Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D01
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: 62811768
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 736185 characters in sequence are not A, C, G, or T
File 40 of 211
Found at i:10525459 original size:24 final size:21
Alignment explanation
Indices: 10525428--10525476 Score: 71
Period size: 24 Copynumber: 2.2 Consensus size: 21
10525418 GGGCCTCAAT
10525428 TTTTTATTTTATTACTAATATATA
1 TTTTTATTTTATTA-T-AT-TATA
10525452 TTTTTATTTTATTATATTATA
1 TTTTTATTTTATTATATTATA
10525473 TTTT
1 TTTT
10525477 ATAAATTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
21 8 0.32
22 2 0.08
23 1 0.04
24 14 0.56
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (21 bp):
TTTTTATTTTATTATATTATA
Found at i:10527320 original size:16 final size:16
Alignment explanation
Indices: 10527294--10527338 Score: 56
Period size: 17 Copynumber: 2.8 Consensus size: 16
10527284 CTGTGAAATT
10527294 TAATCATTTTATTGAAA
1 TAAT-ATTTTATTGAAA
*
10527311 TAATATTTTAATTGAGA
1 TAATATTTT-ATTGAAA
10527328 TAAT-TTTTATT
1 TAATATTTTATT
10527339 TAATAAATGA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
15 3 0.12
16 9 0.35
17 14 0.54
ACGTcount: A:0.38, C:0.02, G:0.07, T:0.53
Consensus pattern (16 bp):
TAATATTTTATTGAAA
Found at i:10529022 original size:3 final size:3
Alignment explanation
Indices: 10529014--10529049 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
10529004 TTGCAGACAG
10529014 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA
10529050 GTACAATTCA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
TGA
Found at i:10531221 original size:31 final size:31
Alignment explanation
Indices: 10531186--10531246 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
10531176 TATATTATCT
* * *
10531186 GGTACTTGAATTTAGTTTTAATGTTTAATTC
1 GGTACCTGAATTTAATTTTAATGTTCAATTC
10531217 GGTACCTGAATTTAATTTTAATGTTCAATT
1 GGTACCTGAATTTAATTTTAATGTTCAATT
10531247 TGATACTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.28, C:0.08, G:0.15, T:0.49
Consensus pattern (31 bp):
GGTACCTGAATTTAATTTTAATGTTCAATTC
Found at i:10531834 original size:9 final size:9
Alignment explanation
Indices: 10531820--10531851 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
10531810 AAATTTGAAT
10531820 TTCGAGTTA
1 TTCGAGTTA
10531829 TTCGAGTTA
1 TTCGAGTTA
*
10531838 ATCGAGTTA
1 TTCGAGTTA
10531847 TTCGA
1 TTCGA
10531852 ATCAACTCGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.25, C:0.12, G:0.22, T:0.41
Consensus pattern (9 bp):
TTCGAGTTA
Found at i:10531919 original size:9 final size:9
Alignment explanation
Indices: 10531902--10531938 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
10531892 TTGATTTTCG
10531902 AATTCGAAT
1 AATTCGAAT
*
10531911 AACTCGAAT
1 AATTCGAAT
10531920 AATTCGAAT
1 AATTCGAAT
10531929 AATTCGAAT
1 AATTCGAAT
10531938 A
1 A
10531939 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:10532413 original size:21 final size:20
Alignment explanation
Indices: 10532367--10532414 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 20
10532357 CCTTTACTCC
*
10532367 CAAATAAAAAATCAAAATAT
1 CAAATAAAAAATCAAAACAT
10532387 CCAAATAAAAAATCACTAAACAT
1 -CAAATAAAAAATCA--AAACAT
10532410 -AAATA
1 CAAATA
10532415 GTAATAATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
21 19 0.79
23 5 0.21
ACGTcount: A:0.67, C:0.15, G:0.00, T:0.19
Consensus pattern (20 bp):
CAAATAAAAAATCAAAACAT
Found at i:10542590 original size:31 final size:30
Alignment explanation
Indices: 10542533--10542600 Score: 75
Period size: 31 Copynumber: 2.2 Consensus size: 30
10542523 TTGAAATCAA
* *
10542533 ACCAAATTAAAACTAAAAAGATACTTA-AGT
1 ACCAAATTAAAACTAAAAACAAACTTATA-T
* *
10542563 ACCAAATTAAATATTAAAACCAAACTTATAT
1 ACCAAATTAAA-ACTAAAAACAAACTTATAT
10542594 ACCAAAT
1 ACCAAAT
10542601 AGTATATTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
30 11 0.34
31 20 0.62
32 1 0.03
ACGTcount: A:0.56, C:0.16, G:0.03, T:0.25
Consensus pattern (30 bp):
ACCAAATTAAAACTAAAAACAAACTTATAT
Found at i:10546499 original size:137 final size:137
Alignment explanation
Indices: 10546338--10546587 Score: 351
Period size: 139 Copynumber: 1.8 Consensus size: 137
10546328 CCCTTTTCAC
* * *
10546338 TTGTTATTGGTTTACATGTTGTTATTTTATTAAACACAAAAAAAGATTTAAAATAAGATTCTTGA
1 TTGTTATTGGTTTACATGTTGTTATTTCATTAAACAC-AAAAAAGATTTAAAATAAAATTATTGA
*
10546403 -TGTTTCTTTTGAAAATAAAAAACCAGAATT-ACAAAAATTGTATCTTCTACCGAAAATTCTTTT
65 TTGTTTCTTTTCAAAATAAAAAACCAGAATTGA-AAAAATTGTATCTTCTACCGAAAATTCTTTT
10546466 CACTTATTT
129 CACTTATTT
* * * *
10546475 TTGTTTTTGGTTTGCATGTTGTTATTTCATTAAGCACAAAAAATATTTAAAATAAAATTATTGAT
1 TTGTTATTGGTTTACATGTTGTTATTTCATTAAACACAAAAAAGATTTAAAATAAAATTATTGA-
* * *
10546540 TTTTTTTCTTTTCAAAATTAGAAACCAGAATTGAAAAAATTGTATCTT
65 -TTGTTTCTTTTCAAAATAAAAAACCAGAATTGAAAAAATTGTATCTT
10546588 TTACTCTTTT
Statistics
Matches: 98, Mismatches: 11, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
136 24 0.24
137 33 0.34
139 40 0.41
140 1 0.01
ACGTcount: A:0.37, C:0.10, G:0.10, T:0.43
Consensus pattern (137 bp):
TTGTTATTGGTTTACATGTTGTTATTTCATTAAACACAAAAAAGATTTAAAATAAAATTATTGAT
TGTTTCTTTTCAAAATAAAAAACCAGAATTGAAAAAATTGTATCTTCTACCGAAAATTCTTTTCA
CTTATTT
Found at i:10546642 original size:118 final size:120
Alignment explanation
Indices: 10546472--10546700 Score: 324
Period size: 118 Copynumber: 1.9 Consensus size: 120
10546462 TTTTCACTTA
* * *
10546472 TTTTTGTTTTTGGTTTGCATGTTGTTATTTCATTAAGCACAAAAAATATTTAAAATAAAATTATT
1 TTTTTGTTTTTGGTATGCATGTTGTTATTTCATTAAGCACAAAAAAGATTTAAAAGAAAATTATT
* *
10546537 GATTTTTTTTCTTTTCAAAATTAGAAACCAGAATT-GAAAAAATTGTATCTTTTACTC
66 GA--TTTTTT-TTTTCAAAATTAGAAACCAAAATTAAAAAAAATTGTATCTTTTACTC
* *
10546594 TTTTT-TTTTTTGTATGCATGTTGTTATTT-A-TAAGCAC-AAAAAGATTTAAAAGAAAATTCTT
1 TTTTTGTTTTTGGTATGCATGTTGTTATTTCATTAAGCACAAAAAAGATTTAAAAGAAAATTATT
*
10546655 GATTTTTTTTTTGAAAATTAGAAACCAAAATTAAAAAAAATTGTAT
66 GATTTTTTTTTTCAAAATTAGAAACCAAAATTAAAAAAAATTGTAT
10546701 TTTCAGAAAA
Statistics
Matches: 98, Mismatches: 8, Indels: 8
0.86 0.07 0.07
Matches are distributed among these distances:
115 22 0.22
116 18 0.18
118 23 0.23
119 7 0.07
120 1 0.01
121 22 0.22
122 5 0.05
ACGTcount: A:0.37, C:0.07, G:0.10, T:0.45
Consensus pattern (120 bp):
TTTTTGTTTTTGGTATGCATGTTGTTATTTCATTAAGCACAAAAAAGATTTAAAAGAAAATTATT
GATTTTTTTTTTCAAAATTAGAAACCAAAATTAAAAAAAATTGTATCTTTTACTC
Found at i:10561030 original size:3 final size:3
Alignment explanation
Indices: 10561022--10561064 Score: 70
Period size: 3 Copynumber: 14.3 Consensus size: 3
10561012 ATAGTAATGG
10561022 TAA TAA TAA TAA CT-A TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
10561065 TAAAAAATAT
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
2 1 0.03
3 36 0.95
4 1 0.03
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:10563161 original size:21 final size:21
Alignment explanation
Indices: 10563131--10563170 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
10563121 CTTCTGAGAG
10563131 CTAAACTCCAAATTCCAAAAT
1 CTAAACTCCAAATTCCAAAAT
* *
10563152 CTAAATTCCAAATTTCAAA
1 CTAAACTCCAAATTCCAAA
10563171 GTGCCATTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.47, C:0.25, G:0.00, T:0.28
Consensus pattern (21 bp):
CTAAACTCCAAATTCCAAAAT
Found at i:10564470 original size:20 final size:20
Alignment explanation
Indices: 10564429--10564473 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
10564419 ATTTATACAG
* *
10564429 TTCATGATTTGACTCTATTA
1 TTCATGACTTGACTCTACTA
10564449 TTCATGACTTGAC-CTCACTA
1 TTCATGACTTGACTCT-ACTA
10564469 TTCAT
1 TTCAT
10564474 AGGATTGAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 2 0.09
20 20 0.91
ACGTcount: A:0.24, C:0.22, G:0.09, T:0.44
Consensus pattern (20 bp):
TTCATGACTTGACTCTACTA
Found at i:10575116 original size:3 final size:3
Alignment explanation
Indices: 10575108--10575141 Score: 59
Period size: 3 Copynumber: 11.0 Consensus size: 3
10575098 AAGCAAAAAT
10575108 GAA GAA GAA GAA GAA GAA GAA GAA GCAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA G-AA GAA GAA
10575142 AACTACGTGA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 27 0.90
4 3 0.10
ACGTcount: A:0.65, C:0.03, G:0.32, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:10575957 original size:3 final size:3
Alignment explanation
