Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D08
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: 65987480
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 223646 characters in sequence are not A, C, G, or T
File 57 of 211
Found at i:17232172 original size:57 final size:56
Alignment explanation
Indices: 17232110--17232216 Score: 144
Period size: 56 Copynumber: 1.9 Consensus size: 56
17232100 TGGTTTTCAC
* *
17232110 CATCCCTTTCCATAGTTCGATAGTTG-AAGCTATCCCTTTTCATATTTTGATGGTCGT
1 CATCCCTTTCCATAGTT-GATAGTCGTAA-CCATCCCTTTTCATATTTTGATGGTCGT
* * *
17232167 CATCCCTTTTCATAGTTGATGGTCGTCACCATCCCTTTTCATATTTTGAT
1 CATCCCTTTCCATAGTTGATAGTCGTAACCATCCCTTTTCATATTTTGAT
17232217 AGCCGAAGCT
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
56 27 0.61
57 17 0.39
ACGTcount: A:0.19, C:0.24, G:0.14, T:0.43
Consensus pattern (56 bp):
CATCCCTTTCCATAGTTGATAGTCGTAACCATCCCTTTTCATATTTTGATGGTCGT
Found at i:17232175 original size:27 final size:28
Alignment explanation
Indices: 17232141--17232216 Score: 111
Period size: 29 Copynumber: 2.7 Consensus size: 28
17232131 AGTTGAAGCT
17232141 ATCCCTTTTCATATTTTGATGGTCGT-C
1 ATCCCTTTTCATATTTTGATGGTCGTCC
*
17232168 ATCCCTTTTCATA-GTTGATGGTCGTCACC
1 ATCCCTTTTCATATTTTGATGGTCGT--CC
17232197 ATCCCTTTTCATATTTTGAT
1 ATCCCTTTTCATATTTTGAT
17232217 AGCCGAAGCT
Statistics
Matches: 43, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
26 11 0.26
27 13 0.30
29 14 0.33
30 5 0.12
ACGTcount: A:0.17, C:0.24, G:0.13, T:0.46
Consensus pattern (28 bp):
ATCCCTTTTCATATTTTGATGGTCGTCC
Found at i:17232231 original size:30 final size:30
Alignment explanation
Indices: 17232111--17232419 Score: 188
Period size: 30 Copynumber: 10.4 Consensus size: 30
17232101 GGTTTTCACC
* * * *
17232111 ATCCCTTTCCATAGTTCGATAGTTGAAGCT
1 ATCCCTTTTCATAATTTGATAGTCGAAGCT
* * *
17232141 ATCCCTTTTCATATTTTGATGGTCG--TC-
1 ATCCCTTTTCATAATTTGATAGTCGAAGCT
* * * *
17232168 ATCCCTTTTCAT-AGTTGATGGTCGTCA-CC
1 ATCCCTTTTCATAATTTGATAGTCG-AAGCT
* *
17232197 ATCCCTTTTCATATTTTGATAGCCGAAGCT
1 ATCCCTTTTCATAATTTGATAGTCGAAGCT
** * *
17232227 ATCCCTTTTCATAATTTGATAACCAAAGTT
1 ATCCCTTTTCATAATTTGATAGTCGAAGCT
* * * * *
17232257 ATCCCTTTTCAT-AGTTCAAAGATCATAAAC-
1 ATCCCTTTTCATAATTTGATAG-TC-GAAGCT
* * * *
17232287 ATCCCTTTT-TTATTGTTGATGGTC-ATCA-CC
1 ATCCCTTTTCATAAT-TTGATAGTCGA--AGCT
* *
17232317 ATCCCTTTTCATAATTCGACAGTCGAAGCT
1 ATCCCTTTTCATAATTTGATAGTCGAAGCT
* * *
17232347 ATCCCTTTTCATAATTTGATAGCCAAAGTT
1 ATCCCTTTTCATAATTTGATAGTCGAAGCT
* * *
17232377 ATCCATTTTCATAATTTGATAATCAAAGCT
1 ATCCCTTTTCATAATTTGATAGTCGAAGCT
17232407 ATCCCTTTTCATA
1 ATCCCTTTTCATA
17232420 GTTCGATAAT
Statistics
Matches: 215, Mismatches: 48, Indels: 32
0.73 0.16 0.11
Matches are distributed among these distances:
26 10 0.05
27 12 0.06
28 3 0.01
29 21 0.10
30 159 0.74
31 10 0.05
ACGTcount: A:0.26, C:0.23, G:0.11, T:0.40
Consensus pattern (30 bp):
ATCCCTTTTCATAATTTGATAGTCGAAGCT
Found at i:17232415 original size:120 final size:120
Alignment explanation
Indices: 17232167--17232389 Score: 358
Period size: 120 Copynumber: 1.9 Consensus size: 120
17232157 TGATGGTCGT
* * * *
17232167 CATCCC-TTTTCATAGTTGATGGTCGTCACCATCCCTTTTCATATTTTGATAGCCGAAGCTATCC
1 CATCCCTTTTTCATAGTTGATGGTCATCACCATCCCTTTTCATAATTCGACAGCCGAAGCTATCC
*
17232231 CTTTTCATAATTTGATAACCAAAGTTATCCCTTTTCATAGTTCAAAGATCATAAA
66 CTTTTCATAATTTGATAACCAAAGTTATCCATTTTCATAGTTCAAAGATCATAAA
* * *
17232286 CATCCCTTTTTTATTGTTGATGGTCATCACCATCCCTTTTCATAATTCGACAGTCGAAGCTATCC
1 CATCCCTTTTTCATAGTTGATGGTCATCACCATCCCTTTTCATAATTCGACAGCCGAAGCTATCC
*
17232351 CTTTTCATAATTTGATAGCCAAAGTTATCCATTTTCATA
66 CTTTTCATAATTTGATAACCAAAGTTATCCATTTTCATA
17232390 ATTTGATAAT
Statistics
Matches: 94, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
119 6 0.06
120 88 0.94
ACGTcount: A:0.26, C:0.24, G:0.11, T:0.39
Consensus pattern (120 bp):
CATCCCTTTTTCATAGTTGATGGTCATCACCATCCCTTTTCATAATTCGACAGCCGAAGCTATCC
CTTTTCATAATTTGATAACCAAAGTTATCCATTTTCATAGTTCAAAGATCATAAA
Found at i:17234622 original size:40 final size:40
Alignment explanation
Indices: 17234604--17234795 Score: 314
Period size: 40 Copynumber: 4.8 Consensus size: 40
17234594 AAGTGACCAT
17234604 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAA
1 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAA
* *
17234644 ATCCAGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAA
1 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAA
*
17234684 ATCCGGACTAAGATCCGATGGCATTTGTGCGAGATACTAA
1 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAA
*
17234724 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAA
1 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAA
**
17234764 ATCCGGGTTAAG-TCCCGAAGGCATTTGTGCGA
1 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGA
17234796 ATTACTATAA
Statistics
Matches: 142, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
39 1 0.01
40 141 0.99
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.24
Consensus pattern (40 bp):
ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAA
Found at i:17234827 original size:120 final size:121
Alignment explanation
Indices: 17234565--17234830 Score: 346
Period size: 120 Copynumber: 2.2 Consensus size: 121
17234555 TTGAATGATG
* *
17234565 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
*
17234629 TGTGCGAGATACTAAATCCAGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
66 TGTGCGAGATACTAAATCCAGACTAAGATCCGAAGGCATTTGTGCGAATTACTAAA
* * *
17234685 TCCGGACTAAGAT-CCGATGGCATTTGTGCG-AGAT-ACTAAATCCGGACTAAGATCCGAAGGCA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAAG-TGACCAAATCCGGACTAAGATCCGAAGGCA
* * **
17234747 TTTGTGCGAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAATTACTATAA
64 TTTGTGCGAGATACTAAATCCAGACTAAGAT-CCGAAGGCATTTGTGCGAATTACTA-AA
* *
17234806 -CTGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
17234831 AACGATGAGC
Statistics
Matches: 126, Mismatches: 14, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
119 2 0.02
120 113 0.90
121 11 0.09
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.26
Consensus pattern (121 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTAAATCCAGACTAAGATCCGAAGGCATTTGTGCGAATTACTAAA
Found at i:17234830 original size:40 final size:40
Alignment explanation
Indices: 17234565--17234802 Score: 297
Period size: 40 Copynumber: 6.0 Consensus size: 40
17234555 TTGAATGATG
* * * * *
17234565 TCCGGGCTAAG-TCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAA-TTACTAAA
17234605 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGA-TACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGA-ATTACTAAA
* *
17234645 TCCAGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAATTACTAAA
*
17234685 TCCGGACTAAGATCCGATGGCATTTGTGCGAGA-TACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGA-ATTACTAAA
*
17234725 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAATTACTAAA
**
17234765 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAATTACTA
1 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAATTACTA
17234803 TAACTGGGCT
Statistics
Matches: 176, Mismatches: 15, Indels: 14
0.86 0.07 0.07
Matches are distributed among these distances:
39 1 0.01
40 165 0.94
41 9 0.05
42 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.25
Consensus pattern (40 bp):
TCCGGACTAAGATCCGAAGGCATTTGTGCGAATTACTAAA
Found at i:17234830 original size:80 final size:80
Alignment explanation
Indices: 17234565--17234795 Score: 333
Period size: 80 Copynumber: 2.9 Consensus size: 80
17234555 TTGAATGATG
* * * * *
17234565 TCCGGGCTAAG-TCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCAT
1 TCCGGACTAAGAT-CCGAAGGCATTTGTGC-GAGTTACTAAATCCGGACTAAGATCCGAAGGCAT
17234628 TTGTGCGAGATACTAAA
64 TTGTGCGAGATACTAAA
* *
17234645 TCCAGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCGATGGCATTT
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTT
17234710 GTGCGAGATACTAAA
66 GTGCGAGATACTAAA
**
17234725 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATT
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGAT-CCGAAGGCATT
17234789 TGTGCGA
65 TGTGCGA
17234796 ATTACTATAA
Statistics
Matches: 137, Mismatches: 11, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
79 1 0.01
80 128 0.93
81 8 0.06
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (80 bp):
TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAAA
Found at i:17239636 original size:16 final size:16
Alignment explanation
Indices: 17239615--17239655 Score: 82
Period size: 16 Copynumber: 2.6 Consensus size: 16
17239605 TGAAGAAGTG
17239615 TTTTGGAAACCTATAA
1 TTTTGGAAACCTATAA
17239631 TTTTGGAAACCTATAA
1 TTTTGGAAACCTATAA
17239647 TTTTGGAAA
1 TTTTGGAAA
17239656 AATGACTAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.37, C:0.10, G:0.15, T:0.39
Consensus pattern (16 bp):
TTTTGGAAACCTATAA
Found at i:17241323 original size:37 final size:37
Alignment explanation
Indices: 17241282--17241354 Score: 146
Period size: 37 Copynumber: 2.0 Consensus size: 37
17241272 GATAATTCTT
17241282 AGCCACTAAACAAATTTCAAAATTGGTTTAATCATAA
1 AGCCACTAAACAAATTTCAAAATTGGTTTAATCATAA
17241319 AGCCACTAAACAAATTTCAAAATTGGTTTAATCATA
1 AGCCACTAAACAAATTTCAAAATTGGTTTAATCATA
17241355 CTTTAATCTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.45, C:0.16, G:0.08, T:0.30
Consensus pattern (37 bp):
AGCCACTAAACAAATTTCAAAATTGGTTTAATCATAA
Found at i:17242097 original size:26 final size:26
Alignment explanation
Indices: 17242072--17242121 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
17242062 TACCATAATA
*
17242072 ATTAGG-GACAAATTTTGTCCCAAAT
1 ATTAGGAGACAAATATTGTCCCAAAT
* *
17242097 ATTTGGAGACAAATATTGTTCCAAA
1 ATTAGGAGACAAATATTGTCCCAAA
17242122 ATTTATAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 5 0.24
26 16 0.76
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.32
Consensus pattern (26 bp):
ATTAGGAGACAAATATTGTCCCAAAT
Found at i:17245135 original size:61 final size:61
Alignment explanation
Indices: 17245040--17245168 Score: 240
Period size: 61 Copynumber: 2.1 Consensus size: 61
17245030 CATTTTTTTC
17245040 CTAATTGACATGGGTTTAATAGATGATTAGAAGGGTTCAAGAACTCAAATTAAGGATAGAA
1 CTAATTGACATGGGTTTAATAGATGATTAGAAGGGTTCAAGAACTCAAATTAAGGATAGAA
*
17245101 CTAATTGACATGGGTTTAATAGATGATTAGAAGGGTTCAAGAACTCAAATTAAGGCTAGAA
1 CTAATTGACATGGGTTTAATAGATGATTAGAAGGGTTCAAGAACTCAAATTAAGGATAGAA
*
17245162 TTAATTG
1 CTAATTG
17245169 GTCAAGATTC
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
61 66 1.00
ACGTcount: A:0.40, C:0.09, G:0.22, T:0.29
Consensus pattern (61 bp):
CTAATTGACATGGGTTTAATAGATGATTAGAAGGGTTCAAGAACTCAAATTAAGGATAGAA
Found at i:17249494 original size:50 final size:50
Alignment explanation
Indices: 17249319--17249556 Score: 228
Period size: 50 Copynumber: 4.6 Consensus size: 50
17249309 TGCGATCCCA
* *
17249319 TGTAAGACCATGTCTGGGACATGGCATTCGCATCATTGAGATTATGAGAGGTC-CC
1 TGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAG---ATGAGAGGTCTCC
* * * * *
17249374 ATGTAAGACCATGTCTGGGAAATGCCATTGACACCAAGATGAGAGGTCTCA
1 -TGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCTCC
*
17249425 TGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCTCC
1 TGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCTCC
* * * * ** *
17249475 CGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATAAGA-ACCCCC
