Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 45 of 325
Found at i:16681683 original size:15 final size:15
Alignment explanation
Indices: 16681660--16681707 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
16681650 TATCAAATTT
16681660 ATATTGATTGAAATC
1 ATATTGATTGAAATC
* * *
16681675 ATTTTGATTGAATTT
1 ATATTGATTGAAATC
16681690 ATATTGATTGAAAT-
1 ATATTGATTGAAATC
16681704 ATAT
1 ATAT
16681708 ATTATATATA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
14 4 0.14
15 24 0.86
ACGTcount: A:0.38, C:0.02, G:0.12, T:0.48
Consensus pattern (15 bp):
ATATTGATTGAAATC
Found at i:16682231 original size:23 final size:23
Alignment explanation
Indices: 16682203--16682260 Score: 107
Period size: 23 Copynumber: 2.5 Consensus size: 23
16682193 TAATATTCCG
16682203 GGTGTGTTTGGGTTGGATATTCT
1 GGTGTGTTTGGGTTGGATATTCT
*
16682226 GGTGTGTTTGGGTTGGGTATTCT
1 GGTGTGTTTGGGTTGGATATTCT
16682249 GGTGTGTTTGGG
1 GGTGTGTTTGGG
16682261 AGGAATCCAC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.05, C:0.03, G:0.45, T:0.47
Consensus pattern (23 bp):
GGTGTGTTTGGGTTGGATATTCT
Found at i:16682404 original size:19 final size:18
Alignment explanation
Indices: 16682366--16682405 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
16682356 ATGAAATGAA
16682366 AAATTGAATTGAGAATTG
1 AAATTGAATTGAGAATTG
16682384 AAATTGAGATATGAG-ATTG
1 AAATTGA-AT-TGAGAATTG
16682403 AAA
1 AAA
16682406 ACATGAACCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 7 0.35
19 9 0.45
20 4 0.20
ACGTcount: A:0.47, C:0.00, G:0.23, T:0.30
Consensus pattern (18 bp):
AAATTGAATTGAGAATTG
Found at i:16688776 original size:46 final size:46
Alignment explanation
Indices: 16688709--16688881 Score: 192
Period size: 46 Copynumber: 3.7 Consensus size: 46
16688699 TAACCCGCCT
16688709 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCC
1 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCC
*
16688755 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT-C
1 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-C--GTTCGCATCC
* * * * ** *
16688804 -TCA-CGAACTTGGACTCAACTCAACGAGTTCGAACATTCGCATCC
1 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCC
*
16688848 ATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
16688882 ATGCTCAACC
Statistics
Matches: 105, Mismatches: 13, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 2 0.02
46 60 0.57
47 25 0.24
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.21
Consensus pattern (46 bp):
ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCC
Found at i:16688823 original size:93 final size:93
Alignment explanation
Indices: 16688715--16688885 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
16688705 GCCTATAAGT
** *
16688715 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
16688780 CGAGCTCGGATGCCTAGTTACATCTCAC
66 CGAGCTCGGATGCCTAGTTACATCTCAC
* *
16688808 GAACTTGGACTCAACTCAACGAGTTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
16688873 CGAGTTCGGATGC
66 CGAGCTCGGATGC
16688886 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCAC
Found at i:16691613 original size:49 final size:51
Alignment explanation
Indices: 16691541--16691718 Score: 234
Period size: 51 Copynumber: 3.5 Consensus size: 51
16691531 ACTAGTGACT
*
16691541 CAAGTGTGGTACTATGTGAAGGCCACTTTGAGAAGAA-ATAGC-TTGGTTA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTTGGTTA
* *
16691590 CAAGTATGGTACTATGTGAAGGCCACTTTGTGAAGGAAGATAGCTTTGGTCA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAA-GAAGATAGCTTTGGTTA
* * * * **
16691642 GAAGTGTGGTACTATGTGAATGTCACTTTGTGAAGAAGGTAGCTTTGACTA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTTGGTTA
* *
16691693 CAAGGGTGGTACTATGTGCAGGCCAC
1 CAAGTGTGGTACTATGTGAAGGCCAC
16691719 CGGGTATCCG
Statistics
Matches: 110, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
49 32 0.29
50 3 0.03
51 39 0.35
52 36 0.33
ACGTcount: A:0.28, C:0.13, G:0.30, T:0.29
Consensus pattern (51 bp):
CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTTGGTTA
Found at i:16699647 original size:6 final size:6
Alignment explanation
Indices: 16699636--16699663 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
16699626 GTATGTTTGC
16699636 ACATGG ACATGG ACATGG ACATGG ACAT
1 ACATGG ACATGG ACATGG ACATGG ACAT
16699664 CCACCATTTC
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:0.36, C:0.18, G:0.29, T:0.18
Consensus pattern (6 bp):
ACATGG
Found at i:16707684 original size:47 final size:49
Alignment explanation
Indices: 16707578--16707706 Score: 155
Period size: 47 Copynumber: 2.7 Consensus size: 49
16707568 TGTAACCCGC
*
16707578 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC-GATGACTAGTTACAT
* *
16707628 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTC-A-GAC-A-TTCCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGATGACTAGTT--ACAT
16707672 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCG
16707707 GATGCTCAAC
Statistics
Matches: 68, Mismatches: 5, Indels: 14
0.78 0.06 0.16
Matches are distributed among these distances:
42 2 0.03
43 1 0.01
44 6 0.09
45 2 0.03
46 2 0.03
47 52 0.76
48 2 0.03
49 1 0.01
ACGTcount: A:0.31, C:0.29, G:0.18, T:0.22
Consensus pattern (49 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGATGACTAGTTACAT
Found at i:16709534 original size:21 final size:22
Alignment explanation
Indices: 16709510--16709550 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
16709500 ATTTCTGTCT
16709510 ATCT-GAAGCAGTTTTCAAACA
1 ATCTCGAAGCAGTTTTCAAACA
*
16709531 ATCTCGAATCAGTTTTCAAA
1 ATCTCGAAGCAGTTTTCAAA
16709551 TCTGATTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.37, C:0.20, G:0.12, T:0.32
Consensus pattern (22 bp):
ATCTCGAAGCAGTTTTCAAACA
Found at i:16712330 original size:21 final size:21
Alignment explanation
Indices: 16712304--16712391 Score: 113
Period size: 21 Copynumber: 4.1 Consensus size: 21
16712294 CCTGATCAGT
*
16712304 ATACGACACATAAAGTGCCTG
1 ATACGACACACAAAGTGCCTG
*
16712325 ATACGACACACGAAGTGCCTG
1 ATACGACACACAAAGTGCCTG
* *
16712346 ATACGACACACGAGGTGCCTG
1 ATACGACACACAAAGTGCCTG
*
16712367 AAATACGACACATAAAGTGCCTG
1 --ATACGACACACAAAGTGCCTG
16712390 AT
1 AT
16712392 CGATAAAGCC
Statistics
Matches: 59, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
21 41 0.69
23 18 0.31
ACGTcount: A:0.36, C:0.25, G:0.22, T:0.17
Consensus pattern (21 bp):
ATACGACACACAAAGTGCCTG
Found at i:16712388 original size:44 final size:42
Alignment explanation
Indices: 16712304--16712391 Score: 113
Period size: 44 Copynumber: 2.0 Consensus size: 42
16712294 CCTGATCAGT
* *
16712304 ATACGACACATAAAGTGCCTGATACGACACACGAAGTGCCTG
1 ATACGACACACAAAGTGCCTGATACGACACACAAAGTGCCTG
* * *
16712346 ATACGACACACGAGGTGCCTGAAATACGACACATAAAGTGCCTG
1 ATACGACACACAAAGTGCCTG--ATACGACACACAAAGTGCCTG
16712390 AT
1 AT
16712392 CGATAAAGCC
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
42 18 0.46
44 21 0.54
ACGTcount: A:0.36, C:0.25, G:0.22, T:0.17
Consensus pattern (42 bp):
ATACGACACACAAAGTGCCTGATACGACACACAAAGTGCCTG
Found at i:16713908 original size:16 final size:17
Alignment explanation
Indices: 16713873--16713908 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 17
16713863 CCTAATTCTC
16713873 CCTT-TTTCTTTTCTTT
1 CCTTCTTTCTTTTCTTT
16713889 -CTTCTTTC-TTTCTTT
1 CCTTCTTTCTTTTCTTT
16713904 CCTTC
1 CCTTC
16713909 CCCTGCTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (17 bp):
CCTTCTTTCTTTTCTTT
Found at i:16717479 original size:48 final size:48
Alignment explanation
Indices: 16717417--16717534 Score: 227
Period size: 48 Copynumber: 2.5 Consensus size: 48
16717407 TACAAACATT
16717417 AATTATTTACCCTATTAACAAATAATCTCATTTTCAAAATTTCATTTC
1 AATTATTTACCCTATTAACAAATAATCTCATTTTCAAAATTTCATTTC
*
16717465 AATTATTTATCCTATTAACAAATAATCTCATTTTCAAAATTTCATTTC
1 AATTATTTACCCTATTAACAAATAATCTCATTTTCAAAATTTCATTTC
16717513 AATTATTTACCCTATTAACAAA
1 AATTATTTACCCTATTAACAAA
16717535 GCTCGGACTA
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
48 68 1.00
ACGTcount: A:0.39, C:0.18, G:0.00, T:0.43
Consensus pattern (48 bp):
AATTATTTACCCTATTAACAAATAATCTCATTTTCAAAATTTCATTTC
Found at i:16721022 original size:47 final size:49
Alignment explanation
Indices: 16720945--16721078 Score: 156
Period size: 47 Copynumber: 2.8 Consensus size: 49
16720935 TGTAACCCGC
* *
16720945 CCATAAGTGAACTCGGACTCAACTAAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A-TTCACAT
*
16720995 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA---CATTCCACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCATT-CACAT
*
16721039 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGC
16721079 TCAACCATCC
Statistics
Matches: 71, Mismatches: 5, Indels: 16
0.77 0.05 0.17
Matches are distributed among these distances:
42 2 0.03
43 1 0.01
44 5 0.07
45 1 0.01
46 2 0.03
47 57 0.80
48 2 0.03
49 1 0.01
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.22
Consensus pattern (49 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCATTCACAT
Found at i:16725552 original size:16 final size:16
Alignment explanation
Indices: 16725531--16725561 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
16725521 TATATTTTAA
16725531 TATATTATATTAATAT
1 TATATTATATTAATAT
*
16725547 TATATTATGTTAATA
1 TATATTATATTAATA
16725562 AAATAATAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (16 bp):
TATATTATATTAATAT
Found at i:16725658 original size:12 final size:12
Alignment explanation
Indices: 16725641--16725671 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
16725631 GAAGCAAGAG
16725641 AGAAAAAGAGAA
1 AGAAAAAGAGAA
*
16725653 AGAAAAAGGGAA
1 AGAAAAAGAGAA
16725665 AGAAAAA
1 AGAAAAA
16725672 TAAAAGAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (12 bp):
AGAAAAAGAGAA