Indices: 10575949--10575976 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
10575939 AAATTAGTTA
10575949 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
10575977 TTAAAATTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:10580638 original size:32 final size:31
Alignment explanation
Indices: 10580568--10580643 Score: 77
Period size: 32 Copynumber: 2.5 Consensus size: 31
10580558 TTATCGTTTC
*
10580568 TTCATA-AACATATATCATTCATTTCATTAT
1 TTCATATAACATATACCATTCATTTCATTAT
* *
10580598 ATCAATATATCATATACCA-TCATTTCCATGTAT
1 TTC-ATATAACATATACCATTCATTT-CAT-TAT
10580631 TTCATATAA-ATAT
1 TTCATATAACATAT
10580644 CAAGAAACAT
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
30 2 0.05
31 13 0.35
32 17 0.46
33 5 0.14
ACGTcount: A:0.38, C:0.17, G:0.01, T:0.43
Consensus pattern (31 bp):
TTCATATAACATATACCATTCATTTCATTAT
Found at i:10585809 original size:11 final size:10
Alignment explanation
Indices: 10585788--10585822 Score: 61
Period size: 10 Copynumber: 3.4 Consensus size: 10
10585778 AGTATGAAAC
10585788 AATAGAAAAA
1 AATAGAAAAA
10585798 AATAGAAAAA
1 AATAGAAAAA
10585808 AATAGAAAAA
1 AATAGAAAAA
10585818 TAATA
1 -AATA
10585823 TTGTAATGCA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 20 0.83
11 4 0.17
ACGTcount: A:0.77, C:0.00, G:0.09, T:0.14
Consensus pattern (10 bp):
AATAGAAAAA
Found at i:10589021 original size:44 final size:44
Alignment explanation
Indices: 10588900--10589407 Score: 275
Period size: 44 Copynumber: 10.9 Consensus size: 44
10588890 CATCGTGGCG
* * * * * **
10588900 AATCTTATCTCCCTGCAGTTGTAGT-GAAGTAGATTAAAGCCACA
1 AATCTTATTTCCCTGAAGTTGCAGTGGAA-CAGATTGAAGCTTCA
* * ** *
10588944 AATCTTATCTCCCT-AGTGTTATAGTGGAGCAGATTGAAGCTTCA
1 AATCTTATTTCCCTGA-AGTTGCAGTGGAACAGATTGAAGCTTCA
* * * *
10588988 AATCTTATTTCCCTAAAGTTGCAATGGAACAGATTAAAACTACAAGTTACA
1 AATCTTATTTCCCTGAAGTTGCAGTGGAACAGATT-GAA--GC---TT-CA
* * *
10589039 AATCTTATCTCCCTGAAGTCGCAGTGGAGCAGATTGAAGCTTCA
1 AATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTTCA
* * * * *
10589083 AATTTTATTTCCCTAAAGTTGCAGTGGAACAAATTAAAACTACAAGTTACA
1 AATCTTATTTCCCTGAAGTTGCAGTGGAACAGATT-GAA--GC---TT-CA
* * * * * * *
10589134 AATTTTATTTTCCTGATGTTGCAATGGAGCATATTGAAGTTTCA
1 AATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTTCA
* *
10589178 AATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTTTA
1 AATCTTATTTCCCTGAAGTTGCAGTGGAACAGATT---G----AAGCTTCA
* * * *
10589229 AATCTTATCTCCCTCAAGTTGCAGT-GAAGCAGATTGAAACTACA
1 AATCTTATTTCCCTGAAGTTGCAGTGGAA-CAGATTGAAGCTTCA
* * * *
10589273 AATCTTATTTTCCTGAGGTTGTAGTGGAACAGATTAAAGCTACAAGTTACA
1 AATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAG---C---TT-CA
* ** *
10589324 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGCTACA
1 AATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTTCA
* * * *
10589368 AGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGC
1 AATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGC
10589408 AACAAATCCT
Statistics
Matches: 359, Mismatches: 72, Indels: 66
0.72 0.14 0.13
Matches are distributed among these distances:
44 192 0.53
45 15 0.04
47 4 0.01
48 3 0.01
50 12 0.03
51 133 0.37
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.32
Consensus pattern (44 bp):
AATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTTCA
Found at i:10589069 original size:95 final size:95
Alignment explanation
Indices: 10588941--10589402 Score: 611
Period size: 95 Copynumber: 4.9 Consensus size: 95
10588931 GATTAAAGCC
* ** *
10588941 ACAAATCTTATCTCCCT-AGTGTTATAGTGGAGCAGATTGAAGCTTCAAATCTTATTTCCCTAAA
1 ACAAATCTTATCTCCCTGA-AGTTGCAGTGGAGCAGATTGAAGCTTCAAATCTTATTTCCCTGAA
*
10589005 GTTGCAATGGAACAGATTAAAACTACAAGTT
65 GTTGCAGTGGAACAGATTAAAACTACAAGTT
* * *
10589036 ACAAATCTTATCTCCCTGAAGTCGCAGTGGAGCAGATTGAAGCTTCAAATTTTATTTCCCTAAAG
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTTCAAATCTTATTTCCCTGAAG
*
10589101 TTGCAGTGGAACAAATTAAAACTACAAGTT
66 TTGCAGTGGAACAGATTAAAACTACAAGTT
* * * * * * *
10589131 ACAAATTTTATTTTCCTGATGTTGCAATGGAGCATATTGAAGTTTCAAATCTTATTTCCCTGAAG
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTTCAAATCTTATTTCCCTGAAG
*
10589196 TTGCAGTGGAACAGATTAAAGCTACAAGTT
66 TTGCAGTGGAACAGATTAAAACTACAAGTT
** * * * * * *
10589226 TTAAATCTTATCTCCCTCAAGTTGCAGTGAAGCAGATTGAAACTACAAATCTTATTTTCCTGAGG
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTTCAAATCTTATTTCCCTGAAG
* *
10589291 TTGTAGTGGAACAGATTAAAGCTACAAGTT
66 TTGCAGTGGAACAGATTAAAACTACAAGTT
* * * *
10589321 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGCTACAAGTCTTATCTCCCTGAAG
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTTCAAATCTTATTTCCCTGAAG
* *
10589386 TTGTAGTGGAGCAGATT
66 TTGCAGTGGAACAGATT
10589403 GAAGCAACAA
Statistics
Matches: 320, Mismatches: 46, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
95 319 1.00
96 1 0.00
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.32
Consensus pattern (95 bp):
ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTTCAAATCTTATTTCCCTGAAG
TTGCAGTGGAACAGATTAAAACTACAAGTT
Found at i:10589072 original size:51 final size:51
Alignment explanation
Indices: 10588986--10589370 Score: 310
Period size: 51 Copynumber: 8.0 Consensus size: 51
10588976 ATTGAAGCTT
* *
10588986 CAAATCTTATTTCCCTAAAGTTGCAATGGAACAGATTAAAACTACAAGTTA
1 CAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAACTACAAGTTA
* * * * *
10589037 CAAATCTTATCTCCCTGAAGTCGCAGTGGAGCAGATT-GAA--GC---TT-
1 CAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAACTACAAGTTA
* * *
10589081 CAAATTTTATTTCCCTAAAGTTGCAGTGGAACAAATTAAAACTACAAGTTA
1 CAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAACTACAAGTTA
* * * * * ** *
10589132 CAAATTTTATTTTCCTGATGTTGCAATGGAGC--A-T---A-TTGAAGTTT
1 CAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAACTACAAGTTA
* *
10589176 CAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTT
1 CAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAACTACAAGTTA
* * * *
10589227 TAAATCTTATCTCCCTCAAGTTGCAGT-GAAGCAGATT-GAA--AC----TA
1 CAAATCTTATTTCCCTGAAGTTGCAGTGGAA-CAGATTAAAACTACAAGTTA
* * * *
10589271 CAAATCTTATTTTCCTGAGGTTGTAGTGGAACAGATTAAAGCTACAAGTTA
1 CAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAACTACAAGTTA
* ** * *
10589322 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGCTACAAGT
1 CAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAACTACAAGT
10589371 CTTATCTCCC
Statistics
Matches: 259, Mismatches: 52, Indels: 46
0.73 0.15 0.13
Matches are distributed among these distances:
44 92 0.36
45 9 0.03
46 1 0.00
47 4 0.02
48 4 0.02
49 1 0.00
50 8 0.03
51 140 0.54
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Consensus pattern (51 bp):
CAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAACTACAAGTTA
Found at i:10589429 original size:44 final size:44
Alignment explanation
Indices: 10589321--10589436 Score: 133
Period size: 44 Copynumber: 2.6 Consensus size: 44
10589311 GCTACAAGTT
* * * * * *
10589321 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGCT
1 ACAAATCCTATATCCATGAAGTTGTAGTGGAGCAGATTGAAGCA
* * * *
10589365 ACAAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGCA
1 ACAAATCCTATATCCATGAAGTTGTAGTGGAGCAGATTGAAGCA
*
10589409 ACAAATCCTATATCTATGAAGTTGTAGT
1 ACAAATCCTATATCCATGAAGTTGTAGT
10589437 AGGTTAAAAT
Statistics
Matches: 63, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 63 1.00
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.30
Consensus pattern (44 bp):
ACAAATCCTATATCCATGAAGTTGTAGTGGAGCAGATTGAAGCA
Found at i:10590957 original size:4 final size:4
Alignment explanation
Indices: 10590948--10591037 Score: 62
Period size: 4 Copynumber: 22.8 Consensus size: 4
10590938 ACTATTTCCT
* * *
10590948 TTTA TTTA TTTA -TTA TTCCT- TTTA TTTTA TTCA TTTA CTTA CTTA TTTA
1 TTTA TTTA TTTA TTTA TT--TA TTTA -TTTA TTTA TTTA TTTA TTTA TTTA
* * * *
10590997 CTTA TTTA TTTA TATA -TTA TTCA TTTA TTTA CTT- TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
10591038 TAATTCCTTT
Statistics
Matches: 67, Mismatches: 12, Indels: 14
0.72 0.13 0.15
Matches are distributed among these distances:
3 8 0.12
4 52 0.78
5 6 0.09
6 1 0.01
ACGTcount: A:0.23, C:0.09, G:0.00, T:0.68
Consensus pattern (4 bp):
TTTA
Found at i:10591056 original size:22 final size:21
Alignment explanation
Indices: 10591031--10591087 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 21