1 TGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCTCC
* * *
17249524 ATGTAAGACCATATATGGGATATGGCATTGGCA
1 -TGTAAGACCATGTCTGGGACATGGCATTGGCA
17249557 ATACAGAAAA
Statistics
Matches: 154, Mismatches: 26, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
49 3 0.02
50 119 0.77
51 1 0.01
53 2 0.01
55 1 0.01
56 28 0.18
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (50 bp):
TGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCTCC
Found at i:17249527 original size:100 final size:103
Alignment explanation
Indices: 17249315--17249556 Score: 258
Period size: 100 Copynumber: 2.3 Consensus size: 103
17249305 GGAATGCGAT
* * *
17249315 CCCATGTAAGACCATGTCTGGGACATGGCATTCGCATCATTGAGATTATGAGAGGTCCCATGTAA
1 CCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCA-CGAG--TATGAGAGGTCCCACGTAA
* * ***
17249380 GACCATGTCTGGGAAATGCCATTGACACCAAGATGAGAGGT
63 GACCATGTCTGGGAAATGCCATGGACACCAAGATAAGAACC
* *
17249421 CTCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-C-CGAG-ATGAGAGGTCTCC-CGTAAGA
1 CCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCACGAGTATGAGAGGTC-CCACGTAAGA
* * * * *
17249482 CCATGTCTGGGACATGGCATGGGCACCGATATAAGAACC
65 CCATGTCTGGGAAATGCCATGGACACCAAGATAAGAACC
* * *
17249521 CCCATGTAAGACCATATATGGGATATGGCATTGGCA
1 CCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
17249557 ATACAGAAAA
Statistics
Matches: 115, Mismatches: 20, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
100 76 0.66
101 2 0.02
103 3 0.03
105 1 0.01
106 33 0.29
ACGTcount: A:0.28, C:0.22, G:0.28, T:0.22
Consensus pattern (103 bp):
CCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCACGAGTATGAGAGGTCCCACGTAAGAC
CATGTCTGGGAAATGCCATGGACACCAAGATAAGAACC
Found at i:17254160 original size:27 final size:27
Alignment explanation
Indices: 17254120--17254174 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
17254110 GGACCTATTG
*
17254120 TGGTTTTGCGTATTGAAGAAAAATTCT
1 TGGTTTTGCCTATTGAAGAAAAATTCT
17254147 TGGTTTTGCCTATTGAAGAAAAATTCT
1 TGGTTTTGCCTATTGAAGAAAAATTCT
17254174 T
1 T
17254175 TCTCTCTGAG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.29, C:0.09, G:0.20, T:0.42
Consensus pattern (27 bp):
TGGTTTTGCCTATTGAAGAAAAATTCT
Found at i:17254386 original size:14 final size:15
Alignment explanation
Indices: 17254360--17254392 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
17254350 TCCCAAGCTA
17254360 GGAAGGACCTTATGT
1 GGAAGGACCTTATGT
*
17254375 GGAAGG-CCTTATTT
1 GGAAGGACCTTATGT
17254389 GGAA
1 GGAA
17254393 AATCATCGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.27, C:0.12, G:0.33, T:0.27
Consensus pattern (15 bp):
GGAAGGACCTTATGT
Found at i:17254483 original size:5 final size:5
Alignment explanation
Indices: 17254475--17254507 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
17254465 TTTCAAAATA
*
17254475 AAAAT AAAAC AAAAC AAAAC AAAAC AAAA- AAAA
1 AAAAC AAAAC AAAAC AAAAC AAAAC AAAAC AAAA
17254508 GTGAGAAAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
4 4 0.15
5 23 0.85
ACGTcount: A:0.85, C:0.12, G:0.00, T:0.03
Consensus pattern (5 bp):
AAAAC
Found at i:17255897 original size:88 final size:88
Alignment explanation
Indices: 17255748--17256064 Score: 483
Period size: 88 Copynumber: 3.6 Consensus size: 88
17255738 AACATATCAG
* ** *
17255748 TAAAAAGAGCAGATCTTGCCTTCCTGCACTC-ACAGCGAAGTAGATCGAACACACCAGCCTTGCC
1 TAAAAATAGCAGATCTTGCCTTCCTGCAC-CGACAGCGAAACAGATCGAAGACACCAGCCTTGCC
* * * *
17255812 TCCCTGGGATGCAGTGGAGCAGGT
65 TCCCTGGGTTACAGCGGAGCAGGC
* * *
17255836 TAAAAATAGCAGATCTTGCCTTCCTGCACTGACAGTGAAAAAGATCGAAGACACCAGCCTTGCCT
1 TAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAACAGATCGAAGACACCAGCCTTGCCT
17255901 CCCTGGGTTACAGCGGAGCAGGC
66 CCCTGGGTTACAGCGGAGCAGGC
* *
17255924 TAAAAATAGCAGATCTTGCCTTCTTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
1 TAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAACAGATCGAAGACACCAGCCTTGCCT
* *
17255989 CCTTGGGTTACAGCGGAGCAAGC
66 CCCTGGGTTACAGCGGAGCAGGC
17256012 TAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAACAGATCGAAGACA
1 TAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAACAGATCGAAGACA
17256065 TCTAGTTTTA
Statistics
Matches: 209, Mismatches: 19, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
88 209 1.00
ACGTcount: A:0.30, C:0.28, G:0.23, T:0.19
Consensus pattern (88 bp):
TAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAACAGATCGAAGACACCAGCCTTGCCT
CCCTGGGTTACAGCGGAGCAGGC
Found at i:17255942 original size:44 final size:43
Alignment explanation
Indices: 17255894--17256037 Score: 110
Period size: 44 Copynumber: 3.3 Consensus size: 43
17255884 AGACACCAGC
17255894 CTTGCCTCCCTGGGTTACAGCGGAGCAGGCTAAAAATAGCAGAT
1 CTTGCCTCCCTGGGTTACAGCGGAGCA-GCTAAAAATAGCAGAT
* * **** * * * * * * *
17255938 CTTGCCTTCTTGCACCGACAGCGAAGCAGATCGAAGACACCAG-C
1 CTTGCCTCCCTG-GGTTACAGCGGAGCAGCT-AAAAATAGCAGAT
*
17255982 CTTGCCTCCTTGGGTTACAGCGGAGCAAGCTAAAAATAGCAGAT
1 CTTGCCTCCCTGGGTTACAGCGGAGC-AGCTAAAAATAGCAGAT
*
17256026 CTTGCCTTCCTG
1 CTTGCCTCCCTG
17256038 CACCGACAGC
Statistics
Matches: 69, Mismatches: 27, Indels: 8
0.66 0.26 0.08
Matches are distributed among these distances:
43 16 0.23
44 36 0.52
45 17 0.25
ACGTcount: A:0.26, C:0.28, G:0.24, T:0.22
Consensus pattern (43 bp):
CTTGCCTCCCTGGGTTACAGCGGAGCAGCTAAAAATAGCAGAT
Found at i:17255966 original size:45 final size:44
Alignment explanation
Indices: 17255910--17256050 Score: 115
Period size: 44 Copynumber: 3.2 Consensus size: 44
17255900 TCCCTGGGTT
*
17255910 ACAGCGGAGCAGGCTAAAAATAGCAGATCTTGCCTTCTTGCACCG
1 ACAGCGAAGCA-GCTAAAAATAGCAGATCTTGCCTTCTTGCACCG
* * * * * * * ****
17255955 ACAGCGAAGCAGATCGAAGACACCAG-CCTTGCCTCCTTG-GGTT
1 ACAGCGAAGCAGCT-AAAAATAGCAGATCTTGCCTTCTTGCACCG
* *
17255998 ACAGCGGAGCAAGCTAAAAATAGCAGATCTTGCCTTCCTGCACCG
1 ACAGCGAAGC-AGCTAAAAATAGCAGATCTTGCCTTCTTGCACCG
17256043 ACAGCGAA
1 ACAGCGAA
17256051 ACAGATCGAA
Statistics
Matches: 66, Mismatches: 26, Indels: 8
0.66 0.26 0.08
Matches are distributed among these distances:
43 16 0.24
44 26 0.39
45 24 0.36
ACGTcount: A:0.30, C:0.28, G:0.24, T:0.18
Consensus pattern (44 bp):
ACAGCGAAGCAGCTAAAAATAGCAGATCTTGCCTTCTTGCACCG
Found at i:17256137 original size:44 final size:44
Alignment explanation
Indices: 17256072--17256668 Score: 259
Period size: 44 Copynumber: 13.7 Consensus size: 44
17256062 ACATCTAGTT
*
17256072 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAATAAGCAAGTC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAATAAGCAAGTC
* * * *
17256116 TTATCCCCCTGAAGTTACAGTGGGGCAGAC-CCATAATGCCGAA-TC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAATAA-G-C-AAGTC
* * *
17256161 TTATCTCCCTGAAGTTGTAGTGGAGCAGA-T--TTAAGCCTATAATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAATAAG-C-A-AGTC
* * *
17256205 CTATCTCCCTGAAGTTGCAGTGGAGCTA-A-TTAA-AATCACAGCTC
1 TTATCTCCCTGAAGTTGCAGTGGAGC-AGACTCAATAAGCA-AG-TC
* * * *
17256249 TTATCTCTCTAAAGTTGCAG-AGAGCAGA-TCACAT---CTAGTC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTCA-ATAAGCAAGTC
* * *
17256289 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAATAAGTAGGTC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAATAAGCAAGTC
* * * *
17256333 TTATCGCCCTGAAGTTGCAGTGGGGCAGACCCAA-AATGGTGAA-TC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAATAA--G-CAAGTC
* * * * * *
17256378 GTATCTCCTTGAAATTGTAGTGGAGCAGA-T--TTAAGCCTATAATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAATAAG-C-A-AGTC
* * * * *
17256422 CTATCTCCTTGAAGTTGCAGTGGAGCGGA-TTAA-AATCACAGATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAATAAGCA-AG-TC
* * * *
17256466 TTATCTCTCTGAAGTTGCAG-AGAGCAGA-TCACAT---CTAGTT
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTCA-ATAAGCAAGTC
* * *
17256506 TTATCTCCCTGAAGTTGCACTGGGGCAGACCCAA-AATGACGAA-TC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAATAA-G-C-AAGTC
* * * * *
17256551 TTATCTCTCTGAAGTTGCAATGGAGTAGA-T--TTAAGCTTATAATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAATAAGC--A-AGTC
* * * **
17256595 TTATC-CCTCTGAGGTTGCAGTGGGGCAGACTGAAGTGGGCGAA-TC
1 TTATCTCC-CTGAAGTTGCAGTGGAGCAGACTCAA-TAAGC-AAGTC
*
17256640 TTATCTCCCTGAAGTTGCAGTGGAACAGA
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGA
17256669 TTAAGGCCAA
Statistics
Matches: 417, Mismatches: 88, Indels: 95
0.69 0.15 0.16
Matches are distributed among these distances:
40 39 0.09
41 22 0.05
42 14 0.03
43 36 0.09
44 183 0.44
45 112 0.27
46 7 0.02
47 1 0.00
48 3 0.01
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (44 bp):
TTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAATAAGCAAGTC
Found at i:17256385 original size:173 final size:173
Alignment explanation
Indices: 17256201--17256581 Score: 373
Period size: 173 Copynumber: 2.2 Consensus size: 173
17256191 TTAAGCCTAT
* * *
17256201 AATCCTATCTCCCTGAAGTTGCAGTGGAGCTA-ATTAAAATC-ACAGCTCTTATCT-CTCTAAAG
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGC-AGATTAAAACCTACA-ATCCTATCTCCT-TAAAG
* * * * *
17256263 TTGCAG-AGAGCAGA-TCACATC-TAG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGA-A
63 TTGCAGTAGAGCAGATTAAAATCACAGATCTTATCTCCCTGAAGTTGCAG-AGAGCAGA-TCACA
* * **
17256323 TAAGTAGGTCTTATCGCCCTGAAGTTGCAGTGGGGCAGACCCAAAATGGTG
126 T--CTA-GTCTTATCGCCCTGAAGTTGCACTGGGGCAGACCCAAAATGACG
* * * * * * * *
17256374 AATCGTATCTCCTTGAAATTGTAGTGGAGCAGATTTAAGCCTATAATCCTATCTCCTTGAAGTTG
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCTACAATCCTATCTCCTTAAAGTTG
* * *
17256439 CAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCACATCTAG
66 CAGTAGAGCAGATTAAAATCACAGATCTTATCTCCCTGAAGTTGCAGAGAGCAGATCACATCTAG
* *
17256504 TTTTATCTCCCTGAAGTTGCACTGGGGCAGACCCAAAATGACG
131 TCTTATCGCCCTGAAGTTGCACTGGGGCAGACCCAAAATGACG
* * * *
17256547 AATCTTATCTCTCTGAAGTTGCAATGGAGTAGATT
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATT
17256582 TAAGCTTATA
Statistics
Matches: 168, Mismatches: 32, Indels: 16
0.78 0.15 0.07
Matches are distributed among these distances:
172 1 0.01
173 116 0.69
174 12 0.07
175 7 0.04
176 11 0.07
177 21 0.12
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.29
Consensus pattern (173 bp):
AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCTACAATCCTATCTCCTTAAAGTTG
CAGTAGAGCAGATTAAAATCACAGATCTTATCTCCCTGAAGTTGCAGAGAGCAGATCACATCTAG
TCTTATCGCCCTGAAGTTGCACTGGGGCAGACCCAAAATGACG
Found at i:17256435 original size:89 final size:87
Alignment explanation
Indices: 17256287--17256706 Score: 318
Period size: 89 Copynumber: 4.8 Consensus size: 87
17256277 TCACATCTAG
* ** * *
17256287 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAATAAG--TA-GGTCTTATCGCCCTGAAGTT
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGA-T---TAAGCCTATAATCCTATCTCCCTGAAGTT
*
17256349 GCAGTGGGGCAGACCCAAAATGGTGAA
62 GCAGTGGGGCAGA-CCAAAATGGCGAA
* * * *
17256376 TCGTATCTC-CTTGAAATTGTAGTGGAGCAGATTTAAGCCTATAATCCTATCTCCTTGAAGTTGC
1 TCTTATCTCTC-TGAAGTTGCAGTGGAGCAGA-TTAAGCCTATAATCCTATCTCCCTGAAGTTGC
* * ** **
17256440 AGTGGAGCGGATTAAAATCAC-AGA
64 AGTGGGGCAGACCAAAATGGCGA-A
* * * * * ** *
17256464 TCTTATCTCTCTGAAGTTGCAG-AGAGCAGA-TCA-CATCTAGTTTTATCTCCCTGAAGTTGCAC
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAGCCTATAATCCTATCTCCCTGAAGTTGCAG
*
17256526 TGGGGCAGACCCAAAATGACGAA
66 TGGGGCAGA-CCAAAATGGCGAA
* * * * *
17256549 TCTTATCTCTCTGAAGTTGCAATGGAGTAGATTTAAGCTTATAATCTTATC-CCTCTGAGGTTGC
