTGGGACATGGCATGGGCA--GTAAAAGA-AACATCCCATGT
* * *
18311535 AAGACCATATCTGGGATATGGCATTGGCAGTAAAAGAAACATCCCATGT
1 AAGACCATGTCTGGGACATGGCATGGGCAGTAAAAGAAACATCCCATGT
18311584 AAGACCATGTCTGGGACAT
1 AAGACCATGTCTGGGACAT
18311603 AGCTTTGGCA
Statistics
Matches: 58, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
48 4 0.07
49 29 0.50
50 25 0.43
ACGTcount: A:0.33, C:0.21, G:0.25, T:0.21
Consensus pattern (49 bp):
AAGACCATGTCTGGGACATGGCATGGGCAGTAAAAGAAACATCCCATGT
Found at i:18313074 original size:5 final size:5
Alignment explanation
Indices: 18313064--18313101 Score: 51
Period size: 5 Copynumber: 7.8 Consensus size: 5
18313054 TGGAAGATTA
* *
18313064 AAAAT AAAAT AAAAC AATA- AAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
18313102 GTGGATAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
4 3 0.10
5 26 0.90
ACGTcount: A:0.82, C:0.03, G:0.00, T:0.16
Consensus pattern (5 bp):
AAAAT
Found at i:18314264 original size:24 final size:23
Alignment explanation
Indices: 18314232--18314291 Score: 77
Period size: 22 Copynumber: 2.6 Consensus size: 23
18314222 AGTAAAACAG
*
18314232 AAGAAAAAAGAAGAGCAATCGAAA
1 AAGAAAAAAGAA-ACCAATCGAAA
*
18314256 AAGAAAAAA-AACCCAATCGAAA
1 AAGAAAAAAGAAACCAATCGAAA
18314278 AAGGAAAAAAGAAA
1 AA-GAAAAAAGAAA
18314292 ACCTTTTCTT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
22 11 0.35
23 9 0.29
24 11 0.35
ACGTcount: A:0.70, C:0.10, G:0.17, T:0.03
Consensus pattern (23 bp):
AAGAAAAAAGAAACCAATCGAAA
Found at i:18321878 original size:56 final size:56
Alignment explanation
Indices: 18321792--18321940 Score: 271
Period size: 56 Copynumber: 2.7 Consensus size: 56
18321782 GGTAAAGAGA
18321792 TCCCATGTAAGACCATGTTTGGGACATGGCATTGGCATCATTGAGATTACGAAAGG
1 TCCCATGTAAGACCATGTTTGGGACATGGCATTGGCATCATTGAGATTACGAAAGG
*
18321848 TCCCATGTAAGACCATGTTTGGGACATGGCATTGGCATCATTGAGATTATGAAAGG
1 TCCCATGTAAGACCATGTTTGGGACATGGCATTGGCATCATTGAGATTACGAAAGG
* *
18321904 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA
1 TCCCATGTAAGACCATGTTTGGGACATGGCATTGGCA
18321941 CCGAGATGAG
Statistics
Matches: 90, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 90 1.00
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.27
Consensus pattern (56 bp):
TCCCATGTAAGACCATGTTTGGGACATGGCATTGGCATCATTGAGATTACGAAAGG
Found at i:18321968 original size:50 final size:52
Alignment explanation
Indices: 18321792--18322036 Score: 239
Period size: 56 Copynumber: 4.6 Consensus size: 52
18321782 GGTAAAGAGA
* *
18321792 TCCCATGTAAGACCATGTTTGGGACATGGCATTGGCATCATTGAGATTACGAAAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCA-CGAGA-T--GAAAGG
* *
18321848 TCCCATGTAAGACCATGTTTGGGACATGGCATTGGCATCATTGAGATTATGAAAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCA-CGAG---ATGAAAGG
* *
18321904 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-C-CGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCACGAGATGAAAGG
** * * * *
18321954 TCCCCCGTAAGACCATGTCTGGAACATGGCATGGGCA-C-CGATATGAGAA-C
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCACGAGATGA-AAGG
* * *
18322004 TCCCATGTAAGACCATATCTGGGATATGACATT
1 TCCCATGTAAGACCATGTCTGGGACATGGCATT
18322037 AGTTTTAAAA
Statistics
Matches: 166, Mismatches: 19, Indels: 14
0.83 0.10 0.07
Matches are distributed among these distances:
50 73 0.44
51 1 0.01
53 3 0.02
55 1 0.01
56 86 0.52
58 1 0.01
