Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A01
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: 115637255
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5450143 characters in sequence are not A, C, G, or T
File 92 of 349
Found at i:28138695 original size:5 final size:5
Alignment explanation
Indices: 28138685--28138745 Score: 54
Period size: 5 Copynumber: 12.0 Consensus size: 5
28138675 CCTTTGAGTC
* *
28138685 ATTTT ATTTT ATTATT ATTACT ATTTT -TTTA ATTTT AATTTT ATTTT
1 ATTTT ATTTT ATT-TT ATT-TT ATTTT ATTTT ATTTT -ATTTT ATTTT
*
28138732 CTTTT A-TTT ATTTT
1 ATTTT ATTTT ATTTT
28138746 TGAAGACATG
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
4 7 0.15
5 24 0.52
6 15 0.33
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (5 bp):
ATTTT
Found at i:28140536 original size:21 final size:20
Alignment explanation
Indices: 28140511--28140552 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
28140501 CATAGAAAGG
*
28140511 CAAAAAGAGTAAGAAATGGGC
1 CAAAAACAG-AAGAAATGGGC
*
28140532 CAAAAACAGATGAAATGGGC
1 CAAAAACAGAAGAAATGGGC
28140552 C
1 C
28140553 TAATTCAGTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.50, C:0.14, G:0.26, T:0.10
Consensus pattern (20 bp):
CAAAAACAGAAGAAATGGGC
Found at i:28142648 original size:33 final size:33
Alignment explanation
Indices: 28142598--28142726 Score: 116
Period size: 33 Copynumber: 3.8 Consensus size: 33
28142588 ATTTTCTTTA
* *
28142598 TGCCATAGTCCAACTATGGTCTTACACTTGTAT
1 TGCCATAGCCCAGCTATGGTCTTACACTTGTAT
* * * *
28142631 TGCCATGGCCCAGCTATGGTCTTACTCATGTAG
1 TGCCATAGCCCAGCTATGGTCTTACACTTGTAT
* * * * *
28142664 TGCCATATCCTAGATATTGTCTTATCATCTT-CAT
1 TGCCATAGCCCAGCTATGGTCTTA-CA-CTTGTAT
28142698 GATGCCATAGCCCAGCTATGGTCTTACAC
1 --TGCCATAGCCCAGCTATGGTCTTACAC
28142727 GTGCACATAT
Statistics
Matches: 73, Mismatches: 19, Indels: 7
0.74 0.19 0.07
Matches are distributed among these distances:
33 46 0.63
34 3 0.04
35 4 0.05
36 20 0.27
ACGTcount: A:0.22, C:0.26, G:0.17, T:0.34
Consensus pattern (33 bp):
TGCCATAGCCCAGCTATGGTCTTACACTTGTAT
Found at i:28145304 original size:14 final size:16
Alignment explanation
Indices: 28145287--28145320 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
28145277 CCTGTCTTTA
28145287 TTTTCTTT-A-TTTGT
1 TTTTCTTTAATTTTGT
28145301 TTTTCTTTAATTTTGT
1 TTTTCTTTAATTTTGT
28145317 TTTT
1 TTTT
28145321 ACGATTTTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 8 0.44
15 1 0.06
16 9 0.50
ACGTcount: A:0.09, C:0.06, G:0.06, T:0.79
Consensus pattern (16 bp):
TTTTCTTTAATTTTGT
Found at i:28147667 original size:17 final size:17
Alignment explanation
Indices: 28147645--28147678 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
28147635 TAAATTCTAG
28147645 TAGCTATAAGAA-TCAAA
1 TAGCTAT-AGAATTCAAA
28147662 TAGCTATAGAATTCAAA
1 TAGCTATAGAATTCAAA
28147679 ACTAGAGGTC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.50, C:0.12, G:0.12, T:0.26
Consensus pattern (17 bp):
TAGCTATAGAATTCAAA
Found at i:28148157 original size:20 final size:20
Alignment explanation
Indices: 28148132--28148176 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
28148122 AGGGACTAAA
* *
28148132 ATGAAAAGTTGTAAAATTTG
1 ATGAAAAATTCTAAAATTTG
*
28148152 ATGAAAAATTCTAAAATTTT
1 ATGAAAAATTCTAAAATTTG
28148172 ATGAA
1 ATGAA
28148177 TACATATGCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.49, C:0.02, G:0.13, T:0.36
Consensus pattern (20 bp):
ATGAAAAATTCTAAAATTTG
Found at i:28150605 original size:30 final size:30
Alignment explanation
Indices: 28150570--28150626 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
28150560 TAGGTACTTC
* *
28150570 TACACGGGTAATCCACACGCCCGTGTGAGG
1 TACACGGGCAAGCCACACGCCCGTGTGAGG
* *
28150600 TACACGGGCAGGCCACACGCTCGTGTG
1 TACACGGGCAAGCCACACGCCCGTGTG
28150627 TCATGATCGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.21, C:0.32, G:0.32, T:0.16
Consensus pattern (30 bp):
TACACGGGCAAGCCACACGCCCGTGTGAGG
Found at i:28163675 original size:27 final size:27
Alignment explanation
Indices: 28163645--28163757 Score: 138
Period size: 27 Copynumber: 4.2 Consensus size: 27
28163635 GGCAAAATGA
* *
28163645 TAATTTTACCCCACAAGGGTATCTCGG
1 TAATTTTACCCTACAAGGGTATTTCGG
* * *
28163672 TAATTTTACCCTATAGGGGTATTTCGA
1 TAATTTTACCCTACAAGGGTATTTCGG
*
28163699 T-ATTTCTACCCTACAAGGGTATTTTGG
1 TAATTT-TACCCTACAAGGGTATTTCGG
* *
28163726 TAATTTTATCCTACAAGGGTATTTTGG
1 TAATTTTACCCTACAAGGGTATTTCGG
28163753 TAATT
1 TAATT
28163758 CTACAACTTA
Statistics
Matches: 74, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
26 4 0.05
27 66 0.89
28 4 0.05
ACGTcount: A:0.26, C:0.17, G:0.18, T:0.40
Consensus pattern (27 bp):
TAATTTTACCCTACAAGGGTATTTCGG
Found at i:28176035 original size:27 final size:26
Alignment explanation
Indices: 28175979--28176035 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 26
28175969 CAACCTTAAC
* *
28175979 CCTAAGGGTATATCAGTAATTTTACT
1 CCTAAGGGTAAATCAGTAATTTTACA
* * *
28176005 CCTAGGGGTAAATCTGTAAATTTTCCA
1 CCTAAGGGTAAATCAGT-AATTTTACA
28176032 CCTA
1 CCTA
28176036 TAAAGGTGTT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
26 14 0.56
27 11 0.44
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.35
Consensus pattern (26 bp):
CCTAAGGGTAAATCAGTAATTTTACA
Found at i:28180284 original size:66 final size:70
Alignment explanation
Indices: 28180147--28180287 Score: 184
Period size: 66 Copynumber: 2.1 Consensus size: 70
28180137 TCACCAAATA
* * *
28180147 CAGATATTGTGGCTAGGCCACCAGAACAGAGATATATATGTGGCGAAGCCATCAGATTGCAGCGA
1 CAGATATTGTGACAAAGCCACCAGAACA-AGATATATATGTGGCGAAGCCATCAGATTGCAGCGA
28180212 GGCTGC
65 GGCTGC
* *
28180218 CAGATATTGTGACAAAGTCACCAGAAC-AGATA-A-ATGTGGCG-AGCCA-CTGGATTGCAGCGA
1 CAGATATTGTGACAAAGCCACCAGAACAAGATATATATGTGGCGAAGCCATC-AGATTGCAGCGA
28180278 GGCTGC
65 GGCTGC
28180284 CAGA
1 CAGA
28180288 ACGCTTCCTC
Statistics
Matches: 64, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
65 1 0.02
66 26 0.41
67 8 0.12
68 1 0.02
69 5 0.08
71 23 0.36
ACGTcount: A:0.31, C:0.21, G:0.29, T:0.18
Consensus pattern (70 bp):
CAGATATTGTGACAAAGCCACCAGAACAAGATATATATGTGGCGAAGCCATCAGATTGCAGCGAG
GCTGC
Found at i:28191039 original size:10 final size:11
Alignment explanation
Indices: 28191013--28191038 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
28191003 CTTTTGTCCC
28191013 TTTTTGGCTCA
1 TTTTTGGCTCA
28191024 TTTTTGGCTCA
1 TTTTTGGCTCA
28191035 TTTT
1 TTTT
28191039 GACTCTTGGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.08, C:0.15, G:0.15, T:0.62
Consensus pattern (11 bp):
TTTTTGGCTCA
Found at i:28198107 original size:20 final size:20
Alignment explanation
Indices: 28198093--28198131 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
28198083 TGAAAAGTTG
28198093 TAAAATTTGATGAAACATTC
1 TAAAATTTGATGAAACATTC
*
28198113 TAAAATTTTATGAATACAT
1 TAAAATTTGATGAA-ACAT
28198132 GTGCTGGAAA
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:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (20 bp):
TAAAATTTGATGAAACATTC
Found at i:28201646 original size:40 final size:40
Alignment explanation
Indices: 28201572--28201745 Score: 282
Period size: 40 Copynumber: 4.4 Consensus size: 40
28201562 AACCCAAGTA
* *
28201572 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
* *
28201611 CCTTCGGGTCTTAGCCCGGATATAGTCATTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
28201651 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
28201691 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
28201731 CCTTC-GGACTTAGCC
1 CCTTCGGGACTTAGCC
28201746 AGATATCATT
Statistics
Matches: 127, Mismatches: 6, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
39 22 0.17
40 104 0.82
41 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:28205703 original size:18 final size:20
Alignment explanation
Indices: 28205668--28205707 Score: 66
Period size: 18 Copynumber: 2.1 Consensus size: 20
28205658 TAAAGCTGCA
28205668 CACTAATCCCAGGTGTTCAG
1 CACTAATCCCAGGTGTTCAG
28205688 CACTAAT-CCA-GTGTTCAG
1 CACTAATCCCAGGTGTTCAG
28205706 CA
1 CA
28205708 TGATCGGTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 10 0.50
19 3 0.15
20 7 0.35
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.25
Consensus pattern (20 bp):
CACTAATCCCAGGTGTTCAG
Found at i:28310580 original size:37 final size:37
Alignment explanation
Indices: 28310523--28310624 Score: 110
Period size: 37 Copynumber: 2.8 Consensus size: 37
28310513 TTATTGAATG
28310523 ATAT-CGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGT-CCGAAGGCATTTGTGC-A-TGACT
28310562 A-AT-C-GGCTAAGTCACGAAGGCA-TTGTG-ATGACT
1 ATATCCGGGCTAAGTC-CGAAGGCATTTGTGCATGACT
*
28310595 ATATCCGGGCTAA-ACCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGTCCGAAGGCATTTGTGC
28310625 GAGTTGCTTA
Statistics
Matches: 56, Mismatches: 1, Indels: 15
0.78 0.01 0.21
Matches are distributed among these distances:
33 6 0.11
34 11 0.20
35 7 0.12
36 12 0.21
37 16 0.29
38 3 0.05
39 1 0.02
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (37 bp):
ATATCCGGGCTAAGTCCGAAGGCATTTGTGCATGACT
Found at i:28314567 original size:40 final size:40
Alignment explanation
Indices: 28314484--28314667 Score: 234
Period size: 40 Copynumber: 4.7 Consensus size: 40
28314474 TTTGAATATG
* * * *
28314484 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
28314524 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
28314564 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
28314604 T-CGGGTTAAGTCCCGAAGGCATTTGTGCGAG-TACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
28314643 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
28314668 AACGAGTAGC
Statistics
Matches: 130, Mismatches: 9, Indels: 11
0.87 0.06 0.07
Matches are distributed among these distances:
38 5 0.04
39 55 0.42
40 62 0.48
41 8 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:28314620 original size:39 final size:39
Alignment explanation
Indices: 28314537--28314667 Score: 210
Period size: 39 Copynumber: 3.3 Consensus size: 39
28314527 GGACTAAGAT
28314537 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTAAAT-CGGGTTAAGTC
28314577 CCGAAGGCATTTGTGCGAGTTACTAAATCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTAAATCGGGTTAAGTC
* * *
28314616 CCGAAGGCATTTGTGCGAG-TACTATAACCGGGCTATGTC
1 CCGAAGGCATTTGTGCGAGTTACTA-AATCGGGTTAAGTC
28314655 CCGAAGGCATTTG
1 CCGAAGGCATTTG
28314668 AACGAGTAGC
Statistics
Matches: 87, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
38 5 0.06
39 54 0.62
40 28 0.32
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (39 bp):
CCGAAGGCATTTGTGCGAGTTACTAAATCGGGTTAAGTC
Found at i:28314635 original size:79 final size:81
Alignment explanation
Indices: 28314484--28314667 Score: 236
Period size: 78 Copynumber: 2.3 Consensus size: 81
28314474 TTTGAATATG
*
28314484 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
28314548 TGTGCGAGTTACTA-AA
66 TGTGCGAG-TACTATAA
* * * * **
28314564 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAAT-CGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
28314626 TTGTGCGAGTACTATAA
65 TTGTGCGAGTACTATAA
*
