Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 167 of 325
Found at i:54036139 original size:11 final size:11
Alignment explanation
Indices: 54036109--54036163 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
54036099 TATGAACATC
54036109 TCATGTGCATA
1 TCATGTGCATA
*
54036120 TCA--TACATA
1 TCATGTGCATA
54036129 TCATGTGCATA
1 TCATGTGCATA
* *
54036140 TCA--TACATG
1 TCATGTGCATA
54036149 TCATGTGCATA
1 TCATGTGCATA
54036160 TCAT
1 TCAT
54036164 ACATATCATG
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:54038454 original size:82 final size:80
Alignment explanation
Indices: 54038346--54038496 Score: 205
Period size: 82 Copynumber: 1.9 Consensus size: 80
54038336 GATATTCGGG
* * *
54038346 CTTTGAGTCTAGCAAGCTTTATGCTGGTGTATGAAATCGGGCTTTATGCCTAGCAGGCTTAT-TG
1 CTTTGAGCCTAGCAAGCCTTATGCTGGTGTATG-AATCAGGC-TTATGCCTAGCAGG-TTATATG
54038410 CCAGTGAAAAATATCAGA
63 CCAGTGAAAAATATCAGA
* * * *
54038428 CTTTGAGCCTAGCAGGCCTTATGCTGGTGTGTGATTCAGGCTTATGCCTAGCAGGTTTTATGCCA
1 CTTTGAGCCTAGCAAGCCTTATGCTGGTGTATGAATCAGGCTTATGCCTAGCAGGTTATATGCCA
54038493 GTGA
66 GTGA
54038497 TTTATTTCAA
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
79 3 0.05
80 23 0.38
81 6 0.10
82 29 0.48
ACGTcount: A:0.23, C:0.19, G:0.26, T:0.32
Consensus pattern (80 bp):
CTTTGAGCCTAGCAAGCCTTATGCTGGTGTATGAATCAGGCTTATGCCTAGCAGGTTATATGCCA
GTGAAAAATATCAGA
Found at i:54038632 original size:35 final size:35
Alignment explanation
Indices: 54038586--54038710 Score: 153
Period size: 35 Copynumber: 3.6 Consensus size: 35
54038576 TAGGTAAGTA
54038586 TATATTGAACTTGTATATTCAGCTACATGTGAGGT
1 TATATTGAACTTGTATATTCAGCTACATGTGAGGT
* * * * *
54038621 TATATTAAACTTGTGTATT-TGATTACATGTGAGCT
1 TATATTGAACTTGTATATTCAG-CTACATGTGAGGT
* **
54038656 TATACTGAACTTGTATATTTGGCTACATGTGAGGT
1 TATATTGAACTTGTATATTCAGCTACATGTGAGGT
*
54038691 TATATTGAATTTGTATATTC
1 TATATTGAACTTGTATATTC
54038711 GGCCATATGA
Statistics
Matches: 74, Mismatches: 14, Indels: 4
0.80 0.15 0.04
Matches are distributed among these distances:
34 1 0.01
35 72 0.97
36 1 0.01
ACGTcount: A:0.28, C:0.10, G:0.18, T:0.44
Consensus pattern (35 bp):
TATATTGAACTTGTATATTCAGCTACATGTGAGGT
Found at i:54054714 original size:46 final size:45
Alignment explanation
Indices: 54054664--54054839 Score: 212
Period size: 46 Copynumber: 3.8 Consensus size: 45
54054654 TATTTGGGCA
54054664 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
54054710 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
54054757 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
54054803 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
54054840 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 69 0.62
47 32 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:54054819 original size:93 final size:93
Alignment explanation
Indices: 54054660--54054831 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
54054650 TGGATATTTG
* *
54054660 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
54054725 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* *
54054753 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
54054818 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
54054832 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:54057788 original size:15 final size:15
Alignment explanation
Indices: 54057749--54057828 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
54057739 GTATCTTGGG
*
54057749 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
54057764 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
* *
54057779 TTTCTTTATTCCGGG
1 TTTCTTTATTCTGGA
*
54057794 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
54057809 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
54057823 TTTCTT
1 TTTCTT
54057829 GTTATCTTTG
Statistics
Matches: 53, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
14 10 0.19
15 41 0.77
16 2 0.04
ACGTcount: A:0.10, C:0.19, G:0.14, T:0.57
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:54057818 original size:30 final size:30
Alignment explanation
Indices: 54057740--54057827 Score: 92
Period size: 30 Copynumber: 3.0 Consensus size: 30
54057730 CATAGTATCG
* * *
54057740 TATCTTGGGTTTCTTTA-TCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCC-GGATTTCTC
*
54057770 TAT-TCTGGATTTCTTTATTCCGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCCGGATTTCTC
*
54057800 TATCTTGGATTTCTTTATT-CGGTTTTCT
1 TATCTTGGATTTCTTTATTCCGGATTTCT
54057828 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
29 9 0.18
30 37 0.74
31 4 0.08
ACGTcount: A:0.10, C:0.18, G:0.16, T:0.56
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCCGGATTTCTC
Found at i:54060262 original size:46 final size:45
Alignment explanation
Indices: 54060209--54060385 Score: 178
Period size: 46 Copynumber: 3.8 Consensus size: 45
54060199 TATTTGGGCA
54060209 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
54060255 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
* * *
54060302 TCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATACGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * * *
54060348 CCCGAGCTCATTGAGTTGAGTCCGAGTTCGCTTATGGA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGA
54060386 CGGGTTACAT
Statistics
Matches: 107, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
44 3 0.03
45 1 0.01
46 67 0.63
47 31 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:54060364 original size:93 final size:93
Alignment explanation
Indices: 54060205--54060377 Score: 283
Period size: 93 Copynumber: 1.9 Consensus size: 93
54060195 GGGATATTTG
* * * *
54060205 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAACTCATTGAG
54060270 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * *
54060298 GGCATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATACGAACGCCCGAGCTCATTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAACTCATTGAG
54060363 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
54060378 CTTATGGACG
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAACTCATTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:54062058 original size:15 final size:17
Alignment explanation
Indices: 54062040--54062071 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
54062030 TAGCATAATT
54062040 TACCAAA-TCA-ATTCA
1 TACCAAACTCACATTCA
54062055 TACCAAACTCACATTCA
1 TACCAAACTCACATTCA
54062072 CAAGTATCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.44, C:0.31, G:0.00, T:0.25
Consensus pattern (17 bp):
TACCAAACTCACATTCA
Found at i:54062524 original size:17 final size:17
Alignment explanation
Indices: 54062502--54062543 Score: 75
Period size: 17 Copynumber: 2.5 Consensus size: 17
54062492 AATAAAACGA
*
54062502 AGTAAGTTATATAGCTT
1 AGTAAGCTATATAGCTT
54062519 AGTAAGCTATATAGCTT
1 AGTAAGCTATATAGCTT
54062536 AGTAAGCT
1 AGTAAGCT
54062544 CGTATGAAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.36, C:0.10, G:0.19, T:0.36
Consensus pattern (17 bp):
AGTAAGCTATATAGCTT
Found at i:54062630 original size:26 final size:26
Alignment explanation
Indices: 54062601--54062662 Score: 101
Period size: 26 Copynumber: 2.5 Consensus size: 26
54062591 TATAACATAA
*
54062601 GATAACATACTTTACCATAATATCAT
1 GATAACATAATTTACCATAATATCAT
54062627 GATAACATAATTTACCATAATATCAT
1 GATAACATAATTTACCATAATATCAT
54062653 GAT--CATAATT
1 GATAACATAATT
54062663 CACTTCAATC
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
24 7 0.20
26 28 0.80
ACGTcount: A:0.44, C:0.16, G:0.05, T:0.35
Consensus pattern (26 bp):
GATAACATAATTTACCATAATATCAT
Found at i:54076574 original size:44 final size:44
Alignment explanation
Indices: 54076514--54076624 Score: 138
Period size: 44 Copynumber: 2.6 Consensus size: 44
54076504 ATAGGAATTC
54076514 CGATATCTATTCTGCGTGTAAGACCACCTCTGAGACATTGGCAT
1 CGATATCTATTCTGCGTGTAAGACCACCTCTGAGACATTGGCAT
* * ** *
54076558 CGATTTCTATTTTGCGTGTAAGACCATGTCTGGGACATTGGCAT
1 CGATATCTATTCTGCGTGTAAGACCACCTCTGAGACATTGGCAT
*
54076602 CG-TATCTGATT-T-CATGTAAGACC
1 CGATATCT-ATTCTGCGTGTAAGACC
54076625 GTGTCTGGGG
Statistics
Matches: 59, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
42 10 0.17
43 5 0.08
44 44 0.75
ACGTcount: A:0.23, C:0.22, G:0.22, T:0.33
Consensus pattern (44 bp):
CGATATCTATTCTGCGTGTAAGACCACCTCTGAGACATTGGCAT
Found at i:54076630 original size:42 final size:42
Alignment explanation
Indices: 54076530--54076686 Score: 163
Period size: 43 Copynumber: 3.7 Consensus size: 42
54076520 CTATTCTGCG
** * * *
54076530 TGTAAGACCACCTCTGAGACATTGGCATCGATTTCT-ATTTTGCG
1 TGTAAGACCATGTCTGGGACATTGGCATCG-TATCTGA-TTT-CA
54076574 TGTAAGACCATGTCTGGGACATTGGCATCGTATCTGATTTCA
1 TGTAAGACCATGTCTGGGACATTGGCATCGTATCTGATTTCA
* * * * * *
54076616 TGTAAGACCGTGTCTGGGGCAGTGGCATCAATATTTGATTACA
1 TGTAAGACCATGTCTGGGACATTGGCATC-GTATCTGATTTCA
*
54076659 TGTAAGACCATGTCTGGGACGTTGGCAT
1 TGTAAGACCATGTCTGGGACATTGGCAT
54076687 TGCATATGTT
Statistics
Matches: 96, Mismatches: 15, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
42 27 0.28
43 41 0.43
44 28 0.29
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.32
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACATTGGCATCGTATCTGATTTCA
Found at i:54086334 original size:29 final size:29
Alignment explanation
Indices: 54086292--54086379 Score: 133
Period size: 29 Copynumber: 3.1 Consensus size: 29
54086282 GAAAGCATGT
54086292 ATATGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
54086321 ATATGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* * * *
54086350 ATATTAATGAGA-TTGGGCTTAGTGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
54086378 AT
1 AT
54086380 GTACATGTAT
Statistics
Matches: 55, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
28 16 0.29
29 39 0.71
ACGTcount: A:0.25, C:0.12, G:0.31, T:0.32
Consensus pattern (29 bp):
ATATGAATGTGATTTGGGCCTAATGGGCC
Found at i:54090887 original size:47 final size:47
Alignment explanation
Indices: 54090788--54090962 Score: 173
Period size: 47 Copynumber: 3.7 Consensus size: 47
54090778 AGGTAAGGTA
* **
54090788 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCAAATCTCAA-G
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTC-TCTCTCAATG
* * * *
54090835 TCGATGCCATGTCCTAGAAAT-GTCATACACTAGCTCTCGTCTCAATG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTC-TCTCAATG
* *
54090882 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTC-AT-AATGTGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCTCTCAA--T-G
*
54090930 CCGATG-CATGTCCTAGACAT-GTCTTACACTAGC
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGC
54090963 CAAAAATAAC
Statistics
Matches: 107, Mismatches: 15, Indels: 13
0.79 0.11 0.10
Matches are distributed among these distances:
45 2 0.02
46 32 0.30
47 51 0.48
48 22 0.21
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (47 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCTCTCAATG
Found at i:54090952 original size:94 final size:93
Alignment explanation
Indices: 54090788--54090962 Score: 255
Period size: 94 Copynumber: 1.9 Consensus size: 93
54090778 AGGTAAGGTA
*
54090788 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCAAATCTCAAGTCGATGCCATGTCCTAGA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCAAATCT-AAGCCGATGCCATGTCCTAGA
54090853 AATGTCATACACTAGCTCTCGTCTCAATG
65 AATGTCATACACTAGCTCTCGTCTCAATG
* *
54090882 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGT-GGCCGATG-CATGTCCTA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGG--CTCA-AATCTAAGCCGATGCCATGTCCTA
* *
54090945 GACATGTCTTACACTAGC
63 GAAATGTCATACACTAGC
54090963 CAAAAATAAC
Statistics
Matches: 73, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
94 59 0.81
95 6 0.08
96 4 0.05
97 4 0.05
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (93 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCAAATCTAAGCCGATGCCATGTCCTAGAA
ATGTCATACACTAGCTCTCGTCTCAATG
Found at i:54100235 original size:16 final size:16
Alignment explanation
Indices: 54100214--54100244 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
54100204 AAAACAAAAG
54100214 TTTTATAGATGCATGA
1 TTTTATAGATGCATGA
*
54100230 TTTTATATATGCATG
1 TTTTATAGATGCATG
54100245 GTTATATTTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.06, G:0.16, T:0.48
Consensus pattern (16 bp):
TTTTATAGATGCATGA
Found at i:54100612 original size:3 final size:3
Alignment explanation
Indices: 54100604--54100649 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
54100594 ATTCCCTCCC
54100604 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
54100650 CCACAAGTCA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:54111321 original size:20 final size:20
Alignment explanation
Indices: 54111296--54111347 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
54111286 AGTATTGATC
*
54111296 AGGTATCGATACT-TTTCTTA
1 AGGTATCGATA-TATTTCCTA
54111316 AGGTATCGATATATTTCCTA
1 AGGTATCGATATATTTCCTA
54111336 AGGTATCGATAT
1 AGGTATCGATAT
54111348 TCCTGCTCCA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 1 0.03
20 29 0.97
ACGTcount: A:0.29, C:0.13, G:0.17, T:0.40
Consensus pattern (20 bp):
AGGTATCGATATATTTCCTA
Found at i:54111822 original size:38 final size:36
Alignment explanation
Indices: 54111758--54111828 Score: 88
Period size: 38 Copynumber: 1.9 Consensus size: 36
54111748 GAGGGTTTAT
*
54111758 TCTTAAAGTTTGGGTAGAAACCTTAAGGAAGTTGTA
1 TCTTAAAGTTTGGGTAGAAACCTTAAGAAAGTTGTA