59 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.24
Consensus pattern (52 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCACGAGATGAAAGG
Found at i:18327181 original size:51 final size:51
Alignment explanation
Indices: 18327095--18327207 Score: 181
Period size: 51 Copynumber: 2.2 Consensus size: 51
18327085 CCACTATGTG
* * *
18327095 CAACACCAATATTATCCAGTCCATCTGATGTTGCAAAATCACCAGCATATT
1 CAACAGCAACATTATCCACTCCATCTGATGTTGCAAAATCACCAGCATATT
* *
18327146 CATCAGCAACATTATCCACTCCATTTGATGTTGCAAAATCACCAGCATATT
1 CAACAGCAACATTATCCACTCCATCTGATGTTGCAAAATCACCAGCATATT
18327197 CAACAGCAACA
1 CAACAGCAACA
18327208 ACTTCACTAT
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
51 56 1.00
ACGTcount: A:0.36, C:0.28, G:0.10, T:0.26
Consensus pattern (51 bp):
CAACAGCAACATTATCCACTCCATCTGATGTTGCAAAATCACCAGCATATT
Found at i:18328473 original size:14 final size:15
Alignment explanation
Indices: 18328454--18328496 Score: 52
Period size: 14 Copynumber: 2.8 Consensus size: 15
18328444 GGATGCTAAC
18328454 GATTTAAGGATT-AA
1 GATTTAAGGATTGAA
*
18328468 GATTTAGGGATTTGAA
1 GATTTAAGGA-TTGAA
18328484 GATTTTAAGGATT
1 GA-TTTAAGGATT
18328497 CAATGAAGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
14 9 0.38
15 2 0.08
16 6 0.25
17 7 0.29
ACGTcount: A:0.35, C:0.00, G:0.26, T:0.40
Consensus pattern (15 bp):
GATTTAAGGATTGAA
Found at i:18330370 original size:45 final size:44
Alignment explanation
Indices: 18330320--18330421 Score: 123
Period size: 45 Copynumber: 2.3 Consensus size: 44
18330310 CATGATGCCA
* * * *
18330320 TTACTCATTGTTCCCATGATGTCATAGCATCTTTCAACTATGGTT
1 TTACTCATT-TTACCATGATGACATAGCATCTTTCAACTATAGTC
** *
18330365 TTACTCACTTTTATTATGATGACATAGCATTTTTCAACTATAGTC
1 TTACTCA-TTTTACCATGATGACATAGCATCTTTCAACTATAGTC
18330410 TTACTCATTTTA
1 TTACTCATTTTA
18330422 GGCGTATAGC
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
44 5 0.10
45 42 0.86
46 2 0.04
ACGTcount: A:0.25, C:0.20, G:0.10, T:0.45
Consensus pattern (44 bp):
TTACTCATTTTACCATGATGACATAGCATCTTTCAACTATAGTC
Found at i:18339425 original size:17 final size:17
Alignment explanation
Indices: 18339403--18339436 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
18339393 TATAGGGGCT
18339403 GCGTCTAGATAAAAGAG
1 GCGTCTAGATAAAAGAG
18339420 GCGTCTAGATAAAAGAG
1 GCGTCTAGATAAAAGAG
18339437 AATTAGGGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.12, G:0.29, T:0.18
Consensus pattern (17 bp):
GCGTCTAGATAAAAGAG
Found at i:18341662 original size:22 final size:22
Alignment explanation
Indices: 18341618--18341659 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
18341608 CTCGTAAGTC
*
18341618 AAGGAAAATAATATGCATAAAT
1 AAGGAAAATAATATACATAAAT
*
18341640 AAGGAAAA-GATATACATAAA
1 AAGGAAAATAATATACATAAA
18341660 ATATTCTTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.62, C:0.05, G:0.14, T:0.19
Consensus pattern (22 bp):
AAGGAAAATAATATACATAAAT
Found at i:18366152 original size:11 final size:12
Alignment explanation
Indices: 18366132--18366171 Score: 52
Period size: 11 Copynumber: 3.7 Consensus size: 12
18366122 AAAATAAAAA
18366132 TATT-TGTATT-
1 TATTATGTATTG
18366142 TATTATGTATTG
1 TATTATGTATTG
18366154 T-TTATGTATTG
1 TATTATGTATTG
18366165 TA-TATGT
1 TATTATGT
18366172 TATATTTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
10 4 0.15
11 22 0.81
12 1 0.04