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGA-TTAAGCCTATAATCCTATCTCC-CTGAAGTTGC
** *
17256613 AGTGGGGCAGACTGAAGTGGGCGAA
64 AGTGGGGCAGACCAAAAT-GGCGAA
* * * * *
17256638 TCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAGGCCAATAATTCTATCTCCCTAAAGTTGCA
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAA-GCCTATAATCCTATCTCCCTGAAGTTGCA
17256703 GTGG
65 GTGG
17256707 AGTGGATTAA
Statistics
Matches: 258, Mismatches: 57, Indels: 32
0.74 0.16 0.09
Matches are distributed among these distances:
84 29 0.11
85 31 0.12
86 11 0.04
87 8 0.03
88 38 0.15
89 139 0.54
90 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (87 bp):
TCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAGCCTATAATCCTATCTCCCTGAAGTTGCAG
TGGGGCAGACCAAAATGGCGAA
Found at i:17256437 original size:217 final size:217
Alignment explanation
Indices: 17256062--17256535 Score: 786
Period size: 217 Copynumber: 2.2 Consensus size: 217
17256052 CAGATCGAAG
17256062 ACATCTAGTTTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAATAAGCAAGTCTTATCCCCCTG
1 ACATCTAGTTTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAATAAGCAAGTCTTATCCCCCTG
* * *
17256127 AAGTTACAGTGGGGCAGACCCATAATGCCGAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATT
66 AAGTTACAGTGGGGCAGACCCAAAATGCCGAATCGTATCTCCCTGAAATTGTAGTGGAGCAGATT
* *
17256192 TAAGCCTATAATCCTATCTCCCTGAAGTTGCAGTGGAGCTAATTAAAATCACAGCTCTTATCTCT
131 TAAGCCTATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGAATTAAAATCACAGATCTTATCTCT
17256257 CTAAAGTTGCAGAGAGCAGATC
196 CTAAAGTTGCAGAGAGCAGATC
* * * *
17256279 ACATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAATAAGTAGGTCTTATCGCCCTG
1 ACATCTAGTTTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAATAAGCAAGTCTTATCCCCCTG
* ** *
17256344 AAGTTGCAGTGGGGCAGACCCAAAATGGTGAATCGTATCTCCTTGAAATTGTAGTGGAGCAGATT
66 AAGTTACAGTGGGGCAGACCCAAAATGCCGAATCGTATCTCCCTGAAATTGTAGTGGAGCAGATT
* *
17256409 TAAGCCTATAATCCTATCTCCTTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCT
131 TAAGCCTATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGAATTAAAATCACAGATCTTATCTCT
*
17256474 CTGAAGTTGCAGAGAGCAGATC
196 CTAAAGTTGCAGAGAGCAGATC
* *
17256496 ACATCTAGTTTTATCTCCCTGAAGTTGCACTGGGGCAGAC
1 ACATCTAGTTTTATCTCCCTGAAGTTGCAGTGGAGCAGAC
17256536 CCAAAATGAC
Statistics
Matches: 238, Mismatches: 19, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
217 238 1.00
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (217 bp):
ACATCTAGTTTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAATAAGCAAGTCTTATCCCCCTG
AAGTTACAGTGGGGCAGACCCAAAATGCCGAATCGTATCTCCCTGAAATTGTAGTGGAGCAGATT
TAAGCCTATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGAATTAAAATCACAGATCTTATCTCT
CTAAAGTTGCAGAGAGCAGATC
Found at i:17256733 original size:44 final size:44
Alignment explanation
Indices: 17256636--17256734 Score: 103
Period size: 44 Copynumber: 2.2 Consensus size: 44
17256626 GAAGTGGGCG
* **
17256636 AATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAGGCCAAT
1 AATCTTATCTCCCTAAAGTTGCAGTGGAACAGATTAAAACCAAT
*** *
17256680 AAT-TCTATCTCCCTAAAGTTGCAGTGGAGTGGATTAAAATC-AT
1 AATCT-TATCTCCCTAAAGTTGCAGTGGAACAGATTAAAACCAAT
17256723 AGATCTTATCTC
1 A-ATCTTATCTC
17256735 GCTGAAATCA
Statistics
Matches: 45, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
43 4 0.09
44 40 0.89
45 1 0.02
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.31
Consensus pattern (44 bp):
AATCTTATCTCCCTAAAGTTGCAGTGGAACAGATTAAAACCAAT
Found at i:17258368 original size:19 final size:20
Alignment explanation
Indices: 17258343--17258386 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
17258333 ATGTAATTAT
* *
17258343 TATTTTTATTTTTATATGTA
1 TATTTTTATCTATATATGTA
17258363 -ATTTTTATCTATATATGTA
1 TATTTTTATCTATATATGTA
17258382 TATTT
1 TATTT
17258387 GTTGTTGTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 17 0.81
20 4 0.19
ACGTcount: A:0.27, C:0.02, G:0.05, T:0.66
Consensus pattern (20 bp):
TATTTTTATCTATATATGTA
Found at i:17258550 original size:19 final size:20
Alignment explanation
Indices: 17258508--17258557 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
17258498 TTTAATCTAT
*
17258508 ATATATTTTTATGTACATGC
1 ATATATTTTTATGTACATGA
*
17258528 ATATATTTTTATTTA-ATGA
1 ATATATTTTTATGTACATGA
*
17258547 ATATTTTTTTA
1 ATATATTTTTA
17258558 GATTTATATA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 13 0.48
20 14 0.52
ACGTcount: A:0.32, C:0.04, G:0.06, T:0.58
Consensus pattern (20 bp):
ATATATTTTTATGTACATGA
Found at i:17259163 original size:15 final size:15
Alignment explanation
Indices: 17259143--17259172 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
17259133 TGTTGTTGGG
17259143 AATTAAATATGTTGT
1 AATTAAATATGTTGT
17259158 AATTAAATATGTTGT
1 AATTAAATATGTTGT
17259173 GTCCTAACGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.13, T:0.47
Consensus pattern (15 bp):
AATTAAATATGTTGT
Found at i:17270605 original size:14 final size:14
Alignment explanation
Indices: 17270586--17270633 Score: 55
Period size: 14 Copynumber: 3.6 Consensus size: 14
17270576 GCATGTGTTG
17270586 TAGCATATCCATTA
1 TAGCATATCCATTA
* * *
17270600 TAGCATGT--GTTG
1 TAGCATATCCATTA
17270612 TAGCATATCCATTA
1 TAGCATATCCATTA
17270626 TAGCATAT
1 TAGCATAT
17270634 TGTTCACTTT
Statistics
Matches: 26, Mismatches: 6, Indels: 4
0.72 0.17 0.11
Matches are distributed among these distances:
12 9 0.35
14 17 0.65
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.38
Consensus pattern (14 bp):
TAGCATATCCATTA
Found at i:17270612 original size:26 final size:26
Alignment explanation
Indices: 17270576--17270631 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
17270566 TGATGCCAAT
17270576 GCATGTGTTGTAGCATATCCATTATA
1 GCATGTGTTGTAGCATATCCATTATA
17270602 GCATGTGTTGTAGCATATCCATTATA
1 GCATGTGTTGTAGCATATCCATTATA
17270628 GCAT
1 GCAT
17270632 ATTGTTCACT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.27, C:0.16, G:0.20, T:0.38
Consensus pattern (26 bp):
GCATGTGTTGTAGCATATCCATTATA
Found at i:17276346 original size:14 final size:14
Alignment explanation
Indices: 17276323--17276353 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
17276313 TGTTGCGTTT
*
17276323 TTAGTTAAATTAGA
1 TTAGTAAAATTAGA
17276337 TTAGTAAAATTAGA
1 TTAGTAAAATTAGA
17276351 TTA
1 TTA
17276354 AAAACCACCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.13, T:0.42
Consensus pattern (14 bp):
TTAGTAAAATTAGA
Found at i:17278275 original size:14 final size:16
Alignment explanation
Indices: 17278251--17278282 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
17278241 ATCAAAAACA
17278251 AAAATAAAAACCT-AC
1 AAAATAAAAACCTGAC
17278266 AAAA-AAAAACCTGAC
1 AAAATAAAAACCTGAC
17278281 AA
1 AA
17278283 CAGTCTGATC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.50
15 8 0.50
ACGTcount: A:0.69, C:0.19, G:0.03, T:0.09
Consensus pattern (16 bp):
AAAATAAAAACCTGAC
Found at i:17278334 original size:27 final size:27
Alignment explanation
Indices: 17278304--17278390 Score: 133
Period size: 27 Copynumber: 3.2 Consensus size: 27
17278294 GGCCAATCAC
17278304 ATTGGCGGCACCAAAGGTGCCAAAGTG
1 ATTGGCGGCACCAAAGGTGCCAAAGTG
17278331 ATTGGCGGCACCAAAGGTGCCAAAGTG
1 ATTGGCGGCACCAAAGGTGCCAAAGTG
*
17278358 ATTGGTCTG-ACCAAAGGTGCCAAAGAT-
1 ATTGG-CGGCACCAAAGGTGCCAAAG-TG
17278385 ATTGGC
1 ATTGGC
17278391 CTGATCGGAC
Statistics
Matches: 57, Mismatches: 1, Indels: 5
0.90 0.02 0.08
Matches are distributed among these distances:
26 1 0.02
27 53 0.93
28 3 0.05
ACGTcount: A:0.30, C:0.21, G:0.31, T:0.18
Consensus pattern (27 bp):
ATTGGCGGCACCAAAGGTGCCAAAGTG
Found at i:17279090 original size:19 final size:19
Alignment explanation
Indices: 17279066--17279128 Score: 63
Period size: 19 Copynumber: 3.3 Consensus size: 19
17279056 TCTAATTAAG
17279066 TAATAACTCTATTTTACTT
1 TAATAACTCTATTTTACTT
* * ** ***
17279085 TAATAAGTTTATTAAAAAG
1 TAATAACTCTATTTTACTT
17279104 TAATAACTCTATTTTACTT
1 TAATAACTCTATTTTACTT
17279123 TAATAA
1 TAATAA
17279129 ACTATTGCTT
Statistics
Matches: 30, Mismatches: 14, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.41, C:0.10, G:0.03, T:0.46
Consensus pattern (19 bp):
TAATAACTCTATTTTACTT
Found at i:17279192 original size:18 final size:17
Alignment explanation
Indices: 17279163--17279197 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
17279153 GTAATGTTTC
*
17279163 AAAAAATGTTTTTAGGA
1 AAAAAATGTTTTAAGGA
17279180 AAAAAATGTTTTTAAGGA
1 AAAAAATG-TTTTAAGGA
17279198 GAAGTAAAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.49, C:0.00, G:0.17, T:0.34
Consensus pattern (17 bp):
AAAAAATGTTTTAAGGA
Found at i:17279595 original size:27 final size:27
Alignment explanation
Indices: 17279557--17279616 Score: 120
Period size: 27 Copynumber: 2.2 Consensus size: 27
17279547 AGTCCGTCAG
17279557 GCCAATCACTTTGGCACCTTTGGTGCC
1 GCCAATCACTTTGGCACCTTTGGTGCC
17279584 GCCAATCACTTTGGCACCTTTGGTGCC
1 GCCAATCACTTTGGCACCTTTGGTGCC
17279611 GCCAAT
1 GCCAAT
17279617 GTGATTGGCC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.17, C:0.33, G:0.22, T:0.28
Consensus pattern (27 bp):
GCCAATCACTTTGGCACCTTTGGTGCC
Found at i:17279732 original size:24 final size:26
Alignment explanation
Indices: 17279680--17279731 Score: 77
Period size: 28 Copynumber: 1.9 Consensus size: 26
17279670 TTTTTTTTGT
*
17279680 ATATTTTAGTAAATAAAAAAAATTTATA
1 ATATTTTGGTAAATAAAAAAAA--TATA
17279708 ATATTTTGGTAAATAAAAAAAATA
1 ATATTTTGGTAAATAAAAAAAATA
17279732 ACATTTTGGT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 2 0.09
28 21 0.91
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.37
Consensus pattern (26 bp):
ATATTTTGGTAAATAAAAAAAATATA
Found at i:17279737 original size:24 final size:26
Alignment explanation
Indices: 17279682--17279741 Score: 70
Period size: 24 Copynumber: 2.3 Consensus size: 26
17279672 TTTTTTGTAT
* *
17279682 ATTTTAGTAAATAAAAAAAATTTATAAT
1 ATTTTGGTAAATAAAAAAAA--TATAAC
17279710 ATTTTGGTAAAT-AAAAAAA-ATAAC
1 ATTTTGGTAAATAAAAAAAATATAAC
17279734 ATTTTGGT
1 ATTTTGGT
17279742 TATTTTTTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
24 12 0.40
27 7 0.23
28 11 0.37
ACGTcount: A:0.52, C:0.02, G:0.08, T:0.38
Consensus pattern (26 bp):
ATTTTGGTAAATAAAAAAAATATAAC
Found at i:17288398 original size:15 final size:15
Alignment explanation
Indices: 17288380--17288410 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
17288370 ATAAATGTCG
17288380 CGATAACAAATACAA
1 CGATAACAAATACAA
*
17288395 CGATAATAAATACAA
1 CGATAACAAATACAA
17288410 C
1 C
17288411 AATGGCATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.58, C:0.19, G:0.06, T:0.16
Consensus pattern (15 bp):
CGATAACAAATACAA
Found at i:17288884 original size:33 final size:28
Alignment explanation
Indices: 17288813--17288880 Score: 95
Period size: 29 Copynumber: 2.5 Consensus size: 28
17288803 ATATGTATAT
17288813 ATATAAATATAAAAAATATTCATTAAAA
1 ATATAAATATAAAAAATATTCATTAAAA
* *
17288841 ATATAAATATAGAAAAATATTCGTTAGAA
1 ATATAAATATA-AAAAATATTCATTAAAA
17288870 A-A-AAATATAAA
1 ATATAAATATAAA
17288881 TATATATACA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
26 2 0.05
27 7 0.19
28 12 0.32
29 16 0.43
ACGTcount: A:0.63, C:0.03, G:0.04, T:0.29
Consensus pattern (28 bp):
ATATAAATATAAAAAATATTCATTAAAA
Found at i:17290781 original size:44 final size:44
Alignment explanation
Indices: 17290724--17290831 Score: 128
Period size: 44 Copynumber: 2.5 Consensus size: 44