Found at i:16728341 original size:46 final size:44
Alignment explanation
Indices: 16728282--16728396 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
16728272 ACAGGACAGA
* *
16728282 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
16728328 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
16728372 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
16728397 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:16728377 original size:44 final size:45
Alignment explanation
Indices: 16728282--16728415 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
16728272 ACAGGACAGA
* *
16728282 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
16728328 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
16728372 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
16728416 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:16730259 original size:50 final size:50
Alignment explanation
Indices: 16730110--16730357 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
16730100 GATAATAACA
* * ** *
16730110 TGCCAAAGCCATGTCCTAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGT-CTCGG
* * * *
16730161 TGCCCATGCCATGTCCCAGACAT-GTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
*
16730210 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
* * *
16730260 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC--G-TC-T-CGG
*
16730315 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
16730358 TTACCCAAAT
Statistics
Matches: 168, Mismatches: 21, Indels: 11
0.84 0.10 0.05
Matches are distributed among these distances:
48 1 0.01
49 28 0.17
50 74 0.44
51 20 0.12
52 1 0.01
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
Found at i:16730288 original size:100 final size:103
Alignment explanation
Indices: 16730109--16730357 Score: 337
Period size: 100 Copynumber: 2.4 Consensus size: 103
16730099 TGATAATAAC
* **
16730109 ATGCCAAAGCCATGTCCTAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
16730174 TCCCAGACATGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
16730210 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
16730273 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACAT-GTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
16730315 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
16730358 TTACCCAAAT
Statistics
Matches: 131, Mismatches: 9, Indels: 11
0.87 0.06 0.07
Matches are distributed among these distances:
98 1 0.01
99 31 0.24
100 53 0.40
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.31
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.27
Consensus pattern (103 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:16730473 original size:13 final size:13
Alignment explanation
Indices: 16730452--16730483 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
16730442 GCTTGGATCA
*
16730452 TCATCAAATAAAT
1 TCATAAAATAAAT
16730465 TCATAAAATAAAT
1 TCATAAAATAAAT
16730478 TCATAA
1 TCATAA
16730484 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:16730730 original size:30 final size:30
Alignment explanation
Indices: 16730695--16730752 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
16730685 CCTCGACTCT
*
16730695 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
16730725 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
16730753 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:16738468 original size:46 final size:44
Alignment explanation
Indices: 16738409--16738523 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
16738399 ACAGGACAGA
* *
16738409 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
16738455 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
16738499 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
16738524 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:16738504 original size:44 final size:45
Alignment explanation
Indices: 16738409--16738542 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
16738399 ACAGGACAGA
* *
16738409 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
16738455 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
16738499 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
16738543 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:16744152 original size:47 final size:46
Alignment explanation
Indices: 16744000--16744173 Score: 187
Period size: 47 Copynumber: 3.7 Consensus size: 46
16743990 TGTAACCCGC
* * * * *
16744000 CCATAAGTGAACTCAGACTCAACTCAACGAGCTC-AAGCGTTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGC-ATTACAT
16744046 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA-G-C-A-TTACAT
* *
16744096 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA-CATTCCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCATT--ACAT
16744140 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC
16744174 AGATGCTCAA
Statistics
Matches: 109, Mismatches: 10, Indels: 17
0.80 0.07 0.12
Matches are distributed among these distances:
42 2 0.02
43 1 0.01
44 5 0.05
45 1 0.01
46 34 0.31
47 56 0.51
48 3 0.03
49 2 0.02
50 5 0.05
ACGTcount: A:0.31, C:0.29, G:0.18, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCATTACAT
Found at i:16747375 original size:26 final size:27
Alignment explanation
Indices: 16747323--16747377 Score: 67
Period size: 30 Copynumber: 2.0 Consensus size: 27
16747313 CTTACCTTTT
*
16747323 AACTTTTCACCTTATTTATTTTCAAAAAAA
1 AACTTTTCACCTTATTTA---TAAAAAAAA
16747353 AACTTTTCACCTTATTTA-AAAAAAA
1 AACTTTTCACCTTATTTATAAAAAAA
16747378 TCAAAATTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
26 6 0.25
30 18 0.75
ACGTcount: A:0.44, C:0.16, G:0.00, T:0.40
Consensus pattern (27 bp):
AACTTTTCACCTTATTTATAAAAAAAA
Found at i:16747832 original size:26 final size:26
Alignment explanation
Indices: 16747803--16747857 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 26
16747793 TACAGTTATG
*
16747803 TAAATATTATTAAA-ATAAAATAAAAA
1 TAAA-ATTATGAAATATAAAATAAAAA
*
16747829 TAAAATTATGAAATATAAAATAATAA
1 TAAAATTATGAAATATAAAATAAAAA
16747855 TAA
1 TAA
16747858 CTAAATATCT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
25 8 0.31
26 18 0.69
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (26 bp):
TAAAATTATGAAATATAAAATAAAAA
Found at i:16749804 original size:3 final size:3
Alignment explanation
Indices: 16749788--16749829 Score: 50
Period size: 3 Copynumber: 14.3 Consensus size: 3
16749778 GGAAGAAGGT
* * *
16749788 GAA GGA GAA G-A GAA GAA GAA GAA GAA AAA GAA GGA GAA GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA G
16749830 GGACTGGAAG
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
2 2 0.06
3 30 0.94
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:16750484 original size:66 final size:66
Alignment explanation
Indices: 16750404--16750535 Score: 255
Period size: 66 Copynumber: 2.0 Consensus size: 66
16750394 TTATTATTTG
16750404 GAGTGCCACTTGTATTTGCTACCTTTTCTAAATGAATTATGGCCAGTAATGAAGTTGGATAAACT
1 GAGTGCCACTTGTATTTGCTACCTTTTCTAAATGAATTATGGCCAGTAATGAAGTTGGATAAACT
16750469 T
66 T
*
16750470 GAGTGCCACTTGTATTTGCTACCTTTTCTAAATGAATTATGGTCAGTAATGAAGTTGGATAAACT
1 GAGTGCCACTTGTATTTGCTACCTTTTCTAAATGAATTATGGCCAGTAATGAAGTTGGATAAACT
16750535 T
66 T
16750536 CAGCAACATC
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
66 65 1.00
ACGTcount: A:0.29, C:0.14, G:0.20, T:0.37
Consensus pattern (66 bp):
GAGTGCCACTTGTATTTGCTACCTTTTCTAAATGAATTATGGCCAGTAATGAAGTTGGATAAACT
T
Found at i:16755504 original size:21 final size:21
Alignment explanation
Indices: 16755478--16755518 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
16755468 AGACGAGCAA
* *
16755478 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
16755499 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
16755519 TTGAGCAGAT
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:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:16776022 original size:15 final size:15
Alignment explanation
Indices: 16776002--16776035 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
16775992 AACAATCAAT
16776002 AACTT-AAATTTAATC
1 AACTTAAAATTT-ATC
16776017 AACTTAAAATTTATC
1 AACTTAAAATTTATC
16776032 AACT
1 AACT
16776036 GAAACAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 12 0.67
16 6 0.33
ACGTcount: A:0.47, C:0.15, G:0.00, T:0.38
Consensus pattern (15 bp):
AACTTAAAATTTATC
Found at i:16781185 original size:24 final size:24
Alignment explanation
Indices: 16781138--16781186 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
16781128 TTCTGGAAAA
**
16781138 TGAGCATAAATTTTGTTTATGTAT
1 TGAGCATAAATTCGGTTTATGTAT
16781162 TGAGCATAAATTCCGGTTTA-GTAT
1 TGAGCATAAATT-CGGTTTATGTAT
16781186 T
1 T
16781187 TCAATTTAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 17 0.77
25 5 0.23
ACGTcount: A:0.29, C:0.08, G:0.18, T:0.45
Consensus pattern (24 bp):
TGAGCATAAATTCGGTTTATGTAT
Found at i:16781214 original size:18 final size:19
Alignment explanation
Indices: 16781178--16781216 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
16781168 TAAATTCCGG
*
16781178 TTTAGTATTTCAATTTAAT
1 TTTAGTATTTCAATATAAT
*
16781197 TTTA-TATTTTAATATAAT
1 TTTAGTATTTCAATATAAT
16781215 TT
1 TT
16781217 ATTTCGTCTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.62
Consensus pattern (19 bp):
TTTAGTATTTCAATATAAT
Found at i:16799108 original size:5 final size:5
Alignment explanation
Indices: 16799084--16799129 Score: 53
Period size: 5 Copynumber: 9.6 Consensus size: 5
16799074 ATTGAGACAC
*
16799084 GAAGA GAA-A GGAACA GAAGA GAAGA GAAGA GAAGA GAA-A GAA-A GAA
1 GAAGA GAAGA -GAAGA GAAGA GAAGA GAAGA GAAGA GAAGA GAAGA GAA
16799130 AAGAGTGTAT
Statistics
Matches: 38, Mismatches: 1, Indels: 5
0.86 0.02 0.11
Matches are distributed among these distances:
4 9 0.24
5 28 0.74
6 1 0.03
ACGTcount: A:0.63, C:0.02, G:0.35, T:0.00
Consensus pattern (5 bp):
GAAGA
Found at i:16799128 original size:15 final size:15
Alignment explanation
Indices: 16799084--16799134 Score: 59
Period size: 15 Copynumber: 3.4 Consensus size: 15
16799074 ATTGAGACAC
* *
16799084 GAAGAGAAAGGAACA
1 GAAGAGAAAGAAAGA
16799099 GAAGAG-AAGAGAAGA
1 GAAGAGAAAGA-AAGA
16799114 GAAGAGAAAGAAAGA
1 GAAGAGAAAGAAAGA
*
16799129 AAAGAG
1 GAAGAG
16799135 TGTATAAATG
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
14 3 0.10
15 24 0.77
16 4 0.13
ACGTcount: A:0.63, C:0.02, G:0.35, T:0.00
Consensus pattern (15 bp):
GAAGAGAAAGAAAGA
Found at i:16804608 original size:46 final size:46
Alignment explanation
Indices: 16804556--16804727 Score: 138
Period size: 46 Copynumber: 3.7 Consensus size: 46
16804546 TGGGCATCCG
16804556 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCA
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCA
* * * * *
16804602 AACTCGTTGAGTTGAGTCTGAGTTC-GTGA--GATG-TAAC-TAGGCA
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGT--CCA
* * * * * * *
16804645 TTTGAACTCGTTAAGTTGAGTTCGAGTTTAATTATGGATGCGAATGCCCG
1 ----AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCA
*
16804695 AGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
16804728 GCGGGTTACA
Statistics
Matches: 94, Mismatches: 21, Indels: 22
0.69 0.15 0.16
Matches are distributed among these distances:
41 1 0.01
42 3 0.03
43 6 0.06
45 2 0.02
46 52 0.55
47 21 0.22
48 2 0.02
50 5 0.05
51 2 0.02
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.32
Consensus pattern (46 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCA
Found at i:16809169 original size:21 final size:21
Alignment explanation
Indices: 16809143--16809225 Score: 58
Period size: 21 Copynumber: 3.9 Consensus size: 21
16809133 TGATCTGTAT
*
16809143 ACGACACATAAAGTGCCTAAA
1 ACGACACACAAAGTGCCTAAA
* * * * *
16809164 ACGACACACGAGGTGCTTGAT
1 ACGACACACAAAGTGCCTAAA
* *
16809185 ACGACACACGAGGTGCCTGAAA
1 ACGACACACAAAGTGCCT-AAA
* *
16809207 TACGACACATAAAATGCCT
1 -ACGACACACAAAGTGCCT
16809226 GATCGATAAA
Statistics
Matches: 47, Mismatches: 13, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
21 32 0.68
22 1 0.02
23 14 0.30
ACGTcount: A:0.39, C:0.25, G:0.20, T:0.16
Consensus pattern (21 bp):
ACGACACACAAAGTGCCTAAA
Found at i:16809193 original size:23 final size:22
Alignment explanation
Indices: 16809141--16809215 Score: 82
Period size: 21 Copynumber: 3.5 Consensus size: 22
16809131 CCTGATCTGT
** *
16809141 ATACGACACATAAAGTGCCT-A
1 ATACGACACACGAGGTGCCTGA
* *
16809162 AAACGACACACGAGGTGCTTG-
1 ATACGACACACGAGGTGCCTGA
16809183 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACGAGGTGCCTG-A
16809206 ATACGACACA
1 ATACGACACA
16809216 TAAAATGCCT
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
21 34 0.77
23 10 0.23
ACGTcount: A:0.39, C:0.25, G:0.21, T:0.15
Consensus pattern (22 bp):
ATACGACACACGAGGTGCCTGA
Found at i:16809623 original size:15 final size:15
Alignment explanation
Indices: 16809598--16809655 Score: 89
Period size: 15 Copynumber: 3.8 Consensus size: 15
16809588 TCATATATAT
16809598 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
16809614 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* *
16809629 AATAATTTCAATCAA
1 TATAAATTCAATCAA
16809644 TATAAATTCAAT
1 TATAAATTCAAT
16809656 AAATTCATCG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
15 34 0.89
16 4 0.11
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:16810913 original size:5 final size:5
Alignment explanation
Indices: 16810900--16810948 Score: 71
Period size: 5 Copynumber: 9.2 Consensus size: 5
16810890 TTCTTTAGTT
16810900 TATATA TATAA TATAA TATAA TATAA TATAA TAATATA TATAA TATAA
1 TATA-A TATAA TATAA TATAA TATAA TATAA T-ATA-A TATAA TATAA
16810948 T
1 T
16810949 TAAAACATAA
Statistics
Matches: 41, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
5 29 0.71
6 10 0.24
7 2 0.05
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (5 bp):
TATAA
Found at i:16814652 original size:23 final size:22
Alignment explanation
Indices: 16814625--16814667 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
16814615 TGTACTATTT
*
16814625 ATAAACTCTTTTACATTTAATTA
1 ATAAA-TCTATTACATTTAATTA
*
16814648 ATAAATGTATTACATTTAAT
1 ATAAATCTATTACATTTAAT
16814668 GAACTAAGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.42, C:0.09, G:0.02, T:0.47
Consensus pattern (22 bp):
ATAAATCTATTACATTTAATTA
Found at i:16822623 original size:67 final size:66
Alignment explanation
Indices: 16822450--16822694 Score: 197
Period size: 67 Copynumber: 3.7 Consensus size: 66
16822440 ACGGGCTGTA
* * * * *
16822450 ATGGGATATAATGTGTAAGACCATAGCTTAACTATGGTAACATAAAGAAT-TCATCAGGACATTA
1 ATGGG-TATAATGTGTAAGACCATAACTCAATTATGGCAACATAAAGAGTCT-ATCAGGACATTA
16822514 AAC
64 AAC
* ** ** * *
16822517 ATGGGGTATAATATGTAAGTTCA-AAGCTCGGTTATGGCAAAATAAAGAGTCTATCAAGACATTA
1 AT-GGGTATAATGTGTAAGACCATAA-CTCAATTATGGCAACATAAAGAGTCTATCAGGACATTA
16822581 AAC
64 AAC
* * ** **
16822584 ATGGGCTATGATGTGTAAGACCATAACTCAATTAAGGCAACATTGAGAGTCTGCCAGGACATTAA
1 ATGGG-TATAATGTGTAAGACCATAACTCAATTATGGCAACATAAAGAGTCTATCAGGACATTAA
16822649 AC
65 AC
* * * * * * *
16822651 ATTGGGTATGATTTGTAAGACTATAGCTCGACTATGACAACATA
1 A-TGGGTATAATGTGTAAGACCATAACTCAATTATGGCAACATA
16822695 TGAAGTCCGT
Statistics
Matches: 139, Mismatches: 33, Indels: 12
0.76 0.18 0.07
Matches are distributed among these distances:
66 4 0.03
67 125 0.90
68 10 0.07
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.27
Consensus pattern (66 bp):
ATGGGTATAATGTGTAAGACCATAACTCAATTATGGCAACATAAAGAGTCTATCAGGACATTAAA
C
Found at i:16823820 original size:6 final size:6
Alignment explanation
Indices: 16823809--16823884 Score: 55
Period size: 6 Copynumber: 12.2 Consensus size: 6
16823799 TAAATGAAAT
* * * * *
16823809 AAAGAA AAAGAA AGAGAG AAAGTA AAACAA AACAGAA AGGAA-AG AAAGAA
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AA-AGAA A--AAGAA AAAGAA
*
16823859 AAAGAA AAAGAG AAAGAA GAAAGAA A
1 AAAGAA AAAGAA AAAGAA -AAAGAA A
16823885 CAGATGCGAA
Statistics
Matches: 53, Mismatches: 12, Indels: 10
0.71 0.16 0.13
Matches are distributed among these distances:
5 2 0.04
6 37 0.70
7 12 0.23
8 1 0.02
9 1 0.02
ACGTcount: A:0.74, C:0.03, G:0.22, T:0.01
Consensus pattern (6 bp):
AAAGAA
Found at i:16823878 original size:25 final size:25
Alignment explanation
Indices: 16823809--16823884 Score: 77
Period size: 26 Copynumber: 3.0 Consensus size: 25
16823799 TAAATGAAAT
*
16823809 AAAG-AAAA-AGAAAGAGAGAAAGTA
1 AAAGAAAAAGAGAAAGA-AGAAAGAA
* *
16823833 AAACAAAACAGA-AAGGAAAGAAAGAA
1 AAAGAAAA-AGAGAAAG-AAGAAAGAA
16823859 AAAGAAAAAGAGAAAGAAGAAAGAA
1 AAAGAAAAAGAGAAAGAAGAAAGAA
16823884 A
1 A
16823885 CAGATGCGAA
Statistics
Matches: 42, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
24 3 0.07
25 16 0.38
26 21 0.50
27 2 0.05
ACGTcount: A:0.74, C:0.03, G:0.22, T:0.01
Consensus pattern (25 bp):
AAAGAAAAAGAGAAAGAAGAAAGAA
Found at i:16824576 original size:20 final size:18
Alignment explanation
Indices: 16824551--16824590 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 18
16824541 ACACTTTGAC
16824551 ATTGAATTGAATTAAAGTTG
1 ATTGAA-TGAATTAAA-TTG
*
16824571 ATTGAATGGATTAAATTG
1 ATTGAATGAATTAAATTG
16824589 AT
1 AT
16824591 ATATATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 5 0.26
19 8 0.42
20 6 0.32
ACGTcount: A:0.40, C:0.00, G:0.20, T:0.40
Consensus pattern (18 bp):
ATTGAATGAATTAAATTG
Found at i:16824860 original size:41 final size:41
Alignment explanation
Indices: 16824815--16824916 Score: 127
Period size: 41 Copynumber: 2.5 Consensus size: 41
16824805 TCGATTTAAC
* * *
16824815 CGATGAGACACTGGGTGTCAATTTATTACTTCAAATT-TATT
1 CGATGAGACACTGAGTGTCAATTTACTAATTCAAATTATA-T
* *
16824856 CGATGGGACAGTGAGTGTCAATTTACTAATTCAAATTATAT
1 CGATGAGACACTGAGTGTCAATTTACTAATTCAAATTATAT
*
16824897 -GATGAGGCACTGAGTGTCAA
1 CGATGAGACACTGAGTGTCAA
16824917 ACTTGTGTGT
Statistics
Matches: 52, Mismatches: 8, Indels: 3
0.83 0.13 0.05
Matches are distributed among these distances:
40 17 0.33
41 33 0.63
42 2 0.04
ACGTcount: A:0.31, C:0.14, G:0.22, T:0.33
Consensus pattern (41 bp):
CGATGAGACACTGAGTGTCAATTTACTAATTCAAATTATAT
Found at i:16825158 original size:16 final size:16
Alignment explanation
Indices: 16825110--16825159 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
16825100 ATGTACTCAA
* *
16825110 GAATTGAGTATGGTAT
1 GAATTGAGTATTGCAT
*
16825126 GAAATGATGTATT-CAT
1 GAATTGA-GTATTGCAT
16825142 GAATTGAGTATTGCAT
1 GAATTGAGTATTGCAT
16825158 GA
1 GA
16825160 CCAATGCCAT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
15 5 0.18
16 19 0.68
17 4 0.14
ACGTcount: A:0.34, C:0.04, G:0.26, T:0.36
Consensus pattern (16 bp):
GAATTGAGTATTGCAT
Found at i:16826751 original size:25 final size:25
Alignment explanation
Indices: 16826730--16826787 Score: 89
Period size: 25 Copynumber: 2.3 Consensus size: 25
16826720 TGTATATTGG
*
16826730 GAAGCTCTTGTGAGCCAAATATCGA
1 GAAGCTCATGTGAGCCAAATATCGA
*
16826755 GAAGCTCATGTGAGCCAAGTATCGA
1 GAAGCTCATGTGAGCCAAATATCGA
*
16826780 AAAGCTCA
1 GAAGCTCA
16826788 AGAGAGCTGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.34, C:0.21, G:0.24, T:0.21
Consensus pattern (25 bp):
GAAGCTCATGTGAGCCAAATATCGA
Found at i:16826794 original size:25 final size:25
Alignment explanation
Indices: 16826741--16826794 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 25
16826731 AAGCTCTTGT
* * *
16826741 GAGCCAAATATCGAGAAGCTCATGT
1 GAGCCAAATATCGAAAAGCTCAAGA
*
16826766 GAGCCAAGTATCGAAAAGCTCAAGA
1 GAGCCAAATATCGAAAAGCTCAAGA
16826791 GAGC
1 GAGC
16826795 TGTGGTGTGT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.39, C:0.20, G:0.26, T:0.15