ACGTcount: A:0.23, C:0.00, G:0.15, T:0.62
Consensus pattern (12 bp):
TATTATGTATTG
Found at i:18366836 original size:21 final size:21
Alignment explanation
Indices: 18366812--18366852 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
18366802 TTTATAACAC
18366812 ATAAAAATTAAATCTATAGTA
1 ATAAAAATTAAATCTATAGTA
* **
18366833 ATAAATATTACTTCTATAGT
1 ATAAAAATTAAATCTATAGT
18366853 GTATACATTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.49, C:0.07, G:0.05, T:0.39
Consensus pattern (21 bp):
ATAAAAATTAAATCTATAGTA
Found at i:18368890 original size:2 final size:2
Alignment explanation
Indices: 18368885--18368911 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
18368875 TTTAATATCT
18368885 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
18368912 TTTATCTCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:18374391 original size:22 final size:23
Alignment explanation
Indices: 18374366--18374409 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
18374356 AAACCTAGAC
18374366 TAAT-CAGAGTTTAACTAGGAAA
1 TAATACAGAGTTTAACTAGGAAA
*
18374388 TAATAGTAGAGTTTAACTAGGA
1 TAATA-CAGAGTTTAACTAGGA
18374410 GAAGAAAACC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 4 0.21
24 15 0.79
ACGTcount: A:0.43, C:0.07, G:0.20, T:0.30
Consensus pattern (23 bp):
TAATACAGAGTTTAACTAGGAAA
Found at i:18383243 original size:21 final size:22
Alignment explanation
Indices: 18383217--18383261 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
18383207 TAAATGTGAA
*
18383217 TATGAT-GGTATATTTCTCAAT
1 TATGATAGCTATATTTCTCAAT
*
18383238 TATGATAATCTATATTTCTCAAT
1 TATGAT-AGCTATATTTCTCAAT
18383261 T
1 T
18383262 CCTTTCCTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 6 0.30
23 14 0.70
ACGTcount: A:0.31, C:0.11, G:0.09, T:0.49
Consensus pattern (22 bp):
TATGATAGCTATATTTCTCAAT
Found at i:18384219 original size:16 final size:18
Alignment explanation
Indices: 18384198--18384232 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
18384188 TATTAAAAAA
18384198 TAAAAATT-AAT-ATATT
1 TAAAAATTCAATAATATT
18384214 TAAAAATTCAATAATATT
1 TAAAAATTCAATAATATT
18384232 T
1 T
18384233 TTTTAGTATC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.47
17 3 0.18
18 6 0.35
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (18 bp):
TAAAAATTCAATAATATT
Found at i:18384363 original size:30 final size:30
Alignment explanation
Indices: 18384280--18384356 Score: 104
Period size: 28 Copynumber: 2.6 Consensus size: 30
18384270 TTATTTAAGG
*
18384280 TTTAAAAATTATGTGTTACATTTTTATTATA
1 TTTAAAAA-TATGTATTACATTTTTATTATA
* *
18384311 ATTAAAAATACGTATTACATTTTTA-TA-A
1 TTTAAAAATATGTATTACATTTTTATTATA
18384339 TTTAAAAATATGTATTAC
1 TTTAAAAATATGTATTAC
18384357 CAATTTTAGA
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
28 17 0.41
29 2 0.05
30 15 0.37
31 7 0.17
ACGTcount: A:0.42, C:0.05, G:0.05, T:0.48
Consensus pattern (30 bp):
TTTAAAAATATGTATTACATTTTTATTATA
Found at i:18384364 original size:29 final size:27
Alignment explanation
Indices: 18384306--18384364 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 27
18384296 TACATTTTTA
*
18384306 TTATAATTAAAAATACGTATTACATTT
1 TTATAATTAAAAATACGTATTACAATT
*
18384333 TTATAATTTAAAAATATGTATTACCAATT
1 TTATAA-TTAAAAATACGTATTA-CAATT
18384362 TTA
1 TTA
18384365 GAAAAAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 6 0.21
28 15 0.54