17290714 ACTCTACTGT
* *
17290724 AACTTCAGAGAGATAAGATCT-GTGGTTTTAATCCACTCCACTAC
1 AACTTCAGGGAGATAAGAT-TAGTGGCTTTAATCCACTCCACTAC
* * *** *
17290768 AACTTCAGGGAGATAGGATTATTGGCTTTAATTTGCTCCACTGC
1 AACTTCAGGGAGATAAGATTAGTGGCTTTAATCCACTCCACTAC
17290812 AACTTCAGGGAGATAAGATT
1 AACTTCAGGGAGATAAGATT
17290832 CGCCATCTTC
Statistics
Matches: 54, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
43 1 0.02
44 53 0.98
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.31
Consensus pattern (44 bp):
AACTTCAGGGAGATAAGATTAGTGGCTTTAATCCACTCCACTAC
Found at i:17291009 original size:100 final size:100
Alignment explanation
Indices: 17290849--17291039 Score: 258
Period size: 100 Copynumber: 1.9 Consensus size: 100
17290839 TTCAGTCTTT
* *
17290849 CAATGTGGGGGAAACAAGATTCATCGTCGTAGCTTCAATCTATTCTACTACACCACCAGGGAAGT
1 CAATGTGGGGGAAACAAGATTCACCGTCGTAGCTTCAATCTATTCCACTACACCACCAGGGAAGT
*
17290914 AAAATGT-TCCGTTGCGGCTTCAATCTTTTTAATTG
66 AAAAT-TCGCCGTTGCGGCTTCAATCTTTTTAATTG
* ** * * * *
17290949 CAATGTTGGGGAAATGAGATTCGCCGTCGTAGCTTCAATCTGTTCCACTACACCGCCAGGGGAGT
1 CAATGTGGGGGAAACAAGATTCACCGTCGTAGCTTCAATCTATTCCACTACACCACCAGGGAAGT
* *
17291014 AAGATTCGCCGTTGCGGCTTTAATCT
66 AAAATTCGCCGTTGCGGCTTCAATCT
17291040 ATTCCACTGA
Statistics
Matches: 78, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
99 1 0.01
100 77 0.99
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.29
Consensus pattern (100 bp):
CAATGTGGGGGAAACAAGATTCACCGTCGTAGCTTCAATCTATTCCACTACACCACCAGGGAAGT
AAAATTCGCCGTTGCGGCTTCAATCTTTTTAATTG
Found at i:17291072 original size:100 final size:100
Alignment explanation
Indices: 17290873--17291060 Score: 216
Period size: 100 Copynumber: 1.9 Consensus size: 100
17290863 CAAGATTCAT
* *
17290873 CGTCGTAGCTTCAATCTATTCTACTACACCACCAGGGAAGTAAAATGTTCCGTTGCGGCTTCAAT
1 CGTCGTAGCTTCAATCTATTCCACTACACCACCAGGGAAGTAAAATGTGCCGTTGCGGCTTCAAT
* * * * * ***
17290938 CTTTTTAATTGCAATGTTGGGGAAATGAGATTCGC
66 CTATTCAACTGAAATGCTAAAGAAATGAGATTCGC
* * * * *
17290973 CGTCGTAGCTTCAATCTGTTCCACTACACCGCCAGGGGAGTAAGAT-TCGCCGTTGCGGCTTTAA
1 CGTCGTAGCTTCAATCTATTCCACTACACCACCAGGGAAGTAAAATGT-GCCGTTGCGGCTTCAA
*
17291037 TCTATTCCACTGAAATGCTAAAGA
65 TCTATTCAACTGAAATGCTAAAGA
17291061 GATAGGATTC
Statistics
Matches: 71, Mismatches: 16, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
99 1 0.01
100 70 0.99
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (100 bp):
CGTCGTAGCTTCAATCTATTCCACTACACCACCAGGGAAGTAAAATGTGCCGTTGCGGCTTCAAT
CTATTCAACTGAAATGCTAAAGAAATGAGATTCGC
Found at i:17291454 original size:50 final size:48
Alignment explanation
Indices: 17291348--17291454 Score: 133
Period size: 50 Copynumber: 2.1 Consensus size: 48
17291338 ACACCAAAGA
*
17291348 GATAAGATTCGCCATCGTGGCTTCAATCTGCTCCACTACAACGTCAGG
1 GATAAGATTCGCCATCATGGCTTCAATCTGCTCCACTACAACGTCAGG
* ** *
17291396 GAAGTAAGATTCGCCGTCATGGCTTCAATCTTTTCCATTACAACGTCGAGG
1 G-A-TAAGATTCGCCATCATGGCTTCAATCTGCTCCACTACAACGTC-AGG
17291447 CGATAAGA
1 -GATAAGA
17291455 CTAATGTCTT
Statistics
Matches: 50, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
48 1 0.02
49 1 0.02
50 43 0.86
51 4 0.08
52 1 0.02
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.26
Consensus pattern (48 bp):
GATAAGATTCGCCATCATGGCTTCAATCTGCTCCACTACAACGTCAGG
Found at i:17301773 original size:15 final size:15
Alignment explanation
Indices: 17301755--17301786 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
17301745 AAATGTCGCG
17301755 ATAACAAATACAACA
1 ATAACAAATACAACA
*
17301770 ATAATAAATACAACA
1 ATAACAAATACAACA
17301785 AT
1 AT
17301787 GGCATAGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.66, C:0.16, G:0.00, T:0.19
Consensus pattern (15 bp):
ATAACAAATACAACA
Found at i:17302155 original size:8 final size:8
Alignment explanation
Indices: 17302144--17302187 Score: 54
Period size: 8 Copynumber: 5.6 Consensus size: 8
17302134 ATATATGTAT
17302144 ATATATAA
1 ATATATAA
17302152 ATATA-AA
1 ATATATAA
*
17302159 AAATATAA
1 ATATATAA
*
17302167 ATATAGAA
1 ATATATAA
*
17302175 AAATATAA
1 ATATATAA
17302183 ATATA
1 ATATA
17302188 GAAAAATATT
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
7 6 0.21
8 23 0.79
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (8 bp):
ATATATAA
Found at i:17302178 original size:16 final size:16
Alignment explanation
Indices: 17302146--17302196 Score: 95
Period size: 16 Copynumber: 3.2 Consensus size: 16
17302136 ATATGTATAT
17302146 ATATAAATATA-AAAA
1 ATATAAATATAGAAAA
17302161 ATATAAATATAGAAAA
1 ATATAAATATAGAAAA
17302177 ATATAAATATAGAAAA
1 ATATAAATATAGAAAA
17302193 ATAT
1 ATAT
17302197 TCGTTAGAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
15 11 0.31
16 24 0.69
ACGTcount: A:0.69, C:0.00, G:0.04, T:0.27
Consensus pattern (16 bp):
ATATAAATATAGAAAA
Found at i:17302205 original size:31 final size:32
Alignment explanation
Indices: 17302146--17302220 Score: 91
Period size: 33 Copynumber: 2.3 Consensus size: 32
17302136 ATATGTATAT
17302146 ATATAAATATAAAAAATATAAATATAG-AAAA
1 ATATAAATATAAAAAATATAAATATAGAAAAA
***
17302177 ATATAAATATAGAAAAATATTCGT-TAGAAAAAA
1 ATATAAATATA-AAAAATATAAATATAG-AAAAA
17302210 ATATAAATATA
1 ATATAAATATA
17302221 TATAGATATA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
31 14 0.37
32 9 0.24
33 15 0.39
ACGTcount: A:0.65, C:0.01, G:0.05, T:0.28
Consensus pattern (32 bp):
ATATAAATATAAAAAATATAAATATAGAAAAA
Found at i:17317311 original size:15 final size:17
Alignment explanation
Indices: 17317291--17317323 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
17317281 TTATGTAATA
17317291 TTTAAAA-TAT-TATTT
1 TTTAAAAGTATATATTT
17317306 TTTAAAAGTATATATTT
1 TTTAAAAGTATATATTT
17317323 T
1 T
17317324 CATAATTAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
16 3 0.19
17 6 0.38
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (17 bp):
TTTAAAAGTATATATTT
Found at i:17319022 original size:22 final size:21
Alignment explanation
Indices: 17318980--17319056 Score: 100
Period size: 22 Copynumber: 3.6 Consensus size: 21
17318970 TTTCACAAAC
*
17318980 AAATTCTCTTAATTTCTTCAA
1 AAATTCTCTCAATTTCTTCAA
17319001 AAATTCTCTCAATTCTCTTCAA
1 AAATTCTCTCAATT-TCTTCAA
* *
17319023 AAGTTCTCTCAATTTCCTTCCA
1 AAATTCTCTCAATTT-CTTCAA
*
17319045 AAATTATCTCAA
1 AAATTCTCTCAA
17319057 ACTCTCAAAT
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
21 14 0.29
22 35 0.71
ACGTcount: A:0.32, C:0.25, G:0.01, T:0.42
Consensus pattern (21 bp):
AAATTCTCTCAATTTCTTCAA
Found at i:17319064 original size:30 final size:30
Alignment explanation
Indices: 17319028--17319087 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
17319018 TTCAAAAGTT
* *
17319028 CTCTCAATTTCCTTCCAAAATTATCTCAAA
1 CTCTCAAATTCCTTCCAAAATCATCTCAAA
*
17319058 CTCTCAAATTCCTTCCAAAATCCTCTCAAA
1 CTCTCAAATTCCTTCCAAAATCATCTCAAA
17319088 TTCCTTCAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (30 bp):
CTCTCAAATTCCTTCCAAAATCATCTCAAA
Found at i:17319085 original size:22 final size:22
Alignment explanation
Indices: 17319058--17319099 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
17319048 TTATCTCAAA
*
17319058 CTCTCAAATTCCTTCCAAAATC
1 CTCTCAAATTCCTTCAAAAATC
17319080 CTCTCAAATTCCTTCAAAAA
1 CTCTCAAATTCCTTCAAAAA
17319100 ATCTCCAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.36, C:0.33, G:0.00, T:0.31
Consensus pattern (22 bp):
CTCTCAAATTCCTTCAAAAATC
Found at i:17319326 original size:14 final size:15
Alignment explanation
Indices: 17319297--17319330 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
17319287 AAATTTTAAA
17319297 TTTTATTTAAGCTAT
1 TTTTATTTAAGCTAT
*
17319312 TTTTATTTATG-TAT
1 TTTTATTTAAGCTAT
17319326 TTTTA
1 TTTTA
17319331 GATATTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.24, C:0.03, G:0.06, T:0.68
Consensus pattern (15 bp):
TTTTATTTAAGCTAT
Found at i:17321508 original size:29 final size:29
Alignment explanation
Indices: 17321465--17321665 Score: 298
Period size: 29 Copynumber: 6.9 Consensus size: 29
17321455 TTTTGACATT
* *
17321465 ATTTGATTATGAACCCTAACCCTAACTTA
1 ATTTAATTATAAACCCTAACCCTAACTTA
17321494 ATTTAATTATAAACCCTAAACCCTAACTTA
1 ATTTAATTATAAACCCT-AACCCTAACTTA
* *
17321524 ATTTAATTAAAAACCCTAACCCTAACCTA
1 ATTTAATTATAAACCCTAACCCTAACTTA
17321553 ATTTAATTATAAACCCTAACCCTAACTTA
1 ATTTAATTATAAACCCTAACCCTAACTTA
*
17321582 ATTTAATTCA-AAACCCTAA-CCTAACCTA
1 ATTTAATT-ATAAACCCTAACCCTAACTTA
**
17321610 ATACAATTATAAACCCTAACCCTAACTTA
1 ATTTAATTATAAACCCTAACCCTAACTTA
17321639 ATTTAATTATAAACCCTAAACCCTAAC
1 ATTTAATTATAAACCCT-AACCCTAAC
17321666 CCTAACATAC
Statistics
Matches: 155, Mismatches: 12, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
27 1 0.01
28 23 0.15
29 93 0.60
30 38 0.25
ACGTcount: A:0.42, C:0.26, G:0.01, T:0.31
Consensus pattern (29 bp):
ATTTAATTATAAACCCTAACCCTAACTTA
Found at i:17321632 original size:57 final size:57
Alignment explanation
Indices: 17321476--17321666 Score: 303
Period size: 57 Copynumber: 3.3 Consensus size: 57
17321466 TTTGATTATG
*
17321476 AACCCTAACCCTAACTTAATTTAATTATAAACCCTAAACCCTAACTTAATTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTATAAACCCT-AACCCTAACTTAATTTAATT-AA
17321535 AACCCTAACCCTAACCTAATTTAATTATAAACCCTAACCCTAACTTAATTTAATTCAA
1 AACCCTAACCCTAACCTAATTTAATTATAAACCCTAACCCTAACTTAATTTAATT-AA
**
17321593 AACCCTAA-CCTAACCTAATACAATTATAAACCCTAACCCTAACTTAATTTAATTATA
1 AACCCTAACCCTAACCTAATTTAATTATAAACCCTAACCCTAACTTAATTTAATTA-A
17321650 AACCCTAAACCCTAACC
1 AACCCT-AACCCTAACC
17321667 CTAACATACA
Statistics
Matches: 125, Mismatches: 4, Indels: 6
0.93 0.03 0.04
Matches are distributed among these distances:
56 1 0.01
57 51 0.41
58 32 0.26
59 41 0.33
ACGTcount: A:0.43, C:0.28, G:0.00, T:0.29
Consensus pattern (57 bp):
AACCCTAACCCTAACCTAATTTAATTATAAACCCTAACCCTAACTTAATTTAATTAA
Found at i:17322873 original size:127 final size:127
Alignment explanation
Indices: 17322649--17323032 Score: 605
Period size: 127 Copynumber: 3.1 Consensus size: 127
17322639 CCACGAGGGC
* *
17322649 GCGATTTGACACTATTTGCTCAG-AAACGT-AAAAAAAAATTATTTCCAACATGACCAACTGTAG
1 GCGATTTTATACTATTTGCTCAGAAAACGTCAAAAAAAAATTATTTCCAACATGACCAACTGTAG
*
17322712 CGAAGTCGCGTCCACGAGGGCGCGATTTAACAATTTCTGCCCAATATAGCATCCTTGTATCA
66 CGAAATCGCGTCCACGAGGGCGCGATTTAACAATTTCTGCCCAATATAGCATCCTTGTATCA
*
17322774 GCGATTTTATACTATTTGCTCAGAAAACGTCAAAAAATAATTATTTCCAACATGACCAACTGTAG
1 GCGATTTTATACTATTTGCTCAGAAAACGTCAAAAAAAAATTATTTCCAACATGACCAACTGTAG
17322839 CGAAATCGCGTCCACGAGGGCGCGATTTAACAATTTCTGCCCAATATAGCATCCTTGTATCA
66 CGAAATCGCGTCCACGAGGGCGCGATTTAACAATTTCTGCCCAATATAGCATCCTTGTATCA
* **
17322901 GCGATTTTATACTATTTGCTCAGAAAACATCAAAAAAAAATTATTTCTTACATGACC-ACTGTAG
1 GCGATTTTATACTATTTGCTCAGAAAACGTCAAAAAAAAATTATTTCCAACATGACCAACTGTAG
* * * * * * **
17322965 CGAAATCGCGTCCACGAGGCCACGATTTCACAATTTCTTCTCAA-ATAGCATCCTAGTAGAA
66 CGAAATCGCGTCCACGAGGGCGCGATTTAACAATTTCTGCCCAATATAGCATCCTTGTATCA
17323026 GCGATTT
1 GCGATTT
17323033 CCCACTATTT
Statistics
Matches: 241, Mismatches: 16, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
125 42 0.17
126 52 0.22
127 147 0.61
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.28
Consensus pattern (127 bp):
GCGATTTTATACTATTTGCTCAGAAAACGTCAAAAAAAAATTATTTCCAACATGACCAACTGTAG
CGAAATCGCGTCCACGAGGGCGCGATTTAACAATTTCTGCCCAATATAGCATCCTTGTATCA
Found at i:17325324 original size:32 final size:32
Alignment explanation
Indices: 17325288--17325403 Score: 169
Period size: 32 Copynumber: 3.6 Consensus size: 32