Consensus pattern (25 bp):
GAGCCAAATATCGAAAAGCTCAAGA
Found at i:16830436 original size:23 final size:22
Alignment explanation
Indices: 16830401--16830464 Score: 69
Period size: 21 Copynumber: 2.9 Consensus size: 22
16830391 TTTACTAATC
*
16830401 AGGCACTTTATGTGTCGTATTT
1 AGGCACTTCATGTGTCGTATTT
*
16830423 CAGGCAGC-TCATGTGTTGT-TTT
1 -AGGCA-CTTCATGTGTCGTATTT
*
16830445 AGGCACTTTATGTGTCGTAT
1 AGGCACTTCATGTGTCGTAT
16830465 ACTGATTAGG
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
20 1 0.03
21 14 0.41
22 4 0.12
23 14 0.41
24 1 0.03
ACGTcount: A:0.17, C:0.16, G:0.25, T:0.42
Consensus pattern (22 bp):
AGGCACTTCATGTGTCGTATTT
Found at i:16830457 original size:21 final size:23
Alignment explanation
Indices: 16830399--16830464 Score: 84
Period size: 23 Copynumber: 3.0 Consensus size: 23
16830389 GCTTTACTAA
16830399 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACTTTATGTGTCGTATT
* *
16830422 TCAGGCAGC-TCATGTGTTGT-TT
1 TCAGGCA-CTTTATGTGTCGTATT
16830444 T-AGGCACTTTATGTGTCGTAT
1 TCAGGCACTTTATGTGTCGTAT
16830465 ACTGATTAGG
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
20 1 0.03
21 14 0.39
22 4 0.11
23 16 0.44
24 1 0.03
ACGTcount: A:0.17, C:0.17, G:0.24, T:0.42
Consensus pattern (23 bp):
TCAGGCACTTTATGTGTCGTATT
Found at i:16837266 original size:23 final size:23
Alignment explanation
Indices: 16837236--16837322 Score: 83
Period size: 21 Copynumber: 4.0 Consensus size: 23
16837226 GCTTTACTAA
* *
16837236 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACCTCATGTGTCGTATT
*
16837259 TCAGGCACCTCGTGTGTCGTA--
1 TCAGGCACCTCATGTGTCGTATT
*
16837280 TCAGGCACCTCGTGTGTCGT-TT
1 TCAGGCACCTCATGTGTCGTATT
* * *
16837302 T-AGGCACTTTATGTATCGTAT
1 TCAGGCACCTCATGTGTCGTAT
16837323 ACTGATCAGG
Statistics
Matches: 54, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
21 34 0.63
22 2 0.04
23 18 0.33
ACGTcount: A:0.16, C:0.22, G:0.24, T:0.38
Consensus pattern (23 bp):
TCAGGCACCTCATGTGTCGTATT
Found at i:16837283 original size:21 final size:21
Alignment explanation
Indices: 16837248--16837308 Score: 86
Period size: 21 Copynumber: 2.8 Consensus size: 21
16837238 AGGCACTTTA
16837248 TGTGTCGTATTTCAGGCACCTCG
1 TGTGTCGTA--TCAGGCACCTCG
16837271 TGTGTCGTATCAGGCACCTCG
1 TGTGTCGTATCAGGCACCTCG
* *
16837292 TGTGTCGTTTTAGGCAC
1 TGTGTCGTATCAGGCAC
16837309 TTTATGTATC
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
21 27 0.75
23 9 0.25
ACGTcount: A:0.13, C:0.25, G:0.28, T:0.34
Consensus pattern (21 bp):
TGTGTCGTATCAGGCACCTCG
Found at i:16838739 original size:27 final size:27
Alignment explanation
Indices: 16838692--16838743 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
16838682 ATAATAATAT
**
16838692 AATAAAATAAAGTAATTAAATAAAACA
1 AATAAAATAAAGTAAAGAAATAAAACA
16838719 AATAAAATAAAAG-AAAGAAATAAAA
1 AATAAAAT-AAAGTAAAGAAATAAAA
16838744 GAGAGAATGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 18 0.82
28 4 0.18
ACGTcount: A:0.75, C:0.02, G:0.06, T:0.17
Consensus pattern (27 bp):
AATAAAATAAAGTAAAGAAATAAAACA
Found at i:16838806 original size:16 final size:15
Alignment explanation
Indices: 16838775--16838809 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
16838765 AGCAGGGAAA
*
16838775 GAAAGAAAGAAAAAG
1 GAAAGAAAAAAAAAG
16838790 GAAAGAAAAAGAAAAG
1 GAAAGAAAAA-AAAAG
16838806 GAAA
1 GAAA
16838810 ATTTAGGGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (15 bp):
GAAAGAAAAAAAAAG
Found at i:16840565 original size:20 final size:20
Alignment explanation
Indices: 16840542--16840582 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
16840532 ACCCCACGAC
*
16840542 CATGTTCCAGGCCACACGGG
1 CATGTCCCAGGCCACACGGG
16840562 CATGTCCCAGGCCACACGGG
1 CATGTCCCAGGCCACACGGG
16840582 C
1 C
16840583 TTGTGCCCCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.20, C:0.39, G:0.29, T:0.12
Consensus pattern (20 bp):
CATGTCCCAGGCCACACGGG
Found at i:16845992 original size:16 final size:16
Alignment explanation
Indices: 16845971--16846001 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
16845961 AGTAGCTTTG
*
16845971 AATCAATTAAGTTAGA
1 AATCAATTAAATTAGA
16845987 AATCAATTAAATTAG
1 AATCAATTAAATTAG
16846002 TAAAAAAAAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.06, G:0.10, T:0.32
Consensus pattern (16 bp):
AATCAATTAAATTAGA
Found at i:16847145 original size:38 final size:39
Alignment explanation
Indices: 16847061--16847195 Score: 116
Period size: 39 Copynumber: 3.4 Consensus size: 39
16847051 ACCAATATGG
*
16847061 CACCCAGTGCCTCATCGGATAGTTCGAAGTAATAGTTGA
1 CACCCAGTGCCTCATCGGATAGTCCGAAGTAATAGTTGA
* * *
16847100 CACCCAGTGTCTCATCGGCCTAG-CCGAAGTAA-AGTTGG
1 CACCCAGTGCCTCATCGG-ATAGTCCGAAGTAATAGTTGA
* * * *
16847138 TACCCAGTACCTCATCGAATCTA-TCCGAAGAAATA-TAGTGA
1 CACCCAGTGCCTCATCGGA--TAGTCCGAAGTAATAGT--TGA
*
16847179 CACCCAGTGTCTCATCG
1 CACCCAGTGCCTCATCG
16847196 ACTCGAGGTC
Statistics
Matches: 75, Mismatches: 14, Indels: 12
0.74 0.14 0.12
Matches are distributed among these distances:
38 19 0.25
39 36 0.48
40 4 0.05
41 16 0.21
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (39 bp):
CACCCAGTGCCTCATCGGATAGTCCGAAGTAATAGTTGA
Found at i:16848776 original size:5 final size:5
Alignment explanation
Indices: 16848758--16848798 Score: 73
Period size: 5 Copynumber: 8.0 Consensus size: 5
16848748 TTTCTTTTAT
16848758 ATATA ATAATA ATATA ATATA ATATA ATATA ATATA ATATA
1 ATATA AT-ATA ATATA ATATA ATATA ATATA ATATA ATATA
16848799 CTTAATTATT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
5 30 0.86
6 5 0.14
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
ATATA
Found at i:16849288 original size:21 final size:21
Alignment explanation
Indices: 16849264--16849303 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
16849254 TTTAAGTGAT
*
16849264 TAATTAATTTATATTGATTTA
1 TAATTAATTTATATGGATTTA
* *
16849285 TAATTTATTTTTATGGATT
1 TAATTAATTTATATGGATT
16849304 AATCAAAAGA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (21 bp):
TAATTAATTTATATGGATTTA
Found at i:16850698 original size:22 final size:23
Alignment explanation
Indices: 16850652--16850700 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
16850642 AATTGAAATT
* * *
16850652 TTAAATTTTCATAATTATAAAAA
1 TTAAATCTCCATAATGATAAAAA
16850675 TTAAATCTCCATAATGA-AAAAA
1 TTAAATCTCCATAATGATAAAAA
16850697 TTAA
1 TTAA
16850701 CACAATTGGA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 9 0.39
23 14 0.61
ACGTcount: A:0.53, C:0.08, G:0.02, T:0.37
Consensus pattern (23 bp):
TTAAATCTCCATAATGATAAAAA
Found at i:16862673 original size:18 final size:18
Alignment explanation
Indices: 16862646--16862720 Score: 114
Period size: 18 Copynumber: 4.2 Consensus size: 18
16862636 ATACGACCGT
16862646 TACGGTACTATTCACGTA
1 TACGGTACTATTCACGTA
*
16862664 TACGGCACTATTCACGTA
1 TACGGTACTATTCACGTA
**
16862682 TATAGTACTATTCACGTA
1 TACGGTACTATTCACGTA
*
16862700 TACGATACTATTCACGTA
1 TACGGTACTATTCACGTA
16862718 TAC
1 TAC
16862721 AGTAGCTGGG
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 50 1.00
ACGTcount: A:0.31, C:0.23, G:0.13, T:0.33
Consensus pattern (18 bp):
TACGGTACTATTCACGTA
Found at i:16868874 original size:13 final size:12
Alignment explanation
Indices: 16868858--16868907 Score: 55
Period size: 13 Copynumber: 3.9 Consensus size: 12
16868848 ATAACTATTA
16868858 AATATTTGTAATT
1 AATATTT-TAATT
**
16868871 AATATTTTAAAA
1 AATATTTTAATT
16868883 AATATTTTTAATT
1 AATA-TTTTAATT
16868896 AATAATTTTAAT
1 AAT-ATTTTAAT
16868908 ACATTTGTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
12 7 0.23
13 23 0.74
14 1 0.03
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (12 bp):
AATATTTTAATT
Found at i:16868886 original size:25 final size:26
Alignment explanation
Indices: 16868857--16868906 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 26
16868847 TATAACTATT
16868857 AAATATTTGTAATTAAT-ATTTTAAA
1 AAATATTTGTAATTAATAATTTTAAA
*
16868882 AAATATTTTTAATTAATAATTTTAA
1 AAATATTTGTAATTAATAATTTTAA
16868907 TACATTTGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 16 0.70
26 7 0.30
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (26 bp):
AAATATTTGTAATTAATAATTTTAAA
Found at i:16869814 original size:12 final size:13
Alignment explanation
Indices: 16869794--16869822 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
16869784 TTTTCTTTTC
16869794 TTTTCGGTTTTGG
1 TTTTCGGTTTTGG
16869807 TTTT-GGTTTTGG
1 TTTTCGGTTTTGG
16869819 TTTT
1 TTTT
16869823 AACAGACTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.00, C:0.03, G:0.28, T:0.69
Consensus pattern (13 bp):
TTTTCGGTTTTGG
Found at i:16881674 original size:18 final size:18
Alignment explanation
Indices: 16881651--16881686 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
16881641 CCGTCCTTTT
16881651 ATAAAAATATACAAGAAG
1 ATAAAAATATACAAGAAG
16881669 ATAAAAATATACAAGAAG
1 ATAAAAATATACAAGAAG
16881687 CTGATGAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.67, C:0.06, G:0.11, T:0.17
Consensus pattern (18 bp):
ATAAAAATATACAAGAAG
Found at i:16885208 original size:3 final size:3
Alignment explanation
Indices: 16885202--16885227 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
16885192 TTCCAATATC
16885202 CTT CTT CTT CTT CTT CTT CTT CTT CT
1 CTT CTT CTT CTT CTT CTT CTT CTT CT
16885228 GAGTCACTGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
CTT
Found at i:16889678 original size:125 final size:126
Alignment explanation
Indices: 16889398--16889766 Score: 677
Period size: 125 Copynumber: 2.9 Consensus size: 126
16889388 GTTTTAGCCT
16889398 TAAGAGGATATTCGAATATTCAAAACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACGATT
1 TAAGAGGATATTCGAATATTCAAAACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACGATT
16889463 CTTCGAATTCTTTAAATACCGAACATTGCCTTTATTTTGAAAATTTTTGAGAGTGAACTGG
66 CTTCGAATTCTTTAAATACCGAACATTGCCTTTATTTTGAAAATTTTTGAGAGTGAACTGG
* * *
16889524 TAAGAGGATATTCGAATATTCAAGACAAACAAAGAAAGCGAAATCCAATACGTTAGGGCACGATT
1 TAAGAGGATATTCGAATATTCAAAACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACGATT
* *
16889589 CTTCGAATTCTTTAAATACCGAACACT-ACTTTATTTTGAAAATTTTTGAGAGTGAACTGG
66 CTTCGAATTCTTTAAATACCGAACATTGCCTTTATTTTGAAAATTTTTGAGAGTGAACTGG
16889649 TAAGAGGATATTCGAATATTCAAAACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACGATT
1 TAAGAGGATATTCGAATATTCAAAACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACGATT
*
16889714 CTTCGAATTCTTTAAATACCGAACATTGCCTTTATTTTGAAAAATTTTGAGAG
66 CTTCGAATTCTTTAAATACCGAACATTGCCTTTATTTTGAAAATTTTTGAGAG
16889767 AAGATCAATG
Statistics
Matches: 231, Mismatches: 11, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
125 120 0.52
126 111 0.48
ACGTcount: A:0.38, C:0.16, G:0.18, T:0.28
Consensus pattern (126 bp):
TAAGAGGATATTCGAATATTCAAAACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACGATT
CTTCGAATTCTTTAAATACCGAACATTGCCTTTATTTTGAAAATTTTTGAGAGTGAACTGG
Found at i:16890010 original size:21 final size:21
Alignment explanation
Indices: 16889976--16890026 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
16889966 TAATATTATT
*
16889976 AAAAACATGATGATAATAACA
1 AAAAATATGATGATAATAACA
* *
16889997 AAAAATATGTTGATGATAACA
1 AAAAATATGATGATAATAACA
**
16890018 TTAAATATG
1 AAAAATATG
16890027 GGGGATAATA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.55, C:0.06, G:0.12, T:0.27
Consensus pattern (21 bp):
AAAAATATGATGATAATAACA
Found at i:16890243 original size:14 final size:14
Alignment explanation
Indices: 16890224--16890254 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
16890214 ATATATTTAC
*
16890224 ATAATAAATATATA
1 ATAATAAATAAATA
16890238 ATAATAAATAAATA
1 ATAATAAATAAATA
16890252 ATA
1 ATA
16890255 TAATAATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (14 bp):
ATAATAAATAAATA
Found at i:16890255 original size:19 final size:18
Alignment explanation
Indices: 16890226--16890262 Score: 65
Period size: 19 Copynumber: 2.0 Consensus size: 18
16890216 ATATTTACAT
16890226 AATAAATATATAATAATA
1 AATAAATATATAATAATA
16890244 AATAAATAATATAATAATA
1 AATAAAT-ATATAATAATA
16890263 TAAAACATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (18 bp):
AATAAATATATAATAATA
Found at i:16890673 original size:18 final size:18
Alignment explanation
Indices: 16890650--16890721 Score: 76
Period size: 18 Copynumber: 4.0 Consensus size: 18
16890640 ATAACAAGTA
*
16890650 GGGTGATGGAGTTAGTGG
1 GGGTGATGGAGGTAGTGG
16890668 GGGTGATGGAGGTAGTGG
1 GGGTGATGGAGGTAGTGG
* * *
16890686 ATGGTCA-GTAGGGT-GTGG
1 -GGGTGATGGA-GGTAGTGG
16890704 GGGTGATGGAGGTAGTGG
1 GGGTGATGGAGGTAGTGG
16890722 ATGGTTTAGT
Statistics
Matches: 43, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
17 7 0.16
18 29 0.67
19 7 0.16
ACGTcount: A:0.17, C:0.01, G:0.57, T:0.25
Consensus pattern (18 bp):
GGGTGATGGAGGTAGTGG
Found at i:16890711 original size:36 final size:37
Alignment explanation
Indices: 16890664--16890737 Score: 132
Period size: 36 Copynumber: 2.0 Consensus size: 37
16890654 GATGGAGTTA
16890664 GTGGGGGTGATGGAGGTAGTGGATGG-TCAGTAGGGT
1 GTGGGGGTGATGGAGGTAGTGGATGGTTCAGTAGGGT
*
16890700 GTGGGGGTGATGGAGGTAGTGGATGGTTTAGTAGGGT
1 GTGGGGGTGATGGAGGTAGTGGATGGTTCAGTAGGGT
16890737 G
1 G
16890738 ATGGAGTTAG
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
36 26 0.72
37 10 0.28
ACGTcount: A:0.16, C:0.01, G:0.55, T:0.27
Consensus pattern (37 bp):
GTGGGGGTGATGGAGGTAGTGGATGGTTCAGTAGGGT
Found at i:16890766 original size:29 final size:29
Alignment explanation
Indices: 16890704--16890760 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
16890694 TAGGGTGTGG
16890704 GGGTGATGGAGGTAGTGGATGGTTTAGTA
1 GGGTGATGGAGGTAGTGGATGGTTTAGTA
*
16890733 GGGTGATGGAGTTAGTGG-TCGGTTTAGT
1 GGGTGATGGAGGTAGTGGAT-GGTTTAGT
16890761 GAGGTGTTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 1 0.04
29 25 0.96
ACGTcount: A:0.18, C:0.02, G:0.47, T:0.33
Consensus pattern (29 bp):
GGGTGATGGAGGTAGTGGATGGTTTAGTA
Found at i:16891305 original size:46 final size:46
Alignment explanation
Indices: 16891249--16891423 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 46
16891239 TGGTTGAGCA
* *
16891249 TCCGAACTCGTTGAGTTGAGTTCGAGTTTACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
16891295 TTCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
16891340 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
16891388 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG
16891424 TGCGGGTTAC
Statistics
Matches: 107, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 61 0.57
47 27 0.25
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:16891359 original size:93 final size:93
Alignment explanation
Indices: 16891246--16891416 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
16891236 GGATGGTTGA
* * * **
16891246 GCATCCGAACTCGTTGAGTTGAGTTCGAGTTTACTTATGGATGCGAATGTTCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
16891311 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
16891339 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
16891404 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
16891417 ACTTATGTGC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:16893360 original size:43 final size:43
Alignment explanation
Indices: 16893312--16893455 Score: 123
Period size: 43 Copynumber: 3.3 Consensus size: 43
16893302 GGGTATTACA
*
16893312 TTAGGGGGTTAAGGCGTGTATCTTTGATCTGCTCCACTATTGC
1 TTAGGGAGTTAAGGCGTGTATCTTTGATCTGCTCCACTATTGC
* * * * * *
16893355 TTAGGGAGATAAGATC-TATAATC-TTCAGCTTGTTACC-CTATTGC
1 TTAGGGAGTTAAG-GCGTGT-ATCTTTGATC-TGCT-CCACTATTGC
* **
16893399 TTAGGGAGTTAAAGCGTGTATCTTTGATCTGCTCCACTACCGC
1 TTAGGGAGTTAAGGCGTGTATCTTTGATCTGCTCCACTATTGC
* *
16893442 TTAAGGAGATAAGG
1 TTAGGGAGTTAAGG
16893456 TCTGTAGTTT
Statistics
Matches: 75, Mismatches: 19, Indels: 14
0.69 0.18 0.13
Matches are distributed among these distances:
42 2 0.03
43 40 0.53
44 31 0.41
45 2 0.03
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.34
Consensus pattern (43 bp):
TTAGGGAGTTAAGGCGTGTATCTTTGATCTGCTCCACTATTGC
Found at i:16893476 original size:87 final size:86
Alignment explanation
Indices: 16893316--16893496 Score: 254
Period size: 87 Copynumber: 2.1 Consensus size: 86
16893306 ATTACATTAG
* ** *
16893316 GGGGTTAAGGCGTGTATCTTTGATCTGCTCCACTATTGCTTAGGGAGATAAGATCTATAATCTTC
1 GGGGTTAAAGCGTGTATCTTTGATCTGCTCCACTACCGCTTAAGGAGATAAGATCTATAATCTTC
* *
16893381 AGCTTGTTACCCTATTGCTTA
66 AGCCTGTTACCCTACTGCTTA
* * * *
16893402 GGGAGTTAAAGCGTGTATCTTTGATCTGCTCCACTACCGCTTAAGGAGATAAGGTCTGTAGTTTT
1 GGG-GTTAAAGCGTGTATCTTTGATCTGCTCCACTACCGCTTAAGGAGATAAGATCTATAATCTT
*
16893467 TAGCCTGTTACCCTACTGCTTA
65 CAGCCTGTTACCCTACTGCTTA
16893489 GGGGTTAA
1 GGGGTTAA
16893497 GACTGGTGGT
Statistics
Matches: 83, Mismatches: 11, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
86 8 0.10
87 75 0.90
ACGTcount: A:0.22, C:0.19, G:0.24, T:0.35
Consensus pattern (86 bp):
GGGGTTAAAGCGTGTATCTTTGATCTGCTCCACTACCGCTTAAGGAGATAAGATCTATAATCTTC
AGCCTGTTACCCTACTGCTTA
Found at i:16893819 original size:132 final size:133
Alignment explanation
Indices: 16893494--16893857 Score: 470
Period size: 133 Copynumber: 2.7 Consensus size: 133
16893484 GCTTAGGGGT
* * *
16893494 TAAGACTGGTGGTTTG-AATCTGCTCCATTGCCGATACATGGAGATAAGATTCGTCAAAATTTGA
1 TAAGACTGGTGG-CTGAAATCTGCTTCATTGCCGATACATGGAGATAAGATTCGCCAAAATTTGA
*
16893558 TCTGCTCCACTCCTGCTCAGCGAAGATAAGATCTAGAGTTTAGCCTGCTCCACTCCTGCTCAGTG
65 TCTGCTCCACTCCTGCTCAGCGAAGATAAGATCTAGAATTTAGCCTGCTCCACTCCTGCTCAGTG
16893623 AAGA
130 AAGA
** * **
16893627 TAAGACTGGTGGCTGAAATCTGC-TCTATTGCTAATACATGGAGATAAGATCCGCTGAAATTTGA
1 TAAGACTGGTGGCTGAAATCTGCTTC-ATTGCCGATACATGGAGATAAGATTCGCCAAAATTTGA
* * * * *
16893691 TCTGTTCCACTCCTGC-CAGTG-GGATGAGATCT-GCTACATTTAGCCTGTTCCACTCCTGCTCA
65 TCTGCTCCACTCCTGCTCAGCGAAGATAAGATCTAG--A-ATTTAGCCTGCTCCACTCCTGCTCA
*
16893753 GTG-GGA
127 GTGAAGA
* *
16893759 TAAGGCTTGTGGCTGAAATCTGCTTCATTGCCGATACATGGAGATAAGATTCGCCAAAATTTGAT
1 TAAGACTGGTGGCTGAAATCTGCTTCATTGCCGATACATGGAGATAAGATTCGCCAAAATTTGAT
* *
16893824 CTACTCCGCTCCTGCTCAGCGAAGATAAGATCTA
66 CTGCTCCACTCCTGCTCAGCGAAGATAAGATCTA
16893858 TCAAAATTTG
Statistics
Matches: 194, Mismatches: 28, Indels: 16
0.82 0.12 0.07
Matches are distributed among these distances:
130 1 0.01
131 9 0.05
132 77 0.40
133 98 0.51
134 9 0.05
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (133 bp):
TAAGACTGGTGGCTGAAATCTGCTTCATTGCCGATACATGGAGATAAGATTCGCCAAAATTTGAT
CTGCTCCACTCCTGCTCAGCGAAGATAAGATCTAGAATTTAGCCTGCTCCACTCCTGCTCAGTGA
AGA
Found at i:16893879 original size:178 final size:178
Alignment explanation
Indices: 16893683--16894124 Score: 706
Period size: 179 Copynumber: 2.5 Consensus size: 178
16893673 AGATCCGCTG
* *
16893683 AAATTTGATCTGTTCCACTCCTGCCAGTGGGATGAGATCTGCTACATTTAGCCTGTTCCACTCCT
1 AAATTTGATCTATTCCACTCCTGCCAGTGGGATGAGATCTGCTATATTTAGCCTGTTCCACTCCT
*
16893748 GCTCAGTGGGATAAGGCTTGTGGCTGAAATCTGCTTCATTGCCGATACATGGAGATAAGATTCGC
66 GCTCAGTGGGATAAGGCTTGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCGC
*
16893813 CAAAATTTGATCTACTCCGCTCCTGCTCAGCGAAGATAAGATCTATCA
131 CAAAATTTGATCTACTCCGCTCCTGATCAGCGAAGATAAGATCTATCA
* *
16893861 AAATTTGATCTATTCCACTCCAGCCAGTGGGATGAGATCTGCTGTATTTAGCCTGCTT-CACTCC
1 AAATTTGATCTATTCCACTCCTGCCAGTGGGATGAGATCTGCTATATTTAGCCTG-TTCCACTCC
* * * *
16893925 TGCTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGATATATGGAGGTAAGATTC
65 TGCTCAGTG-GGATAAGGCTTGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAGATTC
* * * *
16893990 GCCAAAATTTGATTTGCTCCGCTCCTGATCAGCGAAGATAAGATCTGTCG