* * *
54111794 TCTTAAGATTTTGGTGTATAAATCTTAAGAAAGTT
1 TCTTAA-AGTTTGG-GTAGAAACCTTAAGAAAGTT
54111829 TGTAAGGTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
36 6 0.21
37 6 0.21
38 17 0.59
ACGTcount: A:0.34, C:0.07, G:0.21, T:0.38
Consensus pattern (36 bp):
TCTTAAAGTTTGGGTAGAAACCTTAAGAAAGTTGTA
Found at i:54114399 original size:23 final size:24
Alignment explanation
Indices: 54114355--54114424 Score: 97
Period size: 23 Copynumber: 2.9 Consensus size: 24
54114345 AAGCTCCTCC
*
54114355 TGAGCTGATAAACAGTAAGCTCTAA
1 TGAGCTCA-AAACAGTAAGCTCTAA
**
54114380 TGAGCT-AAAATGGTAAGCTCTAA
1 TGAGCTCAAAACAGTAAGCTCTAA
54114403 TGAGCTCAAAACAGTAAGCTCT
1 TGAGCTCAAAACAGTAAGCTCT
54114425 TTTGAGCTGA
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
23 20 0.50
24 14 0.35
25 6 0.15
ACGTcount: A:0.39, C:0.17, G:0.20, T:0.24
Consensus pattern (24 bp):
TGAGCTCAAAACAGTAAGCTCTAA
Found at i:54114431 original size:47 final size:50
Alignment explanation
Indices: 54114323--54114432 Score: 127
Period size: 47 Copynumber: 2.3 Consensus size: 50
54114313 TATCATGTAT
* ** ** *
54114323 GCTCTTTTGAGCCATGATCGGTAAGCTCCTCCTGAGCTGATAAACAGTAA
1 GCTCTTTTGAGCTAAAATCGGTAAGCTCCTAATGAGCTCATAAACAGTAA
**
54114373 GCTCTAATGAGCTAAAAT-GGTAAGCT-CTAATGAGCTCA-AAACAGTAA
1 GCTCTTTTGAGCTAAAATCGGTAAGCTCCTAATGAGCTCATAAACAGTAA
54114420 GCTCTTTTGAGCT
1 GCTCTTTTGAGCT
54114433 GATATATTGG
Statistics
Matches: 50, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
47 20 0.40
48 9 0.18
49 8 0.16
50 13 0.26
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (50 bp):
GCTCTTTTGAGCTAAAATCGGTAAGCTCCTAATGAGCTCATAAACAGTAA
Found at i:54119358 original size:24 final size:25
Alignment explanation
Indices: 54119302--54119359 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 25
54119292 TACCAAAATA
*
54119302 AGCCAAATCACATGGCTATACATAT
1 AGCCAAAACACATGGCTATACATAT
* *
54119327 AACCAAAACATATAGGCTAT-CAT-T
1 AGCCAAAACACAT-GGCTATACATAT
54119351 AGCCAAAAC
1 AGCCAAAAC
54119360 GATCTATACA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
24 9 0.32
25 13 0.46
26 6 0.21
ACGTcount: A:0.45, C:0.24, G:0.10, T:0.21
Consensus pattern (25 bp):
AGCCAAAACACATGGCTATACATAT
Found at i:54141883 original size:11 final size:10
Alignment explanation
Indices: 54141856--54141905 Score: 55
Period size: 11 Copynumber: 4.7 Consensus size: 10
54141846 AAATCTTAAC
54141856 TTTTTTATAT
1 TTTTTTATAT
* *
54141866 ATCTTTTAGAAT
1 -TTTTTTA-TAT
54141878 TTTTTTATAT
1 TTTTTTATAT
54141888 TTTTTATATAT
1 TTTTT-TATAT
54141899 TTTTTTA
1 TTTTTTA
54141906 AAAATATAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
10 9 0.27
11 22 0.67
12 2 0.06
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.72
Consensus pattern (10 bp):
TTTTTTATAT
Found at i:54141945 original size:19 final size:19
Alignment explanation
Indices: 54141910--54141966 Score: 73
Period size: 18 Copynumber: 3.1 Consensus size: 19
54141900 TTTTTAAAAA
*
54141910 TATAAAT-TTTAAAATTTT
1 TATAAATATTTTAAATTTT
54141928 TATAAATATTTTAAA-TTT
1 TATAAATATTTTAAATTTT
*
54141946 TATAAATTATTTTGAATTTT
1 TATAAA-TATTTTAAATTTT
54141966 T
1 T
54141967 TTTTATAATC
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
18 16 0.47
19 14 0.41
20 4 0.12
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (19 bp):
TATAAATATTTTAAATTTT
Found at i:54141967 original size:9 final size:9
Alignment explanation
Indices: 54141912--54141967 Score: 51
Period size: 9 Copynumber: 6.1 Consensus size: 9
54141902 TTTAAAAATA
54141912 TAAA-TTTT
1 TAAATTTTT
*
54141920 AAAATTTTT
1 TAAATTTTT
*
54141929 ATAAATATTT
1 -TAAATTTTT
*
54141939 TAAATTTTA
1 TAAATTTTT
54141948 TAAATTATTT
1 TAAATT-TTT
*
54141958 TGAATTTTT
1 TAAATTTTT
54141967 T
1 T
54141968 TTTATAATCT
Statistics
Matches: 38, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
8 3 0.08
9 21 0.55
10 14 0.37
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (9 bp):
TAAATTTTT
Found at i:54146386 original size:23 final size:23
Alignment explanation
Indices: 54146358--54146682 Score: 208
Period size: 23 Copynumber: 14.1 Consensus size: 23
54146348 AATACACTGT
**
54146358 AAAGGCATTACAGAATATAACAC
1 AAAGGCATTACAGAATATGTCAC
* * *
54146381 ATAGGCACTACTA-AATATGCCAC
1 AAAGGCATTAC-AGAATATGTCAC
54146404 AAAGGCATTACAGAATATGTCAC
1 AAAGGCATTACAGAATATGTCAC
54146427 AAAGGCATTACAGAATATGTCAC
1 AAAGGCATTACAGAATATGTCAC
* * *
54146450 AAAGACATTATAGAATATGCCAC
1 AAAGGCATTACAGAATATGTCAC
* * * *
54146473 AAAGGTATTATAGAATACGCCAC
1 AAAGGCATTACAGAATATGTCAC
** * *
54146496 AAAGAAATTA-ATGAATATGCCTC
1 AAAGGCATTACA-GAATATGTCAC
*** *
54146519 AAAGGCATTAC-GAAATACACCTC
1 AAAGGCATTACAG-AATATGTCAC
***
54146542 AAAGGCATTAC-GAAATACACCAC
1 AAAGGCATTACAG-AATATGTCAC
* ** * *
54146565 AAATGCATTATGGAATACGCCAC
1 AAAGGCATTACAGAATATGTCAC
* * * *
54146588 AAAGGCATTATAAAATACGCCAC
1 AAAGGCATTACAGAATATGTCAC
* * *
54146611 AAAGGCATTACAGAATACGCCAT
1 AAAGGCATTACAGAATATGTCAC
** * * *
54146634 AAATACATTATAGAATATGCCAT
1 AAAGGCATTACAGAATATGTCAC
* *
54146657 AAAGGCATTACAAAATATGCCAC
1 AAAGGCATTACAGAATATGTCAC
54146680 AAA
1 AAA
54146683 AGCTCTGTTT
Statistics
Matches: 256, Mismatches: 40, Indels: 12
0.83 0.13 0.04
Matches are distributed among these distances:
22 3 0.01
23 251 0.98
24 2 0.01
ACGTcount: A:0.46, C:0.20, G:0.14, T:0.20
Consensus pattern (23 bp):
AAAGGCATTACAGAATATGTCAC
Found at i:54146433 original size:46 final size:46
Alignment explanation
Indices: 54146358--54146682 Score: 275
Period size: 46 Copynumber: 7.1 Consensus size: 46
54146348 AATACACTGT
** * * *
54146358 AAAGGCATTACAGAATATAACACATAGGCACTACTAAATATGCCAC
1 AAAGGCATTACAGAATATGCCACAAAGGCATTACTAAATACGCCAC
* * *
54146404 AAAGGCATTACAGAATATGTCACAAAGGCATTAC-AGAATATGTCAC
1 AAAGGCATTACAGAATATGCCACAAAGGCATTACTA-AATACGCCAC
* * *
54146450 AAAGACATTATAGAATATGCCACAAAGGTATTA-TAGAATACGCCAC
1 AAAGGCATTACAGAATATGCCACAAAGGCATTACTA-AATACGCCAC
** * * * *
54146496 AAAGAAATTA-ATGAATATGCCTCAAAGGCATTACGAAATACACCTC
1 AAAGGCATTACA-GAATATGCCACAAAGGCATTACTAAATACGCCAC
** * *
54146542 AAAGGCATTAC-GAAATACACCACAAATGCATTA-TGGAATACGCCAC
1 AAAGGCATTACAG-AATATGCCACAAAGGCATTACT-AAATACGCCAC
* * * *
54146588 AAAGGCATTATAAAATACGCCACAAAGGCATTAC-AGAATACGCCAT
1 AAAGGCATTACAGAATATGCCACAAAGGCATTACTA-AATACGCCAC
** * * * *
54146634 AAATACATTATAGAATATGCCATAAAGGCATTACAAAATATGCCAC
1 AAAGGCATTACAGAATATGCCACAAAGGCATTACTAAATACGCCAC
54146680 AAA
1 AAA
54146683 AGCTCTGTTT
Statistics
Matches: 228, Mismatches: 40, Indels: 22
0.79 0.14 0.08
Matches are distributed among these distances:
45 3 0.01
46 223 0.98
47 2 0.01
ACGTcount: A:0.46, C:0.20, G:0.14, T:0.20
Consensus pattern (46 bp):
AAAGGCATTACAGAATATGCCACAAAGGCATTACTAAATACGCCAC
Found at i:54146442 original size:69 final size:69
Alignment explanation
Indices: 54146358--54146682 Score: 325
Period size: 69 Copynumber: 4.7 Consensus size: 69
54146348 AATACACTGT
** * * *
54146358 AAAGGCATTACAGAATATAACACATAGGCACTACTAAATATGCCACAAAGGCATTACAGAATATG
1 AAAGGCATTACAGAATATGCCACAAAGGCATTACTAAATATGCCACAAAGGCATTACAGAATACG
*
54146423 TCAC
66 CCAC
* * * *
54146427 AAAGGCATTACAGAATATGTCACAAAGACATTA-TAGAATATGCCACAAAGGTATTATAGAATAC
1 AAAGGCATTACAGAATATGCCACAAAGGCATTACTA-AATATGCCACAAAGGCATTACAGAATAC
54146491 GCCAC
65 GCCAC
** * * ** *
54146496 AAAGAAATTA-ATGAATATGCCTCAAAGGCATTACGAAATACACCTCAAAGGCATTAC-GAAATA
1 AAAGGCATTACA-GAATATGCCACAAAGGCATTACTAAATATGCCACAAAGGCATTACAG-AATA
*
54146559 CACCAC
64 CGCCAC
* ** * *
54146565 AAATGCATTATGGAATACGCCACAAAGGCATTA-TAAAATACGCCACAAAGGCATTACAGAATAC
1 AAAGGCATTACAGAATATGCCACAAAGGCATTACT-AAATATGCCACAAAGGCATTACAGAATAC
*
54146629 GCCAT
65 GCCAC
** * * *
54146634 AAATACATTATAGAATATGCCATAAAGGCATTACAAAATATGCCACAAA
1 AAAGGCATTACAGAATATGCCACAAAGGCATTACTAAATATGCCACAAA
54146683 AGCTCTGTTT
Statistics
Matches: 210, Mismatches: 38, Indels: 16
0.80 0.14 0.06
Matches are distributed among these distances:
68 4 0.02
69 204 0.97
70 2 0.01
ACGTcount: A:0.46, C:0.20, G:0.14, T:0.20
Consensus pattern (69 bp):
AAAGGCATTACAGAATATGCCACAAAGGCATTACTAAATATGCCACAAAGGCATTACAGAATACG
CCAC
Found at i:54159214 original size:16 final size:16
Alignment explanation
Indices: 54159193--54159223 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
54159183 AGAAATGCAT
54159193 AAAAAGGACTAAATTG
1 AAAAAGGACTAAATTG
*
54159209 AAAAAGGAGTAAATT
1 AAAAAGGACTAAATT
54159224 AAGTGAGAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.58, C:0.03, G:0.19, T:0.19
Consensus pattern (16 bp):
AAAAAGGACTAAATTG
Found at i:54159807 original size:48 final size:48
Alignment explanation
Indices: 54159736--54159829 Score: 145
Period size: 48 Copynumber: 2.0 Consensus size: 48
54159726 ACCATGATTA
54159736 ATGAGATCCCGTGTAAGACCATATCTA-GGACATGGCATCGGCATCGAT
1 ATGAGATCCCGTGTAAGACCATAT-TAGGGACATGGCATCGGCATCGAT
* * *
54159784 ATGAGATCCCGTGTAAGACCATATTAGGGATATGGCTTTGGCATCG
1 ATGAGATCCCGTGTAAGACCATATTAGGGACATGGCATCGGCATCG
54159830 TCGAGTGATT
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
47 2 0.05
48 40 0.95
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.26
Consensus pattern (48 bp):
ATGAGATCCCGTGTAAGACCATATTAGGGACATGGCATCGGCATCGAT
Found at i:54165082 original size:40 final size:40
Alignment explanation
Indices: 54165045--54165269 Score: 278
Period size: 40 Copynumber: 5.7 Consensus size: 40
54165035 GCTACTCGTT
* *
54165045 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
*
54165085 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
54165125 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** *
54165165 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGTA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAACTCGCA
** * * * *
54165205 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAACTCGCA
*
54165245 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
54165270 CATCATTCAA
Statistics
Matches: 169, Mismatches: 13, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
39 19 0.11
40 148 0.88
41 2 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:54169864 original size:40 final size:40
Alignment explanation
Indices: 54169712--54169857 Score: 181
Period size: 40 Copynumber: 3.6 Consensus size: 40
54169702 TTGAATGATG
* * * *
54169712 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
54169752 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
54169792 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
54169833 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
54169858 AACGAGTAGC
Statistics
Matches: 93, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
39 1 0.01
40 82 0.88
41 10 0.11
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:54169864 original size:80 final size:80
Alignment explanation
Indices: 54169712--54169890 Score: 195
Period size: 80 Copynumber: 2.2 Consensus size: 80
54169702 TTGAATGATG
* *
54169712 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
**
54169777 GTGCGAGTTA-CTAAA
66 GAACGAG-TAGCTAAA
* * * * *
54169792 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTATG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAACCGGACTAAGAT-CCGAAGGCAT
*
54169855 TTGAACGAGTAGCTATA
64 TTGAACGAGTAGCTAAA
* *
54169872 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
54169891 TACGTGATTT
Statistics
Matches: 84, Mismatches: 12, Indels: 7
0.82 0.12 0.07
Matches are distributed among these distances:
79 17 0.20
80 60 0.71
81 7 0.08
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
GAACGAGTAGCTAAA
Found at i:54180073 original size:48 final size:48
Alignment explanation
Indices: 54180001--54180275 Score: 331
Period size: 48 Copynumber: 5.7 Consensus size: 48
54179991 TAAAGTACCA
* *
54180001 ATGCCATGTCCCTGACATGGTCTTACA-T-GAATCCACATATCATCGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCA--CACATATCATCGCTG
* * * *
54180049 ATGCCATGCCCCAGACATGATCTTACACTGGCACACATATCATCACCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCATCGCTG
* * * ** * *
54180097 ATGCCATTTCCCAAACATGGTCTTACATTAACACACATATCATTG-TCA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCATCGCT-G
* * *
54180145 ATCCCATGTCCTAGACATGGTCTTACACTGGCACACATATCATCGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCATCGCTG
*
54180193 ATGCCATGTCCCAGACATGGTCTTACACTGGTACACATATCATCGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCATCGCTG
* *
54180241 ATGCCATGTCCCACACATGGTCTTACACAGGCACA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCACA
54180276 TTTAGCACAG
Statistics
Matches: 189, Mismatches: 34, Indels: 8
0.82 0.15 0.03
Matches are distributed among these distances:
48 186 0.98
49 1 0.01
50 2 0.01
ACGTcount: A:0.28, C:0.31, G:0.15, T:0.26
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCATCGCTG
Found at i:54180169 original size:96 final size:96
Alignment explanation
Indices: 54180001--54180275 Score: 365
Period size: 96 Copynumber: 2.9 Consensus size: 96
54179991 TAAAGTACCA
* * *
54180001 ATGCCATGTCCCTGACATGGTCTTACATGAATC-CACATATCATCGCTGATGCCATGCCCCAGAC
1 ATGCCATGTCCCAGACATGGTCTTACATTAA-CACACATATCATCGCTGATGCCATGTCCCAGAC
*
54180065 ATGATCTTACACTGGCACACATATCATCACCG
65 ATGGTCTTACACTGGCACACATATCATCACCG
* * * * * *
54180097 ATGCCATTTCCCAAACATGGTCTTACATTAACACACATATCATTG-TCAATCCCATGTCCTAGAC
1 ATGCCATGTCCCAGACATGGTCTTACATTAACACACATATCATCGCT-GATGCCATGTCCCAGAC
*
54180161 ATGGTCTTACACTGGCACACATATCATCGCCG
65 ATGGTCTTACACTGGCACACATATCATCACCG
* *** *