17325278 TAAACGTGCG
* * * *
17325288 ATTTTTTGAAATGATAACAAATATTAGCTTTC
1 ATTTTGTGAAATGATAACAAATATCAACTTTA
*
17325320 ATTTTGTGAAATGCTAACAAATATCAACTTTA
1 ATTTTGTGAAATGATAACAAATATCAACTTTA
17325352 ATTTTGTGAAATGATAACAAATATCAACTTTA
1 ATTTTGTGAAATGATAACAAATATCAACTTTA
* *
17325384 ATTTTGTTAAATAATAACAA
1 ATTTTGTGAAATGATAACAA
17325404 TATTCCTCTA
Statistics
Matches: 76, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 76 1.00
ACGTcount: A:0.42, C:0.09, G:0.09, T:0.40
Consensus pattern (32 bp):
ATTTTGTGAAATGATAACAAATATCAACTTTA
Found at i:17327774 original size:13 final size:11
Alignment explanation
Indices: 17327744--17327773 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
17327734 TAAGAGAGAA
17327744 TTTGAGAGTTT
1 TTTGAGAGTTT
17327755 TTTGAGAGTTT
1 TTTGAGAGTTT
*
17327766 TTTAAGAG
1 TTTGAGAG
17327774 AATATTGTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.23, C:0.00, G:0.27, T:0.50
Consensus pattern (11 bp):
TTTGAGAGTTT
Found at i:17328235 original size:19 final size:19
Alignment explanation
Indices: 17328191--17328237 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
17328181 GAATCGAATT
* *
17328191 TTATAATTTTTAATATTTT
1 TTATGATTTTTAATATTTA
17328210 TTATGATTTTTAATAATTTA
1 TTATGATTTTTAAT-ATTTA
17328230 TT-TGATTT
1 TTATGATTT
17328238 AAACCAATTG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 19 0.76
20 6 0.24
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (19 bp):
TTATGATTTTTAATATTTA
Found at i:17330277 original size:28 final size:29
Alignment explanation
Indices: 17330230--17330309 Score: 108
Period size: 28 Copynumber: 2.7 Consensus size: 29
17330220 GGCCCGAATT
17330230 ATATATTAAATATATATATTTTTAATCAAAC
1 ATATATT--ATATATATATTTTTAATCAAAC
* *
17330261 ATATA-TATATATTTATTTTTAATCAAAT
1 ATATATTATATATATATTTTTAATCAAAC
*
17330289 ATATATTAAATATATATTTTT
1 ATATATTATATATATATTTTT
17330310 TATATGGGTT
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
28 25 0.57
29 13 0.30
30 1 0.02
31 5 0.11
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (29 bp):
ATATATTATATATATATTTTTAATCAAAC
Found at i:17330577 original size:16 final size:16
Alignment explanation
Indices: 17330537--17330577 Score: 50
Period size: 14 Copynumber: 2.6 Consensus size: 16
17330527 AAATCAATTG
17330537 AATATAAATTTTGAATA
1 AATATAAA-TTTGAATA
17330554 AATA-AAATTTG-ATA
1 AATATAAATTTGAATA
17330568 AATATTAAAT
1 AATA-TAAAT
17330578 AATGCTTTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 7 0.32
15 4 0.18
16 7 0.32
17 4 0.18
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.39
Consensus pattern (16 bp):
AATATAAATTTGAATA
Found at i:17331653 original size:16 final size:15
Alignment explanation
Indices: 17331632--17331662 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
17331622 ATTTATAAAG
17331632 CAATTGTAATATTATT
1 CAATTGTAAT-TTATT
17331648 CAATTGTAATTTATT
1 CAATTGTAATTTATT
17331663 AATCTTTATC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.35, C:0.06, G:0.06, T:0.52
Consensus pattern (15 bp):
CAATTGTAATTTATT
Found at i:17340702 original size:36 final size:36
Alignment explanation
Indices: 17340655--17340736 Score: 137
Period size: 36 Copynumber: 2.3 Consensus size: 36
17340645 GGCCCAAGTT
*
17340655 ACGCCCAAAAGGAGGCCCAAATTCGCACTCTATATC
1 ACGCCCAAAAGGAGGCCCAAATCCGCACTCTATATC
**
17340691 ACGCCCAAAAGGAGGCCCAAATCCGCGTTCTATATC
1 ACGCCCAAAAGGAGGCCCAAATCCGCACTCTATATC
17340727 ACGCCCAAAA
1 ACGCCCAAAA
17340737 ATACACGACC
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
36 43 1.00
ACGTcount: A:0.34, C:0.34, G:0.17, T:0.15
Consensus pattern (36 bp):
ACGCCCAAAAGGAGGCCCAAATCCGCACTCTATATC
Found at i:17348901 original size:38 final size:38
Alignment explanation
Indices: 17348845--17348921 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
17348835 TTGTTTTGTG
*
17348845 TTAGGTGGATGCGCGATCTTTTTGAACCATAAGATGGA
1 TTAGATGGATGCGCGATCTTTTTGAACCATAAGATGGA
17348883 TTAGATGGATGCGCGATCTTTTTGAACCATAAGATGGA
1 TTAGATGGATGCGCGATCTTTTTGAACCATAAGATGGA
17348921 T
1 T
17348922 ATTGAATAGG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.27, C:0.13, G:0.27, T:0.32
Consensus pattern (38 bp):
TTAGATGGATGCGCGATCTTTTTGAACCATAAGATGGA
Found at i:17351883 original size:160 final size:161
Alignment explanation
Indices: 17351583--17351907 Score: 539
Period size: 161 Copynumber: 2.0 Consensus size: 161
17351573 ATAACCACAG
* *
17351583 AATATAGAAAATCAATTAGTATCCATAAAACACCTTCAACAAAAAAAACATAGGTCTAAGGCTAG
1 AATATACAAAATCAATTAGTATCCATAAAACACCTTAAACAAAAAAAACATAGGTCTAAGGCTAG
*
17351648 TTTCTCTTGGAACTGAAATTTTTGACAAACAAACTTGAAACTCAAATATCTTAATCTTTACTCAT
66 TTCCTCTTGGAACTGAAATTTTTGACAAACAAACTTGAAACTCAAATATCTTAATCTTTACTCAT
*
17351713 TCCTATTACCTATAATAG-TTCCAATAATCT
131 TCCCATTACCTATAATAGATTCCAATAATCT
* * *
17351743 AATATACACAATCAATTAGTAGT-TATAACACACCTTAAACAAACAAAAACATAGGTCTAAGGCT
1 AATATACAAAATCAATTAGTA-TCCATAAAACACCTTAAACAAA-AAAAACATAGGTCTAAGGCT
17351807 AGTTCCTCTTGGAACTGAAATTTTTGACAAACAAACTTGAAACTCAAA-ATCTTAATCTTTACTC
64 AGTTCCTCTTGGAACTGAAATTTTTGACAAACAAACTTGAAACTCAAATATCTTAATCTTTACTC
*
17351871 ATTCCCATTACCTATAATAGATTCCAATCATCT
129 ATTCCCATTACCTATAATAGATTCCAATAATCT
17351904 AATA
1 AATA
17351908 ATAAATCTAA
Statistics
Matches: 154, Mismatches: 8, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
160 71 0.46
161 83 0.54
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.31
Consensus pattern (161 bp):
AATATACAAAATCAATTAGTATCCATAAAACACCTTAAACAAAAAAAACATAGGTCTAAGGCTAG
TTCCTCTTGGAACTGAAATTTTTGACAAACAAACTTGAAACTCAAATATCTTAATCTTTACTCAT
TCCCATTACCTATAATAGATTCCAATAATCT
Found at i:17364340 original size:41 final size:41
Alignment explanation
Indices: 17364277--17364529 Score: 348
Period size: 41 Copynumber: 6.2 Consensus size: 41
17364267 GGGTATTCAA
* *
17364277 GTGC-ATTCAAGGGTACCGAAGTACAAATAGGGGCACGTAT
1 GTGCAATTCAGGGGTACCAAAGTACAAATAGGGGCACGTAT
* * *
17364317 GTGCAATTTAGGGGTATCAAAGTACAAATAGGGGCACGCAT
1 GTGCAATTCAGGGGTACCAAAGTACAAATAGGGGCACGTAT
* *
17364358 GTGCAATTCAGGGGTACCAAAGTGCAAATAGGGGCACATAT
1 GTGCAATTCAGGGGTACCAAAGTACAAATAGGGGCACGTAT
* * * *
17364399 ATACAATTCAAGGGTACCAAAGTACAAACAGGGGCACGTAT
1 GTGCAATTCAGGGGTACCAAAGTACAAATAGGGGCACGTAT
* *
17364440 GTGCAATTCAGGGGTACCGAAGTACAAATAGGGGCACGTTT
1 GTGCAATTCAGGGGTACCAAAGTACAAATAGGGGCACGTAT
*
17364481 GTGCAATGT-AGGGGTACCAAAGTACAAATAGGGGCACATAT
1 GTGCAAT-TCAGGGGTACCAAAGTACAAATAGGGGCACGTAT
*
17364522 ATGCAATT
1 GTGCAATT
17364530 TAAAAATATT
Statistics
Matches: 185, Mismatches: 26, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
40 5 0.03
41 179 0.97
42 1 0.01
ACGTcount: A:0.35, C:0.17, G:0.28, T:0.21
Consensus pattern (41 bp):
GTGCAATTCAGGGGTACCAAAGTACAAATAGGGGCACGTAT
Found at i:17364382 original size:21 final size:21
Alignment explanation
Indices: 17364317--17364462 Score: 70
Period size: 21 Copynumber: 7.1 Consensus size: 21
17364307 GGGCACGTAT
* *
17364317 GTGCAATTTAGGGGTATCAAA
1 GTGCAATTCAGGGGTACCAAA
* * * *
17364338 GTACAAAT-AGGGGCACGC-AT
1 GTGCAATTCAGGGGTAC-CAAA
17364358 GTGCAATTCAGGGGTACCAAA
1 GTGCAATTCAGGGGTACCAAA
* *
17364379 GTGCAAAT-AGGGGCA-CATATA
1 GTGCAATTCAGGGGTACCA-A-A
* *
17364400 -TACAATTCAAGGGTACCAAA
1 GTGCAATTCAGGGGTACCAAA
* * * ** *
17364420 GTACAA-ACAGGGGCACGTAT
1 GTGCAATTCAGGGGTACCAAA
*
17364440 GTGCAATTCAGGGGTACCGAA
1 GTGCAATTCAGGGGTACCAAA
17364461 GT
1 GT
17364463 ACAAATAGGG
Statistics
Matches: 89, Mismatches: 27, Indels: 18
0.66 0.20 0.13
Matches are distributed among these distances:
19 2 0.02
20 40 0.45
21 45 0.51
22 2 0.02
ACGTcount: A:0.35, C:0.17, G:0.28, T:0.20
Consensus pattern (21 bp):
GTGCAATTCAGGGGTACCAAA
Found at i:17364500 original size:123 final size:123
Alignment explanation
Indices: 17364281--17364529 Score: 401
Period size: 123 Copynumber: 2.0 Consensus size: 123
17364271 ATTCAAGTGC
* * * *
17364281 ATTCAAGGGTACCGAAGTACAAATAGGGGCACGTATGTGCAATTTAGGGGTATCAAAGTACAAAT
1 ATTCAAGGGTACCAAAGTACAAACAGGGGCACGTATGTGCAATTCAGGGGTACCAAAGTACAAAT
*
17364346 AGGGGCACGCATGTGCAATTCAGGGGTACCAAAGTGCAAATAGGGGCACATATATACA
66 AGGGGCACGCATGTGCAATTCAGGGGTACCAAAGTACAAATAGGGGCACATATATACA
*
17364404 ATTCAAGGGTACCAAAGTACAAACAGGGGCACGTATGTGCAATTCAGGGGTACCGAAGTACAAAT
1 ATTCAAGGGTACCAAAGTACAAACAGGGGCACGTATGTGCAATTCAGGGGTACCAAAGTACAAAT
** *
17364469 AGGGGCACGTTTGTGCAATGT-AGGGGTACCAAAGTACAAATAGGGGCACATATATGCA
66 AGGGGCACGCATGTGCAAT-TCAGGGGTACCAAAGTACAAATAGGGGCACATATATACA
17364527 ATT
1 ATT
17364530 TAAAAATATT
Statistics
Matches: 116, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
123 115 0.99
124 1 0.01
ACGTcount: A:0.35, C:0.16, G:0.28, T:0.20
Consensus pattern (123 bp):
ATTCAAGGGTACCAAAGTACAAACAGGGGCACGTATGTGCAATTCAGGGGTACCAAAGTACAAAT
AGGGGCACGCATGTGCAATTCAGGGGTACCAAAGTACAAATAGGGGCACATATATACA
Found at i:17368301 original size:31 final size:31
Alignment explanation
Indices: 17368263--17368322 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
17368253 AATATATATT
17368263 TTTTATTTTTATTTTTTAATTTTAAAAATTC
1 TTTTATTTTTATTTTTTAATTTTAAAAATTC
* *
17368294 TTTTATTTTTATTTTTTTATTTTTAAAAT
1 TTTTATTTTTATTTTTTAATTTTAAAAAT
17368323 AATTTTTTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.72
Consensus pattern (31 bp):
TTTTATTTTTATTTTTTAATTTTAAAAATTC
Found at i:17374846 original size:24 final size:24
Alignment explanation
Indices: 17374818--17374869 Score: 95
Period size: 24 Copynumber: 2.2 Consensus size: 24
17374808 AACATAATAG
*
17374818 CTTTCATGTACATGGCTATGCATA
1 CTTTCATGAACATGGCTATGCATA
17374842 CTTTCATGAACATGGCTATGCATA
1 CTTTCATGAACATGGCTATGCATA
17374866 CTTT
1 CTTT
17374870 AAACATCAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.25, C:0.21, G:0.15, T:0.38
Consensus pattern (24 bp):
CTTTCATGAACATGGCTATGCATA
Found at i:17376578 original size:23 final size:25
Alignment explanation
Indices: 17376552--17376598 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
17376542 GATTATGCTT
17376552 AGTTCA-TTA-TTTCCATGCGTCAC
1 AGTTCAGTTATTTTCCATGCGTCAC
* *
17376575 AGTTTAGTTATTTTCTATGCGTCA
1 AGTTCAGTTATTTTCCATGCGTCA
17376599 AATATTGGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 5 0.25
24 3 0.15
25 12 0.60
ACGTcount: A:0.21, C:0.19, G:0.15, T:0.45
Consensus pattern (25 bp):
AGTTCAGTTATTTTCCATGCGTCAC
Found at i:17379798 original size:15 final size:16
Alignment explanation
Indices: 17379769--17379798 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
17379759 CAAACATGCT
17379769 TTAACACATTATCAAA
1 TTAACACATTATCAAA
17379785 TTAACACA-TATCAA
1 TTAACACATTATCAA
17379799 CAATGCACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAACACATTATCAAA
Found at i:17389413 original size:29 final size:30
Alignment explanation
Indices: 17389386--17389454 Score: 111
Period size: 30 Copynumber: 2.3 Consensus size: 30
17389376 TCGATTTTCC
**
17389386 ACGAAAATGGCCGAAATAATCGTGTTTCAT
1 ACGAAAATGGCCGAAATAATCACGTTTCAT
*
17389416 ACAAAAATGGCCGAAATAATCACGTTTCAT
1 ACGAAAATGGCCGAAATAATCACGTTTCAT
17389446 ACGAAAATG
1 ACGAAAATG
17389455 CCCAGAAAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.42, C:0.17, G:0.17, T:0.23
Consensus pattern (30 bp):
ACGAAAATGGCCGAAATAATCACGTTTCAT
Found at i:17390168 original size:47 final size:48
Alignment explanation
Indices: 17390091--17390192 Score: 134
Period size: 47 Copynumber: 2.1 Consensus size: 48
17390081 AGATAAATTG
** * *
17390091 CCACATAATCAAAATTGTGGACAAGCCACCAAAATCACAAATATACTA