129 GCCAAAATTTGATCTACTCCGCTCCTGATCAGCGAAGATAAGATCTATCA
* * *
16894040 AAATTTGATCTATTCCACTTCTGCCAGTAGGATGAGATTTGCTATATTTAGCCTGTTCCACTCCT
1 AAATTTGATCTATTCCACTCCTGCCAGTGGGATGAGATCTGCTATATTTAGCCTGTTCCACTCCT
16894105 GCTCAGTGGGATAAGGCTTG
66 GCTCAGTGGGATAAGGCTTG
16894125 CCGAAATCTG
Statistics
Matches: 240, Mismatches: 21, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
178 78 0.32
179 162 0.68
ACGTcount: A:0.24, C:0.23, G:0.22, T:0.31
Consensus pattern (178 bp):
AAATTTGATCTATTCCACTCCTGCCAGTGGGATGAGATCTGCTATATTTAGCCTGTTCCACTCCT
GCTCAGTGGGATAAGGCTTGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCGC
CAAAATTTGATCTACTCCGCTCCTGATCAGCGAAGATAAGATCTATCA
Found at i:16895397 original size:24 final size:24
Alignment explanation
Indices: 16895370--16895425 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 24
16895360 TTCGCCTTTG
*
16895370 TCTCTCCTTTGATTTTCTTTTCTT
1 TCTCTCCTTTGATTTTCTCTTCTT
** *
16895394 TCTCTTTTTTGTTTTTCTCTTCTT
1 TCTCTCCTTTGATTTTCTCTTCTT
16895418 T-T-TCCTTT
1 TCTCTCCTTT
16895426 TCCTTTTTTC
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
22 4 0.15
23 1 0.04
24 21 0.81
ACGTcount: A:0.02, C:0.23, G:0.04, T:0.71
Consensus pattern (24 bp):
TCTCTCCTTTGATTTTCTCTTCTT
Found at i:16895420 original size:12 final size:12
Alignment explanation
Indices: 16895405--16895446 Score: 57
Period size: 12 Copynumber: 3.4 Consensus size: 12
16895395 CTCTTTTTTG
16895405 TTTTTCTCTTCT
1 TTTTTCTCTTCT
* *
16895417 TTTTCCTTTTCCT
1 TTTTTCTCTT-CT
16895430 TTTTTCTCTTCT
1 TTTTTCTCTTCT
16895442 TTTTT
1 TTTTT
16895447 TTTGAAAGTG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
12 15 0.60
13 10 0.40
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTTTCTCTTCT
Found at i:16895426 original size:24 final size:24
Alignment explanation
Indices: 16895377--16895445 Score: 77
Period size: 24 Copynumber: 2.8 Consensus size: 24
16895367 TTGTCTCTCC
* * * *
16895377 TTTGATTTTCTTTTCTTTCTCTTT
1 TTTGTTTTTCTCTTCTTTTTCCTT
16895401 TTTGTTTTTCTCTTCTTTTTCCTT
1 TTTGTTTTTCTCTTCTTTTTCCTT
16895425 TTCCT-TTTTTCTCTTCTTTTT
1 TT--TGTTTTTCTCTTCTTTTT
16895446 TTTTGAAAGT
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
24 22 0.56
25 16 0.41
26 1 0.03
ACGTcount: A:0.01, C:0.20, G:0.03, T:0.75
Consensus pattern (24 bp):
TTTGTTTTTCTCTTCTTTTTCCTT
Found at i:16895445 original size:13 final size:13
Alignment explanation
Indices: 16895384--16895447 Score: 58
Period size: 13 Copynumber: 4.8 Consensus size: 13
16895374 TCCTTTGATT
16895384 TTCTTTTCTTTCTC
1 TTCTTTT-TTTCTC
*
16895398 TTTTTTGTTTTTCTC
1 -TTCTT-TTTTTCTC
* *
16895413 TTC-TTTTTCCTT
1 TTCTTTTTTTCTC
*
16895425 TTCCTTTTTTCTC
1 TTCTTTTTTTCTC
16895438 TTCTTTTTTT
1 TTCTTTTTTT
16895448 TTGAAAGTGA
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
12 9 0.22
13 17 0.43
14 2 0.05
15 10 0.25
16 2 0.05
ACGTcount: A:0.00, C:0.22, G:0.02, T:0.77
Consensus pattern (13 bp):
TTCTTTTTTTCTC
Found at i:16897993 original size:21 final size:21
Alignment explanation
Indices: 16897967--16898007 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
16897957 GCTGGCTCAT
*
16897967 CATGTTGTTCTGTGACTCCAG
1 CATGTTGTTCTGGGACTCCAG
*
16897988 CATGTTTTTCTGGGACTCCA
1 CATGTTGTTCTGGGACTCCA
16898008 ACATTTGATC
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:0.15, C:0.24, G:0.22, T:0.39
Consensus pattern (21 bp):
CATGTTGTTCTGGGACTCCAG
Found at i:16901742 original size:125 final size:126
Alignment explanation
Indices: 16901519--16901887 Score: 659
Period size: 125 Copynumber: 2.9 Consensus size: 126
16901509 GTTTTAGCCT
* * * *
16901519 TAAGAAGATATTCAAATATTCAAAACAAACAAAGAAAGTGAAACCCAGTACGTTAGGGCACGATT
1 TAAGAGGATATTCGAATATTCAAGACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACGATT
*
16901584 CTTTGAATTATTTAAATACCGAACATTGCCTTTATTTTGAAAATTTTTGAGAGTGAACTGG
66 CTTCGAATTATTTAAATACCGAACATTGCCTTTATTTTGAAAATTTTTGAGAGTGAACTGG
16901645 TAAGAGGATATTCGAATATTCAAGACAAACAAAGAAAGCGAAA-CCAGTACGTTAGGGCACGATT
1 TAAGAGGATATTCGAATATTCAAGACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACGATT
*
16901709 CTTCGAATTTTTTAAATACCGAACATTGCCTTTATTTTGAAAATTTTTGAGAGTGAACTGG
66 CTTCGAATTATTTAAATACCGAACATTGCCTTTATTTTGAAAATTTTTGAGAGTGAACTGG
16901770 TAAGAGGATATTCGAATATTCAAGACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACGATT
1 TAAGAGGATATTCGAATATTCAAGACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACGATT
* *
16901835 CTTCGAATTCTTTAAATACCGAACATTGCCTTTATTTTGAAAAATTTTGAGAG
66 CTTCGAATTATTTAAATACCGAACATTGCCTTTATTTTGAAAATTTTTGAGAG
16901888 AAGATAAATG
Statistics
Matches: 234, Mismatches: 8, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
125 123 0.53
126 111 0.47
ACGTcount: A:0.38, C:0.15, G:0.18, T:0.29
Consensus pattern (126 bp):
TAAGAGGATATTCGAATATTCAAGACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACGATT
CTTCGAATTATTTAAATACCGAACATTGCCTTTATTTTGAAAATTTTTGAGAGTGAACTGG
Found at i:16902020 original size:13 final size:12
Alignment explanation
Indices: 16901988--16902037 Score: 52
Period size: 13 Copynumber: 4.2 Consensus size: 12
16901978 AACCATATAT
16901988 AAATAA-TAA-A
1 AAATAATTAATA
16901998 AAATAA-TAATA
1 AAATAATTAATA
*
16902009 ATAGTAATTAATA
1 A-AATAATTAATA
16902022 GAAATAATTAATA
1 -AAATAATTAATA
16902035 AAA
1 AAA
16902038 CAACAGTAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
10 9 0.26
11 2 0.06
12 7 0.21
13 15 0.44
14 1 0.03
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.28
Consensus pattern (12 bp):
AAATAATTAATA
Found at i:16902360 original size:14 final size:14
Alignment explanation
Indices: 16902341--16902371 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
16902331 ATATATTTAC
*
16902341 ATAATAAATATATA
1 ATAATAAATAAATA
16902355 ATAATAAATAAATA
1 ATAATAAATAAATA
16902369 ATA
1 ATA
16902372 TAATAATATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (14 bp):
ATAATAAATAAATA
Found at i:16902372 original size:19 final size:18
Alignment explanation
Indices: 16902343--16902379 Score: 65
Period size: 19 Copynumber: 2.0 Consensus size: 18
16902333 ATATTTACAT
16902343 AATAAATATATAATAATA
1 AATAAATATATAATAATA
16902361 AATAAATAATATAATAATA
1 AATAAAT-ATATAATAATA
16902380 TGAAACATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (18 bp):
AATAAATATATAATAATA
Found at i:16902788 original size:18 final size:18
Alignment explanation
Indices: 16902765--16902800 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
16902755 ATAACAAGTA
16902765 GGGTGATGGAGTTAGTGG
1 GGGTGATGGAGTTAGTGG
16902783 GGGTGATGGAGTTAGTGG
1 GGGTGATGGAGTTAGTGG
16902801 ATGGTTTAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.17, C:0.00, G:0.56, T:0.28
Consensus pattern (18 bp):
GGGTGATGGAGTTAGTGG
Found at i:16902816 original size:29 final size:29
Alignment explanation
Indices: 16902783--16902882 Score: 103
Period size: 29 Copynumber: 3.2 Consensus size: 29
16902773 GAGTTAGTGG
16902783 GGGTGATGGAGTTAGTGGATGGTTTAGTA
1 GGGTGATGGAGTTAGTGGATGGTTTAGTA
*
16902812 GGGTGTGGGGGTGATGGAGGTAGTGGATGGTTTAGTA
1 --------GGGTGATGGAGTTAGTGGATGGTTTAGTA
16902849 GGGTGATGGAGTTAGTGG-TCGGTTTAGTA
1 GGGTGATGGAGTTAGTGGAT-GGTTTAGTA
16902878 GGGTG
1 GGGTG
16902883 TTTAATTTGG
Statistics
Matches: 60, Mismatches: 2, Indels: 10
0.83 0.03 0.14
Matches are distributed among these distances:
28 1 0.02
29 31 0.52
37 28 0.47
ACGTcount: A:0.17, C:0.01, G:0.50, T:0.32
Consensus pattern (29 bp):
GGGTGATGGAGTTAGTGGATGGTTTAGTA
Found at i:16902829 original size:37 final size:37
Alignment explanation
Indices: 16902779--16902853 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
16902769 GATGGAGTTA
*
16902779 GTGGGGGTGATGGAGTTAGTGGATGGTTTAGTAGGGT
1 GTGGGGGTGATGGAGGTAGTGGATGGTTTAGTAGGGT
16902816 GTGGGGGTGATGGAGGTAGTGGATGGTTTAGTAGGGT
1 GTGGGGGTGATGGAGGTAGTGGATGGTTTAGTAGGGT
16902853 G
1 G
16902854 ATGGAGTTAG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.16, C:0.00, G:0.53, T:0.31
Consensus pattern (37 bp):
GTGGGGGTGATGGAGGTAGTGGATGGTTTAGTAGGGT
Found at i:16903250 original size:85 final size:85
Alignment explanation
Indices: 16903120--16903498 Score: 525
Period size: 85 Copynumber: 4.4 Consensus size: 85
16903110 AACGAAAATA
*
16903120 AGATCTGT-AATTTTAGCCTGTTACCCTACTGCTTAGGAGGTTAAGGCGAGTCTTCGACCTGCTC
1 AGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGAGTCTTCGACCTGCTC
16903184 CACCACTGCTCGGAGAG-CC
66 CACCACTGCTCGGAGAGCCC
* * *
16903203 AGGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGCTAAGGCGAGTCTTTGACTTGCT
1 A-GATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGAGTCTTCGACCTGCT
*
16903268 CCACCACTGCTCGGCGAGCCC
65 CCACCACTGCTCGGAGAGCCC
* *
16903289 A-AGTCTGTAAACTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGTC-AGTCTTCGACTTGC
1 AGA-TCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGG-CGAGTCTTCGACCTGC
* * *
16903352 TTCGCCACTGCTCGGTGAGCCC
64 TCCACCACTGCTCGGAGAGCCC
* * *
16903374 AGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGTGTATCTTTGATCTGC
1 AGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGAG--TCTTCGACCTGC
*
16903439 TCCGCCACTGCTC-GACGAGCCC
64 TCCACCACTGCTCGGA-GAGCCC
* *
16903461 AGATCTGTAAATTTTAGCCTTTTACCCTACTACTTAGG
1 AGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGG
16903499 TATAACAGCC
Statistics
Matches: 266, Mismatches: 20, Indels: 16
0.88 0.07 0.05
Matches are distributed among these distances:
83 1 0.00
84 9 0.03
85 187 0.70
86 6 0.02
87 63 0.24
ACGTcount: A:0.20, C:0.27, G:0.23, T:0.30
Consensus pattern (85 bp):
AGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGAGTCTTCGACCTGCTC
CACCACTGCTCGGAGAGCCC
Found at i:16906975 original size:87 final size:86
Alignment explanation
Indices: 16906833--16907014 Score: 238
Period size: 87 Copynumber: 2.1 Consensus size: 86
16906823 ATTACATTAG
* * ** * *