54180193 ATGCCATGTCCCAGACATGGTCTTACACTGGTACACATATCATCGCTGATGCCATGTCCCACACA
1 ATGCCATGTCCCAGACATGGTCTTACATTAACACACATATCATCGCTGATGCCATGTCCCAGACA
*
54180258 TGGTCTTACACAGGCACA
66 TGGTCTTACACTGGCACA
54180276 TTTAGCACAG
Statistics
Matches: 153, Mismatches: 23, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
95 2 0.01
96 150 0.98
97 1 0.01
ACGTcount: A:0.28, C:0.31, G:0.15, T:0.26
Consensus pattern (96 bp):
ATGCCATGTCCCAGACATGGTCTTACATTAACACACATATCATCGCTGATGCCATGTCCCAGACA
TGGTCTTACACTGGCACACATATCATCACCG
Found at i:54180244 original size:144 final size:143
Alignment explanation
Indices: 54179999--54180267 Score: 398
Period size: 144 Copynumber: 1.9 Consensus size: 143
54179989 AATAAAGTAC
* *
54179999 CAATGCCATGTCCCTGACATGGTCTTACATGAATCCACATATCATCGCTGATGCCATGCCCCAGA
1 CAATCCCATGTCCCTGACATGGTCTTACATGAA-CCACATATCATCGCCGATGCCATGCCCCAGA
*
54180064 CATGATCTTACACTGGCACACATATCATCACCGATGCCATTTCCCAAACATGGTCTTACATTAAC
65 CATGATCTTACACTGGCACACATATCATCACCGATGCCATGTCCCAAACATGGTCTTACATTAAC
54180129 ACACATATCATTGT
130 ACACATATCATTGT
* *
54180143 CAATCCCATGT-CCTAGACATGGTCTTACACTG-GCACACATATCATCGCCGATGCCATGTCCCA
1 CAATCCCATGTCCCT-GACATGGTCTTACA-TGAAC-CACATATCATCGCCGATGCCATGCCCCA
* * * * *
54180206 GACATGGTCTTACACTGGTACACATATCATCGCTGATGCCATGTCCCACACATGGTCTTACA
63 GACATGATCTTACACTGGCACACATATCATCACCGATGCCATGTCCCAAACATGGTCTTACA
54180268 CAGGCACATT
Statistics
Matches: 112, Mismatches: 10, Indels: 6
0.88 0.08 0.05
Matches are distributed among these distances:
143 4 0.04
144 106 0.95
145 2 0.02
ACGTcount: A:0.28, C:0.31, G:0.15, T:0.26
Consensus pattern (143 bp):
CAATCCCATGTCCCTGACATGGTCTTACATGAACCACATATCATCGCCGATGCCATGCCCCAGAC
ATGATCTTACACTGGCACACATATCATCACCGATGCCATGTCCCAAACATGGTCTTACATTAACA
CACATATCATTGT
Found at i:54184429 original size:40 final size:40
Alignment explanation
Indices: 54184384--54184467 Score: 150
Period size: 40 Copynumber: 2.1 Consensus size: 40
54184374 TGATAGGCAA
* *
54184384 AAGTCTTATGTGTATTTGAAAAGAAAAGAAATTGAGTATC
1 AAGTCTTATGCGGATTTGAAAAGAAAAGAAATTGAGTATC
54184424 AAGTCTTATGCGGATTTGAAAAGAAAAGAAATTGAGTATC
1 AAGTCTTATGCGGATTTGAAAAGAAAAGAAATTGAGTATC
54184464 AAGT
1 AAGT
54184468 GGGCGATAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.43, C:0.06, G:0.21, T:0.30
Consensus pattern (40 bp):
AAGTCTTATGCGGATTTGAAAAGAAAAGAAATTGAGTATC
Found at i:54185597 original size:16 final size:16
Alignment explanation
Indices: 54185576--54185608 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
54185566 AGAAATGCAT
54185576 AAAAAGGACTAAATTG
1 AAAAAGGACTAAATTG
*
54185592 AAAAAGGATTAAATTG
1 AAAAAGGACTAAATTG
54185608 A
1 A
54185609 GTGATAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.58, C:0.03, G:0.18, T:0.21
Consensus pattern (16 bp):
AAAAAGGACTAAATTG
Found at i:54198799 original size:40 final size:40
Alignment explanation
Indices: 54198734--54198917 Score: 275
Period size: 40 Copynumber: 4.6 Consensus size: 40
54198724 CAAACCCAAG
* *
54198734 TACCTTCGGGATTTA-TCCGGATATAG-CAACTCGCACAAA
1 TACCTTCGGGATTTAGCCCGGATATAGTC-ACTAGCACAAA
54198773 TACCTTCGGG-TCTTAGCCCGGATATAGTCACTAGCACAAA
1 TACCTTCGGGAT-TTAGCCCGGATATAGTCACTAGCACAAA
*
54198813 TGCCTTCGGGATTTAGCCCGGATATAGTCACTAGCACAAA
1 TACCTTCGGGATTTAGCCCGGATATAGTCACTAGCACAAA
*
54198853 TGCCTTCGGGATTTAGCCCGGATATAGTCACTAGCACAAA
1 TACCTTCGGGATTTAGCCCGGATATAGTCACTAGCACAAA
* *
54198893 TTCCTTCGGGACTTAGCCCGGATAT
1 TACCTTCGGGATTTAGCCCGGATAT
54198918 CATTCGAATA
Statistics
Matches: 136, Mismatches: 5, Indels: 7
0.92 0.03 0.05
Matches are distributed among these distances:
38 1 0.01
39 13 0.10
40 120 0.88
41 2 0.01
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (40 bp):
TACCTTCGGGATTTAGCCCGGATATAGTCACTAGCACAAA
Found at i:54203692 original size:93 final size:93
Alignment explanation
Indices: 54203533--54203704 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
54203523 CGCCCATAAG
* * *
54203533 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATGAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
54203598 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* * *
54203626 CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCTATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
54203691 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
54203705 TCAACCATCC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:54203701 original size:46 final size:45
Alignment explanation
Indices: 54203527--54203701 Score: 192
Period size: 46 Copynumber: 3.8 Consensus size: 45
54203517 GTAACCCGCC
* * * *
54203527 CATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
* * * *
54203572 CCATGAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 -CATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCAT
*
54203622 C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 CATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
*
54203665 CTATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 C-ATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
54203702 TGCTCAACCA
Statistics
Matches: 108, Mismatches: 14, Indels: 14
0.79 0.10 0.10
Matches are distributed among these distances:
43 7 0.06
44 1 0.01
45 2 0.02
46 61 0.56
47 29 0.27
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.22
Consensus pattern (45 bp):
CATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
Found at i:54207934 original size:24 final size:24
Alignment explanation
Indices: 54207907--54207956 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
54207897 TTTCAATAGT
* *
54207907 AATCAAAA-TAAAGAAAAATAAAAG
1 AATCAAAAGAAAAG-AAAAGAAAAG
54207931 AATCAAAAGAAAAGAAAAGAAAAG
1 AATCAAAAGAAAAGAAAAGAAAAG
54207955 AA
1 AA
54207957 AAGGAATGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 19 0.83
25 4 0.17
ACGTcount: A:0.76, C:0.04, G:0.12, T:0.08
Consensus pattern (24 bp):
AATCAAAAGAAAAGAAAAGAAAAG
Found at i:54207943 original size:5 final size:5
Alignment explanation
Indices: 54207935--54207959 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
54207925 TAAAAGAATC
54207935 AAAAG AAAAG AAAAG AAAAG AAAAG
1 AAAAG AAAAG AAAAG AAAAG AAAAG
54207960 GAATGAAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:54210745 original size:21 final size:21
Alignment explanation
Indices: 54210719--54210762 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
54210709 GATCCTACCT
54210719 TTGCCGAAATTAGCGACTAGG
1 TTGCCGAAATTAGCGACTAGG
54210740 TTGCCGAAATTAGCGACTAGG
1 TTGCCGAAATTAGCGACTAGG
54210761 TT
1 TT
54210763 TAGATCCAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.27
Consensus pattern (21 bp):
TTGCCGAAATTAGCGACTAGG
Found at i:54217827 original size:40 final size:40
Alignment explanation
Indices: 54217744--54218006 Score: 316
Period size: 40 Copynumber: 6.6 Consensus size: 40
54217734 TTGAATGCTG
* * * * * *
54217744 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
54217784 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
54217824 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
54217864 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* *
54217904 TCCGGGTTAAGTCCCGAAGGCAGTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
54217944 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
54217983 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
54218007 TGAACGAGGA
Statistics
Matches: 199, Mismatches: 21, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 35 0.18
40 156 0.78
41 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:54218026 original size:79 final size:80
Alignment explanation
Indices: 54217783--54218041 Score: 238
Period size: 80 Copynumber: 3.3 Consensus size: 80
54217773 AAGTGAATAT
* * * * * * *
54217783 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAG
** * *
54217847 TCGTGCGAGTTA-TTAA
65 TCGAACGAG-GAGCTAA
* * *
54217863 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCAGT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAGT
** ** *
54217928 CGTGCGAGTTGTTAA
66 CGAACGAGGAGCTAA
* * * *
54217943 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAGT
* *
54218007 TGAACGAGGAGCTAT
66 CGAACGAGGAGCTAA
*
54218022 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
54218042 TACGTGATTT
Statistics
Matches: 154, Mismatches: 23, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
78 14 0.09
79 47 0.31
80 93 0.60
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.25
Consensus pattern (80 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAGT
CGAACGAGGAGCTAA
Found at i:54225745 original size:40 final size:39
Alignment explanation
Indices: 54225662--54225922 Score: 262
Period size: 40 Copynumber: 6.6 Consensus size: 39
54225652 TTGAATGCTG
* * * *
54225662 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGA-T--ATAAA
* * *
54225702 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGATA-TAAA
54225742 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGAT-TAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGATATAAA
*
54225780 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGATA-TAAA
* * *
54225820 TCCGGGTTAAGTCCCGAAGGCAGTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGAT-ATAAA
* * *
54225860 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGATA-TAAA
* * *
54225899 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
54225923 TGAACGAGGA
Statistics
Matches: 196, Mismatches: 16, Indels: 19
0.85 0.07 0.08
Matches are distributed among these distances:
38 37 0.19
39 36 0.18
40 112 0.57
41 10 0.05
42 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGATATAAA
Found at i:54225809 original size:78 final size:78
Alignment explanation
Indices: 54225662--54225922 Score: 303
Period size: 78 Copynumber: 3.3 Consensus size: 78
54225652 TTGAATGCTG
* * * * * * *
54225662 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGATTAAGAT-CCGAAGGCCT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGT-ATTAAATCCGGGTTAAG-TCCCGAAGG-CA
*
54225725 TTGTGCGAGATACTAAA
62 TTGTGCGAGTTACTAAA
54225742 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAG-ATTAAATCCGGGTTAAGTCCCGAAGGCATTCG
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTATTAAATCCGGGTTAAGTCCCGAAGGCATT-G
*
54225806 TGCGAGTTATTAAA
65 TGCGAGTTACTAAA
* * *
54225820 TCCGGGTTAAGTCCCGAAGGCAGTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCATTG
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAG-TATTAAATCCGGGTTAAGTCCCGAAGGCATTG
*
54225885 TGTGAGTTACTAAA
65 TGCGAGTTACTAAA
* * *
54225899 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
54225923 TGAACGAGGA
Statistics
Matches: 158, Mismatches: 18, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
77 4 0.03
78 65 0.41
79 33 0.21
80 50 0.32
81 6 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (78 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTATTAAATCCGGGTTAAGTCCCGAAGGCATTGT
GCGAGTTACTAAA
Found at i:54225874 original size:118 final size:119
Alignment explanation
Indices: 54225662--54225922 Score: 305
Period size: 118 Copynumber: 2.2 Consensus size: 119
54225652 TTGAATGCTG
* * **
54225662 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGATTAAGATCCGAAGGCCTT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGATTAAGATCCGAAGGCAGT
* *
54225726 TGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAG-ATTAAA
66 CGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTACTAAA
* * * * *
54225780 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAG
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGATTAAGAT-CCGAAGGCAG
* ** * *
54225843 TCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTGTGCGAG-TACTAAA
* *
54225899 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
54225923 TGAACGAGGA
Statistics
Matches: 120, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
117 7 0.06
118 81 0.68
119 32 0.27
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (119 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGATTAAGATCCGAAGGCAGT
CGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTACTAAA
Found at i:54225946 original size:118 final size:117
Alignment explanation
Indices: 54225663--54225957 Score: 283
Period size: 118 Copynumber: 2.5 Consensus size: 117
54225653 TGAATGCTGT
* ** * * **
54225663 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGATTAAGAT-CCGAAGGCCTT
1 CCGGGCTAAGTCCCGAAGGCATTCGAAC-GAGTGACTATATCCGG-TTAAG-TCCCGAAGGCAGT
* * *
54225726 TGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGATTAAAT
63 CGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGACTAAAA
* ** * * *
54225781 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCAGTCG
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTATATCC-GGTTAAGTCCCGAAGGCAGTCG
* ** * *
54225846 TGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAA
65 TGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAG--ACTAAAA
* * *
54225900 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCCGGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGA-CTATATCCGGTTAAGTCCCGAAGG
54225958 TACGTGATTT
Statistics
Matches: 146, Mismatches: 25, Indels: 12
0.80 0.14 0.07
Matches are distributed among these distances:
117 7 0.05
118 94 0.64
119 45 0.31
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (117 bp):
CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTATATCCGGTTAAGTCCCGAAGGCAGTCGT
GCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGACTAAAA
Found at i:54229226 original size:46 final size:46
Alignment explanation
Indices: 54229177--54229348 Score: 190
Period size: 46 Copynumber: 3.7 Consensus size: 46
54229167 GGTTGAGCAT
* *
54229177 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGC
* * * *
54229223 CCGAACTCG-TGAGTTGAGTCCGAGTTC-GTGA--GATGTCACTAGGCAC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-CA--A-ACGC
*
54229269 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGC
* *
54229315 CCGAGCTCGTTGAGTTGAAGTCCGATTTCACTTA
1 CCGAACTCGTTGAGTTG-AGTCCGAGTTCACTTA
54229349 GGGGCGGGTT
Statistics
Matches: 104, Mismatches: 13, Indels: 17
0.78 0.10 0.13
Matches are distributed among these distances:
42 4 0.04
43 2 0.02
44 2 0.02
45 19 0.18
46 36 0.35
47 34 0.33
48 2 0.02
49 1 0.01
50 4 0.04
ACGTcount: A:0.22, C:0.23, G:0.27, T:0.28
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGC
Found at i:54234998 original size:46 final size:46
Alignment explanation
Indices: 54234949--54235119 Score: 206
Period size: 46 Copynumber: 3.7 Consensus size: 46
54234939 GGTTGAGCAT
* *
54234949 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGC
* * * *
54234995 CCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTCACTAGGCAC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-CA--A-ACGC
*
54235042 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGC
*
54235088 CCGAGCTCGTTGAGTTGAGTCCGA-TTCACTTA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
54235120 GGGGCGGGTT
Statistics
Matches: 106, Mismatches: 12, Indels: 15
0.80 0.09 0.11
Matches are distributed among these distances:
43 4 0.04
44 2 0.02
45 10 0.09
46 54 0.51
47 29 0.27
48 2 0.02
49 1 0.01
50 4 0.04
ACGTcount: A:0.22, C:0.23, G:0.27, T:0.28
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGC
Found at i:54249015 original size:42 final size:42
Alignment explanation
Indices: 54248896--54249017 Score: 154
Period size: 43 Copynumber: 2.9 Consensus size: 42
54248886 TATCATACCA
** *
54248896 ATGCCATATCCCAGATATGGTCTTACATGGGATCTCATATTG
1 ATGCCATATCCCAGATATGGTCTTACATGAAATCTCATATCG
* * *
54248938 ATGTCAATAGCCCAGCTATGGTCTTACATGAAATCTCATATCG
1 ATG-CCATATCCCAGATATGGTCTTACATGAAATCTCATATCG
* * *
54248981 ATGCCATATCCCGGATATGGTCTTACACGTAATCTCA
1 ATGCCATATCCCAGATATGGTCTTACATGAAATCTCA
54249018 ACAAACCCTA
Statistics
Matches: 67, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
42 31 0.46
43 36 0.54
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACATGAAATCTCATATCG
Found at i:54251249 original size:25 final size:25
Alignment explanation
Indices: 54251221--54251270 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
54251211 GCCATAAAAT
54251221 TTCAGGCAACTTAAAACCATTCATA
1 TTCAGGCAACTTAAAACCATTCATA
*
54251246 TTCATGCAACTTAAAACCATTCATA
1 TTCAGGCAACTTAAAACCATTCATA
54251271 CATATACATA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.40, C:0.24, G:0.06, T:0.30
Consensus pattern (25 bp):
TTCAGGCAACTTAAAACCATTCATA
Found at i:54254624 original size:11 final size:11
Alignment explanation
Indices: 54254608--54254632 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
54254598 GAAGAAACTT
54254608 TTAAAAATACC
1 TTAAAAATACC
54254619 TTAAAAATACC
1 TTAAAAATACC
54254630 TTA
1 TTA
54254633 TCACCAACTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.52, C:0.16, G:0.00, T:0.32
Consensus pattern (11 bp):
TTAAAAATACC
Found at i:54261471 original size:6 final size:6
Alignment explanation
Indices: 54261460--54261564 Score: 54
Period size: 6 Copynumber: 17.0 Consensus size: 6
54261450 TATCAAAACT
* * * *
54261460 AGAATC AGAATC AGAATT AGAATT AG-GTGAC AGAATC AGAATC AGTATC
1 AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAATC
* * * * *
54261509 AGGTAA-C AAAATC AAAATC AGAATC GGTATC ATGTAA-C AGAATC AAAATC
1 A-G-AATC AGAATC AGAATC AGAATC AGAATC A-G-AATC AGAATC AGAATC
54261559 AGAATC
1 AGAATC
54261565 GGTATTAGGT
Statistics
Matches: 76, Mismatches: 14, Indels: 18
0.70 0.13 0.17
Matches are distributed among these distances:
5 5 0.07
6 60 0.79
7 8 0.11
8 3 0.04
ACGTcount: A:0.48, C:0.14, G:0.17, T:0.21
Consensus pattern (6 bp):
AGAATC
Found at i:54261512 original size:25 final size:25
Alignment explanation
Indices: 54261465--54261560 Score: 88
Period size: 25 Copynumber: 3.8 Consensus size: 25
54261455 AAACTAGAAT
* * *
54261465 CAGAATCAGAATTAGAATTAGGTGA
1 CAGAATCAGAATCAGAATCAGGTAA
*
54261490 CAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAGAATCAGAATCAGGTAA
* * *
54261515 CAAAATCAAAATCAGAATC-GGTAT
1 CAGAATCAGAATCAGAATCAGGTAA
*
54261539 CATGTAA-CAGAATCAAAATCAG
1 CA-G-AATCAGAATCAGAATCAG
54261561 AATCGGTATT
Statistics
Matches: 57, Mismatches: 11, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
24 6 0.11
25 48 0.84
26 3 0.05
ACGTcount: A:0.47, C:0.15, G:0.18, T:0.21
Consensus pattern (25 bp):
CAGAATCAGAATCAGAATCAGGTAA
Found at i:54261528 original size:31 final size:31
Alignment explanation
Indices: 54261493--54261594 Score: 168
Period size: 31 Copynumber: 3.3 Consensus size: 31
54261483 TAGGTGACAG
* *
54261493 AATCAGAATCAGTATCAGGTAACAAAATCAA
1 AATCAGAATCGGTATCAGGTAACAGAATCAA
*
54261524 AATCAGAATCGGTATCATGTAACAGAATCAA
1 AATCAGAATCGGTATCAGGTAACAGAATCAA
*
54261555 AATCAGAATCGGTATTAGGTAACAGAATCAA
1 AATCAGAATCGGTATCAGGTAACAGAATCAA
54261586 AATCAGAAT
1 AATCAGAAT
54261595 GTGAATGCAA
Statistics
Matches: 66, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 66 1.00
ACGTcount: A:0.48, C:0.15, G:0.16, T:0.22
Consensus pattern (31 bp):
AATCAGAATCGGTATCAGGTAACAGAATCAA
Found at i:54262026 original size:27 final size:27
Alignment explanation
Indices: 54261996--54262218 Score: 270
Period size: 27 Copynumber: 8.3 Consensus size: 27
54261986 GGGGCAAAAT
* * * *
54261996 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
54262023 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
54262050 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
54262077 AGTCATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
54262104 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
54262131 AGTTATTTTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
54262158 GGTAATTCTAACCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
54262185 GGTAA-T-TACACATAGCAGGGGTATTTT
1 GGTAATTCTAC-CCTA-CAGGGGTATTTC
54262212 GGTAATT
1 GGTAATT
54262219 TTACAAACCA
Statistics
Matches: 171, Mismatches: 22, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
25 2 0.01
26 4 0.02
27 164 0.96
28 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:54262234 original size:27 final size:27
Alignment explanation
Indices: 54262203--54262301 Score: 117
Period size: 27 Copynumber: 3.7 Consensus size: 27
54262193 CACATAGCAG
*
54262203 GGGTATTTTGGTAATTTTACAAACCAA
1 GGGTATTTTGGTAATTTTATAAACCAA
* ** * *
54262230 TGGTATTTTGGTAATTTTATTGATCGA
1 GGGTATTTTGGTAATTTTATAAACCAA
*
54262257 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTATAAACCAA
**
54262284 GGGTATTTCAGTAATTTT
1 GGGTATTTTGGTAATTTT
54262302 TTACATTGAG
Statistics
Matches: 58, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 58 1.00
ACGTcount: A:0.27, C:0.07, G:0.21, T:0.44
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTATAAACCAA
Found at i:54262235 original size:54 final size:54
Alignment explanation
Indices: 54262146--54262299 Score: 143
Period size: 54 Copynumber: 2.9 Consensus size: 54
54262136 TTTTACCCTA
* * **
54262146 CAGGGGTATTTCGGTAATTCTAACCTA-CAAGGGTATTTCGGTAATTACACAT-AG
1 CAGGGGTATTTTGGTAATT-TTACAAACCAAGGGTATTTCGGTAATTACA-ATGAG
* * ** * *
54262200 CAGGGGTATTTTGGTAATTTTACAAACCAATGGTATTTTGGTAATTTTATTGAT
1 CAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCGGTAATTACAATGAG
** *
54262254 C-GAGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTCAGTAATT
1 CAG-GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCGGTAATT
54262300 TTTTACATTG
Statistics
Matches: 82, Mismatches: 15, Indels: 6
0.80 0.15 0.06
Matches are distributed among these distances:
53 6 0.07
54 76 0.93
ACGTcount: A:0.29, C:0.11, G:0.22, T:0.38
Consensus pattern (54 bp):
CAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCGGTAATTACAATGAG
Found at i:54262343 original size:27 final size:27
Alignment explanation
Indices: 54262313--54262454 Score: 212
Period size: 27 Copynumber: 5.3 Consensus size: 27
54262303 TACATTGAGA
*
54262313 GTAAAATGGTAATTCTGTAAATCGAGG
1 GTAAAATGGTAATTCTATAAATCGAGG
* * *
54262340 GTAAGACGGTAATTCTGTAAATCGAGG
1 GTAAAATGGTAATTCTATAAATCGAGG
*
54262367 GTAAAATAGTAATTCTATAAATCGAGG
1 GTAAAATGGTAATTCTATAAATCGAGG
* *
54262394 GTAAAACGATAATTCTATAAATCGAGG
1 GTAAAATGGTAATTCTATAAATCGAGG
*
54262421 GTAAAATAGTAATTCTATAAATCGAGG
1 GTAAAATGGTAATTCTATAAATCGAGG
54262448 GTAAAAT
1 GTAAAAT
54262455 AATAATTGGG
Statistics
Matches: 103, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 103 1.00
ACGTcount: A:0.42, C:0.08, G:0.22, T:0.28
Consensus pattern (27 bp):
GTAAAATGGTAATTCTATAAATCGAGG
Found at i:54262351 original size:81 final size:81
Alignment explanation
Indices: 54262266--54262461 Score: 196
Period size: 81 Copynumber: 2.4 Consensus size: 81
54262256 AGGGTATTTT
* ** * * * * * * *
54262266 GGTAATTTTGTAAACCAAGGGT-ATTTCAGTAATTTTTTACATTGAGAGTAAAATGGTAATTCTG
1 GGTAATTCTGTAAACCAAGGGTAAAAT-AGTAATTCTATAAATCGAGAGTAAAACGATAATTCTA
54262330 TAAATCGAGGGTAAGAC
65 TAAATCGAGGGTAAGAC
* * *
54262347 GGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACGATAATTCTAT
1 GGTAATTCTGTAAACCAAGGGTAAAATAGTAATTCTATAAATCGAGAGTAAAACGATAATTCTAT
* *
54262412 AAATCGAGGGTAAAAT
66 AAATCGAGGGTAAGAC
* * * * *
54262428 AGTAATTCTATAAATCGAGGGTAAAATAATAATT
1 GGTAATTCTGTAAACCAAGGGTAAAATAGTAATT
54262462 GGGTAATTTT
Statistics
Matches: 96, Mismatches: 18, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
81 94 0.98
82 2 0.02
ACGTcount: A:0.40, C:0.08, G:0.20, T:0.32
Consensus pattern (81 bp):
GGTAATTCTGTAAACCAAGGGTAAAATAGTAATTCTATAAATCGAGAGTAAAACGATAATTCTAT
AAATCGAGGGTAAGAC
Found at i:54262461 original size:54 final size:54
Alignment explanation
Indices: 54262313--54262453 Score: 237
Period size: 54 Copynumber: 2.6 Consensus size: 54
54262303 TACATTGAGA
* * * * *
54262313 GTAAAATGGTAATTCTGTAAATCGAGGGTAAGACGGTAATTCTGTAAATCGAGG
1 GTAAAATAGTAATTCTATAAATCGAGGGTAAAACGATAATTCTATAAATCGAGG
54262367 GTAAAATAGTAATTCTATAAATCGAGGGTAAAACGATAATTCTATAAATCGAGG
1 GTAAAATAGTAATTCTATAAATCGAGGGTAAAACGATAATTCTATAAATCGAGG
54262421 GTAAAATAGTAATTCTATAAATCGAGGGTAAAA
1 GTAAAATAGTAATTCTATAAATCGAGGGTAAAA
54262454 TAATAATTGG
Statistics
Matches: 82, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 82 1.00
ACGTcount: A:0.42, C:0.09, G:0.22, T:0.28
Consensus pattern (54 bp):
GTAAAATAGTAATTCTATAAATCGAGGGTAAAACGATAATTCTATAAATCGAGG
Found at i:54262503 original size:27 final size:27
Alignment explanation
Indices: 54262464--54262605 Score: 153
Period size: 27 Copynumber: 5.3 Consensus size: 27
54262454 TAATAATTGG
*
54262464 GTAATTTTACAAATCGAGGGTATTTCA
1 GTAATTTTACAAATTGAGGGTATTTCA
*
54262491 GTAATTTTGCAAATTGAGGGTATTTCTA
1 GTAATTTTACAAATTGAGGGTATTTC-A
* * **
54262519 -TAATTTTACAAATCGAGGATATTTGG
1 GTAATTTTACAAATTGAGGGTATTTCA
* * *
54262545 GTAATTTTATAAATTGGGGGTACTTT-G
1 GTAATTTTACAAATTGAGGGTA-TTTCA
* *
54262572 GTAATTTTACAAGTTGAGGGTAATTCA
1 GTAATTTTACAAATTGAGGGTATTTCA
54262599 GTAATTT
1 GTAATTT
54262606 GGTAAACTAA
Statistics
Matches: 95, Mismatches: 16, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
26 2 0.02
27 89 0.94
28 4 0.04
ACGTcount: A:0.31, C:0.07, G:0.21, T:0.41
Consensus pattern (27 bp):
GTAATTTTACAAATTGAGGGTATTTCA
Found at i:54264605 original size:6 final size:6
Alignment explanation
Indices: 54264594--54264709 Score: 67
Period size: 6 Copynumber: 18.8 Consensus size: 6
54264584 TATCAAAACT
* * * *
54264594 AGAATC AGAATC AGAATT AGAATC AGTATC AGGTAA-C AAAATC AAAATC
1 AGAATC AGAATC AGAATC AGAATC AGAATC A-G-AATC AGAATC AGAATC
* * * * *
54264643 AGAATC GGTATC ATGTAAT- AGAATC AAAATC AGAATC GGTATC AGGTAA-C
1 AGAATC AGAATC A-G-AATC AGAATC AGAATC AGAATC AGAATC A-G-AATC
*
54264693 AGAATC AAAATC AGAAT
1 AGAATC AGAATC AGAAT
54264710 GTGAATGCAA
Statistics
Matches: 83, Mismatches: 18, Indels: 18
0.70 0.15 0.15
Matches are distributed among these distances:
5 7 0.08
6 64 0.77
7 8 0.10
8 4 0.05
ACGTcount: A:0.48, C:0.14, G:0.16, T:0.22
Consensus pattern (6 bp):
AGAATC
Found at i:54264625 original size:18 final size:18
Alignment explanation
Indices: 54264569--54264625 Score: 60
Period size: 18 Copynumber: 3.2 Consensus size: 18
54264559 TAACCTATTA
* * *
54264569 CAGAATAAGAAACATTAT
1 CAGAATTAGAATCAGTAT
* * *
54264587 CAAAACTAGAATCAGAAT
1 CAGAATTAGAATCAGTAT
54264605 CAGAATTAGAATCAGTAT
1 CAGAATTAGAATCAGTAT
54264623 CAG
1 CAG
54264626 GTAACAAAAT
Statistics
Matches: 30, Mismatches: 9, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.51, C:0.14, G:0.14, T:0.21
Consensus pattern (18 bp):
CAGAATTAGAATCAGTAT
Found at i:54264637 original size:31 final size:31
Alignment explanation
Indices: 54264599--54264709 Score: 168
Period size: 31 Copynumber: 3.6 Consensus size: 31
54264589 AAACTAGAAT
* * *
54264599 CAGAATCAGAATTAGAATCAGTATCAGGTAA
1 CAGAATCAAAATCAGAATCGGTATCAGGTAA
* *
54264630 CAAAATCAAAATCAGAATCGGTATCATGTAA
1 CAGAATCAAAATCAGAATCGGTATCAGGTAA
*
54264661 TAGAATCAAAATCAGAATCGGTATCAGGTAA