28314643 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
28314668 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 29 0.32
79 28 0.30
80 28 0.30
81 7 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTACTATAA
Found at i:28314689 original size:78 final size:79
Alignment explanation
Indices: 28314484--28314699 Score: 217
Period size: 78 Copynumber: 2.7 Consensus size: 79
28314474 TTTGAATATG
** * * * * *
28314484 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGAAC-GAGTTACTAAATCCGG-TTAA-ATCCCGAAGGCAT
28314547 TTGTGCGAGTTACTAAA
63 TTGTGCGAGTTACTAAA
* ** * *
28314564 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCGGGTTAAGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTTACTAAATCCGGTTAAATCCCGAAGGCATTTG
28314629 TGCGAG-TACTATAA
66 TGCGAGTTACTA-AA
* * *
28314643 -CCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATATCCGGTTAAATTCCGAAG
1 TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTTA-CTAAATCCGGTTAAATCCCGAAG
28314700 TACGTGTGAT
Statistics
Matches: 116, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
77 2 0.02
78 52 0.45
79 24 0.21
80 31 0.27
81 7 0.06
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTTACTAAATCCGGTTAAATCCCGAAGGCATTTG
TGCGAGTTACTAAA
Found at i:28322585 original size:40 final size:40
Alignment explanation
Indices: 28322502--28322687 Score: 243
Period size: 40 Copynumber: 4.7 Consensus size: 40
28322492 TTGAATGATG
* * * *
28322502 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
28322542 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
28322582 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
**
28322622 TCCGGATTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
28322663 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
28322688 AACGAGTAGC
Statistics
Matches: 131, Mismatches: 11, Indels: 8
0.87 0.07 0.05
Matches are distributed among these distances:
39 1 0.01
40 120 0.92
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:28322694 original size:80 final size:79
Alignment explanation
Indices: 28322502--28322720 Score: 232
Period size: 80 Copynumber: 2.7 Consensus size: 79
28322492 TTGAATGATG
** * * * *
28322502 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGT-GACCATATCCGGACTAAGATCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGAAC-GAGTAG-CTAAATCCGGATTAAG-TCCGAAGGCAT
28322565 TTGTGCGAGTTACTAAA
63 TTGTGCGAGTTACTAAA
* **
28322582 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTAAATCCGGATTAAGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGAACGAG-TAGCTAAATCCGGATTAAGT-CCGAAGGCATT
28322646 TGTGCGAGTTACTATAA
64 TGTGCGAGTTACTA-AA
* * *
28322663 -CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATATCCGG-TTAAATTCCGAAGG
1 TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTAGCTAAATCCGGATT-AAGTCCGAAGG
28322721 TACGTGATTT
Statistics
Matches: 121, Mismatches: 11, Indels: 15
0.82 0.07 0.10
Matches are distributed among these distances:
79 12 0.10
80 99 0.82
81 10 0.08
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.26
Consensus pattern (79 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTAGCTAAATCCGGATTAAGTCCGAAGGCATTTG
TGCGAGTTACTAAA
Found at i:28333647 original size:18 final size:19
Alignment explanation
Indices: 28333624--28333662 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
28333614 CAATTATAAA
28333624 CCAAAAC-AAATAAAAATC
1 CCAAAACAAAATAAAAATC
28333642 CCAAAACAAAAATAAAAATC
1 CCAAAAC-AAAATAAAAATC
28333662 C
1 C
28333663 AAAGAGGCCA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 7 0.37
20 12 0.63
ACGTcount: A:0.67, C:0.23, G:0.00, T:0.10
Consensus pattern (19 bp):
CCAAAACAAAATAAAAATC
Found at i:28338642 original size:25 final size:26
Alignment explanation
Indices: 28338614--28338668 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 26
28338604 ATGTGTTACA
* *
28338614 AATTTTAATGCTTTAA-TGTTAT-ATG
1 AATTTAAATGC-TTAATTGCTATCATG
28338639 AATTTAAATGCTTAATTGCTATCATG
1 AATTTAAATGCTTAATTGCTATCATG
28338665 AATT
1 AATT
28338669 ATACGCATTG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
24 4 0.15
25 15 0.58
26 7 0.27
ACGTcount: A:0.35, C:0.07, G:0.11, T:0.47
Consensus pattern (26 bp):
AATTTAAATGCTTAATTGCTATCATG
Found at i:28341387 original size:46 final size:46
Alignment explanation
Indices: 28341218--28341392 Score: 158
Period size: 46 Copynumber: 3.8 Consensus size: 46
28341208 AATATTCACA
* * **
28341218 TATTCTCGATTCCACAACATATTCAAGAGCT-TAAAACCTAAACTTG
1 TATTCTCGATTCCACAACATATGCAGGAGCTCT-AAACCTATTCTTG
* * **
28341264 TATTCTCG-TGTCCGCAACATATGTAGGAGCTC-AGAATTTATTCTTG
1 TATTCTCGAT-TCCACAACATATGCAGGAGCTCTA-AACCTATTCTTG
* * * * * *
28341310 TATTCTTGAATCCGCAACATGTGTAGGAGCTCTAAACCTATTCATG
1 TATTCTCGATTCCACAACATATGCAGGAGCTCTAAACCTATTCTTG
* *
28341356 TATCCTCGATTCCACAACATATGCAGGAGCTCGAAAC
1 TATTCTCGATTCCACAACATATGCAGGAGCTCTAAAC
28341393 ATGGGCAAAA
Statistics
Matches: 103, Mismatches: 21, Indels: 10
0.77 0.16 0.07
Matches are distributed among these distances:
45 2 0.02
46 100 0.97
47 1 0.01
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.31
Consensus pattern (46 bp):
TATTCTCGATTCCACAACATATGCAGGAGCTCTAAACCTATTCTTG
Found at i:28343476 original size:46 final size:46
Alignment explanation
Indices: 28343426--28343567 Score: 139
Period size: 46 Copynumber: 3.1 Consensus size: 46
28343416 AACTCAAACG
* *
28343426 CAACTCAACAAACTCGGGCATTCGCATCCATAAGTGAACTCGGACT
1 CAACTCAACGAGCTCGGGCATTCGCATCCATAAGTGAACTCGGACT
* * *
28343472 CAACTCAACGAGCTCGGATGCCTAGTT-ACAT-C-TCA-CGAACTCGGACT
1 CAACTCAACGAGCTCGG--G-C-A-TTCGCATCCATAAGTGAACTCGGACT
* * *
28343519 CAACTCAACGAGTTCGGACATTCGCATCCACAAGTGAACTCGGACT
1 CAACTCAACGAGCTCGGGCATTCGCATCCATAAGTGAACTCGGACT
28343565 CAA
1 CAA
28343568 ATTAATGAGT
Statistics
Matches: 76, Mismatches: 11, Indels: 18
0.72 0.10 0.17
Matches are distributed among these distances:
42 2 0.03
43 4 0.05
44 2 0.03
45 1 0.01
46 29 0.38
47 27 0.36
48 3 0.04
49 2 0.03
50 4 0.05
51 2 0.03
ACGTcount: A:0.31, C:0.31, G:0.18, T:0.20
Consensus pattern (46 bp):
CAACTCAACGAGCTCGGGCATTCGCATCCATAAGTGAACTCGGACT
Found at i:28345403 original size:22 final size:22
Alignment explanation
Indices: 28345355--28345432 Score: 113
Period size: 22 Copynumber: 3.6 Consensus size: 22
28345345 CATTTTCCAA
* **
28345355 AACCACTTG-ACTTTACGAACG
1 AACCACTTGTACTTTAGGATTG
*
28345376 AGCCACTTGTACTTTAGGATTG
1 AACCACTTGTACTTTAGGATTG
28345398 AACCACTTGTACTTTAGGATTG
1 AACCACTTGTACTTTAGGATTG
28345420 AACCACTTGTACT
1 AACCACTTGTACT
28345433 AAACTAATTA
Statistics
Matches: 51, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
21 8 0.16
22 43 0.84
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.32
Consensus pattern (22 bp):
AACCACTTGTACTTTAGGATTG
Found at i:28345845 original size:18 final size:19
Alignment explanation
Indices: 28345824--28345877 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
28345814 AAAAGAAAAG
*
28345824 AAAAG-AAAAATAGATTTA
1 AAAAGAAAAAATAAATTTA
28345842 AAAAGAAAAAATAAATTTA
1 AAAAGAAAAAATAAATTTA
*
28345861 AGAAA-ATAAAATAAATT
1 A-AAAGAAAAAATAAATT
28345878 GGTAAATAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
18 5 0.16
19 24 0.75
20 3 0.09
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.22
Consensus pattern (19 bp):
AAAAGAAAAAATAAATTTA
Found at i:28346749 original size:13 final size:13
Alignment explanation
Indices: 28346731--28346762 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
28346721 AGATTTTTCT
28346731 TAAATATTATCAC
1 TAAATATTATCAC
28346744 TAAATATTATCAC
1 TAAATATTATCAC
28346757 TAAATA
1 TAAATA
28346763 ACTTAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (13 bp):
TAAATATTATCAC
Found at i:28347351 original size:15 final size:15
Alignment explanation
Indices: 28347331--28347364 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
28347321 CAATATATAC
28347331 TTTTATTTATATATT
1 TTTTATTTATATATT
* *
28347346 TTTTATTTTTTTATT
1 TTTTATTTATATATT
28347361 TTTT
1 TTTT
28347365 TCAAACTTAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (15 bp):
TTTTATTTATATATT
Found at i:28357900 original size:13 final size:13
Alignment explanation
Indices: 28357859--28357914 Score: 57
Period size: 13 Copynumber: 4.5 Consensus size: 13
28357849 TAGGTTTTTC
*
28357859 CTAAATATTATCT
1 CTAAATATTATCA
*
28357872 C-AAA-ATAATC-
1 CTAAATATTATCA
28357882 CTAAATATT-TCCA
1 CTAAATATTAT-CA
28357895 CTAAATATTATCA
1 CTAAATATTATCA
28357908 CTAAATA
1 CTAAATA
28357915 ATTTAAAAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
10 1 0.03
11 9 0.25
12 6 0.17
13 19 0.53
14 1 0.03
ACGTcount: A:0.46, C:0.18, G:0.00, T:0.36
Consensus pattern (13 bp):
CTAAATATTATCA
Found at i:28358624 original size:15 final size:15
Alignment explanation
Indices: 28358602--28358634 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
28358592 TTGTGTGTTC
28358602 TTTATTTA-TTTTAT
1 TTTATTTATTTTTAT
28358616 TTTATTTTATTTTTAT
1 TTTA-TTTATTTTTAT
28358632 TTT
1 TTT
28358635 TTTCACAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 4 0.24
15 4 0.24
16 9 0.53
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (15 bp):
TTTATTTATTTTTAT
Found at i:28358635 original size:6 final size:5
Alignment explanation
Indices: 28358602--28358634 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
28358592 TTGTGTGTTC
28358602 TTTA- TTTAT TTTAT TTTAT TTTATT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTA-T TTTAT TTT
28358635 TTTCACAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 4 0.15
5 18 0.67
6 5 0.19
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:28363081 original size:6 final size:5
Alignment explanation
Indices: 28363048--28363080 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
28363038 TTGTGTGTTC
28363048 TTTAT TTTA- TTTAT TTTAT TTTATT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTA-T TTTAT TTT
28363081 TTTCATAGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
4 4 0.15
5 17 0.65
6 5 0.19
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:28363471 original size:36 final size:36
Alignment explanation
Indices: 28363424--28363495 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
28363414 TAGCAATTTC
28363424 TATGGGCTTAAACGACTTCTGACGAGGCAAAAAGAA
1 TATGGGCTTAAACGACTTCTGACGAGGCAAAAAGAA
28363460 TATGGGCTTAAACGACTTCTGACGAGGCAAAAAGAA
1 TATGGGCTTAAACGACTTCTGACGAGGCAAAAAGAA
28363496 CATCAAACAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.39, C:0.17, G:0.25, T:0.19
Consensus pattern (36 bp):
TATGGGCTTAAACGACTTCTGACGAGGCAAAAAGAA
Found at i:28366923 original size:30 final size:29
Alignment explanation
Indices: 28366875--28366932 Score: 80
Period size: 30 Copynumber: 2.0 Consensus size: 29
28366865 GATTTTTGAA
* *
28366875 AATTGAATCAAATTAAAATTTAATATATAC
1 AATTGAATAAAATCAAAATTT-ATATATAC
*
28366905 AATTGTATAAAATCAAAATTTATATATA
1 AATTGAATAAAATCAAAATTTATATATA
28366933 ATATTACACA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 7 0.28
30 18 0.72
ACGTcount: A:0.53, C:0.05, G:0.03, T:0.38
Consensus pattern (29 bp):
AATTGAATAAAATCAAAATTTATATATAC