16906833 GGGGTTAAGGCGTGTATCTTTGATCTGTTCCACTATTGCTTAGGGAGATAAGATCTATAATCTTC
1 GGGGTTAAAGCGTGTATCTTTGATCTGCTCCACTACCGCTTAAGGAGACAAGATCTATAATCTTC
* *
16906898 AGCTTGTTACCCTATTGCTTA
66 AGCCTGTTACCCTACTGCTTA
* * *
16906919 GGGAGTTAAAGCGTGTATCTTTGATCTGCTCCACTACCGCTTAAGGAGACAAGATCTGTAGTTTT
1 GGG-GTTAAAGCGTGTATCTTTGATCTGCTCCACTACCGCTTAAGGAGACAAGATCTATAATCTT
*
16906984 TAGCCTGTTACCCTACTGCTTA
65 CAGCCTGTTACCCTACTGCTTA
16907006 TGGGGTTAA
1 -GGGGTTAA
16907015 GACTGGTGGT
Statistics
Matches: 82, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
86 3 0.04
87 76 0.93
88 3 0.04
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.36
Consensus pattern (86 bp):
GGGGTTAAAGCGTGTATCTTTGATCTGCTCCACTACCGCTTAAGGAGACAAGATCTATAATCTTC
AGCCTGTTACCCTACTGCTTA
Found at i:16907338 original size:132 final size:133
Alignment explanation
Indices: 16907028--16907374 Score: 486
Period size: 133 Copynumber: 2.6 Consensus size: 133
16907018 TGGTGGTTTG
*
16907028 AATCTGCTCAATTGCCGATACATGGAGATAAGATTCGTCAAAATTTGATCTGCTCCACTCCTGCT
1 AATCTGCTCAATTGCCGATACATGGAGATAAGATTCGCCAAAATTTGATCTGCTCCACTCCTGCT
*
16907093 CAGCGAAGATAAGATCTAGAGTTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGACTGGTGAC
66 CAGCGAAGATAAGATCTAGAATTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGACTGGTGAC
16907158 TGA
131 TGA
* * ** *
16907161 AATCTGCTCTATTGCCGATACATGGAGATAAGATCCGCTGAAATTTGATCTGTTCCACTCCTGC-
1 AATCTGCTCAATTGCCGATACATGGAGATAAGATTCGCCAAAATTTGATCTGCTCCACTCCTGCT
* * * * * * *
16907225 CAGTG-GGATGAGATCT-GCTACATTTAGCCTGTTCCACTCCTGCTCAGTG-GGATAAGGCTTGT
66 CAGCGAAGATAAGATCTAG--A-ATTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGACTGGT
*
16907287 GGCTGA
128 GACTGA
* *
16907293 AATCTGCTCCATTGCCGATACATGGAGATAAGATTCGCCAAAATTTGATCTGCTCCGCTCCTGCT
1 AATCTGCTCAATTGCCGATACATGGAGATAAGATTCGCCAAAATTTGATCTGCTCCACTCCTGCT
16907358 CAGCGAAGATAAGATCT
66 CAGCGAAGATAAGATCT
16907375 GTCGAAATTT
Statistics
Matches: 185, Mismatches: 24, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
130 1 0.01
131 9 0.05
132 78 0.42
133 88 0.48
134 9 0.05
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (133 bp):
AATCTGCTCAATTGCCGATACATGGAGATAAGATTCGCCAAAATTTGATCTGCTCCACTCCTGCT
CAGCGAAGATAAGATCTAGAATTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGACTGGTGAC
TGA
Found at i:16907542 original size:179 final size:179
Alignment explanation
Indices: 16907186--16907640 Score: 729
Period size: 179 Copynumber: 2.6 Consensus size: 179
16907176 CGATACATGG
*
16907186 AGATAAGATCCG-CTGAAATTTGATCTGTTCCACTCCTGCCAGTGGGATGAGATCTGCTACATTT
1 AGATAAGATCTGTC-GAAATTTGATCTGTTCCACTCCTGCCAGTGGGATGAGATCTGCTACATTT
*
16907250 AGCCTGTTCCACTCCTGCTCAGTG-GGATAAGGCTTGTGGCTGAAATCTGCTCCATTGCCGATAC
65 AGCCTGTTCCACTCCTGCTCAGTGAGGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGATAC
*
16907314 ATGGAGATAAGATTCGCCAAAATTTGATCTGCTCCGCTCCTGCTCAGCGA
130 ATGGAGATAAGATTCGCCAAAATTTGATCTGCTCCGCTCCTGATCAGCGA
* *
16907364 AGATAAGATCTGTCGAAATTTGATCTGTTCCACTCCAGCCAGTGGGATGAGATCTGCTGCATTTA
1 AGATAAGATCTGTCGAAATTTGATCTGTTCCACTCCTGCCAGTGGGATGAGATCTGCTACATTTA
* *
16907429 GCCTGCTT-CACTCCTGCTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGATAT
66 GCCTG-TTCCACTCCTGCTCAGTGAGGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGATAC
*
16907493 ATGGAGGTAAGATTCGCCAAAATTTGATCTGCTCCGCTCCTGATCAGCGA
130 ATGGAGATAAGATTCGCCAAAATTTGATCTGCTCCGCTCCTGATCAGCGA
* * * * * * *
16907543 AGATAAGATCTGTCGAAATTTGATCTATTCCACTTCTGCTAGTAGGATGAGATTTTCTATATTTA
1 AGATAAGATCTGTCGAAATTTGATCTGTTCCACTCCTGCCAGTGGGATGAGATCTGCTACATTTA
16907608 GCCTGTTCCACTCCTGCTCAGT-AGGATAAGGCT
66 GCCTGTTCCACTCCTGCTCAGTGAGGATAAGGCT
16907641 TGCCGAAATC
Statistics
Matches: 255, Mismatches: 18, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
178 92 0.36
179 163 0.64
ACGTcount: A:0.24, C:0.23, G:0.23, T:0.30
Consensus pattern (179 bp):
AGATAAGATCTGTCGAAATTTGATCTGTTCCACTCCTGCCAGTGGGATGAGATCTGCTACATTTA
GCCTGTTCCACTCCTGCTCAGTGAGGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGATACA
TGGAGATAAGATTCGCCAAAATTTGATCTGCTCCGCTCCTGATCAGCGA
Found at i:16907545 original size:90 final size:88
Alignment explanation
Indices: 16907261--16907549 Score: 239
Period size: 89 Copynumber: 3.2 Consensus size: 88
16907251 GCCTGTTCCA
* *
16907261 CTCCTGCTCAGTG-GGATAAGGCTTGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAG
1 CTCCTGCTCAGCGAAGATAAGGC-TGTGGCTGAAATCTGCTCCATTGCCGATA-ATGGAGATAAG
16907325 ATTCGCCAAAATTTGATCTGCTCCG
64 ATTCGCCAAAATTTGATCTGCTCCG
* ** *** * * ** * *
16907350 CTCCTGCTCAGCGAAGATAAGATCTGTCGAAATTTGATCTGTTCCACT-CCAGCCAGTGG-GATG
1 CTCCTGCTCAGCGAAGATAAG-GCTGT-G-GCTGAAATCTGCTCCATTGCC-GATAATGGAGATA
*** * * *
16907413 AGA-TCTG-CTGCATTT-AGCCTGCTTCA
62 AGATTC-GCCAAAATTTGA-TCTGCTCCG
* *
16907439 CTCCTGCTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGATATATGGAGGTAAG
1 CTCCTGCTCAGCGAAGATAAGGCT-GTGGCTGAAATCTGCTCCATTGCCGATA-ATGGAGATAAG
16907504 ATTCGCCAAAATTTGATCTGCTCCG
64 ATTCGCCAAAATTTGATCTGCTCCG
*
16907529 CTCCTGATCAGCGAAGATAAG
1 CTCCTGCTCAGCGAAGATAAG
16907550 ATCTGTCGAA
Statistics
Matches: 144, Mismatches: 42, Indels: 27
0.68 0.20 0.13
Matches are distributed among these distances:
87 13 0.09
88 9 0.06
89 53 0.37
90 48 0.33
91 8 0.06
92 13 0.09
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.28
Consensus pattern (88 bp):
CTCCTGCTCAGCGAAGATAAGGCTGTGGCTGAAATCTGCTCCATTGCCGATAATGGAGATAAGAT
TCGCCAAAATTTGATCTGCTCCG
Found at i:16909136 original size:29 final size:29
Alignment explanation
Indices: 16909093--16909162 Score: 97
Period size: 29 Copynumber: 2.4 Consensus size: 29
16909083 GGTGATGGAG
16909093 TTAGTGGGGATGATGGAGGTAGTGGAT-GGT
1 TTAGTGGGG-TGATGGAGGTAGTGG-TCGGT
* *
16909123 TTAGTAGGGTGATGGAGTTAGTGGTCGGT
1 TTAGTGGGGTGATGGAGGTAGTGGTCGGT
16909152 TTAGTGGGGTG
1 TTAGTGGGGTG
16909163 TTTAATTTGG
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
28 1 0.03
29 27 0.75
30 8 0.22
ACGTcount: A:0.17, C:0.01, G:0.49, T:0.33
Consensus pattern (29 bp):
TTAGTGGGGTGATGGAGGTAGTGGTCGGT
Found at i:16914926 original size:20 final size:20
Alignment explanation
Indices: 16914889--16914926 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
16914879 TGATGGGGAG
*
16914889 CAAGAATATCAAGTTGGATT
1 CAAGAATATCAAGCTGGATT
16914909 CAAGAA-ATCGAAGCTGGA
1 CAAGAATATC-AAGCTGGA
16914927 GGAGAGAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.42, C:0.13, G:0.24, T:0.21
Consensus pattern (20 bp):
CAAGAATATCAAGCTGGATT
Found at i:16916828 original size:46 final size:46
Alignment explanation
Indices: 16916776--16917049 Score: 433
Period size: 46 Copynumber: 6.0 Consensus size: 46
16916766 AGTGTGCTCT
* *
16916776 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATATCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
16916822 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
16916868 CTAATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
16916914 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
16916960 CTGATATGGAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
16917006 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
16917050 TCATGTCAAA
Statistics
Matches: 213, Mismatches: 14, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
45 1 0.00
46 212 1.00
ACGTcount: A:0.38, C:0.15, G:0.24, T:0.23
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:16917733 original size:33 final size:32
Alignment explanation
Indices: 16917652--16917733 Score: 83
Period size: 33 Copynumber: 2.5 Consensus size: 32
16917642 ATGTCAATGT
* *
16917652 TTGAATGTAAGACCATAGCTGAGCTATGACAT
1 TTGAATGTAAGACCATAACTGAGCTATGACAC
* * * *
16917684 TTTAATGAAAAGACCATAACTGGGTTATGACACC
1 TTGAATG-TAAGACCATAACTGAGCTATGACA-C
*
16917718 TTGAATGTAATACCAT
1 TTGAATGTAAGACCAT
16917734 GGTTGGACCA
Statistics
Matches: 39, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
32 6 0.15
33 27 0.69
34 6 0.15
ACGTcount: A:0.37, C:0.16, G:0.18, T:0.29
Consensus pattern (32 bp):
TTGAATGTAAGACCATAACTGAGCTATGACAC
Found at i:16917820 original size:33 final size:33
Alignment explanation
Indices: 16917761--16917838 Score: 86
Period size: 33 Copynumber: 2.4 Consensus size: 33
16917751 ATATGTATAC
* *
16917761 GTGTAAGACCATAGTTGGCCTATGGCATCCTGA
1 GTGTAAGACCATAATTGGCCTATGGCATCATGA
** * *
16917794 -TGATAAGACCATAATTGGGTTTTGGCATTATGA
1 GTG-TAAGACCATAATTGGCCTATGGCATCATGA
16917827 GTGTAAGACCAT
1 GTGTAAGACCAT
16917839 GGCAGGGCCA
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
32 2 0.05
33 33 0.89
34 2 0.05
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.31
Consensus pattern (33 bp):
GTGTAAGACCATAATTGGCCTATGGCATCATGA
Found at i:16917850 original size:105 final size:105
Alignment explanation
Indices: 16917657--16917850 Score: 221
Period size: 105 Copynumber: 1.8 Consensus size: 105
16917647 AATGTTTGAA
**
16917657 TGTAAGACCATAGCTGAGCTATGACATTTTAATGAAAAGACCATAACTGGGTTATGACACCTTGA
1 TGTAAGACCATAGCTGAGCTATGACATCCTAATGAAAAGACCATAACTGGGTTATGACACCTTGA
* **
16917722 ATGTAATACCATGGTTGGACCATGGCAGAATATGTATACG
66 ATGTAAGACCATGGCAGGACCATGGCAGAATATGTATACG
* * * * * * * *
16917762 TGTAAGACCATAGTTG-GCCTATGGCATCCTGATGATAAGACCATAATTGGGTTTTGGCA-TTAT
1 TGTAAGACCATAGCTGAG-CTATGACATCCTAATGAAAAGACCATAACTGGGTTATGACACCT-T
* *
16917825 GAGTGTAAGACCATGGCAGGGCCATG
64 GAATGTAAGACCATGGCAGGACCATG
16917851 ACAATTGTGC
Statistics
Matches: 72, Mismatches: 15, Indels: 4
0.79 0.16 0.04
Matches are distributed among these distances:
104 2 0.03
105 70 0.97
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.28
Consensus pattern (105 bp):
TGTAAGACCATAGCTGAGCTATGACATCCTAATGAAAAGACCATAACTGGGTTATGACACCTTGA
ATGTAAGACCATGGCAGGACCATGGCAGAATATGTATACG
Found at i:16936756 original size:4 final size:4
Alignment explanation