1 CAGAATCAAAATCAGAATCGGTATCAGGTAA
54264692 CAGAATCAAAATCAGAAT
1 CAGAATCAAAATCAGAAT
54264710 GTGAATGCAA
Statistics
Matches: 71, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 71 1.00
ACGTcount: A:0.48, C:0.14, G:0.16, T:0.22
Consensus pattern (31 bp):
CAGAATCAAAATCAGAATCGGTATCAGGTAA
Found at i:54265141 original size:27 final size:27
Alignment explanation
Indices: 54265111--54265279 Score: 239
Period size: 27 Copynumber: 6.3 Consensus size: 27
54265101 GGGGCAAAAT
* * * *
54265111 GGTAATTTTACCCCACAAAGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
54265138 GGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
54265165 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
54265192 GGTCATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
54265219 GGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
54265246 GGTAATTCTAACCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
54265273 GGTAATT
1 GGTAATT
54265280 ACACAAAGCA
Statistics
Matches: 129, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 129 1.00
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:54265312 original size:27 final size:27
Alignment explanation
Indices: 54265261--54265389 Score: 114
Period size: 27 Copynumber: 4.8 Consensus size: 27
54265251 TTCTAACCTA
* ** *
54265261 CAAGGGTATTTCGGTAATTACACAAAG
1 CAAGGGTATTTTGGTAATTTTACAAAC
*
54265288 CAGGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* * *** *
54265315 CAATGGTATTTTTGTAATTTTATTGAT
1 CAAGGGTATTTTGGTAATTTTACAAAC
* **
54265342 CGAGGGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
**
54265369 CAAGGGTATTTCAGTAATTTT
1 CAAGGGTATTTTGGTAATTTT
54265390 TTACATTGAG
Statistics
Matches: 80, Mismatches: 22, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
27 80 1.00
ACGTcount: A:0.29, C:0.09, G:0.21, T:0.40
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTACAAAC
Found at i:54265323 original size:54 final size:54
Alignment explanation
Indices: 54265261--54265387 Score: 130
Period size: 54 Copynumber: 2.4 Consensus size: 54
54265251 TTCTAACCTA
*
54265261 CAAGGGTATTTCGGTAATTACACAAAGC-AGGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTCAGTAATTACACAAAGCGA-GGGTATTTTGGTAATTTTACAAAC
* ** ** *** * **
54265315 CAATGGTATTTTTGTAATTTTATTGATCGAGGGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTCAGTAATTACACAAAGCGAGGGTATTTTGGTAATTTTACAAAC
54265369 CAAGGGTATTTCAGTAATT
1 CAAGGGTATTTCAGTAATT
54265388 TTTTACATTG
Statistics
Matches: 58, Mismatches: 14, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
54 57 0.98
55 1 0.02
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.39
Consensus pattern (54 bp):
CAAGGGTATTTCAGTAATTACACAAAGCGAGGGTATTTTGGTAATTTTACAAAC
Found at i:54265325 original size:81 final size:81
Alignment explanation
Indices: 54265130--54265306 Score: 232
Period size: 81 Copynumber: 2.2 Consensus size: 81
54265120 ACCCCACAAA
* * * * *
54265130 GGTATCTCGGTAATTCTACCCTACAAGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGGT
1 GGTATTTCGGTAATTCTACCCTATAGGGGTATTTCGGTAATTCTAACCTACAAGGGTATTTCGGT
* ** *
54265195 CATTCTACCCTATAGG
66 AATTCTACCAAACAGG
54265211 GGTATTTCGGTAATTCTACCCTATAGGGGTATTTCGGTAATTCTAACCTACAAGGGTATTTCGGT
1 GGTATTTCGGTAATTCTACCCTATAGGGGTATTTCGGTAATTCTAACCTACAAGGGTATTTCGGT
54265276 AA-T-TACACAAAGCAGG
66 AATTCTAC-CAAA-CAGG
*
54265292 GGTATTTTGGTAATT
1 GGTATTTCGGTAATT
54265307 TTACAAACCA
Statistics
Matches: 84, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
79 3 0.04
80 3 0.04
81 78 0.93
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.35
Consensus pattern (81 bp):
GGTATTTCGGTAATTCTACCCTATAGGGGTATTTCGGTAATTCTAACCTACAAGGGTATTTCGGT
AATTCTACCAAACAGG
Found at i:54265401 original size:54 final size:54
Alignment explanation
Indices: 54265291--54265430 Score: 147
Period size: 54 Copynumber: 2.6 Consensus size: 54
54265281 CACAAAGCAG
** * ** *
54265291 GGGTATTTTGGTAATTTTACAAACCAATGGTATTTTTGTAATTTTATTGATCGA
1 GGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTCAGTAATTTTATTCATCGA
*
54265345 GGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTCAGTAATTTT-TTACATTGA
1 GGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTCAGTAATTTTATT-CATCGA
*** * * *
54265399 GGGTAAAATGGTAATTCTGTAAATCGAGGGTA
1 GGGTATTTTGGTAATTTTGTAAACCAAGGGTA
54265431 AGACGGCAAT
Statistics
Matches: 72, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
53 2 0.03
54 70 0.97
ACGTcount: A:0.29, C:0.07, G:0.22, T:0.41
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTCAGTAATTTTATTCATCGA
Found at i:54265412 original size:27 final size:27
Alignment explanation
Indices: 54265397--54265541 Score: 227
Period size: 27 Copynumber: 5.4 Consensus size: 27
54265387 TTTTTACATT
54265397 GAGGGTAAAATGGTAATTCTGTAAATC
1 GAGGGTAAAATGGTAATTCTGTAAATC
* * *
54265424 GAGGGTAAGACGGCAATTCTGTAAATC
1 GAGGGTAAAATGGTAATTCTGTAAATC
* *
54265451 GAGGGTAAAATAGTAATTCTATAAATC
1 GAGGGTAAAATGGTAATTCTGTAAATC
54265478 GAGGGTAAAATGGTAATTCTGTAAATC
1 GAGGGTAAAATGGTAATTCTGTAAATC
* *
54265505 GAGGGTAAAATAGTAATTCTATAAATC
1 GAGGGTAAAATGGTAATTCTGTAAATC
54265532 GAGGGTAAAA
1 GAGGGTAAAA
54265542 CGATAATTGG
Statistics
Matches: 106, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 106 1.00
ACGTcount: A:0.40, C:0.08, G:0.25, T:0.27
Consensus pattern (27 bp):
GAGGGTAAAATGGTAATTCTGTAAATC
Found at i:54265425 original size:81 final size:81
Alignment explanation
Indices: 54265357--54265512 Score: 215
Period size: 81 Copynumber: 1.9 Consensus size: 81
54265347 GTATTTTGGT
* ** * * * *
54265357 AATTTTGTAAACCAAGGGT-ATTTCAGTAATTTTTTACATTGAGGGTAAAATGGTAATTCTGTAA
1 AATTCTGTAAACCAAGGGTAAAAT-AGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTGTAA
54265421 ATCGAGGGTAAGACGGC
65 ATCGAGGGTAAGACGGC
* *
54265438 AATTCTGTAAATCGAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTGTAAA
1 AATTCTGTAAACCAAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTGTAAA
54265503 TCGAGGGTAA
66 TCGAGGGTAA
54265513 AATAGTAATT
Statistics
Matches: 65, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
81 63 0.97
82 2 0.03
ACGTcount: A:0.37, C:0.09, G:0.23, T:0.31
Consensus pattern (81 bp):
AATTCTGTAAACCAAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTGTAAA
TCGAGGGTAAGACGGC
Found at i:54265549 original size:54 final size:54
Alignment explanation
Indices: 54265397--54265549 Score: 252
Period size: 54 Copynumber: 2.8 Consensus size: 54
54265387 TTTTTACATT
* * * *
54265397 GAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAGACGGCAATTCTGTAAATC
1 GAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATC
*
54265451 GAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTGTAAATC
1 GAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATC
*
54265505 GAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACGATAATT
1 GAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACGGTAATT
54265550 GGGTAATTTT
Statistics
Matches: 92, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 92 1.00
ACGTcount: A:0.40, C:0.08, G:0.24, T:0.27
Consensus pattern (54 bp):
GAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATC
Found at i:54265591 original size:27 final size:27
Alignment explanation
Indices: 54265552--54265693 Score: 153
Period size: 27 Copynumber: 5.3 Consensus size: 27
54265542 CGATAATTGG
54265552 GTAATTTTACAAATCGAGGGTATTTCA
1 GTAATTTTACAAATCGAGGGTATTTCA
* *
54265579 GTAATTTTGCAAA-CTGAGGGTATTTCT
1 GTAATTTTACAAATC-GAGGGTATTTCA
** **
54265606 GTAATTTTACAAATCGAGCATATTTGG
1 GTAATTTTACAAATCGAGGGTATTTCA
* * *
54265633 GTAATTTTATAAATCGGGGGTACTTT-G
1 GTAATTTTACAAATCGAGGGTA-TTTCA
* *
54265660 GTAATTTTACAAGTTGAGGGTATTTCA
1 GTAATTTTACAAATCGAGGGTATTTCA
54265687 GTAATTT
1 GTAATTT
54265694 GGTAAACTAA
Statistics
Matches: 95, Mismatches: 16, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
26 4 0.04
27 87 0.92
28 4 0.04
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (27 bp):
GTAATTTTACAAATCGAGGGTATTTCA
Found at i:54274102 original size:28 final size:28
Alignment explanation
Indices: 54274062--54274181 Score: 177
Period size: 28 Copynumber: 4.3 Consensus size: 28
54274052 TGGGAAGTAG
54274062 TTGGGCCTGATGGGCCATATGAATGTGA
1 TTGGGCCTGATGGGCCATATGAATGTGA
* *
54274090 TTGGGCCTGATGGACCATATGAAGGTGA
1 TTGGGCCTGATGGGCCATATGAATGTGA
*
54274118 TTGGGCCTGATGGGCCATGTGAATGTGA
1 TTGGGCCTGATGGGCCATATGAATGTGA
* * * *
54274146 TTGGGCTTGATGGGCCATGTGAACGAGA
1 TTGGGCCTGATGGGCCATATGAATGTGA
54274174 TTGGGCCT
1 TTGGGCCT
54274182 AAAGGTGCCA
Statistics
Matches: 83, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 83 1.00
ACGTcount: A:0.20, C:0.15, G:0.38, T:0.28
Consensus pattern (28 bp):
TTGGGCCTGATGGGCCATATGAATGTGA
Found at i:54274537 original size:27 final size:27
Alignment explanation
Indices: 54274507--54274963 Score: 388
Period size: 27 Copynumber: 17.1 Consensus size: 27
54274497 AAATTACTGG
54274507 AATACCCTCGATTTGTAAAATTATCGA
1 AATACCCTCGATTTGTAAAATTATCGA
*
54274534 AATACCC-CTGATTTGAAAAATTATCGA
1 AATACCCTC-GATTTGTAAAATTATCGA
* *
54274561 AATACCCTCGA-TTGTGAAGTTA-CTGA
1 AATACCCTCGATTTGTAAAATTATC-GA
* * *
54274587 AATACCCTCAATTTGAAAAATTATTGA
1 AATACCCTCGATTTGTAAAATTATCGA
* * *
54274614 AATACCCTCGATTTGAAAAACTA-CTAA
1 AATACCCTCGATTTGTAAAATTATC-GA
* *
54274641 AATACCCTCGA-TTGTGAAATTA-CTAA
1 AATACCCTCGATTTGTAAAATTATC-GA
* *
54274667 AATACCCTCAATTTGTAAAATTA-CTAA
1 AATACCCTCGATTTGTAAAATTATC-GA
* *
54274694 AATACCCTCGATTTGTGAAATTA-CAAA
1 AATACCCTCGATTTGTAAAATTATC-GA
* * *
54274721 AATACCCCCGATTTATGAAATTATCGA
1 AATACCCTCGATTTGTAAAATTATCGA
* * * *
54274748 AACATCCTCAATTTGT-AAATTACCGA
1 AATACCCTCGATTTGTAAAATTATCGA
* *
54274774 AATA-CCTTGATTTGTAAAATTATTGA
1 AATACCCTCGATTTGTAAAATTATCGA
**
54274800 AATACCCTTAATTATG--AAATTA-CTGA
1 AATACCCTCGATT-TGTAAAATTATC-GA
* *
54274826 AATACCCTCGATTTATAAAA-TACCGA
1 AATACCCTCGATTTGTAAAATTATCGA
* *
54274852 AATATCTTCGATTTGTAAAATTATCGA
1 AATACCCTCGATTTGTAAAATTATCGA
54274879 AATACCC-CTGATTTGTAAAATT-TCCGA
1 AATACCCTC-GATTTGTAAAATTAT-CGA
* *
54274906 AATACCCTCGATTTCTAAAATTACCGA
1 AATACCCTCGATTTGTAAAATTATCGA
* * * *
54274933 AACACCCCCAATTTGTAAAATTATCAA
1 AATACCCTCGATTTGTAAAATTATCGA
54274960 AATA
1 AATA
54274964 ACCTTTGTAG
Statistics
Matches: 355, Mismatches: 55, Indels: 40
0.79 0.12 0.09
Matches are distributed among these distances:
25 11 0.03
26 109 0.31
27 230 0.65
28 5 0.01
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.32
Consensus pattern (27 bp):
AATACCCTCGATTTGTAAAATTATCGA
Found at i:54274606 original size:53 final size:52
Alignment explanation
Indices: 54274497--54274955 Score: 369
Period size: 53 Copynumber: 8.6 Consensus size: 52
54274487 TAATAAAGAG
*
54274497 AAATTACTGGAATACCCTCGATTTGTAAAATTA-TCGAAATACCC-CTGATTTGAA
1 AAATTAC-GAAATACCCTCGATTTGTAAAATTACT-GAAATACCCTC-GATTTG-A
* * *
54274551 AAATTATCGAAATACCCTCGA-TTGTGAAGTTACTGAAATACCCTCAATTTGAA
1 AAATTA-CGAAATACCCTCGATTTGTAAAATTACTGAAATACCCTCGATTTG-A
* * * *
54274604 AAATTATTGAAATACCCTCGATTTGAAAAACTACTAAAATACCCTCGATTGTG-
1 AAATTA-CGAAATACCCTCGATTTGTAAAATTACTGAAATACCCTCGATT-TGA
* * * *
54274657 AAATTACTAAAATACCCTCAATTTGTAAAATTACTAAAATACCCTCGATTTGTG
1 AAATTAC-GAAATACCCTCGATTTGTAAAATTACTGAAATACCCTCGATTTG-A
* * * * * * * *
54274711 AAATTACAAAAATACCCCCGATTTATGAAATTA-TCGAAACATCCTCAATTTGT
1 AAATTAC-GAAATACCCTCGATTTGTAAAATTACT-GAAATACCCTCGATTTGA
* * **
54274764 AAATTACCGAAATA-CCTTGATTTGTAAAATTATTGAAATACCCTTAATTATG-
1 AAATTA-CGAAATACCCTCGATTTGTAAAATTACTGAAATACCCTCGATT-TGA
* * * *
54274816 AAATTACTGAAATACCCTCGATTTATAAAA-TACCGAAATATCTTCGATTTGTA
1 AAATTAC-GAAATACCCTCGATTTGTAAAATTACTGAAATACCCTCGATTTG-A
* * *
54274869 AAATTATCGAAATACCC-CTGATTTGTAAAATTTCCGAAATACCCTCGATTTCTA
1 AAATTA-CGAAATACCCTC-GATTTGTAAAATTACTGAAATACCCTCGATTT-GA
* * *
54274923 AAATTACCGAAACACCCCCAATTTGTAAAATTA
1 AAATTA-CGAAATACCCTCGATTTGTAAAATTA
54274956 TCAAAATAAC
Statistics
Matches: 333, Mismatches: 51, Indels: 42
0.78 0.12 0.10
Matches are distributed among these distances:
51 3 0.01
52 54 0.16
53 142 0.43
54 130 0.39
55 4 0.01
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (52 bp):
AAATTACGAAATACCCTCGATTTGTAAAATTACTGAAATACCCTCGATTTGA
Found at i:54274633 original size:80 final size:80
Alignment explanation
Indices: 54274496--54275020 Score: 483
Period size: 80 Copynumber: 6.5 Consensus size: 80
54274486 ATAATAAAGA
* * * * *
54274496 GAAATTACTGGAATACCCTCGATTTGTAAAATTATCGAAATACCC-CTGATTTGAAAAATTATCG
1 GAAATTACTGAAATACCCTCAATTTGTAAAATTACCGAAATACCCTC-GATTTGTAAAATTATCA
54274560 AAATACCCTCGATTGT
65 AAATACCCTCGATTGT
* * ** * *
54274576 GAAGTTACTGAAATACCCTCAATTTGAAAAATTATTGAAATACCCTCGATTTGAAAAACTA-CTA
1 GAAATTACTGAAATACCCTCAATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTATC-A
54274640 AAATACCCTCGATTGT
65 AAATACCCTCGATTGT
* ** *
54274656 GAAATTACTAAAATACCCTCAATTTGTAAAATTACTAAAATACCCTCGATTTGTGAAATTA-CAA
1 GAAATTACTGAAATACCCTCAATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTATC-A
* *
54274720 AAATACCCCCGATTTAT
65 AAATACCCTCGA-TTGT
* * * **
54274737 GAAATTA-TCGAAACATCCTCAATTTGT-AAATTACCGAAATA-CCTTGATTTGTAAAATTATTG
1 GAAATTACT-GAAATACCCTCAATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTATCA
** *
54274799 AAATACCCTTAATTAT
65 AAATACCCTCGATTGT
* * * * *
54274815 GAAATTACTGAAATACCCTCGATTTATAAAA-TACCGAAATATCTTCGATTTGTAAAATTATCGA
1 GAAATTACTGAAATACCCTCAATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTATCAA
54274879 AATACCC-CTGATTTGT
66 AATACCCTC-GA-TTGT
* * * * * * * *
54274895 AAAATTTCCGAAATACCCTCGATTTCTAAAATTACCGAAACACCCCCAATTTGTAAAATTATCAA
1 GAAATTACTGAAATACCCTCAATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTATCAA
* * *
54274960 AATAACCTTTGTAGTGT
66 AAT-ACCCTCG-ATTGT
* * * * *
54274977 AAAATTACTAAAATACCCT-TATATTGTAAAATGACCGACATACC
1 GAAATTACTGAAATACCCTCAAT-TTGTAAAATTACCGAAATACC
54275021 TCTGTAGGGT
Statistics
Matches: 369, Mismatches: 61, Indels: 28
0.81 0.13 0.06
Matches are distributed among these distances:
78 35 0.09
79 57 0.15
80 178 0.48
81 58 0.16
82 40 0.11
83 1 0.00
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.32
Consensus pattern (80 bp):
GAAATTACTGAAATACCCTCAATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTATCAA
AATACCCTCGATTGT
Found at i:54275611 original size:27 final size:27
Alignment explanation
Indices: 54275518--54275611 Score: 68
Period size: 27 Copynumber: 3.5 Consensus size: 27
54275508 TATTACGATG
* ** *
54275518 TGGGCTTCGGCCCAAATGAGGCT-AAGA
1 TGGGCTTTGGCCCAAATGATTCTGTA-A
* * *
54275545 TGGGC-TAGGCCCAATTGATTCTGTTA
1 TGGGCTTTGGCCCAAATGATTCTGTAA
* *
54275571 TGGGCTGTGACCCAAATGATAT-TGTAA
1 TGGGCTTTGGCCCAAATGAT-TCTGTAA
54275598 TGGGCTTTGGCCCA
1 TGGGCTTTGGCCCA
54275612 CATATGCTCT
Statistics
Matches: 51, Mismatches: 13, Indels: 6
0.73 0.19 0.09
Matches are distributed among these distances:
26 19 0.37
27 31 0.61
28 1 0.02
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.28
Consensus pattern (27 bp):
TGGGCTTTGGCCCAAATGATTCTGTAA
Found at i:54293363 original size:49 final size:49
Alignment explanation
Indices: 54293142--54293844 Score: 1106
Period size: 49 Copynumber: 14.6 Consensus size: 49
54293132 CCCTTCGGGA
* * * *
54293142 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTCGGC
* * *
54293189 CCTGTCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTCGGC
* *
54293236 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTCGGC
*
54293283 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTCGGC
*
54293330 CTTATCACATATATATACACTTTCACATTCATCACATCAGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTCGGC
54293379 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTCGGC
*
54293428 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTCGGC
*
54293477 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTCGGC
*
54293524 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTCGGC
* *
54293573 CTTATCACATATATATACACTTTGACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTCGGC
* *
54293622 CTTATCACATATATATACACTTCCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTCGGC
*
54293671 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTCGGC
* *
54293718 CTTATCACATATATATGCACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTCGGC
* * *
54293767 CTTATTACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTCGGC
54293816 CTTATCACATATATATACACTTTCACATT
1 CTTATCACATATATATACACTTTCACATT
54293845 TATTCAAATA
Statistics
Matches: 616, Mismatches: 32, Indels: 14
0.93 0.05 0.02
Matches are distributed among these distances:
46 1 0.00
47 224 0.36
49 391 0.63
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.34
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTCGGC
Found at i:54293497 original size:145 final size:145
Alignment explanation
Indices: 54293142--54293844 Score: 1116
Period size: 145 Copynumber: 4.9 Consensus size: 145
54293132 CCCTTCGGGA
* * * * *
54293142 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
54293205 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
*
54293268 CATCGGCTATTAGGC
131 CATCGGCCATTAGGC
* *
54293283 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAC--ATATAT
* *
54293346 ACACTTTCACATTCATCACATCAGCCATTCGGCCTTATCACATATATATACACTTTCACATTCAT
64 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCAT
*
54293411 CACATCGGCCATTCGGC
129 CACATCGGCCATTAGGC
54293428 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
54293493 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
* *
54293558 CATTGGCCATTCGGC
131 CATCGGCCATTAGGC
*
54293573 CTTATCACATATATATACACTTTGACATTCATCACATTGGCCATTCGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAC--ATATAT
* * *
54293638 ACACTTCCACATTCATCACATTGGCCATTCGGCCTTATCAC--ATATATACACTTTCACATTCAT
64 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCAT
54293701 CACATCGGCCATTAGGC
129 CACATCGGCCATTAGGC
* *
54293718 CTTATCACATATATATGCACTTTCACATTCATCACATTGGCCATTCGGCCTTATTACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTA-T-CACATATAT
*
54293783 ACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACTTTCACATT
64 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATT
54293845 TATTCAAATA
Statistics
Matches: 521, Mismatches: 27, Indels: 22
0.91 0.05 0.04
Matches are distributed among these distances:
140 1 0.00
141 45 0.09
143 45 0.09
145 319 0.61
146 1 0.00
147 110 0.21
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.34
Consensus pattern (145 bp):
CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
CATCGGCCATTAGGC
Found at i:54293499 original size:194 final size:194
Alignment explanation
Indices: 54293142--54293844 Score: 1202
Period size: 194 Copynumber: 3.7 Consensus size: 194
54293132 CCCTTCGGGA
* * * * *
54293142 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCAC--ATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAT
54293203 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCAT
66 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCAT
* * *
54293266 CACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
131 CACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
**
54293330 CTTATCACATATATATACACTTTCACATTCATCACATCAGCCATTCGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAT
*
54293395 ACACTTTCACATTCATCACATCGGCCATTCGGCCTTATCACATATATATACACTTTCACATTCAT
66 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCAT
54293460 CACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
131 CACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
54293524 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAT
* * * *
54293589 ACACTTTGACATTCATCACATTGGCCATTCGGCCTTATCACATATATATACACTTCCACATTCAT
66 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCAT
54293654 CACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
131 CACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
54293718 CTTATCACATATATATGCACTTTCACATTCATCACATTGGCCATTCGGCCTTATTACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAT
*
54293783 ACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACTTTCACATT
66 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATT
54293845 TATTCAAATA
Statistics
Matches: 488, Mismatches: 21, Indels: 6
0.95 0.04 0.01
Matches are distributed among these distances:
188 10 0.02
189 1 0.00
190 37 0.08
192 46 0.09
194 394 0.81
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.34
Consensus pattern (194 bp):
CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAT
ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCAT
CACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:54316337 original size:37 final size:37
Alignment explanation
Indices: 54316287--54316365 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 37
54316277 TTATTACGAA
* *
54316287 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCAG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCAG
* *
54316324 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCAG
54316361 GTCTT
1 GTCTT
54316366 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 35 0.95
38 2 0.05
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCAG
Found at i:54316562 original size:47 final size:47
Alignment explanation
Indices: 54316484--54317626 Score: 2059
Period size: 47 Copynumber: 24.4 Consensus size: 47
54316474 CCCTTCGGGA
* * * * * * *
54316484 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
54316531 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
54316578 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
54316625 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
54316672 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
54316719 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
54316766 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
54316813 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
54316860 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
54316907 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
54316954 CTTATCACACATATACACTTTCACA-T--T-ACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
54316997 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
54317046 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
54317093 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
54317140 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA-GC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
54317186 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
54317233 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
54317280 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
54317327 CTTATCACACATATACACTTTCACA-T--TCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
54317371 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
54317420 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
54317467 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
54317514 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
54317561 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
54317608 CTTATCACATATATACACT
1 CTTATCACATATATACACT
54317627 GTCTTGGCTG
Statistics
Matches: 1062, Mismatches: 22, Indels: 24
0.96 0.02 0.02
Matches are distributed among these distances:
43 23 0.02
44 26 0.02
45 16 0.02
46 65 0.06
47 881 0.83
48 1 0.00
49 50 0.05
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:54325471 original size:40 final size:40
Alignment explanation
Indices: 54325375--54325471 Score: 117
Period size: 40 Copynumber: 2.4 Consensus size: 40
54325365 TGGATGATAA
* * *
54325375 CCGGTCTAAGTCCCAAAGGCATTTGTGCTAGTGACTAATT
1 CCGGTCTAAGTCCCGAAGGCATTTGTACGAGTGACTAATT
*
54325415 CCGGTCTAAG-CTCCGAAGGCATTTGTACGAGTTACT-ATAT
1 CCGGTCTAAGTC-CCGAAGGCATTTGTACGAGTGACTAAT-T
*
54325455 CCGGGCTAAGTCCCGAA
1 CCGGTCTAAGTCCCGAA
54325472 TAATTCGAGG
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
39 3 0.06
40 45 0.92
41 1 0.02
ACGTcount: A:0.25, C:0.25, G:0.24, T:0.27
Consensus pattern (40 bp):
CCGGTCTAAGTCCCGAAGGCATTTGTACGAGTGACTAATT
Found at i:54330325 original size:40 final size:40
Alignment explanation
Indices: 54330264--54330373 Score: 161
Period size: 40 Copynumber: 2.8 Consensus size: 40
54330254 ATATTTGGAT
* *
54330264 TATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGAC
1 TATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGAC
*
54330304 TA-ATTCCGGGCTAAG-CTCCGAAGGCATTTGTGCGAGTTAC
1 TATA-TCCGGGCTAAGTC-CCGAAGGCATTTGTGCGAGTGAC
54330344 TATATCCGGGCTAAGTCCCGAAGGCATTTG
1 TATATCCGGGCTAAGTCCCGAAGGCATTTG
54330374 AGCAAGTAGT
Statistics
Matches: 63, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
39 2 0.03
40 59 0.94
41 2 0.03
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
TATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGAC
Found at i:54330388 original size:40 final size:39
Alignment explanation
Indices: 54330262--54330405 Score: 150
Period size: 40 Copynumber: 3.6 Consensus size: 39
54330252 GGATATTTGG
* *
54330262 ATTATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGT
1 ATTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGT
* *
54330301 GACTA-ATTCCGGGCTAAG-CTCCGAAGGCATTTGTGCGAGTT
1 -ATTATA-TCCGGGCTAAGTC-CCGAAGGCATTTGTGCAAG-T
* *
54330342 ACTATATCCGGGCTAAGTCCCGAAGGCATTTGAGCAAGT
1 ATTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGT
* *
54330381 AGTTATATTC-GGCTAAATCCCGAAG
1 A-TTATATCCGGGCTAAGTCCCGAAG
54330406 AGGCTTGGGT
Statistics
Matches: 90, Mismatches: 8, Indels: 13
0.81 0.07 0.12
Matches are distributed among these distances:
39 18 0.20
40 69 0.77
41 3 0.03
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (39 bp):
ATTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGT
Found at i:54330672 original size:22 final size:21
Alignment explanation
Indices: 54330631--54330675 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 21
54330621 GAATGTGCAT
54330631 ATATGAAGTTATCCATTTAGCC
1 ATATGAAGTTATCCA-TTAGCC
54330653 ATATGAATGTTATACC-TTAGCC
1 ATATGAA-GTTAT-CCATTAGCC
54330675 A
1 A
54330676 AAACTAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
22 14 0.67
23 5 0.24
24 2 0.10
ACGTcount: A:0.33, C:0.18, G:0.13, T:0.36
Consensus pattern (21 bp):
ATATGAAGTTATCCATTAGCC
Found at i:54336209 original size:47 final size:47
Alignment explanation
Indices: 54336149--54336413 Score: 258
Period size: 47 Copynumber: 5.7 Consensus size: 47
54336139 TGGGTAAGGT
*
54336149 GCCGATGCAATGTCCCAGACATGGTCTTACACTGGCTCACATCTCAA-
1 GCCGATGCCATGTCCCAGACAT-GTCTTACACTGGCTCACATCTCAAG
* * *
54336196 GTCGATGCCATGTCCCAGACATAGTCTTACACTGACT-ATCATCTCGTA-
1 GCCGATGCCATGTCCCAGACAT-GTCTTACACTGGCTCA-CATCTC-AAG
* * **
54336244 GCCGATG--ATGTCCCAGACATGTCTTACACTGCCTTATGTCTCAAG
1 GCCGATGCCATGTCCCAGACATGTCTTACACTGGCTCACATCTCAAG
* * * * *
54336289 GCCGATG-CATGTCCCAGACATGTTTTACACTAGCTCTCGTCTCAAT