Found at i:28373514 original size:29 final size:30
Alignment explanation
Indices: 28373449--28373522 Score: 89
Period size: 31 Copynumber: 2.5 Consensus size: 30
28373439 CCCACATGTC
*
28373449 TGTGTGGCCTACACAGCCTAACTAGCTCAGT
1 TGTGTGGCCTACACAGCCTAACTAGC-CACT
* *
28373480 CGTGTGGCCCACACAGCCTAAC-ATG-CACT
1 TGTGTGGCCTACACAGCCTAACTA-GCCACT
28373509 TGTGTGGCCTACAC
1 TGTGTGGCCTACAC
28373523 GACCCATTTA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
29 15 0.41
30 1 0.03
31 21 0.57
ACGTcount: A:0.22, C:0.32, G:0.23, T:0.23
Consensus pattern (30 bp):
TGTGTGGCCTACACAGCCTAACTAGCCACT
Found at i:28376299 original size:33 final size:33
Alignment explanation
Indices: 28376256--28376318 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 33
28376246 GTGTTATGAA
28376256 ACGATCTAAGTCCAAAGAACTACAACGATTGCC
1 ACGATCTAAGTCCAAAGAACTACAACGATTGCC
* * *
28376289 ACGATGTAAGTCCAAAGACCTACGACGATT
1 ACGATCTAAGTCCAAAGAACTACAACGATT
28376319 ACCGAGTCCC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.38, C:0.25, G:0.17, T:0.19
Consensus pattern (33 bp):
ACGATCTAAGTCCAAAGAACTACAACGATTGCC
Found at i:28376451 original size:25 final size:25
Alignment explanation
Indices: 28376397--28376455 Score: 82
Period size: 25 Copynumber: 2.4 Consensus size: 25
28376387 CAGCTCGAGA
*
28376397 GAGCTTACCAGTATTCAGCTCACAT
1 GAGCTTACCAATATTCAGCTCACAT
* **
28376422 AAGCTTACCAATATTCAGCTCGTAT
1 GAGCTTACCAATATTCAGCTCACAT
28376447 GAGCTTACC
1 GAGCTTACC
28376456 GTTTAAAGCT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (25 bp):
GAGCTTACCAATATTCAGCTCACAT
Found at i:28379787 original size:47 final size:47
Alignment explanation
Indices: 28379671--28380255 Score: 819
Period size: 47 Copynumber: 12.3 Consensus size: 47
28379661 AGAGTGTATG
* *
28379671 TATATGTGATAATGCCTAATGGCCGATGTGATGAATGTGAAAGTATATGTA
1 TATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAG----TGTA
*
28379722 TATATGTAATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTA
* * *
28379769 TATGTGTGATAAGGCCTAATAGCCAACGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTA
* *
28379816 TATGTGTGATAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTA
*
28379863 TATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATGTA
1 TATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAA--G--TGTA
* *
28379914 TATATGTAATAAGGCCTAATAGCCGATGTGATAAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTA
* *
28379961 TATGTGTGATAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTA
*
28380008 TATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTA
* *
28380055 TATATGTCATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTA
* *
28380102 TATATGTGATAAGGCCTAATGGCCGATGCGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTA
* *
28380149 TATATGTGATAAGGCCTAATGGTCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTA
* * * * * * * * * *
28380196 TATATGTGACAGGGCCGAGTGGCCAACGTAATGGATGTGAAAGTGCA
1 TATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTA
*
28380243 TAAATGTGATAAG
1 TATATGTGATAAG
28380256 TCCCGAAAGG
Statistics
Matches: 493, Mismatches: 37, Indels: 12
0.91 0.07 0.02
Matches are distributed among these distances:
47 408 0.83
49 2 0.00
51 83 0.17
ACGTcount: A:0.33, C:0.09, G:0.28, T:0.29
Consensus pattern (47 bp):
TATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTA
Found at i:28380002 original size:192 final size:192
Alignment explanation
Indices: 28379671--28380255 Score: 908
Period size: 192 Copynumber: 3.1 Consensus size: 192
28379661 AGAGTGTATG
* *
28379671 TATATGTGATAATGCCTAATGGCCGATGTGATGAATGTGAAAGTATATGTATATATGTAATAAGG
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATATATGTAATAAGG
*
28379736 CCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCAACGTGAT
66 CCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGACGTGAT
28379801 GAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTA
131 GAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTA
* *
28379863 TATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATGTATATATGTAATAAGG
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATATATGTAATAAGG
*
28379928 CCTAATAGCCGATGTGATAAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGACGTGAT
66 CCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGACGTGAT
*
28379993 GAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTA
131 GAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTA
* *
28380055 TATATGTCATAAGGCCTAATGGCCGATGTGATGAATGTGAAA--G--TGTATATATGTGATAAGG
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATATATGTAATAAGG
* * * * * *
28380116 CCTAATGGCCGATGCGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGTCGATGTGAT
66 CCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGACGTGAT
* * * * * * * * * *
28380181 GAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTAATGGATGTGAAAGTGCA
131 GAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTA
*
28380243 TAAATGTGATAAG
1 TATATGTGATAAG
28380256 TCCCGAAAGG
Statistics
Matches: 362, Mismatches: 31, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
188 137 0.38
190 1 0.00
192 224 0.62
ACGTcount: A:0.33, C:0.09, G:0.28, T:0.29
Consensus pattern (192 bp):
TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATATATGTAATAAGG
CCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGACGTGAT
GAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTA
Found at i:28380430 original size:37 final size:37
Alignment explanation
Indices: 28380374--28380452 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
28380364 CCGAGCTCTA
* * * *
28380374 AAGACCCGATGACTACGTGTGGGGATTTTGTCTGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
28380411 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
28380448 AAGAC
1 AAGAC
28380453 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.27
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:28388439 original size:40 final size:39
Alignment explanation
Indices: 28388402--28388623 Score: 272
Period size: 40 Copynumber: 5.6 Consensus size: 39
28388392 GCTACTCGTT
*
28388402 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGATT-TAGTAACTCGCA
*
28388442 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGATTTAGTAACTCGCA
28388482 CAAATGCCTTCGGGCTTA-CCCGGATTTAGT-ACTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGATTTAGTAACTCGCA
* *
28388519 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGATTTAGTAACTCGCA
* * * * * *
28388558 CAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGG-GCTTAGCCCGGATTTAGTAAC-TCGCA
28388599 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGG-CTTAGCCCGGA
28388624 CATCATTCAA
Statistics
Matches: 162, Mismatches: 14, Indels: 12
0.86 0.07 0.06
Matches are distributed among these distances:
37 25 0.15
38 23 0.14
39 23 0.14
40 81 0.50
41 10 0.06
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGATTTAGTAACTCGCA
Found at i:28388607 original size:116 final size:120
Alignment explanation
Indices: 28388383--28388623 Score: 298
Period size: 116 Copynumber: 2.0 Consensus size: 120
28388373 CGGAATTTAA
** *
28388383 CCGGATATAGCTACTCGTTCAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATG
1 CCGGATATAGCTACTCGCACAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATG
* *
28388448 CCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTA-C
66 CCTTCGGGACTTAACCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGC
* * *
28388501 CCGGATTTAG-TACTCGCACAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAAT
1 CCGGATATAGCTACTCGCACAAATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAAT
** * *
28388563 GCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
65 GCCTTCGGGA-CTTAACCCGGATATAGTAAC-TAGCACAAATGCCTTCGGGACTTAGC
28388619 CCGGA
1 CCGGA
28388624 CATCATTCAA
Statistics
Matches: 106, Mismatches: 12, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
115 4 0.04
116 55 0.52
117 32 0.30
118 15 0.14
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.25
Consensus pattern (120 bp):
CCGGATATAGCTACTCGCACAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATG
CCTTCGGGACTTAACCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGC
Found at i:28396453 original size:39 final size:40
Alignment explanation
Indices: 28396332--28396554 Score: 235
Period size: 40 Copynumber: 5.6 Consensus size: 40
28396322 GCTACTCGTT
* *
28396332 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
*
28396372 CAAATGCCTTCGGGACTTAACCC-GAATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAA-TTAGTAACTCGCA
* *
28396412 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* *
28396451 CAAATGCCTTCGGG-CTTAGCGCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * ** *
28396490 CAAATGCCTTC-GGATCTTAGTCCGG-ATATGGTCGCTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAAT-TAGTAAC-TCGCA
*
28396531 CAAA-GCCTTTGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
28396555 TCATCATTCA
Statistics
Matches: 159, Mismatches: 16, Indels: 16
0.83 0.08 0.08
Matches are distributed among these distances:
38 2 0.01
39 69 0.43
40 76 0.48
41 12 0.08
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:28396539 original size:79 final size:80
Alignment explanation
Indices: 28396332--28396553 Score: 233
Period size: 79 Copynumber: 2.8 Consensus size: 80
28396322 GCTACTCGTT
* * * *
28396332 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTC-GCACAAATGCCTTCGGGACTTAACCC
1 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAGCTCAGCACAAATGCCTTCGGGACTTAGCCC
28396395 GAATTTAGTAACTCGCA
64 GAATTTAGTAACTCGCA
* *
28396412 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCA-CACAAATGCCTTCGGG-CTTAGCGCGG
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTAGCTCAGCACAAATGCCTTCGGGACTTAGC-CCG
*
28396475 AA-TTAGTATCTCGCA
65 AATTTAGTAACTCGCA
* * * * * *
28396490 CAAATGCCTTCGGATCTTAGTCCGG-ATATGGTCGCTTAGCACAAA-GCCTTTGGGACTTAGCCC
1 CAAATGCCTTCGG-GCTTAGCCCGGAAT-TAGTAGCTCAGCACAAATGCCTTCGGGACTTAGCCC
28396553 G
64 G
28396554 GTCATCATTC
Statistics
Matches: 121, Mismatches: 14, Indels: 15
0.81 0.09 0.10
Matches are distributed among these distances:
78 32 0.26
79 62 0.51
80 27 0.22
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (80 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATTAGTAGCTCAGCACAAATGCCTTCGGGACTTAGCCCGA
ATTTAGTAACTCGCA
Found at i:28398801 original size:29 final size:28
Alignment explanation
Indices: 28398748--28398815 Score: 84
Period size: 29 Copynumber: 2.4 Consensus size: 28
28398738 AAGAATAAGA
*
28398748 AATTTCATTAGGTTATTTCAGGTTAATT
1 AATTTCATTAGATTATTTCAGGTTAATT
*
28398776 AATTTCCATTAGATTAATTT-ATGTTAATT
1 AATTT-CATTAGATT-ATTTCAGGTTAATT
*
28398805 AATTTAATTAG
1 AATTTCATTAG
28398816 TAATTTTGTA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
28 10 0.29
29 21 0.60
30 4 0.11
ACGTcount: A:0.34, C:0.06, G:0.10, T:0.50
Consensus pattern (28 bp):
AATTTCATTAGATTATTTCAGGTTAATT
Found at i:28403413 original size:24 final size:23
Alignment explanation
Indices: 28403317--28403415 Score: 144
Period size: 24 Copynumber: 4.1 Consensus size: 23
28403307 AGGCTGTCAA