Indices: 16936749--16936780 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
16936739 CAAATAATAA
*
16936749 ATAC ATAC ATAC ATAC ATAC ATAC ATAT ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
16936781 GAACATGTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.50, C:0.22, G:0.00, T:0.28
Consensus pattern (4 bp):
ATAC
Found at i:16938273 original size:12 final size:11
Alignment explanation
Indices: 16938256--16938295 Score: 53
Period size: 12 Copynumber: 3.5 Consensus size: 11
16938246 GAAAAGCAGG
16938256 GAAAGAAAGAAA
1 GAAAGAAAG-AA
*
16938268 GAAAGAAAGGA
1 GAAAGAAAGAA
16938279 GAAAAGAAAGAA
1 G-AAAGAAAGAA
16938291 GAAAG
1 GAAAG
16938296 GGAAAATTGG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
11 6 0.24
12 19 0.76
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (11 bp):
GAAAGAAAGAA
Found at i:16938286 original size:20 final size:18
Alignment explanation
Indices: 16938261--16938301 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 18
16938251 GCAGGGAAAG
16938261 AAAGAAAGAAAGAAAGGAGA
1 AAAGAAAG-AAGAAAGG-GA
16938281 AAAGAAAGAAGAAAGGGA
1 AAAGAAAGAAGAAAGGGA
16938299 AAA
1 AAA
16938302 TTGGTTTGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 5 0.24
19 8 0.38
20 8 0.38
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (18 bp):
AAAGAAAGAAGAAAGGGA
Found at i:16938988 original size:16 final size:13
Alignment explanation
Indices: 16938953--16938978 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
16938943 TTTGAATTGG
16938953 ATTGAATATTGAT
1 ATTGAATATTGAT
16938966 ATTGAATATTGAT
1 ATTGAATATTGAT
16938979 TATATTGAAT
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:0.38, C:0.00, G:0.15, T:0.46
Consensus pattern (13 bp):
ATTGAATATTGAT
Found at i:16939188 original size:19 final size:20
Alignment explanation
Indices: 16939166--16939213 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 20
16939156 AATTATATTG
*
16939166 AATTGAAAAAAATAT-AGTT
1 AATTGAAAAAAATATGAATT
*
16939185 AATT-AATTAAAATATGAATT
1 AATTGAA-AAAAATATGAATT
16939205 AATTGAAAA
1 AATTGAAAA
16939214 CTGGAAAGTG
Statistics
Matches: 23, Mismatches: 3, Indels: 5
0.74 0.10 0.16
Matches are distributed among these distances:
18 2 0.09
19 11 0.48
20 8 0.35
21 2 0.09
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.33
Consensus pattern (20 bp):
AATTGAAAAAAATATGAATT
Found at i:16939346 original size:12 final size:12
Alignment explanation
Indices: 16939329--16939353 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
16939319 ACCGACTACT
16939329 GTTACTGTTACC
1 GTTACTGTTACC
16939341 GTTACTGTTACC
1 GTTACTGTTACC
16939353 G
1 G
16939354 ATTCGGCACT
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:0.16, C:0.24, G:0.20, T:0.40
Consensus pattern (12 bp):
GTTACTGTTACC
Found at i:16939390 original size:6 final size:6
Alignment explanation
Indices: 16939379--16939406 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
16939369 TGTCGGATAT
16939379 TGTTAC TGTTAC TGTTAC TGTTAC TGTT
1 TGTTAC TGTTAC TGTTAC TGTTAC TGTT
16939407 CTGGATTTGT
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:0.14, C:0.14, G:0.18, T:0.54
Consensus pattern (6 bp):
TGTTAC
Found at i:16939628 original size:18 final size:18
Alignment explanation
Indices: 16939575--16939642 Score: 73
Period size: 18 Copynumber: 3.7 Consensus size: 18
16939565 AAAGATCGAC
*
16939575 TGTTACTGAATAATTTAAT
1 TGTTACTGAATAA-TTGAT
* *
16939594 TGTTACTGTATATTTGAT
1 TGTTACTGAATAATTGAT
* *
16939612 TTTTACTGAATAATTGAC
1 TGTTACTGAATAATTGAT
*
16939630 TGTTACTGGATAA
1 TGTTACTGAATAA
16939643 CCGATCAATT
Statistics
Matches: 40, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
18 29 0.73
19 11 0.28
ACGTcount: A:0.31, C:0.07, G:0.15, T:0.47
Consensus pattern (18 bp):
TGTTACTGAATAATTGAT
Found at i:16944305 original size:15 final size:15
Alignment explanation
Indices: 16944285--16944314 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
16944275 TTTAATCCCT
*
16944285 TATAAATTATAAAAA
1 TATAAACTATAAAAA
16944300 TATAAACTATAAAAA
1 TATAAACTATAAAAA
16944315 ATTAAAAATT
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:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (15 bp):
TATAAACTATAAAAA
Found at i:16945994 original size:27 final size:27
Alignment explanation
Indices: 16945963--16946015 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
16945953 TTTATTTTTG
*
16945963 AAGGATATTATAATATTAAAATAAAAT
1 AAGGATAATATAATATTAAAATAAAAT
16945990 AAGGATAATATAATATTAAAATAAAA
1 AAGGATAATATAATATTAAAATAAAA
16946016 ATCTTAAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.30
Consensus pattern (27 bp):
AAGGATAATATAATATTAAAATAAAAT
Found at i:16945997 original size:22 final size:22
Alignment explanation
Indices: 16945972--16946013 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
16945962 GAAGGATATT
16945972 ATAATATTAA-AATAAAATAAGG
1 ATAATA-TAATAATAAAATAAGG
*
16945994 ATAATATAATATTAAAATAA
1 ATAATATAATAATAAAATAA
16946014 AAATCTTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 3 0.17
22 15 0.83
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (22 bp):
ATAATATAATAATAAAATAAGG
Found at i:16957886 original size:35 final size:35
Alignment explanation
Indices: 16957835--16958113 Score: 305
Period size: 35 Copynumber: 8.0 Consensus size: 35
16957825 CGGTTCACAA
** *
16957835 CTCAGTATGGTTAATACCATACCTAGGTTTCATAG
1 CTCAGTATGGACAATACCATACCTACGTTTCATAG
* * *
16957870 CTCAGTATGGACAATACCATACCTATGTTTCACAA
1 CTCAGTATGGACAATACCATACCTACGTTTCATAG
*
16957905 CTCTGTATGGGA-AATACCATACCTACGTATT-ATAG
1 CTCAGTAT-GGACAATACCATACCTACGT-TTCATAG
* * *
16957940 CTCGGCATGGATAATACCATACCTACGTTTCATAG
1 CTCAGTATGGACAATACCATACCTACGTTTCATAG
* * * * *
16957975 CTCATTATGGACAACACCATACCTGCGTTTCACAA
1 CTCAGTATGGACAATACCATACCTACGTTTCATAG
* *
16958010 CTCGGTATGAGA-AATACCATACATACGTATT-ATAG
1 CTCAGTATG-GACAATACCATACCTACGT-TTCATAG
* * *
16958045 CTCGGTATGGATAATACCATACCTACGTGTCATAG
1 CTCAGTATGGACAATACCATACCTACGTTTCATAG
*
16958080 CTCAGTATGGACAATACCATACCTACGTGTCATA
1 CTCAGTATGGACAATACCATACCTACGTTTCATA
16958114 ACTTTTCCAT
Statistics
Matches: 206, Mismatches: 30, Indels: 16
0.82 0.12 0.06
Matches are distributed among these distances:
34 8 0.04
35 189 0.92
36 9 0.04
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.29
Consensus pattern (35 bp):
CTCAGTATGGACAATACCATACCTACGTTTCATAG
Found at i:16958028 original size:105 final size:105
Alignment explanation
Indices: 16957841--16958116 Score: 435
Period size: 105 Copynumber: 2.6 Consensus size: 105
16957831 ACAACTCAGT
* * *
16957841 ATGGTTAATACCATACCTAGGTTTCATAGCTCAGTATGGACAATACCATACCTATGTTTCACAAC
1 ATGGATAATACCATACCTACGTTTCATAGCTCAGTATGGACAATACCATACCTACGTTTCACAAC
* * *
16957906 TCTGTATGGGAAATACCATACCTACGTATTATAGCTCGGC
66 TCGGTATGAGAAATACCATACATACGTATTATAGCTCGGC
* * *
16957946 ATGGATAATACCATACCTACGTTTCATAGCTCATTATGGACAACACCATACCTGCGTTTCACAAC
1 ATGGATAATACCATACCTACGTTTCATAGCTCAGTATGGACAATACCATACCTACGTTTCACAAC
*
16958011 TCGGTATGAGAAATACCATACATACGTATTATAGCTCGGT
66 TCGGTATGAGAAATACCATACATACGTATTATAGCTCGGC
* * *
16958051 ATGGATAATACCATACCTACGTGTCATAGCTCAGTATGGACAATACCATACCTACGTGTCATAAC
1 ATGGATAATACCATACCTACGTTTCATAGCTCAGTATGGACAATACCATACCTACGTTTCACAAC
16958116 T
66 T
16958117 TTTCCATGGA
Statistics
Matches: 155, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
105 155 1.00
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.29
Consensus pattern (105 bp):
ATGGATAATACCATACCTACGTTTCATAGCTCAGTATGGACAATACCATACCTACGTTTCACAAC
TCGGTATGAGAAATACCATACATACGTATTATAGCTCGGC
Found at i:16960210 original size:14 final size:17
Alignment explanation
Indices: 16960179--16960215 Score: 53
Period size: 14 Copynumber: 2.4 Consensus size: 17
16960169 ATTATAAAGG
16960179 ATATTATTAAATTAATT
1 ATATTATTAAATTAATT
16960196 ATATTA-TAAA-T-ATT
1 ATATTATTAAATTAATT
16960210 ATATTA
1 ATATTA
16960216 AGAAATAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 9 0.45
15 1 0.05
16 4 0.20
17 6 0.30
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
ATATTATTAAATTAATT
Found at i:16960391 original size:14 final size:14
Alignment explanation
Indices: 16960365--16960415 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
16960355 GAAAACAAAA
16960365 GAAATAAAATAAAG
1 GAAATAAAATAAAG
*
16960379 GAAATAAAGTAAAG
1 GAAATAAAATAAAG
* * *
16960393 TAAGTTAAAATAAAA
1 GAA-ATAAAATAAAG
16960408 G-AATAAAA
1 GAAATAAAA
16960416 GAAACAAAAG
Statistics
Matches: 29, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
13 5 0.17
14 16 0.55
15 8 0.28
ACGTcount: A:0.69, C:0.00, G:0.14, T:0.18
Consensus pattern (14 bp):
GAAATAAAATAAAG
Found at i:16960426 original size:17 final size:16
Alignment explanation
Indices: 16960404--16960437 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
16960394 AAGTTAAAAT
16960404 AAAAGAATAAAAGAAAC
1 AAAAGAA-AAAAGAAAC
*
16960421 AAAAGAAGAAAGAAAC
1 AAAAGAAAAAAGAAAC
16960437 A
1 A
16960438 GAATAGCCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.76, C:0.06, G:0.15, T:0.03
Consensus pattern (16 bp):
AAAAGAAAAAAGAAAC
Found at i:16961584 original size:37 final size:39
Alignment explanation
Indices: 16961525--16961620 Score: 108
Period size: 39 Copynumber: 2.5 Consensus size: 39
16961515 CGGATAGATT
* * * *
16961525 CGATGAGGTACTGGGTACCAACT-TT-CTTCG-GCTTTGC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTAT-C
* *
16961562 CGATGAGACACTGGGTGTCAACTATTGCTTCGAACTATC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
16961601 CGATGAGGCACTGGGTGCCA
1 CGATGAGGCACTGGGTGCCA
16961621 TTCTGGTGTG
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
37 19 0.40
38 2 0.04
39 24 0.50
40 3 0.06
ACGTcount: A:0.21, C:0.24, G:0.28, T:0.27
Consensus pattern (39 bp):
CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
Done.