10591021 TTATTTACTT
*
10591031 TTTATTTTAATTCCTTTATTCC
1 TTTATTTTAATTCCTTCATT-C
* *
10591053 TTTATTTTTTATTCCTTCATTT
1 TTTA-TTTTAATTCCTTCATTC
10591075 TTTATATTTAATT
1 TTTAT-TTTAATT
10591088 TTTTCTTTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
21 1 0.03
22 14 0.48
23 14 0.48
ACGTcount: A:0.19, C:0.12, G:0.00, T:0.68
Consensus pattern (21 bp):
TTTATTTTAATTCCTTCATTC
Found at i:10591065 original size:15 final size:15
Alignment explanation
Indices: 10591045--10591079 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
10591035 TTTTAATTCC
*
10591045 TTTATTCCTTTATTT
1 TTTATTCCTTCATTT
10591060 TTTATTCCTTCATTT
1 TTTATTCCTTCATTT
10591075 TTTAT
1 TTTAT
10591080 ATTTAATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.71
Consensus pattern (15 bp):
TTTATTCCTTCATTT
Found at i:10598322 original size:31 final size:31
Alignment explanation
Indices: 10598287--10598349 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
10598277 ACATAACTTC
* * *
10598287 TTAACATTTTTCATTCACTCTCTATTAATAA
1 TTAACATGTTTCATCCACTCTCTATCAATAA
10598318 TTAACATGTTTCATCCACTCTCTATCAATAA
1 TTAACATGTTTCATCCACTCTCTATCAATAA
10598349 T
1 T
10598350 CATCAAATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.32, C:0.22, G:0.02, T:0.44
Consensus pattern (31 bp):
TTAACATGTTTCATCCACTCTCTATCAATAA
Found at i:10598384 original size:16 final size:17
Alignment explanation
Indices: 10598357--10598398 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
10598347 AATCATCAAA
*
10598357 TTTTTATATTAA-ATATT
1 TTTTTAT-TTAATATAAT
10598374 TTTTTATTTAATATAAT
1 TTTTTATTTAATATAAT
10598391 TTTTTATT
1 TTTTTATT
10598399 CAAAAGAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 4 0.17
17 19 0.83
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
TTTTTATTTAATATAAT
Found at i:10608661 original size:21 final size:22
Alignment explanation
Indices: 10608635--10608681 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
10608625 CTCTGCTCAA
*
10608635 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
10608656 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
10608678 ACTC
1 ACTC
10608682 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:10631126 original size:107 final size:109
Alignment explanation
Indices: 10630968--10631246 Score: 436
Period size: 115 Copynumber: 2.5 Consensus size: 109
10630958 GTCCAACGAG
*
10630968 AAATCGAAACCCAGTACATTAGGGCACGTTTTCTCGAATTTCCAAACGCAAAACATTGCC-TT-A
1 AAATCGAAACCCAGCACATTAGGGCACGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTTAA
10631031 TTTTAAAATTTTAAAAGGATATTTGGCTATTTGGTCGAACAAGA
66 TTTTAAAATTTTAAAAGGATATTTGGCTATTTGGTCGAACAAGA
*
10631075 AAATCGAAACCCAGCACATTAGGGCACGTTTTCTCGAATTTCCAAATGCAAAACATTGCCTTATT
1 AAATCGAAACCCAGCACATTAGGGCACGTTTTCTCGAATTTCCAAACGCAAAACATTGCC----T
*
10631140 TTAAAATTTTAAAATTTTAAAAGGATATTTGGCTATTTGGTCGAACGAGA
62 TT--AATTTTAAAATTTTAAAAGGATATTTGGCTATTTGGTCGAACAAGA
* * *
10631190 AAATCGAAACCTAGCACATTAGGGCACGGTTCCTCGAATTTCCAAACGCAAAACATT
1 AAATCGAAACCCAGCACATTAGGGCACGTTTTCTCGAATTTCCAAACGCAAAACATT
10631247 TAAAACTGTG
Statistics
Matches: 157, Mismatches: 7, Indels: 8
0.91 0.04 0.05
Matches are distributed among these distances:
107 58 0.37
112 2 0.01
115 97 0.62
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.29
Consensus pattern (109 bp):
AAATCGAAACCCAGCACATTAGGGCACGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTTAA
TTTTAAAATTTTAAAAGGATATTTGGCTATTTGGTCGAACAAGA
Found at i:10631150 original size:8 final size:8
Alignment explanation
Indices: 10631137--10631161 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
10631127 ACATTGCCTT
10631137 ATTTTAAA
1 ATTTTAAA
10631145 ATTTTAAA
1 ATTTTAAA
10631153 ATTTTAAA
1 ATTTTAAA
10631161 A
1 A
10631162 GGATATTTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (8 bp):
ATTTTAAA
Found at i:10633105 original size:17 final size:17
Alignment explanation
Indices: 10633072--10633105 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
10633062 TTGTGTTTTG
*
10633072 TGCAAAAAGGGCTAAAT
1 TGCAAAAAGGGCAAAAT
*
10633089 TGCAAAAAGTGCAAAAT
1 TGCAAAAAGGGCAAAAT
10633106 GTTAGGGGCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.50, C:0.12, G:0.21, T:0.18
Consensus pattern (17 bp):
TGCAAAAAGGGCAAAAT
Found at i:10634099 original size:41 final size:41
Alignment explanation
Indices: 10634037--10634145 Score: 146
Period size: 41 Copynumber: 2.7 Consensus size: 41
10634027 TGATCGAATG
* *
10634037 TAATACAGACTTTACGTCTAGCAGGCTTGATGCCGATGAAA
1 TAATTCAGACTTTACGTCTAGCAGGCTTAATGCCGATGAAA
* *
10634078 TAATTCAGACTTTACGTCTAGCAGGCTTAATGCCGGTGATA
1 TAATTCAGACTTTACGTCTAGCAGGCTTAATGCCGATGAAA
* * * *
10634119 CATTTCAGACTATAGGTCTAGCAGGCT
1 TAATTCAGACTTTACGTCTAGCAGGCT
10634146 AAAAGCCGGT
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 60 1.00
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.29
Consensus pattern (41 bp):
TAATTCAGACTTTACGTCTAGCAGGCTTAATGCCGATGAAA
Found at i:10634523 original size:20 final size:20
Alignment explanation
Indices: 10634498--10634569 Score: 72
Period size: 20 Copynumber: 3.4 Consensus size: 20
10634488 ATATGATGAA
10634498 TATGTATATATATTCGAATG
1 TATGTATATATATTCGAATG
*
10634518 TATGTATTAGCTATGTATTCGAATA
1 TATGTA-TA--TA--TATTCGAATG
* *
10634543 TGTATATATATATTCGAATG
1 TATGTATATATATTCGAATG
10634563 TATGTAT
1 TATGTAT
10634570 TAGCTATGTA
Statistics
Matches: 41, Mismatches: 6, Indels: 10
0.72 0.11 0.18
Matches are distributed among these distances:
20 20 0.49
21 2 0.05
22 2 0.05
23 2 0.05
24 2 0.05
25 13 0.32
ACGTcount: A:0.33, C:0.06, G:0.15, T:0.46
Consensus pattern (20 bp):
TATGTATATATATTCGAATG
Found at i:10634551 original size:45 final size:43
Alignment explanation
Indices: 10634495--10634582 Score: 158
Period size: 45 Copynumber: 2.0 Consensus size: 43
10634485 TGTATATGAT
10634495 GAATATGTATATATATTCGAATGTATGTATTAGCTATGTATTC
1 GAATATGTATATATATTCGAATGTATGTATTAGCTATGTATTC
10634538 GAATATGTATATATATATTCGAATGTATGTATTAGCTATGTATTC
1 GAATATG--TATATATATTCGAATGTATGTATTAGCTATGTATTC
10634583 AGGTATAAAT
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
43 7 0.16
45 36 0.84
ACGTcount: A:0.33, C:0.07, G:0.16, T:0.44
Consensus pattern (43 bp):
GAATATGTATATATATTCGAATGTATGTATTAGCTATGTATTC
Found at i:10635032 original size:17 final size:18
Alignment explanation
Indices: 10635005--10635038 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
10634995 ATTTTGATTG
*
10635005 TAAATTATTTATTATTTA
1 TAAATTATTTATCATTTA
10635023 TAAA-TATTTATCATTT
1 TAAATTATTTATCATTT
10635039 CAAAAATACA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (18 bp):
TAAATTATTTATCATTTA
Found at i:10643416 original size:100 final size:100
Alignment explanation
Indices: 10643077--10643783 Score: 967
Period size: 100 Copynumber: 7.1 Consensus size: 100
10643067 AAACCATAGT
* * *
10643077 TTGCAATT-AAAAGATTGAGGCCACCATGGCGAATCTTACTT-CCAGGGCGGTGCAGTGGAACAG
1 TTGCAATTAAAAAGATTGAGGCCACAACGGTGAATCTTACTTCCCA-GGCGGTGCAGTGGAACAG
* *
10643140 ATTGAAGCTACAATGGCGAATCTTGCTTCCCCGACA
65 ATTGAAGCTACAATAGCGAATCTTACTTCCCCGACA
* *
10643176 TTACAATTAAAAAGATTGAGGCCACAATGGTGAATCTTACTTCCCAGGCGGTGCAGTGGAACAG-
1 TTGCAATTAAAAAGATTGAGGCCACAACGGTGAATCTTACTTCCCAGGCGGTGCAGTGGAACAGA
* * * ** *
10643240 TTAAAGCTACAACAGTGAAAATTACTTCCCCAACA
66 TTGAAGCTACAATAGCGAATCTTACTTCCCCGACA
* *
10643275 TTGCAATTAAAAAGATTGAGGCCACAATGGTGAATCTTACTTCCCAGGCGGTGTAGTGGAACAGA
1 TTGCAATTAAAAAGATTGAGGCCACAACGGTGAATCTTACTTCCCAGGCGGTGCAGTGGAACAGA
10643340 TTGAAGCTACAATAGCGAATCTTACTTCCCCGACA
66 TTGAAGCTACAATAGCGAATCTTACTTCCCCGACA
* * **
10643375 TTGCAATTAAAAAGATTGAGGCTACAACGGTGAATCTTACTTCCTAGGCGGTGCAACGGAACAGA
1 TTGCAATTAAAAAGATTGAGGCCACAACGGTGAATCTTACTTCCCAGGCGGTGCAGTGGAACAGA
* * *
10643440 TTGAAACTACAACAGCGAATCTTACTTCCCCGATA
66 TTGAAGCTACAATAGCGAATCTTACTTCCCCGACA
* *
10643475 TTGCAATTAAAAAGATTGAGGCCACAACGGCGAATCTTACTTCCCAGGCGGTGCAGCGGAACAGA
1 TTGCAATTAAAAAGATTGAGGCCACAACGGTGAATCTTACTTCCCAGGCGGTGCAGTGGAACAGA
* *
10643540 TTGAAGCTACAATGGCGAATCTTGCTTCCCCGACA
66 TTGAAGCTACAATAGCGAATCTTACTTCCCCGACA
* **
10643575 TTGCAATTAAAAAGATTGAGGCCACAACGGTGAATCTTACTTCCCAGACGGTGCAGCAGAACAGA
1 TTGCAATTAAAAAGATTGAGGCCACAACGGTGAATCTTACTTCCCAGGCGGTGCAGTGGAACAGA
* * *
10643640 TTGAAGCTACGA-CGTCGAATCTTGC-TCCCTCGACA
66 TTGAAGCTACAATAG-CGAATCTTACTTCCC-CGACA
* ** * * * * *