28403317 GAGAAGATTTAGGAGCTGATAAG
1 GAGAAGATTTAGGAGCTGATAAG
*
28403340 AGAGAGGATTTAGGAGCTGATAAGG
1 -GAGAAGATTTAGGAGCTGATAA-G
*
28403365 GAGAGGATTTAGGAGCTGATAAAG
1 GAGAAGATTTAGGAGCTGAT-AAG
28403389 GAGAAGATTTAGGAGCTGATCAAG
1 GAGAAGATTTAGGAGCTGAT-AAG
28403413 GAG
1 GAG
28403416 CAGGAGTAGG
Statistics
Matches: 70, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
24 67 0.96
25 3 0.04
ACGTcount: A:0.37, C:0.05, G:0.37, T:0.20
Consensus pattern (23 bp):
GAGAAGATTTAGGAGCTGATAAG
Found at i:28403781 original size:45 final size:45
Alignment explanation
Indices: 28403732--28403819 Score: 167
Period size: 45 Copynumber: 2.0 Consensus size: 45
28403722 CTTTTCCATC
*
28403732 ATTCTTGACCGATTCTCTAGTTCTCTAAACCTTAAGGTTCTGTCG
1 ATTCTTAACCGATTCTCTAGTTCTCTAAACCTTAAGGTTCTGTCG
28403777 ATTCTTAACCGATTCTCTAGTTCTCTAAACCTTAAGGTTCTGT
1 ATTCTTAACCGATTCTCTAGTTCTCTAAACCTTAAGGTTCTGT
28403820 AGACAAGACC
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.22, C:0.24, G:0.14, T:0.41
Consensus pattern (45 bp):
ATTCTTAACCGATTCTCTAGTTCTCTAAACCTTAAGGTTCTGTCG
Found at i:28416840 original size:40 final size:40
Alignment explanation
Indices: 28416759--28416896 Score: 208
Period size: 40 Copynumber: 3.5 Consensus size: 40
28416749 AAACCAAGTA
* * * * *
28416759 CCTTCAGGATTTAG-CCGGATATAGCT-ACTCGCTCAACTG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCACACAAATG
28416798 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
28416838 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
28416878 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
28416897 TTATCATCCG
Statistics
Matches: 92, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
39 13 0.14
40 79 0.86
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
Found at i:28423073 original size:13 final size:14
Alignment explanation
Indices: 28423052--28423084 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
28423042 GTGATAAGTA
*
28423052 AAATATGCATT-TT
1 AAATTTGCATTATT
28423065 AAATTTGCATTATT
1 AAATTTGCATTATT
28423079 AAATTT
1 AAATTT
28423085 AATGGCTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 10 0.56
14 8 0.44
ACGTcount: A:0.39, C:0.06, G:0.06, T:0.48
Consensus pattern (14 bp):
AAATTTGCATTATT
Found at i:28423740 original size:47 final size:47
Alignment explanation
Indices: 28423668--28423809 Score: 241
Period size: 47 Copynumber: 3.0 Consensus size: 47
28423658 GTTGAATTTA
*
28423668 AAGCTTGTTAAA-TTGCTCTTAATATTTCTGGATAAGTTACTTAGTT
1 AAGCTTGTTAAATTTGCTCTTAATATTTCCGGATAAGTTACTTAGTT
28423714 AAGCTTGTTAAATTTGCTCTTAATATTTCCGGATAAGTTACTTAGTT
1 AAGCTTGTTAAATTTGCTCTTAATATTTCCGGATAAGTTACTTAGTT
* * *
28423761 AAGCTTGTTAAATTTTCCCTTATTATTTCCGGATAAGTTACTTAGTT
1 AAGCTTGTTAAATTTGCTCTTAATATTTCCGGATAAGTTACTTAGTT
28423808 AA
1 AA
28423810 AGAAAATTTT
Statistics
Matches: 91, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
46 12 0.13
47 79 0.87
ACGTcount: A:0.28, C:0.13, G:0.14, T:0.45
Consensus pattern (47 bp):
AAGCTTGTTAAATTTGCTCTTAATATTTCCGGATAAGTTACTTAGTT
Found at i:28424652 original size:45 final size:45
Alignment explanation
Indices: 28424588--28424808 Score: 297
Period size: 45 Copynumber: 5.0 Consensus size: 45
28424578 ATATCGCACA
*
28424588 ATACTATTCGGGCCTTTGAGCTTAGCAGGCTATAATGCCGGTGAG
1 ATACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAG
* *
28424633 ATACTGTTCGGGCCATTGAGCCTAGCAGGCTATAATGCCGGTGAG
1 ATACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAG
*
28424678 ATACTATTTGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAG
1 ATACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAG
* * * *
28424723 ATACTATTTGGG-CTTTCGAGCCTAGCGGGCTATAATGCCAGTGAA
1 ATACTATTCGGGCCTTT-GAGCCTAGCAGGCTATAATGCCGGTGAG
* * * *
28424768 ATAATA-TCGGG-CTTCGAGCCTAGCAGGC-AAAATGCCAGTGA
1 ATACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
28424809 ATGAATTCGG
Statistics
Matches: 161, Mismatches: 14, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
42 12 0.07
43 12 0.07
44 11 0.07
45 126 0.78
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (45 bp):
ATACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAG
Found at i:28437844 original size:37 final size:37
Alignment explanation
Indices: 28437785--28437893 Score: 157
Period size: 37 Copynumber: 2.9 Consensus size: 37
28437775 AGCTCAGACG
* * *
28437785 AAATCTCCACATGA-AGTTATCGGGTCTTACACGGACA
1 AAATCTCCACA-CATAGTCATCGGGTCTTACCCGGACA
28437822 AAATCTCCACACATAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACATAGTCATCGGGTCTTACCCGGACA
* *
28437859 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACATAGTCATCGGGTCTTACCCGGA
28437894 ATATATTTCC
Statistics
Matches: 66, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
36 1 0.02
37 65 0.98
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACATAGTCATCGGGTCTTACCCGGACA
Found at i:28438164 original size:47 final size:47
Alignment explanation
Indices: 28438102--28438780 Score: 926
Period size: 47 Copynumber: 14.1 Consensus size: 47
28438092 ACACGTTTCG
* * * ** *
28438102 CATTAGCCATTCGGCCTTACCACATATATTCATGTTCACATTTATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* * * *
28438149 CATTGGCCATTCGGCCTTATCTCATATATGCATGTCCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
28438196 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
28438243 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
** *
28438290 CATTGGCCATTCGGCCTTATCACACACATATATACAGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTAT--CACAC--ATACGCATGTTCACATTCATCA
* *
28438341 CATTGGCCATTCGGCCTTATCACACATACGCAAGTTCACATCCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
28438388 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* ** * *
28438435 CATTGGCCATTCGGCCTTATCACGCATATATATATACAGGTTCACATTCATTA
1 CATTGGCCATTCGGCCTTATCA--C----ACATACGCATGTTCACATTCATCA
28438488 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
***
28438535 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCAT----GTTCACATTCATCA
* *
28438586 CATTGGCCATTCAGCCTTATCACACATACGCATGTTCACATCCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
28438633 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
***
28438680 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCAT----GTTCACATTCATCA
* *
28438731 CATTGGCTATTCGGCCTTATCACACATACGCATGTTCACATCCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
28438778 CAT
1 CAT
28438781 AAAATCCTAA
Statistics
Matches: 567, Mismatches: 47, Indels: 36
0.87 0.07 0.06
Matches are distributed among these distances:
47 389 0.69
49 11 0.02
51 126 0.22
53 41 0.07
ACGTcount: A:0.27, C:0.30, G:0.12, T:0.31
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
Found at i:28438313 original size:22 final size:22
Alignment explanation
Indices: 28438143--28438219 Score: 66
Period size: 22 Copynumber: 3.4 Consensus size: 22
28438133 ATGTTCACAT
28438143 TTATCACATTGGCCATTCGGCC
1 TTATCACATTGGCCATTCGGCC
* * ** *
28438165 TTATCTCATATATG-CATGTCCACA
1 TTATCACAT-T-GGCCAT-TCGGCC
28438189 TTCATCACATTGGCCATTCGGCC
1 TT-ATCACATTGGCCATTCGGCC
28438212 TTATCACA
1 TTATCACA
28438220 CATACGCATG
Statistics
Matches: 40, Mismatches: 10, Indels: 10
0.67 0.17 0.17
Matches are distributed among these distances:
22 14 0.35
23 10 0.25
24 10 0.25
25 6 0.15
ACGTcount: A:0.23, C:0.30, G:0.13, T:0.34
Consensus pattern (22 bp):
TTATCACATTGGCCATTCGGCC
Found at i:28438369 original size:98 final size:94
Alignment explanation
Indices: 28438102--28438780 Score: 926
Period size: 98 Copynumber: 7.0 Consensus size: 94
28438092 ACACGTTTCG
* * * ** *
28438102 CATTAGCCATTCGGCCTTACCACATATATTCATGTTCACATTTATCACATTGGCCATTCGGCCTT
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
* * * *
28438167 ATCTCATATATGCATGTCCACATTCATCA
66 ATCACACATACGCATGTTCACATTCATCA
28438196 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
28438261 ATCACACATACGCATGTTCACATTCATCA
66 ATCACACATACGCATGTTCACATTCATCA
** *
28438290 CATTGGCCATTCGGCCTTATCACACACATATATACAGGTTCACATTCATCACATTGGCCATTCGG
1 CATTGGCCATTCGGCCTTAT--CACAC--ATACGCATGTTCACATTCATCACATTGGCCATTCGG
* *
28438355 CCTTATCACACATACGCAAGTTCACATCCATCA
62 CCTTATCACACATACGCATGTTCACATTCATCA
28438388 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
* ** * *
28438453 ATCACGCATATATATATACAGGTTCACATTCATTA
66 ATCA--C----ACATACGCATGTTCACATTCATCA
28438488 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
***
28438553 ATCACACATATATATACGGGTTCACATTCATCA
66 ATCACACATACGCAT----GTTCACATTCATCA
* *
28438586 CATTGGCCATTCAGCCTTATCACACATACGCATGTTCACATCCATCACATTGGCCATTCGGCCTT
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
28438651 ATCACACATACGCATGTTCACATTCATCA
66 ATCACACATACGCATGTTCACATTCATCA
*** *
28438680 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCACATTGGCTATTCGG
1 CATTGGCCATTCGGCCTTATCACACATACGCAT----GTTCACATTCATCACATTGGCCATTCGG
*
28438745 CCTTATCACACATACGCATGTTCACATCCATCA
62 CCTTATCACACATACGCATGTTCACATTCATCA
28438778 CAT
1 CAT
28438781 AAAATCCTAA
Statistics
Matches: 527, Mismatches: 40, Indels: 32
0.88 0.07 0.05
Matches are distributed among these distances:
94 195 0.37
96 11 0.02
98 234 0.44
100 87 0.17
ACGTcount: A:0.27, C:0.30, G:0.12, T:0.31
Consensus pattern (94 bp):
CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
ATCACACATACGCATGTTCACATTCATCA
Found at i:28438757 original size:145 final size:142
Alignment explanation
Indices: 28438102--28438780 Score: 936
Period size: 145 Copynumber: 4.7 Consensus size: 142
28438092 ACACGTTTCG
* *
28438102 CATTAGCCATTCGGCCTTA-C-CACATATAT-TCATGTTCACATTTATCACATTGGCCATTCGGC
1 CATTGGCCATTCGGCCTTATCACACATATATATC--GTTCACATTCATCACATTGGCCATTCGGC
* * *
28438164 CTTATCTCATATATGCATGTCCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCAT
64 CTTATCACACATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCAT
28438229 GTTCACATTCATCA
129 GTTCACATTCATCA
***
28438243 CATTGGCCATTCGGCCTTATCACACATACGCAT-GTTCACATTCATCACATTGGCCATTCGGCCT
1 CATTGGCCATTCGGCCTTATCACACATATATATCGTTCACATTCATCACATTGGCCATTCGGCCT
* *
28438307 TATCACACACATATATACAGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGC
66 TAT--CACAC--ATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGC
* *
28438372 AAGTTCACATCCATCA
127 ATGTTCACATTCATCA
***
28438388 CATTGGCCATTCGGCCTTATCACACATACGCAT-GTTCACATTCATCACATTGGCCATTCGGCCT
1 CATTGGCCATTCGGCCTTATCACACATATATATCGTTCACATTCATCACATTGGCCATTCGGCCT
* * * *
28438452 TATCACGCATATATATATACAGGTTCACATTCATTACATTGGCCATTCGGCCTTATCACACATAC
66 TATCA--C----ACATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATAC
28438517 GCATGTTCACATTCATCA
125 GCATGTTCACATTCATCA
*
28438535 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCACATTGGCCATTCAG
1 CATTGGCCATTCGGCCTTATCACACATATATAT-C--GTTCACATTCATCACATTGGCCATTCGG
* *
28438600 CCTTATCACACATACGCATGTTCACATCCATCACATTGGCCATTCGGCCTTATCACACATACGCA
63 CCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCA
28438665 TGTTCACATTCATCA
128 TGTTCACATTCATCA
*
28438680 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCACATTGGCTATTCGG
1 CATTGGCCATTCGGCCTTATCACACATATATAT-C--GTTCACATTCATCACATTGGCCATTCGG