29 7 0.25
ACGTcount: A:0.44, C:0.07, G:0.03, T:0.46
Consensus pattern (27 bp):
TTATAATTAAAAATACGTATTACAATT
Found at i:18397815 original size:42 final size:42
Alignment explanation
Indices: 18397707--18397871 Score: 129
Period size: 43 Copynumber: 3.9 Consensus size: 42
18397697 AGCTCGTACA
* * * *
18397707 ATGCCAACGTCCTAGACGA-GGTCTTACATGTAATCAAATACAG
1 ATGCCAACGTCCCAGAC-ATGGTCTTACACGAAATCATATAC-G
* * * *
18397750 AT-CCCACTGTCCCAAACAGGGTCTTATACGAAATCATATACG
1 ATGCCAAC-GTCCCAGACATGGTCTTACACGAAATCATATACG
* *
18397792 ATGCCAATGTCCCAGACATGGTCTTACACGTAAATC-TCAAATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACG-AAATCAT-ATA-CG
* * * *
18397836 ATGTCAACGTCTCAGACGTGGTCTTACATGAAATCA
1 ATGCCAACGTCCCAGACATGGTCTTACACGAAATCA
18397872 CATATCAGAA
Statistics
Matches: 97, Mismatches: 18, Indels: 13
0.76 0.14 0.10
Matches are distributed among these distances:
42 28 0.29
43 42 0.43
44 27 0.28
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGAAATCATATACG
Found at i:18399135 original size:41 final size:42
Alignment explanation
Indices: 18399086--18399166 Score: 103
Period size: 43 Copynumber: 1.9 Consensus size: 42
18399076 CTGTTACATA
* *
18399086 TATCACATA-CAATGCCTA-ATCCCAGATATGGTCTTACATGT
1 TATCACATATCAATGCC-ACATCCCAGAAAGGGTCTTACATGT
*
18399127 TATCACATATCGATGCCACTATCCCAGAAAGGGTCTTACA
1 TATCACATATCAATGCCAC-ATCCCAGAAAGGGTCTTACA
18399167 CGTAATATCA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
41 10 0.29
42 6 0.18
43 18 0.53
ACGTcount: A:0.32, C:0.26, G:0.14, T:0.28
Consensus pattern (42 bp):
TATCACATATCAATGCCACATCCCAGAAAGGGTCTTACATGT
Found at i:18399162 original size:43 final size:43
Alignment explanation
Indices: 18399104--18399211 Score: 119
Period size: 43 Copynumber: 2.5 Consensus size: 43
18399094 ACAATGCCTA
* * * * *
18399104 ATCCCAGATATGGTCTTACATGTTATCA-CATATCGATGCCACT
1 ATCCCAGAAAGGGTCTTACACGTAAT-ATCATATCGATGCCAAT
18399147 ATCCCAGAAAGGGTCTTACACGTAATATCATATCGATGCCAAT
1 ATCCCAGAAAGGGTCTTACACGTAATATCATATCGATGCCAAT
* * * *
18399190 GTCCCAGACATGATCTTACACG
1 ATCCCAGAAAGGGTCTTACACG
18399212 AAATCACACT
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
42 1 0.02
43 54 0.98
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.28
Consensus pattern (43 bp):
ATCCCAGAAAGGGTCTTACACGTAATATCATATCGATGCCAAT
Found at i:18399846 original size:23 final size:21
Alignment explanation
Indices: 18399819--18399873 Score: 67
Period size: 23 Copynumber: 2.5 Consensus size: 21
18399809 GATCTGAGTT
18399819 TTTTTTCTTTTC-TTTTTTTGA
1 TTTTTTCTTTTCATTTTTTT-A
18399840 TTATTTTCTTTTTCATTTTTTTA
1 TT-TTTTC-TTTTCATTTTTTTA
18399863 TTCTTTTCTTT
1 TT-TTTTCTTT
18399874 ATTTGTTTAC
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
21 2 0.07
22 8 0.27
23 13 0.43
24 7 0.23
ACGTcount: A:0.07, C:0.11, G:0.02, T:0.80
Consensus pattern (21 bp):
TTTTTTCTTTTCATTTTTTTA
Found at i:18400642 original size:69 final size:66
Alignment explanation
Indices: 18400499--18400669 Score: 159
Period size: 69 Copynumber: 2.5 Consensus size: 66
18400489 TGTTTAAACT
* * * * *
18400499 TATTA-TT-AAATTTATCATTAATATTATCTAAGTTTATTGTATATTATTATTTTAGATTTATCA
1 TATTATTTAAAATTTATCATTAATATT-T-TAAATTCATCGTA-A-CATTATTTTAAATTTATCA
*
18400562 TGTTT
62 TGTTA
** * *
18400567 TATTATTTGCAATTTATCAATATTATTATTTTAAATTCATCGTAACATTATTTTAAATTTATCCT