10643675 TTGTAATT-AAAAGATTGAGGCCACAACGGCAAACCTTACCTCCCAGGCAGTGTAGTGGAATAGA
1 TTGCAATTAAAAAGATTGAGGCCACAACGGTGAATCTTACTTCCCAGGCGGTGCAGTGGAACAGA
*
10643739 TTGAAGCTACAATAGTGAATCTTACTTCCCCGACA
66 TTGAAGCTACAATAGCGAATCTTACTTCCCCGACA
*
10643774 TTGCAGTTAA
1 TTGCAATTAA
10643784 TTAGACTGAA
Statistics
Matches: 541, Mismatches: 59, Indels: 15
0.88 0.10 0.02
Matches are distributed among these distances:
99 177 0.33
100 361 0.67
101 3 0.01
ACGTcount: A:0.32, C:0.23, G:0.22, T:0.23
Consensus pattern (100 bp):
TTGCAATTAAAAAGATTGAGGCCACAACGGTGAATCTTACTTCCCAGGCGGTGCAGTGGAACAGA
TTGAAGCTACAATAGCGAATCTTACTTCCCCGACA
Found at i:10643763 original size:50 final size:50
Alignment explanation
Indices: 10643107--10643778 Score: 393
Period size: 50 Copynumber: 13.5 Consensus size: 50
10643097 CCACCATGGC
* * * * * *
10643107 GAATCTTACTT-CCAGGGCGGTGCAGTGGAACAGATTGAAGCTACAATGGC
1 GAATCTTACTTCCCA-GACAGTGCAATGGAAAAGATTGAAGCTACAACGGT
* * * * ** * * *
10643157 GAATCTTGCTTCCCCGACATTACAATTAAAAAGATTGAGGCCACAATGGT
1 GAATCTTACTTCCCAGACAGTGCAATGGAAAAGATTGAAGCTACAACGGT
* * * * * *
10643207 GAATCTTACTTCCCAGGCGGTGCAGTGGAACAG-TTAAAGCTACAACAGT
1 GAATCTTACTTCCCAGACAGTGCAATGGAAAAGATTGAAGCTACAACGGT
** * ** * * *
10643256 GAAAATTACTTCCCCA-ACATTGCAATTAAAAAGATTGAGGCCACAATGGT
1 GAATCTTACTT-CCCAGACAGTGCAATGGAAAAGATTGAAGCTACAACGGT
* * * * * ** *
10643306 GAATCTTACTTCCCAGGCGGTGTAGTGGAACAGATTGAAGCTACAATAGC
1 GAATCTTACTTCCCAGACAGTGCAATGGAAAAGATTGAAGCTACAACGGT
* * ** *
10643356 GAATCTTACTTCCCCGACATTGCAATTAAAAAGATTGAGGCTACAACGGT
1 GAATCTTACTTCCCAGACAGTGCAATGGAAAAGATTGAAGCTACAACGGT
* * * * * * * *
10643406 GAATCTTACTTCCTAGGCGGTGCAACGGAACAGATTGAAACTACAACAGC
1 GAATCTTACTTCCCAGACAGTGCAATGGAAAAGATTGAAGCTACAACGGT
* * * ** * * *
10643456 GAATCTTACTTCCCCGATATTGCAATTAAAAAGATTGAGGCCACAACGGC
1 GAATCTTACTTCCCAGACAGTGCAATGGAAAAGATTGAAGCTACAACGGT
* * ** * * *
10643506 GAATCTTACTTCCCAGGCGGTGCAGCGGAACAGATTGAAGCTACAATGGC
1 GAATCTTACTTCCCAGACAGTGCAATGGAAAAGATTGAAGCTACAACGGT
* * * ** * *
10643556 GAATCTTGCTTCCCCGACATTGCAATTAAAAAGATTGAGGCCACAACGGT
1 GAATCTTACTTCCCAGACAGTGCAATGGAAAAGATTGAAGCTACAACGGT
* *** * *
10643606 GAATCTTACTTCCCAGACGGTGCAGCAGAACAGATTGAAGCTACGAC-GT
1 GAATCTTACTTCCCAGACAGTGCAATGGAAAAGATTGAAGCTACAACGGT
* * * * * * * *
10643655 CGAATCTTGC-TCCCTCGACATTGTAAT-TAAAAGATTGAGGCCACAACGGC
1 -GAATCTTACTTCCC-AGACAGTGCAATGGAAAAGATTGAAGCTACAACGGT
* * * * * * * **
10643705 AAACCTTACCTCCCAGGCAGTGTAGTGGAATAGATTGAAGCTACAATAGT
1 GAATCTTACTTCCCAGACAGTGCAATGGAAAAGATTGAAGCTACAACGGT
* *
10643755 GAATCTTACTTCCCCGACATTGCA
1 GAATCTTACTTCCCAGACAGTGCA
10643779 GTTAATTAGA
Statistics
Matches: 444, Mismatches: 169, Indels: 18
0.70 0.27 0.03
Matches are distributed among these distances:
49 69 0.16
50 373 0.84
51 2 0.00
ACGTcount: A:0.32, C:0.23, G:0.22, T:0.23
Consensus pattern (50 bp):
GAATCTTACTTCCCAGACAGTGCAATGGAAAAGATTGAAGCTACAACGGT
Found at i:10643898 original size:89 final size:89
Alignment explanation
Indices: 10643786--10644023 Score: 361
Period size: 89 Copynumber: 2.7 Consensus size: 89
10643776 GCAGTTAATT
* *
10643786 AGACTGAAGATAGCAGATCTTGCCTTCGTGTACTGATGGCGAAGCAGATCAAAGACACCAGCCTT
1 AGACTGAAGATAGCAGATATTGCCTTCCTGTACTGATGGCGAAGCAGATCAAAGACACCAGCCTT
* * *
10643851 GCCTTTCTATACTGACAGTAGAGC
66 ACCTTCCTATACTGACAGCAGAGC
* *
10643875 AGACTGAAGATAGCAGATATTGCCTTCCTATACTGATGGCGAAGCAGATCAAAGACACAAGCCTT
1 AGACTGAAGATAGCAGATATTGCCTTCCTGTACTGATGGCGAAGCAGATCAAAGACACCAGCCTT
* *
10643940 ACCTTCCTGTACTGACAGCGGAGC
66 ACCTTCCTATACTGACAGCAGAGC
* *
10643964 AGACTGAAGATAGCAGATTTTGCCTTCTTGTACTGACT-GCGAAGCAGATCAAAGACACCA
1 AGACTGAAGATAGCAGATATTGCCTTCCTGTACTGA-TGGCGAAGCAGATCAAAGACACCA
10644024 TAGTTTACAG
Statistics
Matches: 135, Mismatches: 13, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
89 134 0.99
90 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.23, T:0.23
Consensus pattern (89 bp):
AGACTGAAGATAGCAGATATTGCCTTCCTGTACTGATGGCGAAGCAGATCAAAGACACCAGCCTT
ACCTTCCTATACTGACAGCAGAGC
Found at i:10643921 original size:45 final size:45
Alignment explanation
Indices: 10643786--10644011 Score: 169
Period size: 45 Copynumber: 5.1 Consensus size: 45
10643776 GCAGTTAATT
* *
10643786 AGACTGAAGATAGCAGATCTTGCCTTCGTGTACTGATGGCGAAGC
1 AGACTGAAGATAGCAGATCTTGCCTTCCTGTACTGATAGCGAAGC
* * * * * * * *
10643831 AGA-TCAAAGACACCAG-CCTTGCCTTTCTATACTGACAG-TAGAGC
1 AGACT-GAAGATAGCAGATCTTGCCTTCCTGTACTGATAGCGA-AGC
* * *
10643875 AGACTGAAGATAGCAGATATTGCCTTCCTATACTGATGGCGAAGC
1 AGACTGAAGATAGCAGATCTTGCCTTCCTGTACTGATAGCGAAGC
* * * * * *
10643920 AGA-TCAAAGACA-CA-AGCCTTACCTTCCTGTACTGACAGCGGAGC
1 AGACT-GAAGATAGCAGA-TCTTGCCTTCCTGTACTGATAGCGAAGC
* *
10643964 AGACTGAAGATAGCAGATTTTGCCTTCTTGTACTGACT-GCGAAGC
1 AGACTGAAGATAGCAGATCTTGCCTTCCTGTACTGA-TAGCGAAGC
10644009 AGA
1 AGA
10644012 TCAAAGACAC
Statistics
Matches: 134, Mismatches: 36, Indels: 22
0.70 0.19 0.11
Matches are distributed among these distances:
43 2 0.01
44 63 0.47
45 67 0.50
46 2 0.01
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.23
Consensus pattern (45 bp):
AGACTGAAGATAGCAGATCTTGCCTTCCTGTACTGATAGCGAAGC
Found at i:10644307 original size:132 final size:131
Alignment explanation
Indices: 10644062--10644400 Score: 480
Period size: 132 Copynumber: 2.6 Consensus size: 131
10644052 GCAAATCTTA
* * * * *
10644062 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATATTATATTCCCAATATAGTGGAGAA
1 TCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATCTTCACAA-ATAGTAGAGAA
* *
10644127 GCAGATTTAAGCAATTAGTCCTATCTCCCTAAGGAGTAGCGGAATAGGTTGAACATTACAAATTC
65 GCAGATTTAAGCAATTAGTCCTATCTCCCTAAGCAGCAGCGGAATAGGTTGAACATTACAAATTC
10644192 TG
130 TG
10644194 TCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATCTTCACAAGATAGTAGAGAA
1 TCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATCTTCACAA-ATAGTAGAGAA
* * * * * * *
10644259 GCAGATTTAAGCCATTAGTCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGCAAATTT
65 GCAGATTTAAGCAATTAGTCCTATCTCCCTAAGCAGCAGCGGAATAGGTTGAACATTACAAATTC
10644324 TG
130 TG
* * *
10644326 TCTCCCTAAGCAGTAGTGAAGCAGATCAAAGAGGGTGAATCTTATCTTCTCAAAGTAGTAGAGAA
1 TCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATCTTCACAAA-TAGTAGAGAA
* *
10644391 GTAAATTTAA
65 GCAGATTTAA
10644401 ACCACAAACC
Statistics
Matches: 186, Mismatches: 20, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
131 1 0.01
132 185 0.99
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (131 bp):
TCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATCTTCACAAATAGTAGAGAAG
CAGATTTAAGCAATTAGTCCTATCTCCCTAAGCAGCAGCGGAATAGGTTGAACATTACAAATTCT
G
Found at i:10645528 original size:12 final size:12
Alignment explanation
Indices: 10645511--10645541 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
10645501 CGTTTTATAG
10645511 CCGACCCGAGAA
1 CCGACCCGAGAA
10645523 CCGACCCGAGAA
1 CCGACCCGAGAA
10645535 CCGACCC
1 CCGACCC
10645542 AACCCGCAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.29, C:0.48, G:0.23, T:0.00
Consensus pattern (12 bp):
CCGACCCGAGAA
Found at i:10646226 original size:27 final size:27
Alignment explanation
Indices: 10646196--10646259 Score: 67
Period size: 27 Copynumber: 2.4 Consensus size: 27
10646186 TATACATAGA
*
10646196 TTTTATTATTTTATGTTTTCTA-TTTT
1 TTTTATTATTTTATGTTTTCTACATTT
* * *
10646222 TTTTTTCTATTTTATTTTTTTTACATTT
1 TTTTAT-TATTTTATGTTTTCTACATTT
*
10646250 TATTATTATT
1 TTTTATTATT
10646260 ATATTATTTT
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
26 5 0.17
27 18 0.60
28 7 0.23
ACGTcount: A:0.17, C:0.05, G:0.02, T:0.77
Consensus pattern (27 bp):
TTTTATTATTTTATGTTTTCTACATTT
Found at i:10646239 original size:16 final size:16
Alignment explanation
Indices: 10646219--10646253 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
10646209 TGTTTTCTAT
*
10646219 TTTTTTTTTCTATTTTA
1 TTTTTTTTAC-ATTTTA
10646236 TTTTTTTTACATTTTA
1 TTTTTTTTACATTTTA
10646252 TT
1 TT
10646254 ATTATTATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.14, C:0.06, G:0.00, T:0.80
Consensus pattern (16 bp):
TTTTTTTTACATTTTA
Found at i:10646241 original size:14 final size:14
Alignment explanation
Indices: 10646202--10646241 Score: 64
Period size: 13 Copynumber: 2.9 Consensus size: 14
10646192 TAGATTTTAT
*
10646202 TATTTTATGTTTTC
1 TATTTTATTTTTTC
10646216 TATTTT-TTTTTTC
1 TATTTTATTTTTTC
10646229 TATTTTATTTTTT
1 TATTTTATTTTTT