* *
28438745 CCTTATCACACATACGCATGTTCACATCCATCACAT
63 CCTTATCACACATATGCATGTTCACATTCATCACAT
28438781 AAAATCCTAA
Statistics
Matches: 493, Mismatches: 28, Indels: 30
0.89 0.05 0.05
Matches are distributed among these distances:
141 51 0.10
142 1 0.00
143 11 0.02
144 1 0.00
145 296 0.60
147 96 0.19
149 2 0.00
151 35 0.07
ACGTcount: A:0.27, C:0.30, G:0.12, T:0.31
Consensus pattern (142 bp):
CATTGGCCATTCGGCCTTATCACACATATATATCGTTCACATTCATCACATTGGCCATTCGGCCT
TATCACACATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGT
TCACATTCATCA
Found at i:28465707 original size:29 final size:30
Alignment explanation
Indices: 28465671--28465904 Score: 150
Period size: 29 Copynumber: 8.1 Consensus size: 30
28465661 AGCTTGGGCT
* *
28465671 ATCG-ATTATTAAAAGGGATGTTGACGACC
1 ATCGAATTATGAAAAGGGATGGTGACGACC
* * *
28465700 AT-TAATTATGAAAAGGGGTGGTGATGACC
1 ATCGAATTATGAAAAGGGATGGTGACGACC
* ** *
28465729 ATCGAA-TATGAAAAGGGATAGCTTTCG-CT
1 ATCGAATTATGAAAAGGGAT-GGTGACGACC
* * * * *
28465758 ATCG-ATTATG-TAACGGATAGCT-TC-AGCT
1 ATCGAATTATGAAAAGGGAT-GGTGACGA-CC
* *
28465786 ATCG-ATTATGAAAAGGGATGGTGATGACT
1 ATCGAATTATGAAAAGGGATGGTGACGACC
* *
28465815 AT-AAACTATGAAAAGGGATGGTGACGACC
1 ATCGAATTATGAAAAGGGATGGTGACGACC
**
28465844 ATCGAA-TATGAAAAGGGATGGTTTCGACC
1 ATCGAATTATGAAAAGGGATGGTGACGACC
* * *
28465873 ATCGAA-TATGAAAAAGAATGGTTACGACC
1 ATCGAATTATGAAAAGGGATGGTGACGACC
28465902 ATC
1 ATC
28465905 ATTTAGCACA
Statistics
Matches: 165, Mismatches: 29, Indels: 22
0.76 0.13 0.10
Matches are distributed among these distances:
27 2 0.01
28 25 0.15
29 130 0.79
30 8 0.05
ACGTcount: A:0.36, C:0.13, G:0.26, T:0.26
Consensus pattern (30 bp):
ATCGAATTATGAAAAGGGATGGTGACGACC
Found at i:28465877 original size:115 final size:115
Alignment explanation
Indices: 28465659--28465882 Score: 315
Period size: 115 Copynumber: 1.9 Consensus size: 115
28465649 ATGAAAAGGA
** * * * * *
28465659 ATAGCTTGGGCTATCGATTATTAAAAGGGATGTTGACGACCATTAATTATGAAAAGGGGTGGTGA
1 ATAGCTTCAGCTATCGATTATGAAAAGGGATGGTGACGACCATAAACTATGAAAAGGGATGGTGA
* * *
28465724 TGACCATCGAATATGAAAAGGGATAGCTTTCGCTATCGATTATGTAACGG
66 CGACCATCGAATATGAAAAGGGATAGCTTTCGCCATCGAATATGTAACGG
* *
28465774 ATAGCTTCAGCTATCGATTATGAAAAGGGATGGTGATGACTATAAACTATGAAAAGGGATGGTGA
1 ATAGCTTCAGCTATCGATTATGAAAAGGGATGGTGACGACCATAAACTATGAAAAGGGATGGTGA
*
28465839 CGACCATCGAATATGAAAAGGGAT-GGTTTCGACCATCGAATATG
66 CGACCATCGAATATGAAAAGGGATAGCTTTCG-CCATCGAATATG
28465883 AAAAAGAATG
Statistics
Matches: 95, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
114 6 0.06
115 89 0.94
ACGTcount: A:0.34, C:0.12, G:0.27, T:0.27
Consensus pattern (115 bp):
ATAGCTTCAGCTATCGATTATGAAAAGGGATGGTGACGACCATAAACTATGAAAAGGGATGGTGA
CGACCATCGAATATGAAAAGGGATAGCTTTCGCCATCGAATATGTAACGG
Found at i:28471193 original size:13 final size:13
Alignment explanation
Indices: 28471175--28471199 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
28471165 GATGTTATTG
28471175 TTATTATTATTTA
1 TTATTATTATTTA
28471188 TTATTATTATTT
1 TTATTATTATTT
28471200 TGTAGGTTTA
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:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (13 bp):
TTATTATTATTTA
Found at i:28474265 original size:40 final size:40
Alignment explanation
Indices: 28474189--28474332 Score: 125
Period size: 40 Copynumber: 3.6 Consensus size: 40
28474179 TAACTCATTC
* *
28474189 AATGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATATTAAAACTCGCACA
* *
28474229 AATGCCTTCGGGACTTAACCCGGA-ATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATATTA-AAACTCGCACA
* ** ** *
28474269 AAGGCCTTC-GGATCTTAGTCCGGATA-TAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGATATTA-AAAC-TCGCACA
*
28474310 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
28474333 CAGCATTCAA
Statistics
Matches: 88, Mismatches: 11, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
39 6 0.07
40 70 0.80
41 12 0.14
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATATTAAAACTCGCACA
Found at i:28476105 original size:8 final size:8
Alignment explanation
Indices: 28476092--28476121 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
28476082 CTAGATCGGC
28476092 AAAAGCTG
1 AAAAGCTG
28476100 AAAAGCTG
1 AAAAGCTG
*
28476108 AAATGCTG
1 AAAAGCTG
28476116 AAAAGC
1 AAAAGC
28476122 CGGTATTTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.50, C:0.13, G:0.23, T:0.13
Consensus pattern (8 bp):
AAAAGCTG
Found at i:28480294 original size:30 final size:31
Alignment explanation
Indices: 28480270--28480328 Score: 93
Period size: 30 Copynumber: 1.9 Consensus size: 31
28480260 GTAAATACTC
* *
28480270 AAAATTTGAAGGGCTAA-AGTGTAAATATGA
1 AAAAGTTGAAGGACTAATAGTGTAAATATGA
28480300 AAAAGTTGAAGGACTAATAGTGTAAATAT
1 AAAAGTTGAAGGACTAATAGTGTAAATAT
28480329 TTTAAGGGTG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 15 0.58
31 11 0.42
ACGTcount: A:0.47, C:0.03, G:0.22, T:0.27
Consensus pattern (31 bp):
AAAAGTTGAAGGACTAATAGTGTAAATATGA
Found at i:28480392 original size:15 final size:17
Alignment explanation
Indices: 28480367--28480399 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
28480357 GGAAAATGGA
28480367 TGAATTAGGAAAA-AAT
1 TGAATTAGGAAAAGAAT
28480383 TGAA-TAGGAAAAGAAT
1 TGAATTAGGAAAAGAAT
28480399 T
1 T
28480400 ATGAGGGACT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.55, C:0.00, G:0.21, T:0.24
Consensus pattern (17 bp):
TGAATTAGGAAAAGAAT
Found at i:28480538 original size:45 final size:45
Alignment explanation
Indices: 28480472--28480561 Score: 144
Period size: 45 Copynumber: 2.0 Consensus size: 45
28480462 ATCACAAAGG
*
28480472 ATGAAATGGTCTATTAAAAGAGAGAGAAATCTAGAAAGTAATGAT
1 ATGAAATGGTCAATTAAAAGAGAGAGAAATCTAGAAAGTAATGAT
** *
28480517 ATGAAATGGTCAATTGGAAGAGATAGAAATCTAGAAAGTAATGAT
1 ATGAAATGGTCAATTAAAAGAGAGAGAAATCTAGAAAGTAATGAT
28480562 GATATTGATG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.48, C:0.04, G:0.23, T:0.24
Consensus pattern (45 bp):
ATGAAATGGTCAATTAAAAGAGAGAGAAATCTAGAAAGTAATGAT
Found at i:28481291 original size:17 final size:17
Alignment explanation
Indices: 28481264--28481307 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
28481254 AATTAAACAT
* * *
28481264 TAAATTAATATATGTTA
1 TAAAATAATATATATCA
*
28481281 TAATATAATATATATCA
1 TAAAATAATATATATCA
28481298 TAAAATAATA
1 TAAAATAATA
28481308 ATAAGCCATG
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (17 bp):
TAAAATAATATATATCA
Found at i:28482418 original size:56 final size:56
Alignment explanation
Indices: 28482347--28482537 Score: 283
Period size: 56 Copynumber: 3.4 Consensus size: 56
28482337 ATGTTACTTT
*
28482347 GATATATGTGGGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTCC
1 GATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTCC
* * *
28482403 GATATATGTGTGCGAGTAAGTCCACGTTTAATAGGTTGGCATCAATATGTGATTCC
1 GATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTCC
* * * *
28482459 GATATATGTGTGCGAGTAAGTCCACATTTCATACGTTGGCATCGATATGTGATTCT
1 GATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTCC
* * *
28482515 GATATGTGTTTACGAGTAAGACC
1 GATATATGTGTGCGAGTAAGACC
28482538 CTATCTGGGA
Statistics
Matches: 122, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
56 122 1.00
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.33
Consensus pattern (56 bp):
GATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTCC
Found at i:28488737 original size:56 final size:56
Alignment explanation
Indices: 28488652--28488812 Score: 218
Period size: 56 Copynumber: 2.9 Consensus size: 56
28488642 TACCTGGAAG
*
28488652 AATATG-TGGCATCGATTTGTGACTT-TGATATATGTGTGCGAGTAAGACCACGTTT
1 AATATGTTGGCATCGATATGTGA-TTCTGATATATGTGTGCGAGTAAGACCACGTTT
* *
28488707 AATATGTTGGCATCGATATGTGATTCTGATATATGTGTGCGAGTAAGTCCATGTTT
1 AATATGTTGGCATCGATATGTGATTCTGATATATGTGTGCGAGTAAGACCACGTTT
* ** * * *
28488763 CATGCGTTGGCATCGATATGTGATTCTGATATGTGTTTACGAGTAAGACC
1 AATATGTTGGCATCGATATGTGATTCTGATATATGTGTGCGAGTAAGACC
28488813 CTGTCTGGGA
Statistics
Matches: 94, Mismatches: 10, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
55 8 0.09
56 86 0.91
ACGTcount: A:0.25, C:0.13, G:0.25, T:0.37
Consensus pattern (56 bp):
AATATGTTGGCATCGATATGTGATTCTGATATATGTGTGCGAGTAAGACCACGTTT
Found at i:28490939 original size:13 final size:13
Alignment explanation
Indices: 28490921--28490948 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
28490911 TGAACAGTGA
28490921 TACCTCGTAACCC
1 TACCTCGTAACCC
28490934 TACCTCGTAACCC
1 TACCTCGTAACCC
28490947 TA
1 TA
28490949 ATTCGGCGAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.25, C:0.43, G:0.07, T:0.25
Consensus pattern (13 bp):
TACCTCGTAACCC
Found at i:28492314 original size:43 final size:43
Alignment explanation
Indices: 28492267--28492368 Score: 127
Period size: 42 Copynumber: 2.4 Consensus size: 43
28492257 TCTCGGATGT
* * *
28492267 GGTCTTACATGTAATTTAG-TATCAATGCCTCTATCCCAGACAG
1 GGTCTTACATGTAAATCAGATA-CAATGCCTATATCCCAGACAG
* * *
28492310 GGTCTTACATG-AAATCAGATACAATGCTTATGTCCCAGACAT
1 GGTCTTACATGTAAATCAGATACAATGCCTATATCCCAGACAG
28492352 GGTCTTACATGTAAATC
1 GGTCTTACATGTAAATC
28492369 TCAAATCGAG
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
42 33 0.65
43 18 0.35
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (43 bp):
GGTCTTACATGTAAATCAGATACAATGCCTATATCCCAGACAG
Found at i:28501311 original size:43 final size:42
Alignment explanation
Indices: 28501216--28501366 Score: 140
Period size: 43 Copynumber: 3.5 Consensus size: 42
28501206 TATCTCGGAT
* * * * * * *
28501216 ATGGTCTTACATGTTATCACATATCGATGCCACTGCCCCAAAC
1 ATGGTCTTACATGTAATCATATA-CAATACCAATGTCCCAGAC
* * * * * *
28501259 AGGGACTTACATGAAACCATATAACGATACCAATGTCTCAGAC
1 ATGGTCTTACATGTAATCATAT-ACAATACCAATGTCCCAGAC
* *
28501302 ATGGTCTTACATGTAATCACCATACAATGCCAATGTCCCAGAC
1 ATGGTCTTACATGTAATCA-TATACAATACCAATGTCCCAGAC
28501345 ATGGTCTTACATGTAATCATAT
1 ATGGTCTTACATGTAATCATAT
28501367 CTTGGTAATC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
42 2 0.02
43 81 0.94
44 3 0.03
ACGTcount: A:0.33, C:0.25, G:0.15, T:0.27
Consensus pattern (42 bp):
ATGGTCTTACATGTAATCATATACAATACCAATGTCCCAGAC
Found at i:28507590 original size:13 final size:13
Alignment explanation
Indices: 28507572--28507601 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
28507562 TGTGGACTTG
28507572 AATAAGAACCATT
1 AATAAGAACCATT
28507585 AATAAGAACCATT
1 AATAAGAACCATT
28507598 AATA
1 AATA
28507602 TTCGGCGAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.57, C:0.13, G:0.07, T:0.23
Consensus pattern (13 bp):
AATAAGAACCATT
Found at i:28514131 original size:25 final size:26
Alignment explanation
Indices: 28514103--28514159 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 26
28514093 TCCTGTACAT
28514103 GTATGCTT-ATACGAGCTGT-GAATCG
1 GTATGCTTCATACGAGCTGTAG-ATCG
* *
28514128 GTATG-TTCATTCGAGCTGTAGATTG
1 GTATGCTTCATACGAGCTGTAGATCG
28514153 GTATGCT
1 GTATGCT
28514160 CTCACAAGCA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 2 0.07
25 23 0.85
26 2 0.07
ACGTcount: A:0.21, C:0.14, G:0.28, T:0.37
Consensus pattern (26 bp):
GTATGCTTCATACGAGCTGTAGATCG