1 TATTATTTAAAATTTATC---ATTAATATTTTAAATTCATCGTAACATTATTTTAAATTTATCAT
18400632 G-TA
63 GTTA
18400635 TATTTATTTAAAATTTATCATTAATATTTTAAATT
1 TA-TTATTTAAAATTTATCATTAATATTTTAAATT
18400670 TATTATGTAC
Statistics
Matches: 85, Mismatches: 12, Indels: 14
0.77 0.11 0.13
Matches are distributed among these distances:
66 15 0.18
68 8 0.09
69 34 0.40
70 9 0.11
71 10 0.12
72 1 0.01
73 8 0.09
ACGTcount: A:0.35, C:0.06, G:0.04, T:0.55
Consensus pattern (66 bp):
TATTATTTAAAATTTATCATTAATATTTTAAATTCATCGTAACATTATTTTAAATTTATCATGTT
A
Found at i:18400668 original size:20 final size:23
Alignment explanation
Indices: 18400498--18400764 Score: 135
Period size: 24 Copynumber: 11.6 Consensus size: 23
18400488 ATGTTTAAAC
18400498 TTATTATTAAATTTATCAT-TAATA
1 TTATT-TTAAATTTATCATGT-ATA
* * ** *
18400522 TTA-TCTAAGTTTATTGTATATTA
1 TTATTTTAAATTTATCATGTA-TA
* *
18400545 TTATTTTAGATTTATCATGTTTTA
1 TTATTTTAAATTTATCATG-TATA
** *
18400569 TTATTTGCAATTTATCA-ATATTA
1 TTATTTTAAATTTATCATGTA-TA
* *
18400592 TTATTTTAAATTCATC--GTAACA
1 TTATTTTAAATTTATCATGT-ATA
*
18400614 TTATTTTAAATTTATCCTGTATA
1 TTATTTTAAATTTATCATGTATA
*
18400637 TTTATTTAAAATTTATCAT-TA-A
1 -TTATTTTAAATTTATCATGTATA
*
18400659 -TATTTTAAATTTATTATGTACTA
1 TTATTTTAAATTTATCATGTA-TA
** *
18400682 TTATTTTGGATTTATCACGTATGA
1 TTATTTTAAATTTATCATGTAT-A
* * *
18400706 TTATTCTAGAA-TTATCAT-CAAA
1 TTATTTTA-AATTTATCATGTATA
*
18400728 AT-TTTTAAATTTTAT-ATGTATTA
1 TTATTTTAAA-TTTATCATGTA-TA
*
18400751 TTATTTCAAATTTA
1 TTATTTTAAATTTA
18400765 ATATACATTG
Statistics
Matches: 180, Mismatches: 43, Indels: 41
0.68 0.16 0.16
Matches are distributed among these distances:
20 17 0.09
21 8 0.04
22 36 0.20
23 36 0.20
24 81 0.45
25 2 0.01
ACGTcount: A:0.34, C:0.07, G:0.05, T:0.54
Consensus pattern (23 bp):
TTATTTTAAATTTATCATGTATA
Found at i:18400764 original size:69 final size:68
Alignment explanation
Indices: 18400613--18400764 Score: 168
Period size: 68 Copynumber: 2.2 Consensus size: 68
18400603 TCATCGTAAC
* *
18400613 ATTATTTTAAATTTATCCTGTATATTTATTTAAAATTTATCATTAATATTTTAAATTTATTATGT
1 ATTATTTTAAATTTATCCTGTATATTTATTTAAAATTTATCATCAAAATTTTAAATTTATTATGT
18400678 ACT
66 ACT
** *
18400681 ATTATTTTGGATTTATCAC-GTATGA-TTATTCTAGAA-TTATCATCAAAATTTTTAAATTT-TA
1 ATTATTTTAAATTTATC-CTGTAT-ATTTATT-TAAAATTTATCATCAAAA-TTTTAAATTTAT-
*
18400742 TATGTATT
61 TATGTACT
*
18400750 ATTATTTCAAATTTA
1 ATTATTTTAAATTTA
18400765 ATATACATTG
Statistics
Matches: 70, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
68 35 0.50
69 35 0.50
ACGTcount: A:0.35, C:0.07, G:0.05, T:0.53
Consensus pattern (68 bp):
ATTATTTTAAATTTATCCTGTATATTTATTTAAAATTTATCATCAAAATTTTAAATTTATTATGT
ACT
Found at i:18406088 original size:190 final size:190
Alignment explanation
Indices: 18405765--18406126 Score: 546
Period size: 190 Copynumber: 1.9 Consensus size: 190
18405755 ATTTCAGTAC
* *
18405765 TATACAACACAAACGAATTCGAATAAACAATTTCTTATGCTTCTCAACTGCAAGTACACCCATAT
1 TATACAACACAAACGAATTCAAATAAACAATTTCTTATGCTTCTCAACTACAAGTACACCCATAT
* *
18405830 TCAACACTAATAGATTAACATGAAGGATACCCTTATTAGCATTCAGACACACACTTCTCTTAAAG
66 TCAACACCAACAGATTAACATGAAGGATACCCTTATTAGCATTCAGACACACACTTCTCTTAAAG
* * *
18405895 AACTTCCTTAAAAACTTATCTAATTACTTTATAGATCTAATTATAATAAAATTTTAGCAT
131 AACTTCCTTAAAAACTTATCCAATTACTTTACAAATCTAATTATAATAAAATTTTAGCAT
* * * *
18405955 TATACAACACAGAA-GAATTCAAATAAACAATTTTTTATGTTTCTCAACTACGAGTACGCCCATA