10646242 TTACATTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 12 0.50
14 12 0.50
ACGTcount: A:0.12, C:0.05, G:0.03, T:0.80
Consensus pattern (14 bp):
TATTTTATTTTTTC
Found at i:10646608 original size:8 final size:8
Alignment explanation
Indices: 10646597--10646621 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
10646587 CCAAATATCC
10646597 TTTTAAAA
1 TTTTAAAA
10646605 TTTTAAAA
1 TTTTAAAA
10646613 TTTTAAAA
1 TTTTAAAA
10646621 T
1 T
10646622 AAGGCAATGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (8 bp):
TTTTAAAA
Found at i:10646708 original size:115 final size:107
Alignment explanation
Indices: 10646605--10646796 Score: 314
Period size: 107 Copynumber: 1.8 Consensus size: 107
10646595 CCTTTTAAAA
* * *
10646605 TTTTAAAATTTTAAAATAAGGCAATGTTTTGCATTTGGAAATTCGAAAAAACGTGCTCTAATGTG
1 TTTTAAAATTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTG
10646670 CTGGGTTTCGATTTTCTCGTTCAACCAAATAGCCAAATATCC
66 CTGGGTTTCGATTTTCTCGTTCAACCAAATAGCCAAATATCC
* * *
10646712 TTTTAAAATTTTAAAATAAGGCAATATTTTGTGTTTGGAAATTCGAGAAAATGTGCCCTAATGTG
1 TTTTAAAATTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTG
*
10646777 CTGGGTTTC-AATTTCTCGTT
66 CTGGGTTTCGATTTTCTCGTT
10646797 GGACCGAATG
Statistics
Matches: 78, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
106 10 0.13
107 68 0.87
ACGTcount: A:0.31, C:0.14, G:0.17, T:0.38
Consensus pattern (107 bp):
TTTTAAAATTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTG
CTGGGTTTCGATTTTCTCGTTCAACCAAATAGCCAAATATCC
Found at i:10648114 original size:24 final size:24
Alignment explanation
Indices: 10648066--10648122 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 24
10648056 ATTAGGAGGA
* * * *
10648066 GGAGGTGGTGGAGGGTTTGGTGGT
1 GGAGGTGGAGGAGGGCTAGGCGGT
10648090 GGAGGTGGAGGAGGGCTAGGCGGT
1 GGAGGTGGAGGAGGGCTAGGCGGT
*
10648114 GGAGCTGGA
1 GGAGGTGGA
10648123 TTTGGTGGGG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.14, C:0.05, G:0.61, T:0.19
Consensus pattern (24 bp):
GGAGGTGGAGGAGGGCTAGGCGGT
Found at i:10648146 original size:18 final size:18
Alignment explanation
Indices: 10648125--10648159 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
10648115 GAGCTGGATT
10648125 TGGTGGGGGCGCTGGTGC
1 TGGTGGGGGCGCTGGTGC
* *
10648143 TGGTGGTGGCGTTGGTG
1 TGGTGGGGGCGCTGGTG
10648160 GAGGTGGTGG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.00, C:0.11, G:0.60, T:0.29
Consensus pattern (18 bp):
TGGTGGGGGCGCTGGTGC
Found at i:10648165 original size:18 final size:18
Alignment explanation
Indices: 10648144--10648187 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
10648134 CGCTGGTGCT
*
10648144 GGTGGT-GGCGTTGGTGGA
1 GGTGGTGGGC-TTGGAGGA
10648162 GGTGGTGGGCTTGGAGGA
1 GGTGGTGGGCTTGGAGGA
10648180 GGTGGTGG
1 GGTGGTGG
10648188 TGGAGGGTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 21 0.88
19 3 0.12
ACGTcount: A:0.07, C:0.05, G:0.64, T:0.25
Consensus pattern (18 bp):
GGTGGTGGGCTTGGAGGA
Found at i:10648165 original size:24 final size:23
Alignment explanation
Indices: 10648138--10648252 Score: 73
Period size: 24 Copynumber: 5.2 Consensus size: 23
10648128 TGGGGGCGCT
10648138 GGTGCTGGTGGTGGCGTTGGTGGA
1 GGTGCTGGTGGTGG-GTTGGTGGA
* *
10648162 -G-G-TGGT-G-GGCTTGGAGGA
1 GGTGCTGGTGGTGGGTTGGTGGA
* * *
10648180 GGTGGTGGTGGAGGGTTCGGAGGA
1 GGTGCTGGTGGTGGGTT-GGTGGA
* * * *
10648204 GGTGGTGGCGGTGGAGTAGGTGGT
1 GGTGCTGGTGGTGG-GTTGGTGGA
10648228 GGTGCTGGTGGTGGGTT--TGGA
1 GGTGCTGGTGGTGGGTTGGTGGA
10648249 GGTG
1 GGTG
10648253 GAGCTGGAGG
Statistics
Matches: 72, Mismatches: 12, Indels: 17
0.71 0.12 0.17
Matches are distributed among these distances:
18 7 0.10
19 3 0.04
20 2 0.03
21 15 0.21
22 2 0.03
23 7 0.10
24 34 0.47
25 2 0.03
ACGTcount: A:0.08, C:0.05, G:0.61, T:0.26
Consensus pattern (23 bp):
GGTGCTGGTGGTGGGTTGGTGGA
Found at i:10648219 original size:18 final size:18
Alignment explanation
Indices: 10648144--10648229 Score: 64
Period size: 21 Copynumber: 4.4 Consensus size: 18
10648134 CGCTGGTGCT
* *
10648144 GGTGGTGGCGTTGGTGGA
1 GGTGGTGGCGGTGGAGGA
* *
10648162 GGTGGTGGGCTTGGAGGAGGT
1 GGTGGT-GGC--GGTGGAGGA
*
10648183 GGTGGTGGAGGGTTCGGAGGA
1 GGTGGTGG-CGG-T-GGAGGA
*
10648204 GGTGGTGGCGGTGGAGTA
1 GGTGGTGGCGGTGGAGGA
10648222 GGTGGTGG
1 GGTGGTGG
10648230 TGCTGGTGGT
Statistics
Matches: 53, Mismatches: 9, Indels: 12
0.72 0.12 0.16
Matches are distributed among these distances:
18 19 0.36
19 6 0.11
20 4 0.08
21 24 0.45
ACGTcount: A:0.09, C:0.05, G:0.63, T:0.23
Consensus pattern (18 bp):
GGTGGTGGCGGTGGAGGA
Found at i:10648253 original size:24 final size:24
Alignment explanation
Indices: 10648162--10648265 Score: 84
Period size: 24 Copynumber: 4.3 Consensus size: 24
10648152 CGTTGGTGGA
* *
10648162 GGTGGTGGGCTTGGAGGAGGTGGT
1 GGTGGTGGGTTTGGAGGAGGTGCT
* * *
10648186 GGTGGAGGGTTCGGAGGAGGTGGT
1 GGTGGTGGGTTTGGAGGAGGTGCT
* * * *
10648210 GGCGGTGGAG-TAGGTGGTGGTGCT
1 GGTGGTGG-GTTTGGAGGAGGTGCT
* *
10648234 GGTGGTGGGTTTGGAGGTGGAGCT
1 GGTGGTGGGTTTGGAGGAGGTGCT
*
10648258 GGAGGTGG
1 GGTGGTGG
10648266 AGGTGGCTTC
Statistics
Matches: 64, Mismatches: 14, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
23 1 0.02
24 62 0.97
25 1 0.02
ACGTcount: A:0.10, C:0.05, G:0.62, T:0.24
Consensus pattern (24 bp):
GGTGGTGGGTTTGGAGGAGGTGCT
Found at i:10648303 original size:18 final size:18
Alignment explanation
Indices: 10648261--10648303 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
10648251 TGGAGCTGGA
*
10648261 GGTGGAGGTGGCTTCGGT
1 GGTGGAGGTGGCTTCGGC
* * *
10648279 GGAGGAGGTGGGTTTGGC
1 GGTGGAGGTGGCTTCGGC
10648297 GGTGGAG
1 GGTGGAG
10648304 CTGGTGCAGG
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.09, C:0.07, G:0.60, T:0.23
Consensus pattern (18 bp):
GGTGGAGGTGGCTTCGGC
Found at i:10649087 original size:19 final size:19
Alignment explanation
Indices: 10649063--10649100 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
10649053 TCAAATTTTG
*
10649063 AAAATAATTTTTA-AAATTC
1 AAAAT-ATTTATAGAAATTC
10649082 AAAATATTTATAGAAATTC
1 AAAATATTTATAGAAATTC
10649101 TAAACTTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.53, C:0.05, G:0.03, T:0.39
Consensus pattern (19 bp):
AAAATATTTATAGAAATTC
Found at i:10649147 original size:18 final size:18
Alignment explanation
Indices: 10649111--10649147 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
10649101 TAAACTTTAT
*
10649111 ATTTTTAAAAAATTATAA
1 ATTTTTAAAAAAATATAA
*
10649129 ATTTTTAAAAAAATCTAA
1 ATTTTTAAAAAAATATAA
10649147 A
1 A
10649148 AAATATATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.41
Consensus pattern (18 bp):
ATTTTTAAAAAAATATAA
Found at i:10649159 original size:19 final size:19
Alignment explanation
Indices: 10649137--10649176 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
10649127 AAATTTTTAA
10649137 AAAAATCTAA-AAAATATAT
1 AAAAATCTAATAAAATA-AT
*
10649156 AAAAATTTAATAAAATAAT
1 AAAAATCTAATAAAATAAT
10649175 AA
1 AA
10649177 TTTTGGAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.28
Consensus pattern (19 bp):
AAAAATCTAATAAAATAAT
Found at i:10649164 original size:29 final size:28
Alignment explanation
Indices: 10649116--10649171 Score: 76
Period size: 29 Copynumber: 2.0 Consensus size: 28
10649106 TTTATATTTT
**
10649116 TAAAAAATTATAAATTTTTAAAAAAATC
1 TAAAAAATTATAAAAATTTAAAAAAATC
*
10649144 TAAAAAATATATAAAAATTTAATAAAAT
1 TAAAAAAT-TATAAAAATTTAAAAAAAT
10649172 AATAATTTTG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 8 0.33
29 16 0.67
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (28 bp):
TAAAAAATTATAAAAATTTAAAAAAATC
Found at i:10653129 original size:18 final size:18
Alignment explanation
Indices: 10653092--10653129 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
10653082 AAAAAATTAC
*
10653092 ATTTTTTAGATTTAATAT
1 ATTTTTTAGATTTAAAAT
10653110 ATTTTTTA-ATTTCAAAAT
1 ATTTTTTAGATTT-AAAAT
10653128 AT
1 AT
10653130 ATAGAGACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.37, C:0.03, G:0.03, T:0.58
Consensus pattern (18 bp):
ATTTTTTAGATTTAAAAT
Found at i:10653720 original size:33 final size:34
Alignment explanation
Indices: 10653667--10653745 Score: 117
Period size: 36 Copynumber: 2.3 Consensus size: 34
10653657 TTGAAGTAAT
*
10653667 TATTTAAAATATTTTACATAT-AAA-AATAATGA
1 TATTTGAAATATTTTACATATAAAATAATAATGA
10653699 TATTTGAAATATTTTTACATATAAAAATAATAATGA
1 TATTTGAAATA-TTTTACATAT-AAAATAATAATGA