Found at i:28515922 original size:46 final size:46
Alignment explanation
Indices: 28515833--28516038 Score: 167
Period size: 46 Copynumber: 4.5 Consensus size: 46
28515823 GCCAATGCCA
* * *
28515833 GTCCCAGACATGGTCTTACACTGAC--ACATCTCGTAGTCGATGCAT
1 GTCCCAAACATGGTCTTACACTGGCTTACATCTCG-AGCCGATGCAT
*
28515878 GTCCCAAACAT-GTCTTACACTGGCTTACATCTCGAGGCCTATGCAT
1 GTCCCAAACATGGTCTTACACTGGCTTACATCTCGA-GCCGATGCAT
* * ** *
28515924 GTCCCAGACAT-GTCTTACACTAGCTCT-TGTCTCAATGCCGATGCTAT
1 GTCCCAAACATGGTCTTACACTGGCT-TACATCTCGA-GCCGATGC-AT
* *
28515971 GTCCCAAACATGGTCTTACACTGGCTCTTATAATGT-G-GCCGATGCAT
1 GTCCCAAACATGGTCTTACACTGG--CTTA-CATCTCGAGCCGATGCAT
* *
28516018 GTCCCAGACAT-GCCTTACACT
1 GTCCCAAACATGGTCTTACACT
28516039 AGCAAACAAA
Statistics
Matches: 132, Mismatches: 19, Indels: 19
0.78 0.11 0.11
Matches are distributed among these distances:
44 12 0.09
45 11 0.08
46 60 0.45
47 25 0.19
48 19 0.14
49 1 0.01
50 2 0.02
51 2 0.02
ACGTcount: A:0.23, C:0.30, G:0.18, T:0.29
Consensus pattern (46 bp):
GTCCCAAACATGGTCTTACACTGGCTTACATCTCGAGCCGATGCAT
Found at i:28515996 original size:94 final size:92
Alignment explanation
Indices: 28515870--28516041 Score: 249
Period size: 94 Copynumber: 1.8 Consensus size: 92
28515860 ATCTCGTAGT
* *
28515870 CGATGCATGTCCCAAACATGTCTTACACTGGCT-TACAT-CTCGAGGCCTATGCATGTCCCAGAC
1 CGATGCATGTCCCAAACATGTCTTACACTGGCTCT-CATAAT-GAGGCCGATGCATGTCCCAGAC
*
28515933 ATGTCTTACACTAGCTCTTGTCTCAATGC
64 ATGCCTTACACTAGCTCTTGTCTCAATGC
* *
28515962 CGATGCTATGTCCCAAACATGGTCTTACACTGGCTCTTATAATGTGGCCGATGCATGTCCCAGAC
1 CGATGC-ATGTCCCAAACAT-GTCTTACACTGGCTCTCATAATGAGGCCGATGCATGTCCCAGAC
28516027 ATGCCTTACACTAGC
64 ATGCCTTACACTAGC
28516042 AAACAAATAA
Statistics
Matches: 71, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
92 6 0.08
93 13 0.18
94 50 0.70
95 2 0.03
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (92 bp):
CGATGCATGTCCCAAACATGTCTTACACTGGCTCTCATAATGAGGCCGATGCATGTCCCAGACAT
GCCTTACACTAGCTCTTGTCTCAATGC
Found at i:28515998 original size:48 final size:46
Alignment explanation
Indices: 28515870--28516038 Score: 180
Period size: 46 Copynumber: 3.6 Consensus size: 46
28515860 ATCTCGTAGT
* *
28515870 CGATGCATGTCCCAAACATGTCTTACACTGGCT-TACATCTCGAGGC
1 CGATGCATGTCCCAAACATGTCTTACACTGGCTCT-TATCTCAAGGC
* * * * *
28515916 CTATGCATGTCCCAGACATGTCTTACACTAGCTCTTGTCTCAATGC
1 CGATGCATGTCCCAAACATGTCTTACACTGGCTCTTATCTCAAGGC
* **
28515962 CGATGCTATGTCCCAAACATGGTCTTACACTGGCTCTTATAAT-GTGGC
1 CGATGC-ATGTCCCAAACAT-GTCTTACACTGGCTCTTAT-CTCAAGGC
* *
28516010 CGATGCATGTCCCAGACATGCCTTACACT
1 CGATGCATGTCCCAAACATGTCTTACACT
28516039 AGCAAACAAA
Statistics
Matches: 102, Mismatches: 17, Indels: 8
0.80 0.13 0.06
Matches are distributed among these distances:
46 51 0.50
47 25 0.25
48 25 0.25
49 1 0.01
ACGTcount: A:0.23, C:0.30, G:0.18, T:0.29
Consensus pattern (46 bp):
CGATGCATGTCCCAAACATGTCTTACACTGGCTCTTATCTCAAGGC
Found at i:28519457 original size:8 final size:8
Alignment explanation
Indices: 28519444--28519487 Score: 56
Period size: 8 Copynumber: 5.6 Consensus size: 8
28519434 TGCAAAGGTT
28519444 GAAAAGCC
1 GAAAAGCC
28519452 GAAAAGCC
1 GAAAAGCC
28519460 GAAAAGCC
1 GAAAAGCC
*
28519468 -AAAAGGCT
1 GAAAA-GCC
28519476 GAAAAGCC
1 GAAAAGCC
28519484 -AAAA
1 GAAAA
28519488 AAGTGGGTTG
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
7 8 0.25
8 20 0.62
9 4 0.12
ACGTcount: A:0.55, C:0.20, G:0.23, T:0.02
Consensus pattern (8 bp):
GAAAAGCC
Found at i:28519465 original size:16 final size:16
Alignment explanation
Indices: 28519444--28519487 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
28519434 TGCAAAGGTT
28519444 GAAAAGCCGAAAA-GCC
1 GAAAAGCC-AAAAGGCC
*
28519460 GAAAAGCCAAAAGGCT
1 GAAAAGCCAAAAGGCC
28519476 GAAAAGCCAAAA
1 GAAAAGCCAAAA
28519488 AAGTGGGTTG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
15 4 0.15
16 22 0.85
ACGTcount: A:0.55, C:0.20, G:0.23, T:0.02
Consensus pattern (16 bp):
GAAAAGCCAAAAGGCC
Found at i:28521639 original size:16 final size:16
Alignment explanation
Indices: 28521618--28521650 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
28521608 CATTTTTGAC
*
28521618 CATACAAAGCCTTATA
1 CATACAAAGCCTCATA
28521634 CATACAAAGCCTCATA
1 CATACAAAGCCTCATA
28521650 C
1 C
28521651 GGTACCATCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.42, C:0.30, G:0.06, T:0.21
Consensus pattern (16 bp):
CATACAAAGCCTCATA
Found at i:28523788 original size:43 final size:42
Alignment explanation
Indices: 28523624--28523788 Score: 122
Period size: 43 Copynumber: 3.9 Consensus size: 42
28523614 TTTCGTTATG
* *
28523624 TGATTTCATGTAAGACCACG-CTTGGGACGTTGGCATCGACTTC
1 TGATTACATGTAAGACCACGTC-TGGGACGTCGGCATCGA-TTC
* * * * *
28523667 TGTTTTACATGTAAGACAATGTCTGGGACATCGGTATCG-TATC
1 TG-ATTACATGTAAGACCACGTCTGGGACGTCGGCATCGAT-TC
*** * *
28523710 TGATTTTGTGTAAGACC-CTGTTTGGGACAGT-GGCATCGATGTT
1 TGATTACATGTAAGACCAC-GTCTGGGAC-GTCGGCATCGAT-TC
*
28523753 TGATTACATGTAAGACCACGTCTGGGATGTCGGCAT
1 TGATTACATGTAAGACCACGTCTGGGACGTCGGCAT
28523789 TGTATATGCT
Statistics
Matches: 91, Mismatches: 23, Indels: 16
0.70 0.18 0.12
Matches are distributed among these distances:
42 27 0.30
43 35 0.38
44 28 0.31
45 1 0.01
ACGTcount: A:0.22, C:0.18, G:0.27, T:0.33
Consensus pattern (42 bp):
TGATTACATGTAAGACCACGTCTGGGACGTCGGCATCGATTC
Found at i:28531237 original size:40 final size:40
Alignment explanation
Indices: 28531178--28531271 Score: 111
Period size: 40 Copynumber: 2.4 Consensus size: 40
28531168 ACAATTTTAA
* *
28531178 AATCAAGTGAAAATGATTTTAACCA-AGTCAAAATGA-TTTC
1 AATCAAGTCAAAATAATTTTAA-CATA-TCAAAATGATTTTC
* *
28531218 AATCAAGTTAAAATAATTTTAACATATCAAAATTATTTTC
1 AATCAAGTCAAAATAATTTTAACATATCAAAATGATTTTC
*
28531258 AAACAAGTCAAAAT
1 AATCAAGTCAAAAT
28531272 TGCTCCAGGC
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
39 10 0.21
40 37 0.79
ACGTcount: A:0.49, C:0.12, G:0.07, T:0.32
Consensus pattern (40 bp):
AATCAAGTCAAAATAATTTTAACATATCAAAATGATTTTC
Found at i:28531272 original size:21 final size:20
Alignment explanation
Indices: 28531171--28531271 Score: 89
Period size: 20 Copynumber: 5.0 Consensus size: 20
28531161 TTTTGAAACA
*
28531171 ATTTTAAAATCAAGTGAAAATG
1 ATTTT-AAA-CAAGTCAAAATG
*
28531193 ATTTTAACCAAGTCAAAATG
1 ATTTTAAACAAGTCAAAATG
* * * *
28531213 ATTTCAATCAAGTTAAAATA
1 ATTTTAAACAAGTCAAAATG
*
28531233 ATTTT-AACATA-TCAAAATT
1 ATTTTAAACA-AGTCAAAATG
28531252 ATTTTCAAACAAGTCAAAAT
1 ATTTT-AAACAAGTCAAAAT
28531272 TGCTCCAGGC
Statistics
Matches: 65, Mismatches: 10, Indels: 9
0.77 0.12 0.11
Matches are distributed among these distances:
19 14 0.22
20 33 0.51
21 13 0.20
22 5 0.08
ACGTcount: A:0.49, C:0.11, G:0.07, T:0.34
Consensus pattern (20 bp):
ATTTTAAACAAGTCAAAATG
Found at i:28535101 original size:47 final size:47
Alignment explanation
Indices: 28535040--28535620 Score: 995
Period size: 47 Copynumber: 12.4 Consensus size: 47
28535030 CAGCCAAGAC
28535040 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
28535087 AGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
28535134 AGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
28535181 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
28535228 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
28535275 AGTG--TATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
28535320 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
28535367 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
28535414 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
28535461 AGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
28535508 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * * * * *
28535555 AGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
28535602 AGTGCATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
28535621 TCCCGAAGGG
Statistics
Matches: 509, Mismatches: 23, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
45 44 0.09
47 465 0.91
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:28535794 original size:37 final size:37
Alignment explanation
Indices: 28535738--28535816 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
28535728 CCGAGCTCTA
* *
28535738 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
28535775 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
28535812 AAGAC
1 AAGAC
28535817 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:28539706 original size:8 final size:8
Alignment explanation
Indices: 28539693--28539725 Score: 66
Period size: 8 Copynumber: 4.1 Consensus size: 8
28539683 AGCATGGCTT
28539693 CCAGCCTC
1 CCAGCCTC
28539701 CCAGCCTC
1 CCAGCCTC
28539709 CCAGCCTC
1 CCAGCCTC
28539717 CCAGCCTC
1 CCAGCCTC
28539725 C
1 C
28539726 TCCTAAACAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.12, C:0.64, G:0.12, T:0.12
Consensus pattern (8 bp):
CCAGCCTC
Found at i:28557526 original size:31 final size:33
Alignment explanation
Indices: 28557461--28557531 Score: 83
Period size: 31 Copynumber: 2.2 Consensus size: 33
28557451 AAAGACATTA
* * *
28557461 TTTGTGAAATTATTATTTGCATTTTGGTCTTTTT
1 TTTGTTAAATTATTAATTCCATTTT-GTCTTTTT
28557495 TTTGTTAAATT-TTAATTCCATTTT-TCTTTTT
1 TTTGTTAAATTATTAATTCCATTTTGTCTTTTT
*
28557526 TATGTT
1 TTTGTT
28557532 TCTTTTAGGT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
31 12 0.36
33 11 0.33
34 10 0.30
ACGTcount: A:0.18, C:0.07, G:0.10, T:0.65
Consensus pattern (33 bp):
TTTGTTAAATTATTAATTCCATTTTGTCTTTTT
Found at i:28586235 original size:5 final size:5
Alignment explanation
Indices: 28586225--28586267 Score: 52
Period size: 5 Copynumber: 8.2 Consensus size: 5
28586215 TAATAACAAC
28586225 ATAAA ATAAA A-AAA ATAAAA ATAAA GATAAA ATAAA ATTAAA A
1 ATAAA ATAAA ATAAA AT-AAA ATAAA -ATAAA ATAAA A-TAAA A
28586268 ATCATCATCG
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
4 4 0.12
5 15 0.44
6 15 0.44
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (5 bp):
ATAAA
Found at i:28586256 original size:12 final size:11
Alignment explanation
Indices: 28586225--28586269 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
28586215 TAATAACAAC
28586225 ATAAAAT-AAA
1 ATAAAATAAAA
28586235 A-AAAATAAAA
1 ATAAAATAAAA
28586245 ATAAAGAT-AAA
1 ATAAA-ATAAAA
28586256 ATAAAATTAAAA
1 ATAAAA-TAAAA
28586268 AT
1 AT
28586270 CATCATCGCC
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
9 5 0.17
10 6 0.20
11 12 0.40
12 7 0.23
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (11 bp):
ATAAAATAAAA
Found at i:28592256 original size:47 final size:47
Alignment explanation
Indices: 28592198--28592501 Score: 491
Period size: 47 Copynumber: 6.5 Consensus size: 47
28592188 ATTCAGCCAA
*
28592198 GAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
28592245 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* *
28592292 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
*
28592339 GAAAGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
28592386 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* * * * * * *
28592433 GAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* *
28592480 GAAAGTGCATAAATGTGATAAG
1 GAAAGTGTATATATGTGATAAG