1 TATACAACACA-AACGAATTCAAATAAACAATTTCTTATGCTTCTCAACTACAAGTACACCCATA
* * * * * * *
18406019 TTTAACACCAACAGATTAACATGAATGATACCCTTCTTAGCATTTAGATATACACTTCTCTTTAA
65 TTCAACACCAACAGATTAACATGAAGGATACCCTTATTAGCATTCAGACACACACTTCTCTTAAA
18406084 GAACTTCCTTAAAAACTTATCCAATTACTTTACAAATCTAATT
130 GAACTTCCTTAAAAACTTATCCAATTACTTTACAAATCTAATT
18406127 CCTTCAAAAT
Statistics
Matches: 153, Mismatches: 18, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
190 151 0.99
191 2 0.01
ACGTcount: A:0.39, C:0.21, G:0.07, T:0.33
Consensus pattern (190 bp):
TATACAACACAAACGAATTCAAATAAACAATTTCTTATGCTTCTCAACTACAAGTACACCCATAT
TCAACACCAACAGATTAACATGAAGGATACCCTTATTAGCATTCAGACACACACTTCTCTTAAAG
AACTTCCTTAAAAACTTATCCAATTACTTTACAAATCTAATTATAATAAAATTTTAGCAT
Found at i:18414369 original size:12 final size:12
Alignment explanation
Indices: 18414352--18414376 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
18414342 AAACACTAGA
18414352 AGGGTAAACACT
1 AGGGTAAACACT
18414364 AGGGTAAACACT
1 AGGGTAAACACT
18414376 A
1 A
18414377 TGATGGAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.16, G:0.24, T:0.16
Consensus pattern (12 bp):
AGGGTAAACACT
Found at i:18419347 original size:25 final size:27
Alignment explanation
Indices: 18419313--18419391 Score: 89
Period size: 26 Copynumber: 3.1 Consensus size: 27
18419303 TTACCACTTA
18419313 ATAT-ATATAAATAATTTAAAATAATT
1 ATATAATATAAATAATTTAAAATAATT
*
18419339 AT-TAA-ATAAATAA-TTAAAATATTT
1 ATATAATATAAATAATTTAAAATAATT
*
18419363 ATATAATATAATATAA--TATAATAATT
1 ATATAATATAA-ATAATTTAAAATAATT
18419389 ATA
1 ATA
18419392 AAAAGTAAAC
Statistics
Matches: 46, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
24 12 0.26
25 12 0.26
26 18 0.39
27 4 0.09
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (27 bp):
ATATAATATAAATAATTTAAAATAATT
Found at i:18419373 original size:5 final size:5
Alignment explanation
Indices: 18419311--18419385 Score: 50
Period size: 5 Copynumber: 15.0 Consensus size: 5
18419301 ATTTACCACT
* *
18419311 TAATA T-ATA TAA-A TAATT TAAAA TAATTA TTAA-A TAA-A TAATTA
1 TAATA TAATA TAATA TAATA TAATA TAA-TA -TAATA TAATA TAA-TA
* *
18419355 AAATA TTTATA TAATA TAATA TAATA TAATA
1 TAATA -TAATA TAATA TAATA TAATA TAATA
18419386 ATTATAAAAA
Statistics
Matches: 55, Mismatches: 8, Indels: 14
0.71 0.10 0.18
Matches are distributed among these distances:
4 15 0.27
5 30 0.55
6 7 0.13
7 3 0.05
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
TAATA
Found at i:18419593 original size:23 final size:24
Alignment explanation
Indices: 18419567--18419612 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
18419557 TTAACAAAAA
* *
18419567 ATAATTATATTTT-ATTATTTAAT
1 ATAAATATATTTTAACTATTTAAT
*
18419590 ATAAATGTATTTTAACTATTTAA
1 ATAAATATATTTTAACTATTTAA
18419613 CTATCATTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 11 0.58
24 8 0.42
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.54
Consensus pattern (24 bp):
ATAAATATATTTTAACTATTTAAT
Found at i:18424822 original size:13 final size:13
Alignment explanation
Indices: 18424804--18424829 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
18424794 CTGAAAGTAT
18424804 TATGATATTATGC
1 TATGATATTATGC
18424817 TATGATATTATGC
1 TATGATATTATGC
18424830 ATAAGCATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.08, G:0.15, T:0.46
Consensus pattern (13 bp):