1 GCCGATGCCATGTCCCAGACATGTCTTACACTGGCTCACATCTCAAG
* * **
54336335 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTG
1 GCCGATGCCATGTCCCAGACAT-GTCTTACACTGGCTCACAT-CTCAAG
*
54336383 GCCGATG-CATGTCCCAGACATGTCTTGCACT
1 GCCGATGCCATGTCCCAGACATGTCTTACACT
54336414 AGCCAAAAAT
Statistics
Matches: 185, Mismatches: 25, Indels: 17
0.81 0.11 0.07
Matches are distributed among these distances:
44 1 0.01
45 24 0.13
46 62 0.34
47 67 0.36
48 30 0.16
49 1 0.01
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.28
Consensus pattern (47 bp):
GCCGATGCCATGTCCCAGACATGTCTTACACTGGCTCACATCTCAAG
Found at i:54353236 original size:29 final size:29
Alignment explanation
Indices: 54353219--54353320 Score: 98
Period size: 29 Copynumber: 3.5 Consensus size: 29
54353209 GATGGTCATC
54353219 CCTATCCCTTTTCATAATCGATAGCCAAA
1 CCTATCCCTTTTCATAATCGATAGCCAAA
* * * * *
54353248 GCTATCCCTTTTCATATTCAATAGTCGAA
1 CCTATCCCTTTTCATAATCGATAGCCAAA
* * * *
54353277 GCTA-CCACTTTTCATATTCAATACCCAAA
1 CCTATCC-CTTTTCATAATCGATAGCCAAA
*
54353306 GCTATCCCTTTTCAT
1 CCTATCCCTTTTCAT
54353321 TGGTTGATGA
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
28 2 0.03
29 59 0.94
30 2 0.03
ACGTcount: A:0.28, C:0.29, G:0.07, T:0.35
Consensus pattern (29 bp):
CCTATCCCTTTTCATAATCGATAGCCAAA
Found at i:54355376 original size:35 final size:35
Alignment explanation
Indices: 54355328--54355397 Score: 122
Period size: 35 Copynumber: 2.0 Consensus size: 35
54355318 AGAAAGGATT
*
54355328 TTTGGGAGTGATATTTTGATTACCCTGGCTTCATC
1 TTTGGGAGCGATATTTTGATTACCCTGGCTTCATC
*
54355363 TTTGGGAGCGATATTTTGATTACCTTGGCTTCATC
1 TTTGGGAGCGATATTTTGATTACCCTGGCTTCATC
54355398 CCCTACCCGG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.17, C:0.17, G:0.23, T:0.43
Consensus pattern (35 bp):
TTTGGGAGCGATATTTTGATTACCCTGGCTTCATC
Found at i:54361470 original size:383 final size:383
Alignment explanation
Indices: 54360962--54361729 Score: 1437
Period size: 383 Copynumber: 2.0 Consensus size: 383
54360952 AAAATCATAG
* *
54360962 ATTCAAAAGTCCCAAAGTGATAATTTGATAGTGTGATGGGGTCTCTAACGATTCTCGAATCCGAG
1 ATTCAAAAGTCCCAAACTGATAATTTGATAGTGTGATGAGGTCTCTAACGATTCTCGAATCCGAG
54361027 CTAGCTTTGATTTCACTATAAAACACTGAAAAATAAACGATGTAAGCTATAAAACATAGTAAGTT
66 CTAGCTTTGATTTCACTATAAAACACTGAAAAATAAACGATGTAAGCTATAAAACATAGTAAGTT
* *
54361092 CATATAATAATAAACTTATCTTACCATAAAAATACAATTCAAACAATTTAACATATCATGGTATA
131 CATATAATAATAAACTCATCTTACCATAAAAATACAATCCAAACAATTTAACATATCATGGTATA
54361157 ATTCATAATAATACACAACCTATCACATTTTTATTCACCAAGTTAGCCATGAATTTCATAAATTT
196 ATTCATAATAATACACAACCTATCACATTTTTATTCACCAAGTTAGCCATGAATTTCATAAATTT
*
54361222 TTTCATTTCAAAGCATGTATGGTTCATGTATGTAATATCCCGAATTAGGGCCTAATCGGAATAGT
261 TTTCATTTCAAAGCATGTATGGTTCATGTATGTAATATCCCGAATTAGGGCCTAATCAGAATAGT
*
54361287 GGTTTCGTGACCACAAATCCGAGATAGAAATAATTATTTTATGATTATTTTGAGGTCT
326 GGTTTCGTGACCACAAATCCAAGATAGAAATAATTATTTTATGATTATTTTGAGGTCT
*
54361345 ATTCAAAAGTCCCAAACTGATAATTTGATAGTGTGATGAGGTCTCTGACGATTCTCGAATCCGAG
1 ATTCAAAAGTCCCAAACTGATAATTTGATAGTGTGATGAGGTCTCTAACGATTCTCGAATCCGAG
*
54361410 CTAGCTTTGATTTCACTATAAAACACTGAAAGATAAACGATGTAAGCTATAAAACATAGTAAGTT
66 CTAGCTTTGATTTCACTATAAAACACTGAAAAATAAACGATGTAAGCTATAAAACATAGTAAGTT
54361475 CATATAATAATAAACTCATCTTACCATAAAAATACAATCCAAACAATTTAACATATCATGGTATA
131 CATATAATAATAAACTCATCTTACCATAAAAATACAATCCAAACAATTTAACATATCATGGTATA
54361540 ATTCATAATAATACACAACCTATCACATTTTTATTCACCAAGTTAGCCATGAATTTCATAAATTT
196 ATTCATAATAATACACAACCTATCACATTTTTATTCACCAAGTTAGCCATGAATTTCATAAATTT
*
54361605 TTTCATTTCAAAGCGTGTATGGTTCATGTATGTAATATCCCGAATTAGGGCCTAATCAGAATAGT
261 TTTCATTTCAAAGCATGTATGGTTCATGTATGTAATATCCCGAATTAGGGCCTAATCAGAATAGT
* *
54361670 GGTTTTGTGACCACAAATCTAAGATAGAAATAATTATTTTATGATTATTTTGAGGTCT
326 GGTTTCGTGACCACAAATCCAAGATAGAAATAATTATTTTATGATTATTTTGAGGTCT
54361728 AT
1 AT
54361730 GATATAATTG
Statistics
Matches: 374, Mismatches: 11, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
383 374 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.33
Consensus pattern (383 bp):
ATTCAAAAGTCCCAAACTGATAATTTGATAGTGTGATGAGGTCTCTAACGATTCTCGAATCCGAG
CTAGCTTTGATTTCACTATAAAACACTGAAAAATAAACGATGTAAGCTATAAAACATAGTAAGTT
CATATAATAATAAACTCATCTTACCATAAAAATACAATCCAAACAATTTAACATATCATGGTATA
ATTCATAATAATACACAACCTATCACATTTTTATTCACCAAGTTAGCCATGAATTTCATAAATTT
TTTCATTTCAAAGCATGTATGGTTCATGTATGTAATATCCCGAATTAGGGCCTAATCAGAATAGT
GGTTTCGTGACCACAAATCCAAGATAGAAATAATTATTTTATGATTATTTTGAGGTCT
Found at i:54362813 original size:51 final size:49
Alignment explanation
Indices: 54362690--54362877 Score: 268
Period size: 49 Copynumber: 3.8 Consensus size: 49
54362680 TGAGGTCACG
*
54362690 TGTGCAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
* * * * *
54362739 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCCGAAAACTGTGATCGCG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-T-TGGTCGCA
*
54362790 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
* * *
54362839 TGTGTAGTACTAAGTGCAGTCTACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
54362878 GGTTCGGCTA
Statistics
Matches: 121, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
49 77 0.64
50 2 0.02
51 42 0.35
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
Found at i:54362863 original size:100 final size:100
Alignment explanation
Indices: 54362688--54362872 Score: 334
Period size: 100 Copynumber: 1.9 Consensus size: 100
54362678 TGTGAGGTCA
54362688 CGTGTGCAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACTAAG
1 CGTGTGCAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACTAAG
*
54362753 TGCAGGCTACTATGTGTACCCGAAAACTGTGATCG
66 TGCAGGCTACTATGCGTACCCGAAAACTGTGATCG
* *
54362788 CGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATTGGTCGCATGTGTAGTACTAAG
1 CGTGTGCAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACTAAG
*
54362853 TGCAGTCTACTATGCGTACC
66 TGCAGGCTACTATGCGTACC
54362873 AGATAGGTTC
Statistics
Matches: 81, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
100 81 1.00
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.29
Consensus pattern (100 bp):
CGTGTGCAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACTAAG
TGCAGGCTACTATGCGTACCCGAAAACTGTGATCG
Found at i:54365666 original size:37 final size:37
Alignment explanation
Indices: 54365616--54365689 Score: 130
Period size: 37 Copynumber: 2.0 Consensus size: 37
54365606 GTCATTCATG
* *
54365616 AGGCTCTCAAGAATGTTTTTATATAGATTTTTATTAT
1 AGGCTCTCAAGAATGGTTTTATATAGATTTCTATTAT
54365653 AGGCTCTCAAGAATGGTTTTATATAGATTTCTATTAT
1 AGGCTCTCAAGAATGGTTTTATATAGATTTCTATTAT
54365690 GTTTCAGACT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.30, C:0.09, G:0.15, T:0.46
Consensus pattern (37 bp):
AGGCTCTCAAGAATGGTTTTATATAGATTTCTATTAT
Found at i:54371526 original size:40 final size:40
Alignment explanation
Indices: 54371471--54371727 Score: 315
Period size: 40 Copynumber: 6.5 Consensus size: 40
54371461 TGGATGATAA
* * *
54371471 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
*
54371511 CCGGGCTAAGTCCCGAAGGTATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
54371551 CCGGGCTAAGTCCCG-AGGCATTTGTGTGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
54371590 CCGGGATAAGTCCCGAAGGCATTTGTGCAACTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
54371630 CCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * * * *
54371670 CTGGGCTATGTCCCGAAGGCATTCGAGAGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
54371710 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
54371728 TACTTGGCTG
Statistics
Matches: 190, Mismatches: 24, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
39 52 0.27
40 138 0.73
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:54371603 original size:79 final size:80
Alignment explanation
Indices: 54371471--54371692 Score: 306
Period size: 79 Copynumber: 2.8 Consensus size: 80
54371461 TGGATGATAA
* * *
54371471 CCGGGCTAAGTCCCGAAGGCATTTGCGCT-AGTGACTAGT-TCCGGGCTAAGTCCCGAAGGTATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTG-TGAGTTACTA-TATCCGGGCTAAGTCCCGAAGGCATT
* *
54371534 TGTGCGAGTTACTATAT
64 TGTGCAACTTACTATAT
*
54371551 CCGGGCTAAGTCCCG-AGGCATTTGTGTGAGTTACTATATCCGGGATAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
54371615 TGCAACTTACTATAT
66 TGCAACTTACTATAT
* * * * *
54371630 CCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTATATCTGGGCTATGTCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATT
54371693 CGAGAGAGTA
Statistics
Matches: 127, Mismatches: 12, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
78 2 0.02
79 68 0.54
80 57 0.45
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
TGCAACTTACTATAT
Found at i:54371683 original size:119 final size:120
Alignment explanation
Indices: 54371471--54371727 Score: 333
Period size: 119 Copynumber: 2.2 Consensus size: 120
54371461 TGGATGATAA
* * * * *
54371471 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGTTCCGGGCTAAGTCCCGAAGGTATTTG
1 CCGGGATAAGTCCCGAAGGCATTTGCGCAACTGACTAGTTCCGGGCTAAGTCCCGAAGGCATTGG
* * *
54371536 TGCGAGTTACTATATCCGGGCTAAGTCCCG-AGGCATTTGTGTGAGTTA-CTATAT
66 TGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTCGAGAGAG-TAGCTATAT
* * *
54371590 CCGGGATAAGTCCCGAAGGCATTTGTGCAACTTACTA-TATCCGGGTTAAGTCCCGAAGGCATTG
1 CCGGGATAAGTCCCGAAGGCATTTGCGCAACTGACTAGT-TCCGGGCTAAGTCCCGAAGGCATTG
* *
54371654 GTGCGAGTTACTATATCTGGGCTATGTCCCGAAGGCATTCGAGAGAGTAGCTATAT
65 GTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTCGAGAGAGTAGCTATAT
* *
54371710 CC-GGTTAAATCCCGAAGG
1 CCGGGATAAGTCCCGAAGG
54371728 TACTTGGCTG
Statistics
Matches: 120, Mismatches: 15, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
118 1 0.01
119 99 0.82
120 20 0.17
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (120 bp):
CCGGGATAAGTCCCGAAGGCATTTGCGCAACTGACTAGTTCCGGGCTAAGTCCCGAAGGCATTGG
TGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTCGAGAGAGTAGCTATAT
Found at i:54374110 original size:48 final size:47
Alignment explanation
Indices: 54374036--54374155 Score: 168
Period size: 48 Copynumber: 2.5 Consensus size: 47
54374026 GGAATGAAAA
* *
54374036 AACGTGGTGCTAGGTGGTTATACCATGATTACACATATTGATACATGT
1 AACGTGGTGCTAAGTGGATATACCATGATTACACATATTGATACAT-T
* * * *
54374084 AACGTGGTGCTAAGTGGATATGCCATGGTTACATATATTGATTCATT
1 AACGTGGTGCTAAGTGGATATACCATGATTACACATATTGATACATT
*
54374131 AACGTGGTGCTAAGCGGATATACCA
1 AACGTGGTGCTAAGTGGATATACCA
54374156 CGGTTAAACA
Statistics
Matches: 64, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
47 24 0.38
48 40 0.62
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.32
Consensus pattern (47 bp):
AACGTGGTGCTAAGTGGATATACCATGATTACACATATTGATACATT
Found at i:54374150 original size:47 final size:47
Alignment explanation
Indices: 54374036--54374246 Score: 188
Period size: 47 Copynumber: 4.7 Consensus size: 47
54374026 GGAATGAAAA
* * * * * *
54374036 AACGTGGTGCTAGGTGGTTATACCATGATTACACATATTGATACATGT
1 AACGTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCAT-T
* *
54374084 AACGTGGTGCTAAGTGGATATGCCATGGTTACATATATTGATTCATT
1 AACGTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCATT
* *
54374131 AACGTGGTGCTAAGCGGATATACCACGGTTA-A-ACA-TG------T
1 AACGTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCATT
* * *
54374169 AATGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCAGT
1 AACGTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCATT
* * ** *
54374216 AATGTGGTGCTATGTAAATAAACCACGGTTA
1 AACGTGGTGCTAAGTGGATATACCACGGTTA
54374247 AACATGTAAT
Statistics
Matches: 135, Mismatches: 19, Indels: 19
0.78 0.11 0.11
Matches are distributed among these distances:
38 29 0.21
39 1 0.01
40 2 0.01
41 2 0.01
44 2 0.01
45 2 0.01
46 1 0.01
47 56 0.41
48 40 0.30
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.32
Consensus pattern (47 bp):
AACGTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCATT
Found at i:54374188 original size:38 final size:38
Alignment explanation
Indices: 54374134--54374291 Score: 127
Period size: 38 Copynumber: 3.9 Consensus size: 38
54374124 ATTCATTAAC
*
54374134 GTGGTGCTAAGCGGATATACCACGGTTAAACATGTAAT
1 GTGGTGCTAAGTGGATATACCACGGTTAAACATGTAAT
* *
54374172 GTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCAGTAAT
1 GTGGTGCTAAGTGGATATACCACGGTT--A-A-A--CA-T--GTAAT
* ** *
54374219 GTGGTGCTATGTAAATAAACCACGGTTAAACATGTAAT
1 GTGGTGCTAAGTGGATATACCACGGTTAAACATGTAAT
* * * * *
54374257 GTGGTTCTAAGTGGACATGCCACAGTTATACATGT
1 GTGGTGCTAAGTGGATATACCACGGTTAAACATGT
54374292 TAATTTGAAA
Statistics
Matches: 93, Mismatches: 18, Indels: 18
0.72 0.14 0.14
Matches are distributed among these distances:
38 56 0.60
40 2 0.02
41 2 0.02
42 1 0.01
43 1 0.01
44 2 0.02
45 2 0.02
47 27 0.29
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (38 bp):
GTGGTGCTAAGTGGATATACCACGGTTAAACATGTAAT
Found at i:54374192 original size:85 final size:85
Alignment explanation
Indices: 54374078--54374284 Score: 306
Period size: 85 Copynumber: 2.4 Consensus size: 85
54374068 ACATATTGAT
* * *
54374078 ACATGTAACGTGGTGCTAAGTGGATATGCCATGGTTACATATATTGATTCATTAACGTGGTGCTA
1 ACATGTAATGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCAGTAACGTGGTGCTA
** *
54374143 AGCGGATATACCACGGTTAA
66 AGCAAATAAACCACGGTTAA
*
54374163 ACATGTAATGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCAGTAATGTGGTGCTA
1 ACATGTAATGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCAGTAACGTGGTGCTA
* *
54374228 TGTAAATAAACCACGGTTAA
66 AGCAAATAAACCACGGTTAA
* * *
54374248 ACATGTAATGTGGTTCTAAGTGGACATGCCACAGTTA
1 ACATGTAATGTGGTGCTAAGTGGATATGCCACGGTTA
54374285 TACATGTTAA
Statistics
Matches: 110, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
85 110 1.00
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.31
Consensus pattern (85 bp):
ACATGTAATGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCAGTAACGTGGTGCTA
AGCAAATAAACCACGGTTAA
Found at i:54377574 original size:15 final size:15
Alignment explanation
Indices: 54377529--54377574 Score: 65
Period size: 15 Copynumber: 3.1 Consensus size: 15
54377519 CTGTAAATGA
*
54377529 GATTTCCTTATCATG
1 GATTTCCTTATCTTG
*
54377544 GATTTCTTTATCTTG
1 GATTTCCTTATCTTG
*
54377559 GATTTCCTTATTTTG
1 GATTTCCTTATCTTG
54377574 G
1 G
54377575 GCTTATCAGT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.15, C:0.15, G:0.15, T:0.54
Consensus pattern (15 bp):
GATTTCCTTATCTTG
Found at i:54380470 original size:85 final size:85
Alignment explanation
Indices: 54380368--54380574 Score: 342
Period size: 85 Copynumber: 2.4 Consensus size: 85
54380358 ACATATTGAT
* *
54380368 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGTGCTA
1 ACATGTAACGTGGTGCTAAGTGGATATACCACGGTTACATAGATTGATTCATTAACGTGGTGCTA
54380433 AGTGGATATACCACGGTTAA
66 AGTGGATATACCACGGTTAA
* *
54380453 ACATGTAACGTGGTGCTAAGTGGATATTCCACGGTTACATAGATTGATTCATTAATGTGGTGCTA
1 ACATGTAACGTGGTGCTAAGTGGATATACCACGGTTACATAGATTGATTCATTAACGTGGTGCTA
*
54380518 AGTGGATATACCACGGTTAT
66 AGTGGATATACCACGGTTAA
** *
54380538 ATGTGTAACGTGGTGCTAAGTGGATATACCACAGTTA
1 ACATGTAACGTGGTGCTAAGTGGATATACCACGGTTA
54380575 TACATGTAAC
Statistics
Matches: 114, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
85 114 1.00
ACGTcount: A:0.29, C:0.14, G:0.25, T:0.31
Consensus pattern (85 bp):
ACATGTAACGTGGTGCTAAGTGGATATACCACGGTTACATAGATTGATTCATTAACGTGGTGCTA
AGTGGATATACCACGGTTAA
Found at i:54380471 original size:38 final size:38
Alignment explanation
Indices: 54380420--54380789 Score: 299
Period size: 38 Copynumber: 9.0 Consensus size: 38
54380410 ATTGATTCAT
54380420 TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
1 TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
* *
54380458 TAACGTGGTGCTAAGTGGATATTCCACGGTTACATAGATTG
1 TAACGTGGTGCTAAGTGGATATACCACGGTTA-A-ACA-TG
* * **
54380499 ATTCATTAATGTGGTGCTAAGTGGATATACCACGGTTATATGTG
1 ------TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
* *
54380543 TAACGTGGTGCTAAGTGGATATACCACAGTTATACATG
1 TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
* *
54380581 TAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTG
1 TAACGTGGTGCTAAGTGGATATACCACGGTTA-A-ACA-TG
*
54380622 ATTCATTAACGTGGTTCTAAGTGGATATACCACGGTTAAACATG
1 ------TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
* * * *
54380666 TAACATGGTGCTAAGTGCATATGCCACGGTTACATATATTG
1 TAACGTGGTGCTAAGTGGATATACCACGGTTA-A-ACA-TG
* * *
54380707 ATTCATTAACATGGTGCTAAGTTGATATACCACAGTTAAACATG
1 ------TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
* * * *
54380751 TAACATGGTGCTAAGTGGATATGCCACAGTTATACATG
1 TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
54380789 T
1 T
54380790 TAATTTGAAA
Statistics
Matches: 274, Mismatches: 31, Indels: 54
0.76 0.09 0.15
Matches are distributed among these distances:
38 159 0.58
39 2 0.01
40 6 0.02
41 6 0.02
44 6 0.02
45 5 0.02
46 2 0.01
47 88 0.32
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.31
Consensus pattern (38 bp):
TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
Found at i:54380632 original size:85 final size:85
Alignment explanation
Indices: 54380543--54380782 Score: 408
Period size: 85 Copynumber: 2.8 Consensus size: 85
54380533 GTTATATGTG
* *
54380543 TAACGTGGTGCTAAGTGGATATACCACAGTTATACATGTAACGTGGTGCTAAGTGGATATGCCAC
1 TAACGTGGTGCTAAGTGGATATACCACAGTTAAACATGTAACATGGTGCTAAGTGGATATGCCAC
54380608 GGTTACATATATTGATTCAT
66 GGTTACATATATTGATTCAT
* * *
54380628 TAACGTGGTTCTAAGTGGATATACCACGGTTAAACATGTAACATGGTGCTAAGTGCATATGCCAC
1 TAACGTGGTGCTAAGTGGATATACCACAGTTAAACATGTAACATGGTGCTAAGTGGATATGCCAC
54380693 GGTTACATATATTGATTCAT
66 GGTTACATATATTGATTCAT
* *
54380713 TAACATGGTGCTAAGTTGATATACCACAGTTAAACATGTAACATGGTGCTAAGTGGATATGCCAC
1 TAACGTGGTGCTAAGTGGATATACCACAGTTAAACATGTAACATGGTGCTAAGTGGATATGCCAC
*
54380778 AGTTA
66 GGTTA
54380783 TACATGTTAA
Statistics
Matches: 144, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
85 144 1.00
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (85 bp):
TAACGTGGTGCTAAGTGGATATACCACAGTTAAACATGTAACATGGTGCTAAGTGGATATGCCAC
GGTTACATATATTGATTCAT
Found at i:54380642 original size:123 final size:123
Alignment explanation
Indices: 54380420--54380697 Score: 448
Period size: 123 Copynumber: 2.3 Consensus size: 123
54380410 ATTGATTCAT
*
54380420 TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATGTAACGTGGTGCTAAGTGGATATTCCAC
1 TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATGTAACGTGGTGCTAAGTGGATATGCCAC
* * **
54380485 GGTTACATAGATTGATTCATTAATGTGGTGCTAAGTGGATATACCACGGTTATATGTG
66 GGTTACATAGATTGATTCATTAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
* *
54380543 TAACGTGGTGCTAAGTGGATATACCACAGTTATACATGTAACGTGGTGCTAAGTGGATATGCCAC
1 TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATGTAACGTGGTGCTAAGTGGATATGCCAC
* *
54380608 GGTTACATATATTGATTCATTAACGTGGTTCTAAGTGGATATACCACGGTTAAACATG
66 GGTTACATAGATTGATTCATTAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
* * *
54380666 TAACATGGTGCTAAGTGCATATGCCACGGTTA
1 TAACGTGGTGCTAAGTGGATATACCACGGTTA
54380698 CATATATTGA
Statistics
Matches: 142, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
123 142 1.00
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (123 bp):
TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATGTAACGTGGTGCTAAGTGGATATGCCAC
GGTTACATAGATTGATTCATTAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
Found at i:54380656 original size:208 final size:207
Alignment explanation
Indices: 54380288--54380789 Score: 736
Period size: 208 Copynumber: 2.4 Consensus size: 207
54380278 GAATGAAAAA
*
54380288 AATGTGGTGCTAAGTGGATATACCACTA-TTATACTTGTAACATGGTGCTAACTGGATATACCAC
1 AATGTGGTGCTAAGTGGATATACCAC-AGTTATA-TTGTAACATGGTGCTAAGTGGATAT---AC
*
54380352 GATTACACATATTGATACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATT
61 -----CACA-GTT-ATACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATT
* * *
54380417 CATTAACGTGGTGCTAAGTGGATATACCACGGTTAAACATGTAACGTGGTGCTAAGTGGATATTC
119 CATTAACGTGGTGCTAAGTGGATATACCACGGTTAAACATGTAACATGGTGCTAAGTGCATATGC
54380482 CACGGTTACATAGATTGATTCATT
184 CACGGTTACATAGATTGATTCATT
* *
54380506 AATGTGGTGCTAAGTGGATATACCACGGTTATATGTGTAACGTGGTGCTAAGTGGATATACCACA
1 AATGTGGTGCTAAGTGGATATACCACAGTTATAT-TGTAACATGGTGCTAAGTGGATATACCACA
54380571 GTTATACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGG
65 GTTATACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGG
*
54380636 TTCTAAGTGGATATACCACGGTTAAACATGTAACATGGTGCTAAGTGCATATGCCACGGTTACAT
130 TGCTAAGTGGATATACCACGGTTAAACATGTAACATGGTGCTAAGTGCATATGCCACGGTTACAT
*
54380701 ATATTGATTCATT
195 AGATTGATTCATT
** * * * *
54380714 AACATGGTGCTAAGTTGATATACCACAGTTAAACATGTAACATGGTGCTAAGTGGATATGCCACA
1 AATGTGGTGCTAAGTGGATATACCACAGTTATA-TTGTAACATGGTGCTAAGTGGATATACCACA
54380779 GTTATACATGT
65 GTTATACATGT
54380790 TAATTTGAAA
Statistics
Matches: 264, Mismatches: 17, Indels: 16
0.89 0.06 0.05
Matches are distributed among these distances:
208 202 0.77
209 2 0.01
210 4 0.02
215 2 0.01
217 1 0.00
218 53 0.20
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.32
Consensus pattern (207 bp):
AATGTGGTGCTAAGTGGATATACCACAGTTATATTGTAACATGGTGCTAAGTGGATATACCACAG
TTATACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGT
GCTAAGTGGATATACCACGGTTAAACATGTAACATGGTGCTAAGTGCATATGCCACGGTTACATA
GATTGATTCATT
Found at i:54383675 original size:44 final size:43
Alignment explanation
Indices: 54383563--54383675 Score: 124
Period size: 43 Copynumber: 2.6 Consensus size: 43
54383553 AGCTCGTACA
*
54383563 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATAAAATATCG
1 ATGCCAACGTCCCAGACGGGGTCTTACATGTAATAAAATATCG
* * *
54383606 ATGCC-ACTGTCCCAGACAGGATCTTACATGTAAATCAGAAGT-T-G
1 ATGCCAAC-GTCCCAGACGGGGTCTTACATGT-AAT-A-AAATATCG
*
54383650 ATGCCAACGTCCCAGATGGGGTCTTA
1 ATGCCAACGTCCCAGACGGGGTCTTA
54383676 TACAAAAACA
Statistics
Matches: 58, Mismatches: 7, Indels: 9
0.78 0.09 0.12
Matches are distributed among these distances:
42 2 0.03
43 25 0.43
44 24 0.41
45 4 0.07
46 3 0.05
ACGTcount: A:0.30, C:0.24, G:0.21, T:0.25
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGGGGTCTTACATGTAATAAAATATCG
Found at i:54398128 original size:46 final size:46
Alignment explanation
Indices: 54398075--54398204 Score: 154
Period size: 46 Copynumber: 2.8 Consensus size: 46
54398065 TATTTGGGCC
* *
54398075 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGA-GCG
1 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGA-ACGAGGCA
*** * *
54398121 TCCGAACTCGTTGAGTTGAGTCTGAGTTCGAGAGATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCTGAGTTC-ACTTATGGAACGAGGCA
* *
54398168 TCCGAGCTCATTGAGTTGAGTCTGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGG
54398205 GCGGGTTACA
Statistics
Matches: 69, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
46 35 0.51
47 34 0.49
ACGTcount: A:0.22, C:0.18, G:0.29, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGAACGAGGCA
Found at i:54405805 original size:44 final size:41
Alignment explanation
Indices: 54405732--54405863 Score: 147
Period size: 44 Copynumber: 3.1 Consensus size: 41
54405722 CGATATGTTT
** *
54405732 TTTCGTGTAAGACCACATCTGGGAGATTGGCATCGACTTATGA
1 TTTCGTGTAAGACCATGTCTGGGACATTGGCATCGA-TT-TGA
*
54405775 TTTACGTGTAAGACCATGTCTGGTACATTGGCATCGTATTTGA
1 TTT-CGTGTAAGACCATGTCTGGGACATTGGCATCG-ATTTGA
* * *
54405818 TTTCATGTAAGACCCTGTCTGGGACAGTGGCATCGATAATTGA
1 TTTCGTGTAAGACCATGTCTGGGACATTGGCATCGAT--TTGA
54405861 TTT
1 TTT
54405864 AAGACTATGT
Statistics
Matches: 77, Mismatches: 8, Indels: 8
0.83 0.09 0.09
Matches are distributed among these distances:
41 2 0.03
42 28 0.36
43 16 0.21
44 30 0.39
45 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.24, T:0.34
Consensus pattern (41 bp):
TTTCGTGTAAGACCATGTCTGGGACATTGGCATCGATTTGA
Found at i:54405838 original size:42 final size:43
Alignment explanation
Indices: 54405737--54405864 Score: 143
Period size: 42 Copynumber: 3.0 Consensus size: 43
54405727 TGTTTTTTCG
** * *
54405737 TGTAAGACCACATCTGGGAGATTGGCATCG-ACTTATGATTTACG
1 TGTAAGACCATGTCTGGGACATTGGCATCGTA-TT-TGATTTACA
*
54405781 TGTAAGACCATGTCTGGTACATTGGCATCGTATTTGATTT-CA
1 TGTAAGACCATGTCTGGGACATTGGCATCGTATTTGATTTACA
* * *
54405823 TGTAAGACCCTGTCTGGGACAGTGGCATCGATAATTGATTTA
1 TGTAAGACCATGTCTGGGACATTGGCATCG-TATTTGATTTA
54405865 AGACTATGTC
Statistics
Matches: 72, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
42 28 0.39
43 15 0.21
44 28 0.39
45 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACATTGGCATCGTATTTGATTTACA
Found at i:54407657 original size:15 final size:15
Alignment explanation
Indices: 54407625--54407653 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
54407615 ATTTTCTGTG
54407625 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
54407640 TTTA-TATGTGTGAA
1 TTTATTATGTGTGAA
54407654 ATTTTAGTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:54413341 original size:24 final size:24
Alignment explanation
Indices: 54413309--54413466 Score: 88
Period size: 24 Copynumber: 6.5 Consensus size: 24
54413299 TCGATTTCGT
54413309 ACACATAGTGCTATTCAAATCCGC
1 ACACATAGTGCTATTCAAATCCGC
* * ** * *
54413333 ACACTTAGTGCCACGCTAA-CCTGT
1 ACACATAGTGCTATTCAAATCC-GC
** *
54413357 ACACATAGTGCCT-TAGAAATCCAC
1 ACACATAGTG-CTATTCAAATCCGC
* * *
54413381 ACACTCGTATTGAC-ATTCAAATCAGC
1 ACA--CATAGTG-CTATTCAAATCCGC
*
54413407 ACACATAGTGCTATTCAATTCCGC
1 ACACATAGTGCTATTCAAATCCGC
** *
54413431 GGACATAGTGCCATTCAAAATCCGC
1 ACACATAGTGCTATTC-AAATCCGC
*
54413456 ACACTTAGTGC
1 ACACATAGTGC
54413467 CAATGTCATT
Statistics
Matches: 94, Mismatches: 32, Indels: 15
0.67 0.23 0.11
Matches are distributed among these distances:
23 3 0.03
24 57 0.61
25 18 0.19
26 16 0.17
ACGTcount: A:0.32, C:0.29, G:0.15, T:0.25
Consensus pattern (24 bp):
ACACATAGTGCTATTCAAATCCGC
Found at i:54416832 original size:49 final size:50
Alignment explanation
Indices: 54416752--54416997 Score: 264
Period size: 49 Copynumber: 4.9 Consensus size: 50
54416742 AGCTATTGTG
* * *
54416752 AGGTCACGTGTGTAGTACTAAGTGCAAGCTACTACATGTACCAGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * * *
54416802 -GGTCGCATGTGTAGTACTAAGTGCAAGCTACTATGCGTACCTGATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TT
* * * * * **
54416852 CGATCACGTGTGTAGTACTAAGTGCAGGCTACCACGTGTATCAGATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * *
54416902 AGGTCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTA-CTGAATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAG-ATAATT
* * *
54416952 -GGTCACATGTGTAGTACTAAGTGTAGGCTACTATGCGTACCAGATA
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
54416998 GCTTTGGCTA
Statistics
Matches: 164, Mismatches: 28, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
49 82 0.50
50 46 0.28
51 36 0.22
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Done.