28592502 TCCCGAAGGG
Statistics
Matches: 239, Mismatches: 18, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 239 1.00
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
Found at i:28592675 original size:37 final size:37
Alignment explanation
Indices: 28592619--28592697 Score: 97
Period size: 37 Copynumber: 2.1 Consensus size: 37
28592609 CCGAGCTCTA
* * * *
28592619 AAGACCCGCTGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGAGT
*
28592656 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGAGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGAGT
28592693 AAGAC
1 AAGAC
28592698 TTCGTAATAA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
37 35 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGAGT
Found at i:28602563 original size:47 final size:47
Alignment explanation
Indices: 28602502--28602654 Score: 161
Period size: 47 Copynumber: 3.3 Consensus size: 47
28602492 AGTGAACTCA
*
28602502 GACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTCGAAGTCG
1 GACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTCGAAATCG
* * * * ***
28602549 GACTCAACTTAACGAGTTCGGACATTCGC-A--TCCATAAGT-GAAATCG
1 GACTCAACTCAACGAGCTCGG--ATGC-CTAGTTACATCTCTCGAAATCG
* *
28602595 GAATCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTCGAACTCG
1 GACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTCGAAATCG
28602642 GACTCAACTCAAC
1 GACTCAACTCAAC
28602655 AAGTTCAGAC
Statistics
Matches: 81, Mismatches: 18, Indels: 14
0.72 0.16 0.12
Matches are distributed among these distances:
43 1 0.01
44 4 0.05
46 29 0.36
47 42 0.52
49 4 0.05
50 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.23
Consensus pattern (47 bp):
GACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTCGAAATCG
Found at i:28602609 original size:46 final size:46
Alignment explanation
Indices: 28602441--28602709 Score: 190
Period size: 46 Copynumber: 5.8 Consensus size: 46
28602431 TGTAACCCGC
* * * * * *
28602441 CCATAAGCGAACTCAGACTCAACTCAATGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* * * *
28602487 CCACAAGTGAACTCAGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGC-A--T
* *** * *
28602533 ACATCTCTCGAAGTCGGACTCAACTTAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* * * *
28602580 CCATAAGTGAAATCGGAATCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGC-A--T
* *** * *
28602626 ACATCTCTCGAACTCGGACTCAACTCAACAAGTTCAGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
28602673 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
28602710 TGCCCAAATA
Statistics
Matches: 169, Mismatches: 40, Indels: 28
0.71 0.17 0.12
Matches are distributed among these distances:
43 2 0.01
44 7 0.04
46 93 0.55
47 57 0.34
49 8 0.05
50 2 0.01
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:28602615 original size:93 final size:93
Alignment explanation
Indices: 28602448--28602713 Score: 406
Period size: 93 Copynumber: 2.9 Consensus size: 93
28602438 CGCCCATAAG
* * * * * * *
28602448 CGAACTCAGACTCAACTCAATGAGCTCGGGCGTTCGCATCCACAAGTGAACTCAGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
28602513 ACGAGCTCGGATGCCTAGTTACATCTCT
66 ACGAGCTCGGATGCCTAGTTACATCTCT
* * * *
28602541 CGAAGTCGGACTCAACTTAACGAGTTCGGACATTCGCATCCATAAGTGAAATCGGAATCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
28602606 ACGAGCTCGGATGCCTAGTTACATCTCT
66 ACGAGCTCGGATGCCTAGTTACATCTCT
* *
28602634 CGAACTCGGACTCAACTCAACAAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
28602699 ACGAGTTCGGATGCC
66 ACGAGCTCGGATGCC
28602714 CAAATATCCT
Statistics
Matches: 155, Mismatches: 18, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 155 1.00
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCT
Found at i:28608100 original size:8 final size:8
Alignment explanation
Indices: 28608082--28608137 Score: 94
Period size: 8 Copynumber: 6.9 Consensus size: 8
28608072 AATGATTTTA
28608082 TTTGTATTT
1 TTTG-ATTT
28608091 TTTGATTT
1 TTTGATTT
*
28608099 TTTTATTT
1 TTTGATTT
28608107 TTTGATTT
1 TTTGATTT
28608115 TTTGATTT
1 TTTGATTT
28608123 TTTGATTT
1 TTTGATTT
28608131 TTTGATT
1 TTTGATT
28608138 CTATGTAAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
8 41 0.91
9 4 0.09
ACGTcount: A:0.12, C:0.00, G:0.11, T:0.77
Consensus pattern (8 bp):
TTTGATTT
Found at i:28610696 original size:15 final size:15
Alignment explanation
Indices: 28610673--28610707 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
28610663 CGTTTCCGGG
*
28610673 GAACTGAAATATTAT
1 GAACAGAAATATTAT
28610688 GAACAGAAATATTAT
1 GAACAGAAATATTAT
28610703 GAACA
1 GAACA
28610708 CTAAATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.51, C:0.09, G:0.14, T:0.26
Consensus pattern (15 bp):
GAACAGAAATATTAT
Found at i:28611703 original size:13 final size:13
Alignment explanation
Indices: 28611685--28611710 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
28611675 AAGAAATCGA
28611685 ACACGGGCGTGTC
1 ACACGGGCGTGTC
28611698 ACACGGGCGTGTC
1 ACACGGGCGTGTC
28611711 CTTGCCGAGC
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:0.15, C:0.31, G:0.38, T:0.15
Consensus pattern (13 bp):
ACACGGGCGTGTC
Found at i:28614546 original size:22 final size:22
Alignment explanation
Indices: 28614521--28614565 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
28614511 TCACTGAGAC
28614521 TCAAT-TCAAACTTAAGACTTTT
1 TCAATATCAAACTTAA-ACTTTT
* *
28614543 TCAATATCGACCTTAAACTTTT
1 TCAATATCAAACTTAAACTTTT
28614565 T
1 T
28614566 ATTATGGACC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.42
Consensus pattern (22 bp):
TCAATATCAAACTTAAACTTTT
Found at i:28615864 original size:47 final size:46
Alignment explanation
Indices: 28615810--28616079 Score: 262
Period size: 47 Copynumber: 5.8 Consensus size: 46
28615800 GGTAAGGTGC
28615810 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCAT-ATCTCAAGT
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCATCATCTCAAGT
* * *
28615857 CGATGCCATGTCCCAGACATGGTCTTACACTGACT-ATCATCTCGTAGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCATCATCTC-AAGT
* * * * *
28615905 CGATGCATGTCCTAGACATGTCTCACACTGGCTTA-CATCTCGAGGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTCATCATCTC-AAGT
* * *
28615951 CGATGCATATCCCAGACATGTCTTACACTAGCTC-TCGTCTCAATGT
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTCATCATCTCAA-GT
* * ***
28615997 CGATGCCATGTCCCAGACATGATCTTACATTGGCTC-TCATAATGTGGT
1 CGATG-CATGTCCCAGACATG-TCTTACACTGGCTCATCAT-CTCAAGT
*
28616045 CGATGCATGTCCCAGACATGTCTTACACTAGCTCA
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTCA
28616080 CAAACAAATG
Statistics
Matches: 188, Mismatches: 26, Indels: 18
0.81 0.11 0.08
Matches are distributed among these distances:
45 1 0.01
46 75 0.40
47 82 0.44
48 29 0.15
49 1 0.01
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (46 bp):
CGATGCATGTCCCAGACATGTCTTACACTGGCTCATCATCTCAAGT
Found at i:28616073 original size:140 final size:141
Alignment explanation
Indices: 28615808--28616073 Score: 369
Period size: 140 Copynumber: 1.9 Consensus size: 141
28615798 TGGGTAAGGT
* *
28615808 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATATCTCAAGTCGATGCCATGTCCCAG
1 GCCGATGCCATATCCCAGACATGGTCTTACACTAGCTCATATCTCAAGTCGATGCCATGTCCCAG
* * *
28615873 ACATGGTCTTACACTGACTATCATCTCGTAGCCGATGCATGTCCTAGACATGTCTCACACTGGCT
66 ACATGATCTTACACTGACTATCATATCGTAGCCGATGCATGTCCCAGACATGTCTCACACTGGCT
28615938 TACATCTCGAG
131 TACATCTCGAG
*
28615949 GCCGATG-CATATCCCAGACAT-GTCTTACACTAGCTC-TCGTCTCAATGTCGATGCCATGTCCC
1 GCCGATGCCATATCCCAGACATGGTCTTACACTAGCTCAT-ATCTCAA-GTCGATGCCATGTCCC
* * * * * *
28616011 AGACATGATCTTACATTGGCTCTCATAAT-GTGGTCGATGCATGTCCCAGACATGTCTTACACT
64 AGACATGATCTTACACTGACTATCAT-ATCGTAGCCGATGCATGTCCCAGACATGTCTCACACT
28616074 AGCTCACAAA
Statistics
Matches: 110, Mismatches: 12, Indels: 7
0.85 0.09 0.05
Matches are distributed among these distances:
138 1 0.01
139 20 0.18
140 81 0.74
141 8 0.07
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (141 bp):
GCCGATGCCATATCCCAGACATGGTCTTACACTAGCTCATATCTCAAGTCGATGCCATGTCCCAG
ACATGATCTTACACTGACTATCATATCGTAGCCGATGCATGTCCCAGACATGTCTCACACTGGCT
TACATCTCGAG
Found at i:28620377 original size:31 final size:32
Alignment explanation
Indices: 28620321--28620381 Score: 88
Period size: 31 Copynumber: 1.9 Consensus size: 32
28620311 AGAAGTCACC
* *
28620321 AGATATAGATATTGTGGCTAGGCCACCAGAAT
1 AGATATAGATATTGTGGCAAAGCCACCAGAAT
*
28620353 AGATATATATA-TGTGGCAAAGCCACCAGA
1 AGATATAGATATTGTGGCAAAGCCACCAGA
28620382 TTGCAGCGAG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 16 0.62
32 10 0.38
ACGTcount: A:0.38, C:0.16, G:0.23, T:0.23
Consensus pattern (32 bp):
AGATATAGATATTGTGGCAAAGCCACCAGAAT
Found at i:28620445 original size:27 final size:26
Alignment explanation
Indices: 28620397--28620448 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
28620387 GCGAGGCTGC
*
28620397 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
28620423 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
28620449 TTGCAGTGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:28623976 original size:14 final size:13
Alignment explanation
Indices: 28623956--28623987 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
28623946 AATATTTGAC
28623956 TTGTTCTTAATTA
1 TTGTTCTTAATTA
28623969 TGTGTTCTTAATTA
1 T-TGTTCTTAATTA
28623983 TTGTT
1 TTGTT
28623988 TTGATATTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.19, C:0.06, G:0.12, T:0.62
Consensus pattern (13 bp):
TTGTTCTTAATTA
Found at i:28630241 original size:46 final size:45
Alignment explanation
Indices: 28630188--28630363 Score: 171
Period size: 46 Copynumber: 3.8 Consensus size: 45
28630178 TATTTGGGCA
*
28630188 TCCGAACTCATTGAGTTGAGTTCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAA-G
* *** * *
28630234 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTTCGAGTTC-ACTTATG-GA-T-GCGAAG
*
28630281 TCCGAGCTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAA-G
*
28630327 -CCTGAGCTCGTTGAGTTGAG-TCTGAGTTCACTTATGG
1 TCC-GAACTCGTTGAGTTGAGTTC-GAGTTCACTTATGG
28630364 GTGGGTTACA
Statistics
Matches: 107, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 5 0.05
46 62 0.58
47 31 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.31
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAAG
Found at i:28630301 original size:93 final size:93
Alignment explanation
Indices: 28630184--28630355 Score: 283
Period size: 93 Copynumber: 1.8 Consensus size: 93
28630174 AGGATATTTG
*
28630184 GGCATCCGAACTCATTGAGTTGAGTTCGAGTTCACTTATGGATGCGAATGTCC-GAACTCGTTGA
1 GGCATCCGAACTCATTGAGTTGAGTTCGAGTTCACTTATGGATGCGAACG-CCTGAACTCGTTGA
28630248 GTTGAGTCCGAGTTCGAGAGATGTAACTA
65 GTTGAGTCCGAGTTCGAGAGATGTAACTA
* * *
28630277 GGCATCCGAGCTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAACGCCTGAGCTCGTTGAG
1 GGCATCCGAACTCATTGAGTTGAGTTCGAGTTCACTTATGGATGCGAACGCCTGAACTCGTTGAG
*
28630342 TTGAGTCTGAGTTC
66 TTGAGTCCGAGTTC
28630356 ACTTATGGGT
Statistics
Matches: 73, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 2 0.03
93 71 0.97
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.30