10653735 TATTTGAAATA
1 TATTTGAAATA
10653746 ATTATTTGAT
Statistics
Matches: 42, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
32 10 0.24
33 10 0.24
35 3 0.07
36 19 0.45
ACGTcount: A:0.51, C:0.03, G:0.05, T:0.42
Consensus pattern (34 bp):
TATTTGAAATATTTTACATATAAAATAATAATGA
Found at i:10653855 original size:17 final size:18
Alignment explanation
Indices: 10653822--10653861 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 18
10653812 CACATATAAA
10653822 AATTATATTTACTAAAAAT
1 AATTATATTTAC-AAAAAT
10653841 AATTATATTTA-AAAAAT
1 AATTATATTTACAAAAAT
10653858 AATT
1 AATT
10653862 GATTATACAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 10 0.48
19 11 0.52
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (18 bp):
AATTATATTTACAAAAAT
Found at i:10653972 original size:29 final size:29
Alignment explanation
Indices: 10653914--10653978 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 29
10653904 AATATAATGA
* * * *
10653914 TATTTGAAATAATTATTTGATTTTATAGT
1 TATTTGAAAAAATAATTTGATTTCAAAGT
10653943 TATTTGAAAAAATAATTCTG-TTTCAAAGT
1 TATTTGAAAAAATAATT-TGATTTCAAAGT
10653972 T-TTTGAA
1 TATTTGAA
10653979 GCTTTTACAG
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
28 6 0.19
29 23 0.74
30 2 0.06
ACGTcount: A:0.37, C:0.03, G:0.11, T:0.49
Consensus pattern (29 bp):
TATTTGAAAAAATAATTTGATTTCAAAGT
Found at i:10656753 original size:31 final size:31
Alignment explanation
Indices: 10656715--10656775 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
10656705 GGCCCATTTT
*
10656715 TATTTTAAAAAT-TTTTAAAAATTTAAAAAAG
1 TATTTTAAAAATATTTT-AAAATTAAAAAAAG
10656746 TATTTTAAAAATATTTTAAAATTAAAAAAA
1 TATTTTAAAAATATTTTAAAATTAAAAAAA
10656776 TAAATATATT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
31 24 0.86
32 4 0.14
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (31 bp):
TATTTTAAAAATATTTTAAAATTAAAAAAAG
Found at i:10656760 original size:11 final size:11
Alignment explanation
Indices: 10656715--10656766 Score: 65
Period size: 11 Copynumber: 4.9 Consensus size: 11
10656705 GGCCCATTTT
10656715 TATTTTAAAAA
1 TATTTTAAAAA
10656726 T-TTTT-AAAA
1 TATTTTAAAAA
*
10656735 -ATTTAAAAAA
1 TATTTTAAAAA
10656745 GTATTTTAAAAA
1 -TATTTTAAAAA
10656757 TATTTTAAAA
1 TATTTTAAAA
10656767 TTAAAAAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
9 7 0.20
10 8 0.23
11 11 0.31
12 9 0.26
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (11 bp):
TATTTTAAAAA
Found at i:10657661 original size:35 final size:35
Alignment explanation
Indices: 10657615--10657718 Score: 127
Period size: 44 Copynumber: 2.7 Consensus size: 35
10657605 TCCTCGGTTC
10657615 GTTAATTCCTACACATGAAAATACAATAGCAACTT
1 GTTAATTCCTACACATGAAAATACAATAGCAACTT
10657650 GTTAATTCCTACACATGAAAATTTTAAACATACAATAGCAACTT
1 GTTAATTCCTACACATG--------AAA-ATACAATAGCAACTT
10657694 GTTAATTCCTACACATGAAAATACA
1 GTTAATTCCTACACATGAAAATACA
10657719 CTTTCAACAT
Statistics
Matches: 60, Mismatches: 0, Indels: 18
0.77 0.00 0.23
Matches are distributed among these distances:
35 22 0.37
36 3 0.05
43 3 0.05
44 32 0.53
ACGTcount: A:0.43, C:0.19, G:0.08, T:0.30
Consensus pattern (35 bp):
GTTAATTCCTACACATGAAAATACAATAGCAACTT
Found at i:10657676 original size:22 final size:23
Alignment explanation
Indices: 10657648--10657715 Score: 70
Period size: 23 Copynumber: 3.0 Consensus size: 23
10657638 CAATAGCAAC
10657648 TTGTTAATTCCTACACATGAAAA
1 TTGTTAATTCCTACACATGAAAA
* * * *
10657671 TT-TTAA-ACATACA-ATAGCAAC
1 TTGTTAATTCCTACACAT-GAAAA
10657692 TTGTTAATTCCTACACATGAAAA
1 TTGTTAATTCCTACACATGAAAA
10657715 T
1 T
10657716 ACACTTTCAA
Statistics
Matches: 33, Mismatches: 8, Indels: 8
0.67 0.16 0.16
Matches are distributed among these distances:
20 2 0.06
21 10 0.30
22 8 0.24
23 11 0.33
24 2 0.06
ACGTcount: A:0.41, C:0.18, G:0.07, T:0.34
Consensus pattern (23 bp):
TTGTTAATTCCTACACATGAAAA
Found at i:10657706 original size:23 final size:23
Alignment explanation
Indices: 10657636--10657706 Score: 76
Period size: 23 Copynumber: 3.2 Consensus size: 23
10657626 CACATGAAAA
10657636 TACAATAGCAACTTGTTAATTCC
1 TACAATAGCAACTTGTTAATTCC
* * * *
10657659 TACACAT-GAAAATT-TTAA-ACA
1 TACA-ATAGCAACTTGTTAATTCC
10657680 TACAATAGCAACTTGTTAATTCC
1 TACAATAGCAACTTGTTAATTCC
10657703 TACA
1 TACA
10657707 CATGAAAATA
Statistics
Matches: 36, Mismatches: 8, Indels: 8
0.69 0.15 0.15
Matches are distributed among these distances:
20 2 0.06
21 10 0.28
22 8 0.22
23 14 0.39
24 2 0.06
ACGTcount: A:0.41, C:0.20, G:0.07, T:0.32
Consensus pattern (23 bp):
TACAATAGCAACTTGTTAATTCC
Found at i:10665473 original size:42 final size:42
Alignment explanation
Indices: 10665421--10665598 Score: 220
Period size: 42 Copynumber: 4.2 Consensus size: 42
10665411 TGTGATTACG
* *
10665421 TGTAAGACCATGTCTGGGACATTGGCATCGTTATGTGATTCA
1 TGTAAGACCATGTCTGGGACATTGGCATCGATATGAGATTCA
* * *
10665463 TGTAAAACCATGTCTGGGATATTGGCATCGATATGAGATTCG
1 TGTAAGACCATGTCTGGGACATTGGCATCGATATGAGATTCA
* *
10665505 TGTAAGACCATGTCTAGGACTTTGGCATCGATATGAGATTCA
1 TGTAAGACCATGTCTGGGACATTGGCATCGATATGAGATTCA
*
10665547 TGTAAGACCATAG-CT-GG-CTATTGGCATCGATAT-ATGATAGCA
1 TGTAAGACCAT-GTCTGGGAC-ATTGGCATCGATATGA-GAT-TCA
10665589 TGTAAGACCA
1 TGTAAGACCA
10665599 AATCTGGAAT
Statistics
Matches: 120, Mismatches: 12, Indels: 8
0.86 0.09 0.06
Matches are distributed among these distances:
40 2 0.02
41 18 0.15
42 99 0.82
43 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACATTGGCATCGATATGAGATTCA
Found at i:10677744 original size:29 final size:30
Alignment explanation
Indices: 10677685--10677742 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
10677675 TCCGAGCCTT
*
10677685 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
10677715 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
10677743 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:10677972 original size:13 final size:13
Alignment explanation
Indices: 10677954--10677985 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
10677944 TTTCCAGCAA
10677954 TTATGAATTTATT
1 TTATGAATTTATT
10677967 TTATGAATTTATT
1 TTATGAATTTATT
*
10677980 TGATGA
1 TTATGA
10677986 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:10678193 original size:50 final size:50
Alignment explanation
Indices: 10678080--10678321 Score: 297
Period size: 50 Copynumber: 4.7 Consensus size: 50
10678070 ATTTGGGTAA
* * *
10678080 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
10678136 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
10678186 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
10678236 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
10678286 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
10678322 TTTGGCATGT
Statistics
Matches: 166, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 29 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:10678269 original size:100 final size:103
Alignment explanation
Indices: 10678080--10678329 Score: 364
Period size: 100 Copynumber: 2.4 Consensus size: 103
10678070 ATTTGGGTAA
10678080 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
10678145 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
10678186 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
10678248 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
10678286 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
10678330 GTTATTATCA
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.38
101 39 0.29
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:10681197 original size:17 final size:16
Alignment explanation
Indices: 10681146--10681199 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 16
10681136 CCATTTGTTA
* *
10681146 AAAAAAAATGAAATTT
1 AAAAAAAATCAAATCT
10681162 AAAGAAAAATGCAAA-CT
1 AAA-AAAAAT-CAAATCT
10681179 AAAAAAAATCAAAATCT
1 AAAAAAAATC-AAATCT
10681196 AAAA
1 AAAA
10681200 CAGCTTGAAC
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
15 1 0.03
16 12 0.38
17 16 0.50
18 3 0.09
ACGTcount: A:0.70, C:0.07, G:0.06, T:0.17
Consensus pattern (16 bp):
AAAAAAAATCAAATCT
Found at i:10683788 original size:3 final size:3
Alignment explanation
Indices: 10683782--10683806 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
10683772 AATAATAATA
10683782 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
10683807 GTTAAGTTCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:10686898 original size:98 final size:98