1 CCACATAATCAAAACCGTAGACAAGCCACCAAAATCACAAATAAACTA
* * *
17390139 TCACATAATC-AAACCGTAGACAAGCCACCAAAATCGCAGATAAACTA
1 CCACATAATCAAAACCGTAGACAAGCCACCAAAATCACAAATAAACTA
17390186 CCACATA
1 CCACATA
17390193 CTTCCACCTT
Statistics
Matches: 46, Mismatches: 8, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
47 37 0.80
48 9 0.20
ACGTcount: A:0.47, C:0.27, G:0.09, T:0.17
Consensus pattern (48 bp):
CCACATAATCAAAACCGTAGACAAGCCACCAAAATCACAAATAAACTA
Found at i:17397319 original size:41 final size:41
Alignment explanation
Indices: 17397250--17397353 Score: 163
Period size: 41 Copynumber: 2.5 Consensus size: 41
17397240 TTTAACATAT
* * *
17397250 TCACCGGCACTTAACCTGCTAAGCTTATAGCCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGA
* *
17397291 TCACCGGCACTTAGCCTACTAGGTTTATAACCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGA
17397332 TCACCGGCACTTAGCCTGCTAG
1 TCACCGGCACTTAGCCTGCTAG
17397354 ACGTAAAGTC
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 57 1.00
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (41 bp):
TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGA
Found at i:17397939 original size:114 final size:113
Alignment explanation
Indices: 17397821--17398064 Score: 391
Period size: 114 Copynumber: 2.1 Consensus size: 113
17397811 CTCAAGATCT
17397821 TATACATATTCATATATAC-ATATTCGAACTTCATTTATGCATATATATAACATTCATACTTAAC
1 TATACATA-T-ATATATACAATATTCGAACTTCATTTATGCATATATATAACATTCATACTTAAC
*
17397885 TAATTTCAATTTATATACTTTCAATTATAGCTCATCAAATATACAATAGA
64 TAATTTCAATTCATATACTTTCAATTATAGCTCATCAAATATACAATAGA
* *
17397935 TATACATATATATTTACATATATTCGAACTTCATTTATGCATATATATAACTTTCATACTTAACT
1 TATACATATATATATACA-ATATTCGAACTTCATTTATGCATATATATAACATTCATACTTAACT
* *
17398000 AATTTCAATTCATATATTTTTAATTATAGCTCATCAAATATACAATAGA
65 AATTTCAATTCATATACTTTCAATTATAGCTCATCAAATATACAATAGA
*
17398049 TAATTCATATATATAT
1 T-ATACATATATATAT
17398065 GCTGATTTAA
Statistics
Matches: 120, Mismatches: 7, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
112 7 0.06
113 1 0.01
114 100 0.83
115 12 0.10
ACGTcount: A:0.40, C:0.14, G:0.03, T:0.42
Consensus pattern (113 bp):
TATACATATATATATACAATATTCGAACTTCATTTATGCATATATATAACATTCATACTTAACTA
ATTTCAATTCATATACTTTCAATTATAGCTCATCAAATATACAATAGA
Found at i:17399057 original size:13 final size:13
Alignment explanation
Indices: 17399039--17399063 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17399029 CAATCAAATG
17399039 CACACAAAATAAA
1 CACACAAAATAAA
17399052 CACACAAAATAA
1 CACACAAAATAA
17399064 TATTAAAATA
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:0.68, C:0.24, G:0.00, T:0.08
Consensus pattern (13 bp):
CACACAAAATAAA
Found at i:17405283 original size:79 final size:80
Alignment explanation
Indices: 17405148--17405408 Score: 300
Period size: 79 Copynumber: 3.3 Consensus size: 80
17405138 CCCAAAAATA
* * *
17405148 GGTAAAATGA-TCGAACTACCACCATAGGGTAAAATGACCGAAATACTCCC-ACAGGGTAAAATG
1 GGTAAAATGACT-GAAATACCCCCATAGGGT-AAATGACCGAAATAC-CCCTATAGGGTAAAATG
*
17405211 GCCGAAATACCCC-ATAG
63 ACCGAAATACCCCTATAG
* **
17405228 GGTAAAATGACTGAAATGCCCTTATAGGGTAAATGACCGAAATACCCCTATAGGGTAAAATGACC
1 GGTAAAATGACTGAAATACCCCCATAGGGTAAATGACCGAAATACCCCTATAGGGTAAAATGACC
17405293 GAAATACCCCTATAG
66 GAAATACCCCTATAG
* * * * * *
17405308 GGTAGAATGAC--AATTACCCCCATAGGATAGAAAGATCGAAATACCCCTATAGGGTAAAATGAT
1 GGTAAAATGACTGAAATACCCCCATAGGGTA-AATGACCGAAATACCCCTATAGGGTAAAATGAC
17405371 C-AGAATACCCCTATAG
65 CGA-AATACCCCTATAG
**
17405387 GGTAAAATGACTGTTATACCCC
1 GGTAAAATGACTGAAATACCCC
17405409 TAGGAGATGA
Statistics
Matches: 154, Mismatches: 20, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
78 17 0.11
79 93 0.60
80 37 0.24
81 7 0.05
ACGTcount: A:0.39, C:0.21, G:0.20, T:0.20
Consensus pattern (80 bp):
GGTAAAATGACTGAAATACCCCCATAGGGTAAATGACCGAAATACCCCTATAGGGTAAAATGACC
GAAATACCCCTATAG
Found at i:17405368 original size:106 final size:107
Alignment explanation
Indices: 17405148--17405397 Score: 309
Period size: 106 Copynumber: 2.4 Consensus size: 107
17405138 CCCAAAAATA
*
17405148 GGTAAAATGATCGAACTACCACC-ATAGGGTAAAATGACCGAAATACTCCCACAGGGTAAAATGG
1 GGTAAAATGATCGAAATACC-CCTATAGGGTAAAATGACCGAAATACTCCCACAGGGTAAAATGG
* * * *
17405212 CCGAAATACCCCATAGGGTAAAATGACTGAAATGCCCTTATAG
65 ACGAAATACCCCATAGGATAAAATGACTGAAATACCCCTATAG
* * *
17405255 GGT-AAATGACCGAAATACCCCTATAGGGTAAAATGACCGAAATAC-CCCTATAGGGTAGAAT-G
1 GGTAAAATGATCGAAATACCCCTATAGGGTAAAATGACCGAAATACTCCC-ACAGGGTAAAATGG
*
17405317 AC-AATTACCCCCATAGGATAGAAA-GA-TCGAAATACCCCTATAG
65 ACGAAATA-CCCCATAGGATA-AAATGACT-GAAATACCCCTATAG
17405360 GGTAAAATGATC-AGAATACCCCTATAGGGTAAAATGAC
1 GGTAAAATGATCGA-AATACCCCTATAGGGTAAAATGAC
17405398 TGTTATACCC
Statistics
Matches: 126, Mismatches: 10, Indels: 15
0.83 0.07 0.10
Matches are distributed among these distances:
104 5 0.04
105 37 0.29
106 81 0.64
107 3 0.02
ACGTcount: A:0.40, C:0.21, G:0.20, T:0.19
Consensus pattern (107 bp):
GGTAAAATGATCGAAATACCCCTATAGGGTAAAATGACCGAAATACTCCCACAGGGTAAAATGGA
CGAAATACCCCATAGGATAAAATGACTGAAATACCCCTATAG
Found at i:17405410 original size:27 final size:27
Alignment explanation
Indices: 17405148--17405397 Score: 291
Period size: 27 Copynumber: 9.4 Consensus size: 27
17405138 CCCAAAAATA
* *
17405148 GGTAAAATGATCGAACTACCACC-ATAG
1 GGTAAAATGACCGAAATACC-CCTATAG
*
17405175 GGTAAAATGACCGAAATACTCCC-ACAG
1 GGTAAAATGACCGAAATAC-CCCTATAG
*
17405202 GGTAAAATGGCCGAAATACCCC-ATAG
1 GGTAAAATGACCGAAATACCCCTATAG
* * *
17405228 GGTAAAATGACTGAAATGCCCTTATAG
1 GGTAAAATGACCGAAATACCCCTATAG
17405255 GGT-AAATGACCGAAATACCCCTATAG
1 GGTAAAATGACCGAAATACCCCTATAG
17405281 GGTAAAATGACCGAAATACCCCTATAG
1 GGTAAAATGACCGAAATACCCCTATAG
* * *
17405308 GGTAGAATGA-C-AATTACCCCCATAG
1 GGTAAAATGACCGAAATACCCCTATAG
* *
17405333 GATAGAAA-GATCGAAATACCCCTATAG
1 GGTA-AAATGACCGAAATACCCCTATAG
*
17405360 GGTAAAATGATC-AGAATACCCCTATAG
1 GGTAAAATGACCGA-AATACCCCTATAG
17405387 GGTAAAATGAC
1 GGTAAAATGAC
17405398 TGTTATACCC
Statistics
Matches: 194, Mismatches: 21, Indels: 16
0.84 0.09 0.07
Matches are distributed among these distances:
25 17 0.09
26 55 0.28
27 121 0.62
28 1 0.01
ACGTcount: A:0.40, C:0.21, G:0.20, T:0.19
Consensus pattern (27 bp):
GGTAAAATGACCGAAATACCCCTATAG
Found at i:17408578 original size:25 final size:25
Alignment explanation
Indices: 17408527--17408578 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 25
17408517 CAGCTCGTAT
* **
17408527 GAGCTTACCGATTTATAACTCGTGA
1 GAGCATACCGATTTATAACTCAAGA
* *
17408552 GAGCATACTGATTTATAGCTCAAGA
1 GAGCATACCGATTTATAACTCAAGA
17408577 GA
1 GA
17408579 AAGATCATAT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (25 bp):
GAGCATACCGATTTATAACTCAAGA
Found at i:17410861 original size:41 final size:41
Alignment explanation
Indices: 17410801--17410922 Score: 133
Period size: 41 Copynumber: 3.0 Consensus size: 41
17410791 ATGTATATCG
*
17410801 CCAGTGAA-TCAATTCAGGCTTAAAGCCTAGCAGGCTAAGTA
1 CCAGTGAACTGAATT-AGGCTTAAAGCCTAGCAGGCTAAGTA
* *
17410842 CC-GATGAACTGAATTAGGC-TATAAGACTAGCAGGCTAAGTG
1 CCAG-TGAACTGAATTAGGCTTA-AAGCCTAGCAGGCTAAGTA
* * * *
17410883 CCAGTGATCTGAATCAGGCTTTAAGCCTAGCAGACTAAGT
1 CCAGTGAACTGAATTAGGCTTAAAGCCTAGCAGGCTAAGT
17410923 GTCGGTGAAT
Statistics
Matches: 68, Mismatches: 8, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
40 3 0.04
41 58 0.85
42 7 0.10
ACGTcount: A:0.33, C:0.20, G:0.24, T:0.23
Consensus pattern (41 bp):
CCAGTGAACTGAATTAGGCTTAAAGCCTAGCAGGCTAAGTA
Found at i:17410923 original size:41 final size:41
Alignment explanation
Indices: 17410814--17410923 Score: 141
Period size: 41 Copynumber: 2.7 Consensus size: 41
17410804 GTGAATCAAT
* *
17410814 TCAGGCTTAAAGCCTAGCAGGCTAAGTACCGATGAACTGAA
1 TCAGGCTTTAAGCCTAGCAGGCTAAGTGCCGATGAACTGAA
* * * *
17410855 TTAGGCTATAAGACTAGCAGGCTAAGTGCC-AGTGATCTGAA
1 TCAGGCTTTAAGCCTAGCAGGCTAAGTGCCGA-TGAACTGAA
*
17410896 TCAGGCTTTAAGCCTAGCAGACTAAGTG
1 TCAGGCTTTAAGCCTAGCAGGCTAAGTG
17410924 TCGGTGAATA
Statistics
Matches: 58, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
40 1 0.02
41 57 0.98
ACGTcount: A:0.32, C:0.20, G:0.25, T:0.23
Consensus pattern (41 bp):
TCAGGCTTTAAGCCTAGCAGGCTAAGTGCCGATGAACTGAA
Found at i:17415753 original size:50 final size:50
Alignment explanation
Indices: 17415699--17415870 Score: 182
Period size: 50 Copynumber: 3.3 Consensus size: 50
17415689 TATCCCAAAT
** *
17415699 ATGGTCTTACATGGGAGTTCTCATATAGGTGCCCATTCCATGTCCCAGAC
1 ATGGTCTTACATGGGACCTCTCATATAGGTGCCAATTCCATGTCCCAGAC
** * * **
17415749 ATGGTCTTACGGGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGAC
1 ATGGTCTTACATGGGACCTCTCATATAGGTGCCAATTCCATGTCCCAGAC
* * *
17415799 ATGGTCTTACATGAGACCTCTCATAATCTCAATGATGCCAATTCCATGTCCTAGAC
1 ATGGTCTTACATGGGACCTCTCAT-A--T--A-GGTGCCAATTCCATGTCCCAGAC
17415855 ATGGTCTTACATGGGA
1 ATGGTCTTACATGGGA
17415871 TCTCATCCTC
Statistics
Matches: 97, Mismatches: 19, Indels: 6
0.80 0.16 0.05
Matches are distributed among these distances:
50 62 0.64
53 1 0.01
56 34 0.35
ACGTcount: A:0.23, C:0.27, G:0.22, T:0.28
Consensus pattern (50 bp):
ATGGTCTTACATGGGACCTCTCATATAGGTGCCAATTCCATGTCCCAGAC
Found at i:17417336 original size:20 final size:18
Alignment explanation
Indices: 17417311--17417347 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
17417301 ACCTAACATG
17417311 AATTAAATTTAAGACATATT
1 AATTAAA-TTAA-ACATATT
17417331 AATTAAATTAAACATAT
1 AATTAAATTAAACATAT
17417348 CAACATCAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
19 4 0.24
20 7 0.41
ACGTcount: A:0.54, C:0.05, G:0.03, T:0.38
Consensus pattern (18 bp):
AATTAAATTAAACATATT
Found at i:17417588 original size:10 final size:10
Alignment explanation
Indices: 17417573--17417597 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
17417563 AGGTAATGGG
17417573 GAAGAACAAT
1 GAAGAACAAT
17417583 GAAGAACAAT
1 GAAGAACAAT
17417593 GAAGA
1 GAAGA
17417598 GAGAAAAGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.60, C:0.08, G:0.24, T:0.08
Consensus pattern (10 bp):
GAAGAACAAT
Found at i:17425274 original size:48 final size:48
Alignment explanation
Indices: 17425210--17425326 Score: 200
Period size: 48 Copynumber: 2.4 Consensus size: 48
17425200 CAAAGCTATG
17425210 TCCCAGACATAGTCTTACATTGGATGTTTCTTGTAATGTCAATGTCATA
1 TCCCA-ACATAGTCTTACATTGGATGTTTCTTGTAATGTCAATGTCATA
17425259 TCCCAACATAGTCTTACATTGGATGTTTCTTGTAATGTCAATGTCATA
1 TCCCAACATAGTCTTACATTGGATGTTTCTTGTAATGTCAATGTCATA
17425307 TCCCAA-ATACGGTCTTACAT
1 TCCCAACATA--GTCTTACAT
17425327 GGGAGTTCTC
Statistics
Matches: 66, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
47 3 0.05
48 49 0.74
49 14 0.21
ACGTcount: A:0.27, C:0.21, G:0.15, T:0.38
Consensus pattern (48 bp):
TCCCAACATAGTCTTACATTGGATGTTTCTTGTAATGTCAATGTCATA
Found at i:17427205 original size:10 final size:10
Alignment explanation
Indices: 17427190--17427214 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
17427180 AGGTAATGGG
17427190 GAAGAACAAT
1 GAAGAACAAT
17427200 GAAGAACAAT
1 GAAGAACAAT
17427210 GAAGA
1 GAAGA
17427215 GAGAAAAGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.60, C:0.08, G:0.24, T:0.08
Consensus pattern (10 bp):
GAAGAACAAT
Found at i:17436868 original size:18 final size:18
Alignment explanation
Indices: 17436845--17436879 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
17436835 GAAAGAAACG
17436845 CTCACCTTTATAAACAGA
1 CTCACCTTTATAAACAGA
17436863 CTCACCTTTATAAACAG
1 CTCACCTTTATAAACAG