Consensus pattern (93 bp):
GGCATCCGAACTCATTGAGTTGAGTTCGAGTTCACTTATGGATGCGAACGCCTGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:28638111 original size:43 final size:44
Alignment explanation
Indices: 28638048--28638158 Score: 127
Period size: 44 Copynumber: 2.5 Consensus size: 44
28638038 TACAACGCCA
* * * * *
28638048 AATGTCCCAGACATGGTCTTACATG-CAACCATATATCGATGCC
1 AATGTCCCAGACAGGGTCTTACACGTAAACCACAAATCGATGCC
* *
28638091 ACTGTCCCAGACAGGGTCTTACACGTAAATCACAAATCGATGCC
1 AATGTCCCAGACAGGGTCTTACACGTAAACCACAAATCGATGCC
*
28638135 AATGTCCTAGAC-GTGGTCTTACAC
1 AATGTCCCAGACAG-GGTCTTACAC
28638159 AAAATCACAT
Statistics
Matches: 57, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
43 23 0.40
44 34 0.60
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (44 bp):
AATGTCCCAGACAGGGTCTTACACGTAAACCACAAATCGATGCC
Found at i:28638153 original size:44 final size:43
Alignment explanation
Indices: 28638048--28638172 Score: 126
Period size: 43 Copynumber: 2.9 Consensus size: 43
28638038 TACAACGCCA
* *** * * *
28638048 AATGTCCCAGACATGGTCTTACATGCAACCATATATCGATGCC
1 AATGTCCCAGACAGGGTCTTACACAAAATCACAAATCGATGCC
* *
28638091 ACTGTCCCAGACAGGGTCTTACACGTAAATCACAAATCGATGCC
1 AATGTCCCAGACAGGGTCTTACAC-AAAATCACAAATCGATGCC
* *
28638135 AATGTCCTAGAC-GTGGTCTTACACAAAATCACATATCG
1 AATGTCCCAGACAG-GGTCTTACACAAAATCACAAATCG
28638173 GAATCCTATG
Statistics
Matches: 68, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
43 34 0.50
44 34 0.50
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (43 bp):
AATGTCCCAGACAGGGTCTTACACAAAATCACAAATCGATGCC
Found at i:28640380 original size:26 final size:25
Alignment explanation
Indices: 28640285--28640379 Score: 115
Period size: 25 Copynumber: 3.8 Consensus size: 25
28640275 CTCTTTTAAT
28640285 AACTGGGGC-AAAGCCC-TTTGGATA
1 AACTGGGGCAAAAGCCCTTTTGG-TA
**
28640309 AACTGGGGCAAAAGCCCTTTTAATA
1 AACTGGGGCAAAAGCCCTTTTGGTA
*
28640334 AACTGGGGCAAAAGCTCTTTTCGGTA
1 AACTGGGGCAAAAGCCCTTTT-GGTA
*
28640360 AACTGGGGC-ATAGCCCTTTT
1 AACTGGGGCAAAAGCCCTTTT
28640380 TGCACTTCCT
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
24 9 0.15
25 38 0.62
26 14 0.23
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.25
Consensus pattern (25 bp):
AACTGGGGCAAAAGCCCTTTTGGTA
Found at i:28647969 original size:38 final size:38
Alignment explanation
Indices: 28647927--28648033 Score: 205
Period size: 38 Copynumber: 2.8 Consensus size: 38
28647917 CTCAGCATAT
28647927 ACTGGGCCGAAGCCTTTTCATATTTCATATTTCATAAC
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTCATAAC
28647965 ACTGGGCCGAAGCCTTTTCATATTTCATATTTCATAAC
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTCATAAC
*
28648003 ACTGGGCCGAAGCCTTTTCATATTGCATATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATT
28648034 ACTGGGCCGA
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
38 68 1.00
ACGTcount: A:0.25, C:0.23, G:0.15, T:0.36
Consensus pattern (38 bp):
ACTGGGCCGAAGCCTTTTCATATTTCATATTTCATAAC
Found at i:28647984 original size:31 final size:31
Alignment explanation
Indices: 28647949--28648050 Score: 114
Period size: 31 Copynumber: 3.1 Consensus size: 31
28647939 CCTTTTCATA
28647949 TTTCATATTTCATAACACTGGGCCGAAGCCTTTTCAT
1 TTTCATATTTCATAACACTGGGCCGAAG-C----C-T
28647986 ATTTCATATTTCATAACACTGGGCCGAAGCCT
1 -TTTCATATTTCATAACACTGGGCCGAAGCCT
* **
28648018 TTTCATATTGCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
28648049 TT
1 TT
28648051 ACTGTAAACG
Statistics
Matches: 61, Mismatches: 3, Indels: 7
0.86 0.04 0.10
Matches are distributed among these distances:
31 30 0.49
32 1 0.02
33 1 0.02
37 1 0.02
38 28 0.46
ACGTcount: A:0.25, C:0.24, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCGAAGCCT
Found at i:28648362 original size:26 final size:25
Alignment explanation
Indices: 28648259--28648367 Score: 134
Period size: 25 Copynumber: 4.4 Consensus size: 25
28648249 TTGGAGGCCT
*
28648259 AGCCTCTTTTAAT-AACTGGGGC-AA
1 AGCC-CTTTTGATAAACTGGGGCAAA
28648283 AGCCCTTTTGATAAACTGGGGCAAA
1 AGCCCTTTTGATAAACTGGGGCAAA
*
28648308 AGCCCTTTTAATAAACTGGGGCAAA
1 AGCCCTTTTGATAAACTGGGGCAAA
* *
28648333 AGCCCTTTTTCGGTAAACTGGGGC-AT
1 AGCCC-TTTT-GATAAACTGGGGCAAA
28648359 AGCCCTTTT
1 AGCCCTTTT
28648368 TGCACTTCCT
Statistics
Matches: 76, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
23 7 0.09
24 13 0.17
25 35 0.46
26 10 0.13
27 11 0.14
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (25 bp):
AGCCCTTTTGATAAACTGGGGCAAA
Found at i:28648438 original size:20 final size:20
Alignment explanation
Indices: 28648415--28648461 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
28648405 TTATGAATAC
28648415 ATCATGTGCATATCATA-CA
1 ATCATGTGCATATCATATCA
28648434 TATCATGTGCATATCATATCA
1 -ATCATGTGCATATCATATCA
28648455 ATCATGT
1 ATCATGT
28648462 ATATCAAATC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 24 0.92
21 2 0.08
ACGTcount: A:0.34, C:0.19, G:0.11, T:0.36
Consensus pattern (20 bp):
ATCATGTGCATATCATATCA
Found at i:28650577 original size:43 final size:42
Alignment explanation
Indices: 28650421--28650578 Score: 142
Period size: 43 Copynumber: 3.7 Consensus size: 42
28650411 TATGTGTTAT
* *
28650421 CGTGTAAGACCACGTCTGGGACATTGGCATCGATTTTTGATTTA
1 CGTGTAAGACCACGTCTGGGACGTTGGCATC-ATATTTGA-TTA
* * ** * *
28650465 CGTGTAAGATCATGTCTGGGAC-TTGATATCATATATGATTT
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCATATTTGATTA
* *
28650506 TGTGTAAGACC-CTGTCTGGGATAG-TGGCATCAATATTTGATTA
1 CGTGTAAGACCAC-GTCTGGGA-CGTTGGCATC-ATATTTGATTA
* *
28650549 CATGTAAGACCACGTCTAGGACGTTGGCAT
1 CGTGTAAGACCACGTCTGGGACGTTGGCAT
28650579 TGTACGAGCT
Statistics
Matches: 89, Mismatches: 19, Indels: 13
0.74 0.16 0.11
Matches are distributed among these distances:
41 19 0.21
42 12 0.13
43 37 0.42
44 21 0.24
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.34
Consensus pattern (42 bp):
CGTGTAAGACCACGTCTGGGACGTTGGCATCATATTTGATTA
Found at i:28657351 original size:40 final size:40
Alignment explanation
Indices: 28657267--28657449 Score: 187
Period size: 40 Copynumber: 4.6 Consensus size: 40
28657257 TTGAATGCTG
* * * *
28657267 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
** *
28657306 ATCCGGACTAAGAT-CCGAAGGTATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
28657347 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
28657387 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
28657427 T-CGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
28657450 GAATGAGTTA
Statistics
Matches: 122, Mismatches: 16, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
39 24 0.20
40 88 0.72
41 10 0.08
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:28657404 original size:80 final size:81
Alignment explanation
Indices: 28657267--28657446 Score: 212
Period size: 80 Copynumber: 2.3 Consensus size: 81
28657257 TTGAATGCTG
* * *
28657267 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGTATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
* *
28657331 TGTGCGAGTTATT-AAT
66 CGTGCGAGTT-TTAAAA
**
28657347 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
28657408 ATTCGTGCGAGTTTTAAAA
63 ATTCGTGCGAGTTTTAAAA
28657427 T-CGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
28657447 ATTGAATGAG
Statistics
Matches: 88, Mismatches: 7, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
79 23 0.26
80 56 0.64
81 9 0.10
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTTTAAAA
Found at i:28657483 original size:78 final size:80
Alignment explanation
Indices: 28657320--28657486 Score: 189
Period size: 78 Copynumber: 2.1 Consensus size: 80
28657310 GGACTAAGAT
* * * * **
28657320 CCGAAGGTATTTGTGCGAGTTATTAATTCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTA
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCCATTGAACGAGATACTA
* *
28657385 ATTCCGGGTTAAGTC
66 ATACCGGGCTAAGTC
* *
28657400 CCGAAGGCATTCGTGCGAGTT-TTAAAAT-CGGGTTAAGTCCCGAAGG-CATTGAATGAGTTACT
1 CCGAAGGCATTCGTGCGAGTTATT-AAATCCGGGTTAAGTCCCGAAGGCCATTGAACGAGATACT
*
28657462 -ATGACCGGGCTATGTC
65 AAT-ACCGGGCTAAGTC
28657478 CCGAAGGCA
1 CCGAAGGCA
28657487 CTTGAACGAG
Statistics
Matches: 74, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
77 2 0.03
78 30 0.41
79 20 0.27
80 22 0.30
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.28
Consensus pattern (80 bp):
CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCCATTGAACGAGATACTA
ATACCGGGCTAAGTC
Found at i:28671694 original size:28 final size:29
Alignment explanation
Indices: 28671630--28671695 Score: 71
Period size: 28 Copynumber: 2.3 Consensus size: 29
28671620 CTTTCATTTA
* * *
28671630 TTTCACAATTTAACCCCTCAATTTACACT
1 TTTCTCAAATTAACCCCTCAATTGACACT
* *
28671659 TTTCTCAAATTAATCCCT-AATTGACATT
1 TTTCTCAAATTAACCCCTCAATTGACACT
*
28671687 TTTGTCAAA
1 TTTCTCAAA
28671696 AATCACTTTA
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
28 16 0.52
29 15 0.48
ACGTcount: A:0.32, C:0.24, G:0.03, T:0.41
Consensus pattern (29 bp):
TTTCTCAAATTAACCCCTCAATTGACACT
Found at i:28686787 original size:28 final size:29
Alignment explanation
Indices: 28686755--28686809 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
28686745 ACAGGCGACC
*
28686755 ACACGGGAGTGT-CTAGGCTGTGTGAAGG
1 ACACGGGAGTGTGCTAGGCCGTGTGAAGG
* *
28686783 ACACGGGCGTGTGCTTGGCCGTGTGAA
1 ACACGGGAGTGTGCTAGGCCGTGTGAA
28686810 AACCCTTGTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 11 0.48
29 12 0.52
ACGTcount: A:0.18, C:0.18, G:0.42, T:0.22
Consensus pattern (29 bp):
ACACGGGAGTGTGCTAGGCCGTGTGAAGG
Found at i:28688293 original size:36 final size:36
Alignment explanation
Indices: 28688246--28688317 Score: 126
Period size: 36 Copynumber: 2.0 Consensus size: 36
28688236 TCTCCTGAGT
*
28688246 ACAAAACATGAAATAACCGGATTAAGAGCACCAAAA
1 ACAAAACATGAAATAACCGGATTAAAAGCACCAAAA
*
28688282 ACAAAACATGAAATAACCGGATTAAAAGTACCAAAA
1 ACAAAACATGAAATAACCGGATTAAAAGCACCAAAA
28688318 TCCACAAATC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.57, C:0.18, G:0.12, T:0.12
Consensus pattern (36 bp):
ACAAAACATGAAATAACCGGATTAAAAGCACCAAAA
Found at i:28693495 original size:28 final size:29
Alignment explanation
Indices: 28693463--28693517 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
28693453 ACAGGCAACC
*
28693463 ACACGGGAGTGT-CTAGGCTGTGTGAAGG
1 ACACGGGAGTGTGCTAGGCCGTGTGAAGG
* *
28693491 ACACGGGCGTGTGCTTGGCCGTGTGAA
1 ACACGGGAGTGTGCTAGGCCGTGTGAA
28693518 AACCCCTGTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 11 0.48
29 12 0.52
ACGTcount: A:0.18, C:0.18, G:0.42, T:0.22
Consensus pattern (29 bp):
ACACGGGAGTGTGCTAGGCCGTGTGAAGG
Found at i:28695002 original size:36 final size:36
Alignment explanation
Indices: 28694955--28695026 Score: 126
Period size: 36 Copynumber: 2.0 Consensus size: 36
28694945 TCTCCTGAGT
*
28694955 ACAAAACATGAAATAACCGGATTAAGAGCACCAAAA
1 ACAAAACATGAAATAACCGGATTAAAAGCACCAAAA
*
28694991 ACAAAACATGAAATAACCGGATTAAAAGTACCAAAA
1 ACAAAACATGAAATAACCGGATTAAAAGCACCAAAA
28695027 TCCACAAATC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.57, C:0.18, G:0.12, T:0.12
Consensus pattern (36 bp):
ACAAAACATGAAATAACCGGATTAAAAGCACCAAAA
Done.