TATGATATTATGC
Found at i:18431250 original size:12 final size:11
Alignment explanation
Indices: 18431235--18431264 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
18431225 AAAAAAATTA
18431235 AAAAAGTATTTT
1 AAAAA-TATTTT
18431247 AAAAATATTTT
1 AAAAATATTTT
18431258 AAAAATA
1 AAAAATA
18431265 ACAAAATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 13 0.72
12 5 0.28
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:18431275 original size:24 final size:26
Alignment explanation
Indices: 18431246--18431308 Score: 92
Period size: 26 Copynumber: 2.4 Consensus size: 26
18431236 AAAAGTATTT
*
18431246 TAAAAATATTTTAAAAAT-AACAAAA
1 TAAAAATATTTTAAAAATAAAAAAAA
18431271 TAAAAAATATTTTAAAAATAAAAAAAA
1 T-AAAAATATTTTAAAAATAAAAAAAA
*
18431298 TAAATATATTT
1 TAAAAATATTT
18431309 ATTATATTCG
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
25 1 0.03
26 26 0.76
27 7 0.21
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.32
Consensus pattern (26 bp):
TAAAAATATTTTAAAAATAAAAAAAA
Found at i:18431556 original size:10 final size:10
Alignment explanation
Indices: 18431541--18431573 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
18431531 AATTAAAGAG
18431541 TACACGAGCT
1 TACACGAGCT
18431551 TACACGAGCT
1 TACACGAGCT
*
18431561 TACTCGAGCT
1 TACACGAGCT
18431571 TAC
1 TAC
18431574 TAAGCATCCA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.24
Consensus pattern (10 bp):
TACACGAGCT
Found at i:18434260 original size:15 final size:15
Alignment explanation
Indices: 18434240--18434276 Score: 74
Period size: 15 Copynumber: 2.5 Consensus size: 15
18434230 ACGATTTCAA
18434240 AAGATGATTTTAATC
1 AAGATGATTTTAATC
18434255 AAGATGATTTTAATC
1 AAGATGATTTTAATC
18434270 AAGATGA
1 AAGATGA
18434277 CATAATTGTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.43, C:0.05, G:0.16, T:0.35
Consensus pattern (15 bp):
AAGATGATTTTAATC
Found at i:18435810 original size:10 final size:11
Alignment explanation
Indices: 18435770--18435808 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
18435760 AATCTGTCAA
*
18435770 AAAATTTAATC
1 AAAATTTAATT
18435781 AAAATTTAATAT
1 AAAATTTAAT-T
18435793 AAAA-TTAATT
1 AAAATTTAATT
18435803 AAAATT
1 AAAATT
18435809 AAACATGTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
10 5 0.20
11 16 0.64
12 4 0.16
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (11 bp):
AAAATTTAATT
Found at i:18436072 original size:70 final size:69
Alignment explanation
Indices: 18435942--18436091 Score: 196
Period size: 70 Copynumber: 2.2 Consensus size: 69
18435932 CGTGTTTCCA
* *
18435942 ACAGTAAACACGAGGAATATAAAGTGTAAGACCATAGTTGGACTATGGCAATCCAAGTAGTCTGT
1 ACAGTAAACACAAGGAATATAAAGTGTAAGACCATAGTTGGACTATGGCAATCCAAGTAGTCCGT
*
18436007 CGGG
66 AGGG
* * * *
18436011 ACAGTAAACACAAGGGATATAAGGTGTTAAGATCATAGTTGGACTATGGCAA-CCTAGGTAGTCC
1 ACAGTAAACACAAGGAATATAAAGTG-TAAGACCATAGTTGGACTATGGCAATCC-AAGTAGTCC
18436075 GTAGGG
64 GTAGGG
18436081 AC-GATAAACAC
1 ACAG-TAAACAC
18436092 GGGTGATACT
Statistics
Matches: 71, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
69 26 0.37
70 45 0.63
ACGTcount: A:0.37, C:0.16, G:0.26, T:0.21
Consensus pattern (69 bp):
ACAGTAAACACAAGGAATATAAAGTGTAAGACCATAGTTGGACTATGGCAATCCAAGTAGTCCGT
AGGG
Found at i:18437950 original size:17 final size:18
Alignment explanation
Indices: 18437885--18437951 Score: 61