17436880 TCTTAAGTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.37, C:0.29, G:0.06, T:0.29
Consensus pattern (18 bp):
CTCACCTTTATAAACAGA
Found at i:17443698 original size:10 final size:10
Alignment explanation
Indices: 17443685--17443850 Score: 50
Period size: 10 Copynumber: 16.9 Consensus size: 10
17443675 TCCAAAACTA
17443685 TAAAAATTAT
1 TAAAAATTAT
17443695 TAAAATATT-T
1 TAAAA-ATTAT
*
17443705 TAGAAATTA-
1 TAAAAATTAT
17443714 TACAAAATTAT
1 TA-AAAATTAT
* *
17443725 ATACAAATAAT
1 -TAAAAATTAT
*
17443736 T-AAAATGA-
1 TAAAAATTAT
*
17443744 -AAATATTAT
1 TAAAAATTAT
*
17443753 AAAAAAATT-T
1 -TAAAAATTAT
*
17443763 CTAAATATTAT
1 -TAAAAATTAT
* *
17443774 TGAAAAA-GAA
1 T-AAAAATTAT
17443784 TAAAAAGTTAT
1 TAAAAA-TTAT
* *
17443795 TAAATATCA-
1 TAAAAATTAT
17443804 TAAAATATT-T
1 TAAAA-ATTAT
17443814 T-AAAATTA-
1 TAAAAATTAT
*
17443822 TAAAAACTAT
1 TAAAAATTAT
*
17443832 TAAATATTA-
1 TAAAAATTAT
17443841 TAAAATATTA
1 TAAAA-ATTA
17443851 CTAATATGTT
Statistics
Matches: 112, Mismatches: 25, Indels: 38
0.64 0.14 0.22
Matches are distributed among these distances:
8 9 0.08
9 32 0.29
10 43 0.38
11 26 0.23
12 2 0.02
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.36
Consensus pattern (10 bp):
TAAAAATTAT
Found at i:17443816 original size:19 final size:19
Alignment explanation
Indices: 17443794--17443849 Score: 71
Period size: 19 Copynumber: 3.0 Consensus size: 19
17443784 TAAAAAGTTA
*
17443794 TTAAATATCATAAAATATT
1 TTAAATATTATAAAATATT
*
17443813 TTAAA-ATTATAAAA-ACTA
1 TTAAATATTATAAAATA-TT
17443831 TTAAATATTATAAAATATT
1 TTAAATATTATAAAATATT
17443850 ACTAATATGT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
17 1 0.03
18 14 0.45
19 15 0.48
20 1 0.03
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (19 bp):
TTAAATATTATAAAATATT
Found at i:17443856 original size:19 final size:18
Alignment explanation
Indices: 17443792--17443857 Score: 64
Period size: 19 Copynumber: 3.6 Consensus size: 18
17443782 AATAAAAAGT
*
17443792 TATTA-AATATCATAAAA
1 TATTATAATATTATAAAA
* *
17443809 TATTTTAAAATTATAAAAA
1 TATTATAATATTAT-AAAA
17443828 CTATTA-AATATTATAAAA
1 -TATTATAATATTATAAAA
17443846 TATTACTAATAT
1 TATTA-TAATAT
17443858 GTTATAAAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
17 9 0.23
18 10 0.26
19 16 0.41
20 4 0.10
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.41
Consensus pattern (18 bp):
TATTATAATATTATAAAA
Found at i:17446103 original size:33 final size:33
Alignment explanation
Indices: 17446014--17446103 Score: 117
Period size: 33 Copynumber: 2.7 Consensus size: 33
17446004 GATGAATGGT
* * * *
17446014 TTAGCTCTTGTGAGCATTTGTGTAATGGTTGGA
1 TTAGCTCTTATGAGCATTAGTGTGATGGTTAGA
* *
17446047 TAAGCTCTTTTGAGCATTAGTGTGATGGTTAGA
1 TTAGCTCTTATGAGCATTAGTGTGATGGTTAGA
*
17446080 TTAGCTCTTATGAGCATTGGTGTG
1 TTAGCTCTTATGAGCATTAGTGTG
17446104 TTGGAGGGAT
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 49 1.00
ACGTcount: A:0.20, C:0.10, G:0.29, T:0.41
Consensus pattern (33 bp):
TTAGCTCTTATGAGCATTAGTGTGATGGTTAGA
Found at i:17454005 original size:27 final size:27
Alignment explanation
Indices: 17453967--17454135 Score: 182
Period size: 27 Copynumber: 6.3 Consensus size: 27
17453957 AATTGGGCCA
* *
17453967 AAAATGATCGAAATACCCTCTAAAGGT
1 AAAATGACCGAAATACCCTCGAAAGGT
* *
17453994 AAAATTACCGAAATACCCTCGATAGGT
1 AAAATGACCGAAATACCCTCGAAAGGT
* ** * *
17454021 AAAATAACTTAAATACCCTCGATAGGC
1 AAAATGACCGAAATACCCTCGAAAGGT
* *
17454048 AAAATGATCGAAA-ACCC-CTGAAGGGT
1 AAAATGACCGAAATACCCTC-GAAAGGT
*
17454074 AAAATTACCGAAATACCCTCGATAA-GT
1 AAAATGACCGAAATACCCTCGA-AAGGT
*
17454101 AAAATGACCGAAATACCCTCAAAAGGT
1 AAAATGACCGAAATACCCTCGAAAGGT
17454128 AAAATGAC
1 AAAATGAC
17454136 TGTTATACCC
Statistics
Matches: 117, Mismatches: 20, Indels: 10
0.80 0.14 0.07
Matches are distributed among these distances:
25 1 0.01
26 21 0.18
27 93 0.79
28 2 0.02
ACGTcount: A:0.45, C:0.21, G:0.15, T:0.20
Consensus pattern (27 bp):
AAAATGACCGAAATACCCTCGAAAGGT
Found at i:17454103 original size:80 final size:81
Alignment explanation
Indices: 17453967--17454134 Score: 241
Period size: 80 Copynumber: 2.1 Consensus size: 81
17453957 AATTGGGCCA
* **
17453967 AAAATGATCGAAATACCCTCTAAAGGTAAAATTACCGAAATACCCTCGATAGGTAAAATAACTTA
1 AAAATGATCGAAATACCCTCTAAAGGTAAAATTACCGAAATACCCTCGATAAGTAAAATAACCGA
* *
17454032 AATACCCTCGATAGGC
66 AATACCCTCAAAAGGC
* *
17454048 AAAATGATCGAAA-ACCC-CTGAAGGGTAAAATTACCGAAATACCCTCGATAAGTAAAATGACCG
1 AAAATGATCGAAATACCCTCT-AAAGGTAAAATTACCGAAATACCCTCGATAAGTAAAATAACCG
*
17454111 AAATACCCTCAAAAGGT
65 AAATACCCTCAAAAGGC
17454128 AAAATGA
1 AAAATGA
17454135 CTGTTATACC
Statistics
Matches: 78, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
79 2 0.03
80 63 0.81
81 13 0.17
ACGTcount: A:0.45, C:0.20, G:0.15, T:0.20
Consensus pattern (81 bp):
AAAATGATCGAAATACCCTCTAAAGGTAAAATTACCGAAATACCCTCGATAAGTAAAATAACCGA
AATACCCTCAAAAGGC
Found at i:17454334 original size:26 final size:26
Alignment explanation
Indices: 17454300--17454375 Score: 125
Period size: 26 Copynumber: 2.9 Consensus size: 26
17454290 TTGCCACATA
* *
17454300 TACTGTTACTGGCAGCCTTGCTACGT
1 TACTATTACTGGCAGCTTTGCTACGT
*
17454326 TACTATTACTGGCAGCTTTGCTGCGT
1 TACTATTACTGGCAGCTTTGCTACGT
17454352 TACTATTACTGGCAGCTTTGCTAC
1 TACTATTACTGGCAGCTTTGCTAC
17454376 AATATTGGTG
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 46 1.00
ACGTcount: A:0.17, C:0.25, G:0.21, T:0.37
Consensus pattern (26 bp):
TACTATTACTGGCAGCTTTGCTACGT
Found at i:17455025 original size:20 final size:20
Alignment explanation
Indices: 17455000--17455042 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
17454990 TTCCAAACTT
*
17455000 AAGAAACGAGTTTTATCAAC
1 AAGAAACGAGTCTTATCAAC
*
17455020 AAGAAATGAGTCTTATCAAC
1 AAGAAACGAGTCTTATCAAC
17455040 AAG
1 AAG
17455043 TCTAAGTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.47, C:0.14, G:0.16, T:0.23
Consensus pattern (20 bp):
AAGAAACGAGTCTTATCAAC
Found at i:17467226 original size:19 final size:19
Alignment explanation
Indices: 17467202--17467240 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
17467192 AAAGATAATA
17467202 TATAAGAAAGGTTCCTTAC
1 TATAAGAAAGGTTCCTTAC
17467221 TATAAGAAAGGTTCCTTAC
1 TATAAGAAAGGTTCCTTAC
17467240 T
1 T
17467241 CTTCAATAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.33
Consensus pattern (19 bp):
TATAAGAAAGGTTCCTTAC
Found at i:17477915 original size:20 final size:20
Alignment explanation
Indices: 17477881--17478002 Score: 86
Period size: 20 Copynumber: 6.1 Consensus size: 20
17477871 CCAATTTGTG
* *
17477881 GACAAGCCACTAGTAATGCA
1 GACAAGCTACCAGTAATGCA
* *
17477901 GACAAGTTACCAGTAGTGCA
1 GACAAGCTACCAGTAATGCA
* *
17477921 GGCAAGCTGCCAGTAATGCA
1 GACAAGCTACCAGTAATGCA
* * *
17477941 GATGAA-CTGCCAATCAA-GCA
1 GA-CAAGCTACCAGT-AATGCA
* **
17477961 GACAAGCTGCCAGTAATGTG
1 GACAAGCTACCAGTAATGCA
* *
17477981 GACAAGCCACCAGTGATGCA
1 GACAAGCTACCAGTAATGCA
17478001 GA
1 GA
17478003 TAAACTATTA
Statistics
Matches: 78, Mismatches: 20, Indels: 8
0.74 0.19 0.08
Matches are distributed among these distances:
19 4 0.05
20 70 0.90
21 4 0.05
ACGTcount: A:0.35, C:0.24, G:0.25, T:0.16
Consensus pattern (20 bp):
GACAAGCTACCAGTAATGCA
Found at i:17488718 original size:20 final size:20
Alignment explanation
Indices: 17488693--17488743 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
17488683 AAAAATCCAT
*
17488693 AGTATCGATACATTTAACCA
1 AGTATCGATACATCTAACCA
*
17488713 AGTATCGATACCTCTAACCA
1 AGTATCGATACATCTAACCA
*
17488733 AATATCGATAC
1 AGTATCGATAC
17488744 CAATTTGAGT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.39, C:0.24, G:0.10, T:0.27
Consensus pattern (20 bp):
AGTATCGATACATCTAACCA
Found at i:17490850 original size:36 final size:36
Alignment explanation
Indices: 17490789--17490873 Score: 104
Period size: 36 Copynumber: 2.4 Consensus size: 36
17490779 ACCTTGAATC
* *
17490789 TTTC-ATTTGTAATGTTATTTAAGTAAA-TATATAGT
1 TTTCTATTTATAATATTATTTAAGTAAATTATATA-T
*
17490824 TTTCTATTTATAATATTATTTAAGTAAATTTTATAT
1 TTTCTATTTATAATATTATTTAAGTAAATTATATAT
17490860 TATT-TATTTATAAT
1 T-TTCTATTTATAAT
17490874 GTGGTTGAAG
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
35 4 0.09
36 33 0.75
37 7 0.16
ACGTcount: A:0.35, C:0.02, G:0.06, T:0.56
Consensus pattern (36 bp):
TTTCTATTTATAATATTATTTAAGTAAATTATATAT
Found at i:17496079 original size:20 final size:20
Alignment explanation
Indices: 17496033--17496087 Score: 56
Period size: 20 Copynumber: 2.8 Consensus size: 20
17496023 ACGAGATTTT
* * * *
17496033 CACTTTGATGCCCCTTTTTG
1 CACTTCGATGCCCCTGTATA
*
17496053 CAGTTCGATGCCCCTGTATA
1 CACTTCGATGCCCCTGTATA
*
17496073 CACTTCGGTGCCCCT
1 CACTTCGATGCCCCT
17496088 ATTCGCACTA
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.13, C:0.35, G:0.18, T:0.35
Consensus pattern (20 bp):
CACTTCGATGCCCCTGTATA
Found at i:17497799 original size:20 final size:20
Alignment explanation
Indices: 17497776--17497819 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
17497766 AGTTCAATTC
*
17497776 AGCTCAATGAGCTCGTTCTT
1 AGCTCAATGAGCTCATTCTT
*
17497796 AGCTCAATGAGCTCATTTTT
1 AGCTCAATGAGCTCATTCTT
17497816 AGCT
1 AGCT
17497820 TACTTTAGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.23, C:0.23, G:0.18, T:0.36
Consensus pattern (20 bp):
AGCTCAATGAGCTCATTCTT
Found at i:17505309 original size:39 final size:39
Alignment explanation
Indices: 17505212--17505310 Score: 153
Period size: 39 Copynumber: 2.5 Consensus size: 39
17505202 ATTCACTTTT
* * * *
17505212 AAGCATGTATCATATTACACATATAATCACATAACATTC
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
17505251 AAGCATATATCACAATACTCATATAATCACATAACATTC
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
*
17505290 AAGCATATATCACAGTACTCA
1 AAGCATATATCACAATACTCA
17505311 AAAACATGTT
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 55 1.00
ACGTcount: A:0.44, C:0.22, G:0.05, T:0.28
Consensus pattern (39 bp):
AAGCATATATCACAATACTCATATAATCACATAACATTC
Found at i:17506348 original size:131 final size:132
Alignment explanation
Indices: 17506176--17506442 Score: 446
Period size: 131 Copynumber: 2.0 Consensus size: 132
17506166 CAAGCAATAA
* * * *
17506176 AAAACATAAGCCTAAGTTGTAATAGCCCGTTTTTAGTAAAATCAGAACAGTGGTTTTAAGACCAA
1 AAAACATAAGCCTAAGCTGTAACAACCCGTTTTCAGTAAAATCAGAACAGTGGTTTTAAGACCAA
* *
17506241 AAATCCAATGTAAAAATATTTATTTTATTACTAATTTAATGTCTACAGTATTTTAGCAAGCTCAT
66 AAATCCAATGTAAAAATATTTATTTTATTACTAATTTAATGTCTACAGTATTTCAGCAAGATCAT
17506306 AT
131 AT
17506308 AAAACATAAGCCT-AGCTGTAACAACCCGTTTTCAGTAAAATCAGAACAGTGGTTTTAAGACCAA
1 AAAACATAAGCCTAAGCTGTAACAACCCGTTTTCAGTAAAATCAGAACAGTGGTTTTAAGACCAA
* * *
17506372 AAATCCAATGTGAAAATATTTATTTTATTACTACTTTAATGTCTACAGTATTTCAGCAAGATTAT
66 AAATCCAATGTAAAAATATTTATTTTATTACTAATTTAATGTCTACAGTATTTCAGCAAGATCAT
17506437 AT
131 AT
17506439 AAAA
1 AAAA
17506443 ATTTCGTTAA
Statistics
Matches: 126, Mismatches: 9, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
131 113 0.90
132 13 0.10
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (132 bp):
AAAACATAAGCCTAAGCTGTAACAACCCGTTTTCAGTAAAATCAGAACAGTGGTTTTAAGACCAA
AAATCCAATGTAAAAATATTTATTTTATTACTAATTTAATGTCTACAGTATTTCAGCAAGATCAT
AT
Found at i:17515159 original size:61 final size:61
Alignment explanation
Indices: 17515043--17515170 Score: 161
Period size: 61 Copynumber: 2.1 Consensus size: 61
17515033 TTTTTAAATA
* * * * * *