Period size: 17 Copynumber: 3.9 Consensus size: 18
18437875 AAAACTTATG
18437885 CAAAATAATAGTTCATAT
1 CAAAATAATAGTTCATAT
*
18437903 -GAAAT-ATCAGTTCATAT
1 CAAAATAAT-AGTTCATAT
* * *
18437920 C-GAATAACAATTCAT-T
1 CAAAATAATAGTTCATAT
18437936 CAAAATAATAGTTCAT
1 CAAAATAATAGTTCAT
18437952 GCTCCATCAT
Statistics
Matches: 38, Mismatches: 7, Indels: 9
0.70 0.13 0.17
Matches are distributed among these distances:
16 4 0.11
17 33 0.87
18 1 0.03
ACGTcount: A:0.46, C:0.13, G:0.07, T:0.33
Consensus pattern (18 bp):
CAAAATAATAGTTCATAT
Found at i:18438065 original size:20 final size:23
Alignment explanation
Indices: 18438014--18438057 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
18438004 TTATGAAACA
18438014 TATAAG-GGACTCTATCACCACC
1 TATAAGTGGACTCTATCACCACC
18438036 TATAAGTGGACTCTATCACCAC
1 TATAAGTGGACTCTATCACCAC
18438058 ATATTGGATA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 6 0.29
23 15 0.71
ACGTcount: A:0.32, C:0.30, G:0.14, T:0.25
Consensus pattern (23 bp):
TATAAGTGGACTCTATCACCACC
Found at i:18438607 original size:18 final size:18
Alignment explanation
Indices: 18438584--18438644 Score: 77
Period size: 18 Copynumber: 3.4 Consensus size: 18
18438574 AATTTGGAAA
18438584 ATTAATACAGTTCGCCAT
1 ATTAATACAGTTCGCCAT
* * *
18438602 ATTAATACAGATCACCAA
1 ATTAATACAGTTCGCCAT
*
18438620 ATTAACACAGTTCGCCAT
1 ATTAATACAGTTCGCCAT
*
18438638 AATAATA
1 ATTAATA
18438645 TAATTCACCA
Statistics
Matches: 34, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.43, C:0.21, G:0.08, T:0.28
Consensus pattern (18 bp):
ATTAATACAGTTCGCCAT
Found at i:18438653 original size:36 final size:36
Alignment explanation
Indices: 18438582--18438662 Score: 110
Period size: 36 Copynumber: 2.2 Consensus size: 36
18438572 ACAATTTGGA
* *
18438582 AAATTAATACAGTTCGCCATATTAATACAGATCACC
1 AAATTAACACAGTTCGCCATAATAATACAGATCACC
*
18438618 AAATTAACACAGTTCGCCATAATAATATA-ATTCACC
1 AAATTAACACAGTTCGCCATAATAATACAGA-TCACC
*
18438654 AAGTTAACA
1 AAATTAACA
18438663 TGGTTCATAA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
35 1 0.03
36 39 0.98
ACGTcount: A:0.44, C:0.21, G:0.07, T:0.27
Consensus pattern (36 bp):
AAATTAACACAGTTCGCCATAATAATACAGATCACC
Found at i:18440409 original size:32 final size:31
Alignment explanation
Indices: 18440363--18440429 Score: 82
Period size: 32 Copynumber: 2.1 Consensus size: 31
18440353 ACTTAAAATT
* * *
18440363 ATTAATTCTAATTATTCTAA-TATTTTATTTA
1 ATTAATTATAATTATT-TAATTATATAATTTA
18440394 ATTAATTTATAATTATTTAATTATATAATTTA
1 ATTAA-TTATAATTATTTAATTATATAATTTA
18440426 ATTA
1 ATTA
18440430 CGGTTTCTGG
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
31 8 0.26
32 23 0.74
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (31 bp):
ATTAATTATAATTATTTAATTATATAATTTA
Found at i:18444485 original size:41 final size:41
Alignment explanation
Indices: 18444412--18444491 Score: 97
Period size: 41 Copynumber: 2.0 Consensus size: 41
18444402 ACGCCTAAAG
* * **** *
18444412 ATGAGTAAGACCATAGCTGAAAGATGTTATGGCGTCATGAT
1 ATGAATAAGACCATAACTGAAAGACACCATGGCATCATGAT
18444453 ATGAATAAGACCATAACTGAAAGACACCATGGCATCATG
1 ATGAATAAGACCATAACTGAAAGACACCATGGCATCATG
18444492 GAAATAGGAC
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
41 32 1.00
ACGTcount: A:0.39, C:0.16, G:0.23, T:0.23
Consensus pattern (41 bp):
ATGAATAAGACCATAACTGAAAGACACCATGGCATCATGAT
Done.