17515043 TTTAGAATTAGAATTAAATTAATAACTATTTGTAATTATTGAGAGATAAATTTATTGAGTT
1 TTTAGAATTAGAATTAAAATAACAAATATTTGTAAATATTAAGAGATAAATTTATTGACTT
*
17515104 TATTAGAATTAGAATTAAAATAACAAAT-TTTGTAAATATTAATG-GTTAAATTTATTGACTT
1 T-TTAGAATTAGAATTAAAATAACAAATATTTGTAAATATTAA-GAGATAAATTTATTGACTT
17515165 TTTAGA
1 TTTAGA
17515171 TTTAAGATCA
Statistics
Matches: 58, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
60 5 0.09
61 29 0.50
62 24 0.41
ACGTcount: A:0.42, C:0.02, G:0.12, T:0.44
Consensus pattern (61 bp):
TTTAGAATTAGAATTAAAATAACAAATATTTGTAAATATTAAGAGATAAATTTATTGACTT
Found at i:17517292 original size:20 final size:20
Alignment explanation
Indices: 17517259--17517296 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
17517249 TAGGTTTGTC
17517259 TATATATATATATTTTAAAT
1 TATATATATATATTTTAAAT
17517279 TATAT-TATATTATTTTAA
1 TATATATATA-TATTTTAA
17517297 TATTTAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (20 bp):
TATATATATATATTTTAAAT
Found at i:17517325 original size:16 final size:16
Alignment explanation
Indices: 17517263--17517326 Score: 55
Period size: 16 Copynumber: 4.1 Consensus size: 16
17517253 TTTGTCTATA
*
17517263 TATATATATTTTAAAT
1 TATATATATTTTAATT
*
17517279 TATAT-TATATT-ATT
1 TATATATATTTTAATT
17517293 T-TA-ATATTTAATAATT
1 TATATATATTT--TAATT
*
17517309 TATATATATTTTTATT
1 TATATATATTTTAATT
17517325 TA
1 TA
17517327 CTGAAATTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 12
0.70 0.07 0.22
Matches are distributed among these distances:
13 6 0.16
14 3 0.08
15 6 0.16
16 15 0.39
17 2 0.05
18 6 0.16
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
TATATATATTTTAATT
Found at i:17517385 original size:17 final size:17
Alignment explanation
Indices: 17517365--17517398 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
17517355 ATTATTTTAA
17517365 TATT-TATATTATAGTAT
1 TATTATATATT-TAGTAT
17517382 TATTATATATTTAGTAT
1 TATTATATATTTAGTAT
17517399 ATGTTTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.59
Consensus pattern (17 bp):
TATTATATATTTAGTAT
Found at i:17520907 original size:17 final size:17
Alignment explanation
Indices: 17520881--17520920 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
17520871 GTCACCTGGC
*
17520881 CGTGTGTCACACACGGT
1 CGTGTCTCACACACGGT
17520898 CGTGTCTCACACACGGT
1 CGTGTCTCACACACGGT
17520915 CGTGTC
1 CGTGTC
17520921 GCCTGGCCGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.15, C:0.33, G:0.28, T:0.25
Consensus pattern (17 bp):
CGTGTCTCACACACGGT
Found at i:17526054 original size:30 final size:30
Alignment explanation
Indices: 17526020--17526076 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
17526010 TATGACGATC
*
17526020 ATCGACCAATG-AAATGGGATAGCTTCGACT
1 ATCGAACAATGAAAATGGG-TAGCTTCGACT
**
17526050 ATCGAATTATGAAAATGGGTAGCTTCG
1 ATCGAACAATGAAAATGGGTAGCTTCG
17526077 GCTGTCAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
30 16 0.70
31 7 0.30
ACGTcount: A:0.33, C:0.16, G:0.25, T:0.26
Consensus pattern (30 bp):
ATCGAACAATGAAAATGGGTAGCTTCGACT
Found at i:17526088 original size:30 final size:31
Alignment explanation
Indices: 17526031--17526304 Score: 153
Period size: 30 Copynumber: 9.1 Consensus size: 31
17526021 TCGACCAATG
* *
17526031 AAATGGGATAGCTTCGACTATCGAATTATGA
1 AAATGGGATAGCTTCGGCTATCAAATTATGA
*
17526062 AAATGGG-TAGCTTCGGCTGTCAAATTATGA
1 AAATGGGATAGCTTCGGCTATCAAATTATGA
* *
17526092 AAA-GGGATAGCTTCAGCTATCAAATCATGA
1 AAATGGGATAGCTTCGGCTATCAAATTATGA
* * * * * *
17526122 AAA-AGAAT-GGTGAT-GACCATCAAA-AATGA
1 AAATGGGATAGCT--TCGGCTATCAAATTATGA
* * * * *
17526151 AAA-GGGAT-GGTGAT-GACCATCGAACTATGA
1 AAATGGGATAGCT--TCGGCTATCAAATTATGA
*
17526181 AAA-GAGATAGCTTCGGCTATCAAATTATGA
1 AAATGGGATAGCTTCGGCTATCAAATTATGA
*
17526211 AAA-GGGATAGCTTCGGCTATGAAATTATGA
1 AAATGGGATAGCTTCGGCTATCAAATTATGA
* * * * * * *
17526241 AAA-AGGAT-GGTGACGACCATCAAAATCTGA
1 AAATGGGATAGCT-TCGGCTATCAAATTATGA
* *
17526271 AAA-GGGATAGCTTCGACTATCGAATTATGGA
1 AAATGGGATAGCTTCGGCTATCAAATTAT-GA
17526302 AAA
1 AAA
17526305 AGATGATGAC
Statistics
Matches: 194, Mismatches: 40, Indels: 18
0.77 0.16 0.07
Matches are distributed among these distances:
29 33 0.17
30 144 0.74
31 17 0.09
ACGTcount: A:0.39, C:0.13, G:0.24, T:0.24
Consensus pattern (31 bp):
AAATGGGATAGCTTCGGCTATCAAATTATGA
Found at i:17526102 original size:60 final size:60
Alignment explanation
Indices: 17526028--17526312 Score: 221
Period size: 60 Copynumber: 4.7 Consensus size: 60
17526018 TCATCGACCA
* * * * **
17526028 ATGAAATGGGATAGCTTCGACTATCGAATTATGAAAATG-GGTAGCTTCGGCTGTCAAATT
1 ATGAAAAGGGATAGCTTCGACTATCGAATTATGAAAAAGAGAT-GCTTCGACCATCAAATT
* * * *
17526088 ATGAAAAGGGATAGCTTC-AGCTATCAAATCATGAAAAAGA-ATGGTGAT-GACCATCAAA-A
1 ATGAAAAGGGATAGCTTCGA-CTATCGAATTATGAAAAAGAGATGCT--TCGACCATCAAATT
* * * * *
17526147 ATGAAAAGGGAT-GGTGAT-GACCATCGAACTATG-AAAAGAGATAGCTTCGGCTATCAAATT
1 ATGAAAAGGGATAGCT--TCGACTATCGAATTATGAAAAAGAGAT-GCTTCGACCATCAAATT
* * * *
17526207 ATGAAAAGGGATAGCTTCGGCTAT-GAAATTATGAAAAAG-GATGGTGACGACCATCAAAAT
1 ATGAAAAGGGATAGCTTCGACTATCG-AATTATGAAAAAGAGATGCT-TCGACCATCAAATT
*
17526267 CTGAAAAGGGATAGCTTCGACTATCGAATTATGGAAAAAGATGATG
1 ATGAAAAGGGATAGCTTCGACTATCGAATTAT-GAAAAAGA-GATG
17526313 ACAACCATCG
Statistics
Matches: 175, Mismatches: 30, Indels: 37
0.72 0.12 0.15
Matches are distributed among these distances:
58 9 0.05
59 38 0.22
60 108 0.62
61 16 0.09
63 4 0.02
ACGTcount: A:0.39, C:0.13, G:0.24, T:0.24
Consensus pattern (60 bp):
ATGAAAAGGGATAGCTTCGACTATCGAATTATGAAAAAGAGATGCTTCGACCATCAAATT
Found at i:17526241 original size:119 final size:120
Alignment explanation
Indices: 17526050--17526278 Score: 354
Period size: 119 Copynumber: 1.9 Consensus size: 120
17526040 AGCTTCGACT
* * *
17526050 ATCGAATTATGAAAATGGGTAGCTTCGGCTGTCAAATTATGAAAAGGGATAGCTTCAGCTATCAA
1 ATCGAACTATGAAAATGGATAGCTTCGGCTATCAAATTATGAAAAGGGATAGCTTCAGCTATCAA
*
17526115 ATCATGAAAAAGAATGGTGATGACCATCAAAA-ATGAAAAGGGATGGTGATGACC
66 ATCATGAAAAAGAATGGTGACGACCATCAAAATATGAAAAGGGATGGTGATGACC
* *
17526169 ATCGAACTATGAAAA-GAGATAGCTTCGGCTATCAAATTATGAAAAGGGATAGCTTCGGCTATGA
1 ATCGAACTATGAAAATG-GATAGCTTCGGCTATCAAATTATGAAAAGGGATAGCTTCAGCTATCA
* * *
17526233 AATTATGAAAAAGGATGGTGACGACCATCAAAATCTGAAAAGGGAT
65 AATCATGAAAAAGAATGGTGACGACCATCAAAATATGAAAAGGGAT
17526279 AGCTTCGACT
Statistics
Matches: 99, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
118 1 0.01
119 87 0.88
120 11 0.11
ACGTcount: A:0.40, C:0.13, G:0.24, T:0.23
Consensus pattern (120 bp):
ATCGAACTATGAAAATGGATAGCTTCGGCTATCAAATTATGAAAAGGGATAGCTTCAGCTATCAA
ATCATGAAAAAGAATGGTGACGACCATCAAAATATGAAAAGGGATGGTGATGACC
Found at i:17529386 original size:29 final size:28
Alignment explanation
Indices: 17529351--17529565 Score: 175
Period size: 29 Copynumber: 7.4 Consensus size: 28
17529341 TCATCGATCA
*
17529351 ATGAAAAGGGATAGCTGTGGCTATCGATT
1 ATGAAAAGGGATAG-TGTGACTATCGATT
* *
17529380 ATGAAAAGGGATGGTGATGA-TCATCGAAT
1 ATGAAAAGGGATAGTG-TGACT-ATCGATT
*
17529409 ATGAAAAGGGATAGCT-TCGGCTA-CTGATT
1 ATGAAAAGGGATAG-TGT-GACTATC-GATT
* * *
17529438 ATGAAAAAGGATAGCTTTGACTATTGATT
1 ATGAAAAGGGATAG-TGTGACTATCGATT
* * *
17529467 ATGAAAAGGGATAGTGATGACCATCAACT
1 ATGAAAAGGGATAGTG-TGACTATCGATT
* *
17529496 ATGAAAAGGGATAGTGACGACCATCGATT
1 ATGAAAAGGGATAGTG-TGACTATCGATT
* * *
17529525 AATGAAAAGGGATAGTTTCGACCATCGAAT
1 -ATGAAAAGGGATAGTGT-GACTATCGATT
17529555 ATGAAAAGGGA
1 ATGAAAAGGGA
17529566 CAGTTACGAC
Statistics
Matches: 154, Mismatches: 21, Indels: 22
0.78 0.11 0.11
Matches are distributed among these distances:
28 6 0.04
29 120 0.78
30 28 0.18
ACGTcount: A:0.38, C:0.11, G:0.27, T:0.25
Consensus pattern (28 bp):
ATGAAAAGGGATAGTGTGACTATCGATT
Found at i:17529525 original size:87 final size:86
Alignment explanation
Indices: 17529342--17529580 Score: 259
Period size: 87 Copynumber: 2.7 Consensus size: 86
17529332 TATATGCGAT
* * * * *
17529342 CATCGATCAATGAAAAGGGATAGCTGTGGCTATCGATTATGAAAAGGGATGGTGATGATCATCGA
1 CATCGAT-TATGAAAAGGGATAGCTTTGACTATCGATTATGAAAAGGGATAGTGATGACCATC-A
* *
17529407 ATATGAAAAGGGATAGCTTCGGC
64 ATATGAAAAGGGATAGCTACGAC
* * *
17529430 TA-CTGATTATGAAAAAGGATAGCTTTGACTATTGATTATGAAAAGGGATAGTGATGACCATCAA
1 CATC-GATTATGAAAAGGGATAGCTTTGACTATCGATTATGAAAAGGGATAGTGATGACCATCAA
17529494 CTATGAAAAGGGATAG-TGACGAC
65 -TATGAAAAGGGATAGCT-ACGAC
* * * * *
17529517 CATCGATTAATGAAAAGGGATAG-TTTCGACCATCGAATATGAAAAGGGACAGTTACGACCATCA
1 CATCGATT-ATGAAAAGGGATAGCTTT-GACTATCGATTATGAAAAGGGATAGTGATGACCATCA
17529581 TTTAGTGCAC
Statistics
Matches: 127, Mismatches: 18, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
86 3 0.02
87 75 0.59
88 49 0.39
ACGTcount: A:0.37, C:0.13, G:0.26, T:0.24
Consensus pattern (86 bp):
CATCGATTATGAAAAGGGATAGCTTTGACTATCGATTATGAAAAGGGATAGTGATGACCATCAAT
ATGAAAAGGGATAGCTACGAC
Found at i:17533092 original size:9 final size:9
Alignment explanation
Indices: 17533078--17533102 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
17533068 TGCTTGCTGT
17533078 AGAGAAATA
1 AGAGAAATA
17533087 AGAGAAATA
1 AGAGAAATA
17533096 AGAGAAA
1 AGAGAAA
17533103 ATGATGCGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.24, T:0.08
Consensus pattern (9 bp):
AGAGAAATA
Found at i:17535131 original size:26 final size:26
Alignment explanation
Indices: 17535101--17535159 Score: 91
Period size: 26 Copynumber: 2.3 Consensus size: 26
17535091 GTAAGAGTTT
17535101 TGAAACTGATACATGCTATGATATTC
1 TGAAACTGATACATGCTATGATATTC
* *
17535127 TGAAACTGATATATGTTATGATATTC
1 TGAAACTGATACATGCTATGATATTC
*
17535153 TAAAACT
1 TGAAACT
17535160 ACTGTAGGTA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.37
Consensus pattern (26 bp):
TGAAACTGATACATGCTATGATATTC
Found at i:17546563 original size:31 final size:31
Alignment explanation
Indices: 17546525--17546587 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
17546515 ATGAGTAATG
17546525 TCGTGACAATTACATAATAATCCAGGAAACA
1 TCGTGACAATTACATAATAATCCAGGAAACA
17546556 TCGTGACAATTACATAATAATCCAGGAAACA
1 TCGTGACAATTACATAATAATCCAGGAAACA
17546587 T
1 T
17546588 ACTCATAATG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.44, C:0.19, G:0.13, T:0.24
Consensus pattern (31 bp):
TCGTGACAATTACATAATAATCCAGGAAACA
Found at i:17556263 original size:30 final size:30
Alignment explanation
Indices: 17556229--17556506 Score: 217
Period size: 30 Copynumber: 9.3 Consensus size: 30
17556219 CTATCGACCA
*
17556229 ATGAAAACGGATAGCATT-GACTATCGAATT
1 ATGAAAAGGGATAGC-TTCGACTATCGAATT
* * *
17556259 ATGAAAAGGGATAGGTTCAACTATCAAATT
1 ATGAAAAGGGATAGCTTCGACTATCGAATT
* * *
17556289 ATGAAAAGTGATAGCTTCAACTATCAAATT
1 ATGAAAAGGGATAGCTTCGACTATCGAATT
* * * *
17556319 ATGAAAAGGGAT-GGTGACGACCATCAGCA--
1 ATGAAAAGGGATAGCT-TCGACTATC-GAATT
* *
17556348 ATGAAAAAGGATAGCTTCGGCTATCGAATT
1 ATGAAAAGGGATAGCTTCGACTATCGAATT
* *
17556378 ATGAAAAGGGATAGCTTCGACTATCAAACT
1 ATGAAAAGGGATAGCTTCGACTATCGAATT
* * ** * *
17556408 ATTAAAAGGGATGGCGACGACGATC-AACT
1 ATGAAAAGGGATAGCTTCGACTATCGAATT
* * * * **
17556437 ATGAAAAGGGAT-GGTGACGACCATCAAAAC
1 ATGAAAAGGGATAGCT-TCGACTATCGAATT
*
17556467 ATGAAAAGGTATAGCTTCGACTATCGAATT
1 ATGAAAAGGGATAGCTTCGACTATCGAATT
17556497 ATGGAAAAGG
1 AT-GAAAAGG
17556507 ATGTGACAAC
Statistics
Matches: 197, Mismatches: 41, Indels: 19
0.77 0.16 0.07
Matches are distributed among these distances:
28 3 0.02
29 44 0.22
30 140 0.71
31 10 0.05
ACGTcount: A:0.40, C:0.14, G:0.23, T:0.23
Consensus pattern (30 bp):
ATGAAAAGGGATAGCTTCGACTATCGAATT
Done.