Alignment explanation
Indices: 10686726--10686920 Score: 354
Period size: 98 Copynumber: 2.0 Consensus size: 98
10686716 ACAATAAAAT
*
10686726 TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATTCC
1 TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCC
*
10686791 TCTAGAATCCCAAACTCGGAATATTTCCTTTAC
66 TCTAAAATCCCAAACTCGGAATATTTCCTTTAC
10686824 TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCC
1 TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCC
* *
10686889 TTTAAAATCCCAAATTCGGAATATTTCCTTTA
66 TCTAAAATCCCAAACTCGGAATATTTCCTTTA
10686921 TTATTTTTAA
Statistics
Matches: 93, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
98 93 1.00
ACGTcount: A:0.37, C:0.24, G:0.10, T:0.29
Consensus pattern (98 bp):
TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCC
TCTAAAATCCCAAACTCGGAATATTTCCTTTAC
Found at i:10687603 original size:24 final size:25
Alignment explanation
Indices: 10687574--10687621 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
10687564 ATATAAATAT
10687574 GAAAATATTC-ATTAAAAAATATAG
1 GAAAATATTCGATTAAAAAATATAG
*
10687598 GAAAATATTCGTTTAAAAAATATA
1 GAAAATATTCGATTAAAAAATATA
10687622 TATATGTGTG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 10 0.45
25 12 0.55
ACGTcount: A:0.56, C:0.04, G:0.08, T:0.31
Consensus pattern (25 bp):
GAAAATATTCGATTAAAAAATATAG
Found at i:10688234 original size:23 final size:22
Alignment explanation
Indices: 10688191--10688290 Score: 75
Period size: 23 Copynumber: 4.6 Consensus size: 22
10688181 AAAGGGTATC
* *
10688191 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
10688212 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
10688235 TACATATCATA---TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
* *
10688254 TGCATAT-ATATCATATCTAAGAT
1 TACAAATCATATC-T-TCTAAGAT
* *
10688277 TGCATATCATATCT
1 TACAAATCATATCT
10688291 AGGATTGCAT
Statistics
Matches: 67, Mismatches: 4, Indels: 14
0.79 0.05 0.16
Matches are distributed among these distances:
18 3 0.04
19 14 0.21
21 3 0.04
22 15 0.22
23 27 0.40
24 5 0.07
ACGTcount: A:0.41, C:0.16, G:0.06, T:0.37
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:10688251 original size:19 final size:19
Alignment explanation
Indices: 10688204--10688322 Score: 112
Period size: 19 Copynumber: 5.8 Consensus size: 19
10688194 AAATTAAATC
*
10688204 TCTAAGATTACAAAATCATA
1 TCTAAGATTAC-ATATCATA
10688224 TCTTCTAAGATTACATATCATA
1 ---TCTAAGATTACATATCATA
*
10688246 TCTAAGATTGCATATATATCATA
1 TCTAAGA-T---TACATATCATA
*
10688269 TCTAAGATTGCATATCATA
1 TCTAAGATTACATATCATA
* *
10688288 TCTAGGATTGCATATCATA
1 TCTAAGATTACATATCATA
*
10688307 TCTAAGATTGCATATC
1 TCTAAGATTACATATC
10688323 CTCAAAAATT
Statistics
Matches: 86, Mismatches: 6, Indels: 12
0.83 0.06 0.12
Matches are distributed among these distances:
19 49 0.57
20 1 0.01
22 8 0.09
23 28 0.33
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.37
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:10688273 original size:42 final size:38
Alignment explanation
Indices: 10688220--10688322 Score: 138
Period size: 42 Copynumber: 2.7 Consensus size: 38
10688210 ATTACAAAAT
*
10688220 CATATC-T-TCTAAGATTACATATCATATCTAAGATTG
1 CATATCATATCTAAGATTGCATATCATATCTAAGATTG
*
10688256 CATATATATCATATCTAAGATTGCATATCATATCTAGGATTG
1 C----ATATCATATCTAAGATTGCATATCATATCTAAGATTG
10688298 CATATCATATCTAAGATTGCATATC
1 CATATCATATCTAAGATTGCATATC
10688323 CTCAAAAATT
Statistics
Matches: 59, Mismatches: 2, Indels: 10
0.83 0.03 0.14
Matches are distributed among these distances:
36 1 0.02
38 24 0.41
40 5 0.08
41 1 0.02
42 28 0.47
ACGTcount: A:0.36, C:0.17, G:0.10, T:0.38
Consensus pattern (38 bp):
CATATCATATCTAAGATTGCATATCATATCTAAGATTG
Found at i:10703737 original size:21 final size:21
Alignment explanation
Indices: 10703711--10703753 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
10703701 GGTTCGCTGT
*
10703711 ATTGGATTAGAGGTGTATTGG
1 ATTGGATTAGAGGTGTAATGG
10703732 ATTGGATTAGAGGTGTAATGG
1 ATTGGATTAGAGGTGTAATGG
10703753 A
1 A
10703754 ATAGAGGTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.28, C:0.00, G:0.37, T:0.35
Consensus pattern (21 bp):
ATTGGATTAGAGGTGTAATGG
Found at i:10703753 original size:16 final size:16
Alignment explanation
Indices: 10703734--10703766 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
10703724 TGTATTGGAT
*
10703734 TGGATTAGAGGTGTAA
1 TGGAATAGAGGTGTAA
10703750 TGGAATAGAGGTGTAA
1 TGGAATAGAGGTGTAA
10703766 T
1 T
10703767 AGCAAATCAA
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:0.33, C:0.00, G:0.36, T:0.30
Consensus pattern (16 bp):
TGGAATAGAGGTGTAA
Found at i:10703811 original size:45 final size:44
Alignment explanation
Indices: 10703745--10703839 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 44
10703735 GGATTAGAGG
* *
10703745 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAAC-ACTGTTTGGTTGAA
* **
10703790 TGTAATGGAATAGAGGCGTAATAGTAAAACTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
10703834 TGTAAT
1 TGTAAT
10703840 AGAGGTGTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.35, C:0.05, G:0.27, T:0.33
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
Found at i:10704022 original size:18 final size:17
Alignment explanation
Indices: 10704001--10704035 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
10703991 TTATTATTTA
*
10704001 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
10704019 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
10704036 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:10704029 original size:28 final size:27
Alignment explanation
Indices: 10703959--10704031 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
10703949 TTTATTATCA
*
10703959 AAAATAAATAATTTAATCATATTTAAAC
1 AAAATATATAATTTAAT-ATATTTAAAC
* * **
10703987 ATAAT-TATTATTTAATATATTTTAATT
1 AAAATATATAATTTAATATA-TTTAAAC
10704014 AAAATATATAATTTAATA
1 AAAATATATAATTTAATA
10704032 AAATTCTTAA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
26 3 0.08
27 18 0.50
28 15 0.42
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (27 bp):
AAAATATATAATTTAATATATTTAAAC
Found at i:10704148 original size:144 final size:147
Alignment explanation
Indices: 10703920--10704191 Score: 487
Period size: 144 Copynumber: 1.9 Consensus size: 147
10703910 ATGATTATTG
10703920 TTATTGTTATTTAAATTTTAATAAGATTATTTATTATCAAAAATAAATAATTTAATCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTA--TATTATCAAAAATAAATAATTTAATCATATTTAA
*
10703985 ACATAATTATTATTTAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
64 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
10704050 AGAAATTTGTTTTGGTAAA
129 AGAAATTTGTTTTGGTAAA
*
10704069 TTATT-TTATTTAAATTTTAATAAGATTA-A-TATCAATAATAAATAATTTAATCATATTTAAAC
1 TTATTGTTATTTAAATTTTAATAAGATTATATTATCAAAAATAAATAATTTAATCATATTTAAAC
10704131 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
66 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
10704192 ATATTCTTAT
Statistics
Matches: 121, Mismatches: 2, Indels: 5
0.95 0.02 0.04
Matches are distributed among these distances:
144 92 0.76
145 1 0.01
148 23 0.19
149 5 0.04
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (147 bp):
TTATTGTTATTTAAATTTTAATAAGATTATATTATCAAAAATAAATAATTTAATCATATTTAAAC
ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGCAG
AAATTTGTTTTGGTAAA
Found at i:10704166 original size:18 final size:17
Alignment explanation
Indices: 10704145--10704179 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
10704135 TTATTATTAA
*
10704145 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
10704163 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
10704180 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:10704223 original size:54 final size:54
Alignment explanation
Indices: 10704165--10704343 Score: 135
Period size: 55 Copynumber: 3.1 Consensus size: 54
10704155 ATTAAAATAT
*
10704165 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAACC
1 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAAAC
* * * * * * * *
10704219 ATAATATATGATACTATAAAATATAAAATAACATAATTATTATTAAATAT-AATATAATTAAAAT
1 ATAAT-T-T-A-A-TA-AAATTCT-TAATAA-TTAA-TATTCTT--ATATGAAT-TTACTCAAA-
*
10704283 AT
53 AC
*
10704285 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATC
1 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAAAC
10704339 ATAAT
1 ATAAT
10704344 ATATGATTAT
Statistics
Matches: 91, Mismatches: 20, Indels: 28
0.65 0.14 0.20
Matches are distributed among these distances:
54 10 0.11
55 11 0.12
56 4 0.04
57 7 0.08
58 4 0.04
59 7 0.08
60 10 0.11
61 7 0.08
62 4 0.04
63 7 0.08
64 4 0.04
65 11 0.12
66 5 0.05
ACGTcount: A:0.50, C:0.07, G:0.02, T:0.41
Consensus pattern (54 bp):
ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAAAC
Found at i:10704225 original size:61 final size:61
Alignment explanation
Indices: 10704160--10704347 Score: 199
Period size: 61 Copynumber: 3.1 Consensus size: 61
10704150 TTTTAATTAA
*
10704160 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAACCAT
1 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
* * * * * * * * * *
10704221 AATATATGATACT-ATAAAA-T-ATAA-AATAACATAATTATTAT-TAAATATAAT-ATAATTAA
1 AATATATAAT-TTAATAAAATTCTTAATAATTA-AT-ATTCTTATATGAATTTACTCA-AATCAT
10704280 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
10704341 AATATAT
1 AATATAT
10704348 GATTATAACT
Statistics
Matches: 96, Mismatches: 21, Indels: 20
0.70 0.15 0.15
Matches are distributed among these distances:
58 6 0.06
59 30 0.31
60 16 0.17
61 38 0.40
62 6 0.06
ACGTcount: A:0.50, C:0.07, G:0.02, T:0.41
Consensus pattern (61 bp):
AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
Found at i:10704258 original size:120 final size:120
Alignment explanation
Indices: 10704128--10704350 Score: 419
Period size: 120 Copynumber: 1.9 Consensus size: 120
10704118 ATCATATTTA
* *
10704128 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
10704193 TATTCTTATATGAATTTACTCAAACCATAATATATGATACTATAAAATATAAAAT
66 TATTCTTATATGAATTTACTCAAACCATAATATATGATACTATAAAATATAAAAT
10704248 AACATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
10704313 TATTCTTATATGAATTTACTCAAATCATAATATATGAT
66 TATTCTTATATGAATTTACTCAAACCATAATATATGAT
10704351 TATAACTAAT
Statistics
Matches: 100, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
120 100 1.00
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.42
Consensus pattern (120 bp):
AACATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATGAATTTACTCAAACCATAATATATGATACTATAAAATATAAAAT
Found at i:10704286 original size:18 final size:17
Alignment explanation
Indices: 10704265--10704299 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
10704255 TTATTATTAA
10704265 ATATAATATAATTAAAAT
1 ATATAATATAA-TAAAAT
*
10704283 ATATAATTTAATAAAAT
1 ATATAATATAATAAAAT
10704300 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
ATATAATATAATAAAAT
Found at i:10704362 original size:17 final size:16
Alignment explanation
Indices: 10704340--10704386 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
10704330 ACTCAAATCA
10704340 TAATATATGATTATAAC
1 TAATATATGATT-TAAC
*
10704357 T-A-ATATGATTTAAT
1 TAATATATGATTTAAC
10704371 TAAATATATGATTTAA
1 T-AATATATGATTTAA
10704387 TAAAATTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 4 0.15
15 8 0.31
16 2 0.08
17 12 0.46
ACGTcount: A:0.47, C:0.02, G:0.06, T:0.45
Consensus pattern (16 bp):
TAATATATGATTTAAC
Found at i:10704387 original size:17 final size:17
Alignment explanation
Indices: 10704359--10704392 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
10704349 ATTATAACTA
*
10704359 ATATGATTTAATTAAAT
1 ATATGATTTAATAAAAT
10704376 ATATGATTTAATAAAAT
1 ATATGATTTAATAAAAT
10704393 TTAAAATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (17 bp):
ATATGATTTAATAAAAT
Found at i:10704535 original size:93 final size:92
Alignment explanation
Indices: 10704425--10704619 Score: 286
Period size: 93 Copynumber: 2.1 Consensus size: 92
10704415 GATTATAGTT
* * *
10704425 TATGAATTTGTATAATTTAAAATAA-TAATTATTACATATAATT-TAATAATAATATATAATTTC
1 TATGAATTTATACAATTTAAAATAATTAA-TATTAAATATAATTAT-ATAATAATATATAATTTC
* *
10704488 ATAAAATTCTTGATAATAAAAATTTTCTTA
64 ATAAAATTCTTAATAAT-AAAATGTTCTTA
* *
10704518 TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAGTGATATATAATTTCAT
1 TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAATAATATATAATTTCAT
10704583 AAAATTCTTAATAATAAAATGTTCTTA
66 AAAATTCTTAATAATAAAATGTTCTTA
10704610 TATGAATTTA
1 TATGAATTTA
10704620 CTAAAATCAA
Statistics
Matches: 93, Mismatches: 7, Indels: 5
0.89 0.07 0.05
Matches are distributed among these distances:
92 21 0.23
93 68 0.73
94 4 0.04
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (92 bp):
TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAATAATATATAATTTCAT
AAAATTCTTAATAATAAAATGTTCTTA
Found at i:10713572 original size:29 final size:28
Alignment explanation
Indices: 10713496--10713572 Score: 84
Period size: 28 Copynumber: 2.7 Consensus size: 28
10713486 ACAATTAGAT
10713496 CTAAATTTTTAAATA-AAAAATAAAAAGA
1 CTAAA-TTTTAAATATAAAAATAAAAAGA
* * * **
10713524 CTACATTCTTAAAAATAAAAGTACGAAGA
1 CTAAATT-TTAAATATAAAAATAAAAAGA
10713553 CTAAATTTTAAATATAAAAA
1 CTAAATTTTAAATATAAAAA
10713573 AATAATCACC
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
27 2 0.05
28 21 0.54
29 16 0.41
ACGTcount: A:0.58, C:0.08, G:0.05, T:0.29
Consensus pattern (28 bp):
CTAAATTTTAAATATAAAAATAAAAAGA
Found at i:10714465 original size:25 final size:24
Alignment explanation
Indices: 10714437--10714489 Score: 70
Period size: 25 Copynumber: 2.2 Consensus size: 24
10714427 AAATAATATT
*
10714437 ATTTTAAGAAAATGTATTAGTAAAA
1 ATTTTAAGAAAATGGATTAG-AAAA
* *
10714462 ATTTTAAGGAAATGGATTAGAATA
1 ATTTTAAGAAAATGGATTAGAAAA
10714486 ATTT
1 ATTT
10714490 AATATTTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
24 7 0.28
25 18 0.72
ACGTcount: A:0.47, C:0.00, G:0.15, T:0.38
Consensus pattern (24 bp):
ATTTTAAGAAAATGGATTAGAAAA
Found at i:10715145 original size:4 final size:4
Alignment explanation
Indices: 10715136--10715167 Score: 64
Period size: 4 Copynumber: 8.0 Consensus size: 4
10715126 TTCAACTTGT
10715136 TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG
10715168 CAAACTTAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:10718771 original size:50 final size:49
Alignment explanation
Indices: 10718712--10718840 Score: 127
Period size: 49 Copynumber: 2.6 Consensus size: 49
10718702 AGACGAGGGG
* * *
10718712 TCCCGTGTAAGACCATGTCTGGGACATGGCATGGGCACCG-ATATTAGAAC-
1 TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA--GTACATGA-AACA
* * * * * * *
10718762 TCCCATGTAAAACCATATCTGGGATATGACTTTGGTAGTACATGAAACA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCAGTACATGAAACA
10718811 TCCCATGTAAGACCATGTCTGGGACATGGC
1 TCCCATGTAAGACCATGTCTGGGACATGGC
10718841 TTTAGCATGT
Statistics
Matches: 63, Mismatches: 14, Indels: 5
0.77 0.17 0.06
Matches are distributed among these distances:
48 4 0.06
49 30 0.48
50 29 0.46
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.25
Consensus pattern (49 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCAGTACATGAAACA
Found at i:10725696 original size:31 final size:31
Alignment explanation
Indices: 10725661--10725734 Score: 121
Period size: 31 Copynumber: 2.4 Consensus size: 31
10725651 AATTATTGGT
10725661 AAGTTTTCATTTTGGTCAATGAACTATTCAA
1 AAGTTTTCATTTTGGTCAATGAACTATTCAA
*
10725692 AAGTTTTCATTTTGGTCATTGAACTATTCAA
1 AAGTTTTCATTTTGGTCAATGAACTATTCAA
* *
10725723 AATTTTTTATTT
1 AAGTTTTCATTT
10725735 AAGTCATTGG
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.30, C:0.11, G:0.11, T:0.49
Consensus pattern (31 bp):
AAGTTTTCATTTTGGTCAATGAACTATTCAA
Found at i:10725741 original size:31 final size:31
Alignment explanation
Indices: 10725661--10725743 Score: 103
Period size: 31 Copynumber: 2.7 Consensus size: 31
10725651 AATTATTGGT
** *
10725661 AAGTTTTCATTTTGGTCAATGAACTATTCAA
1 AAGTTTTCATTTAAGTCATTGAACTATTCAA
**
10725692 AAGTTTTCATTTTGGTCATTGAACTATTCAA
1 AAGTTTTCATTTAAGTCATTGAACTATTCAA
* *
10725723 AATTTTTTATTTAAGTCATTG
1 AAGTTTTCATTTAAGTCATTG
10725744 GGCTGTTAAG
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 47 1.00
ACGTcount: A:0.30, C:0.11, G:0.12, T:0.47
Consensus pattern (31 bp):
AAGTTTTCATTTAAGTCATTGAACTATTCAA
Found at i:10732891 original size:41 final size:40
Alignment explanation
Indices: 10732830--10733354 Score: 600
Period size: 41 Copynumber: 12.8 Consensus size: 40
10732820 TTAATATTTA
* **
10732830 GGGCTTTAGCGACGTTTTTGAAGAAGCGTTGCTAATGCTC
1 GGGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTC
*
10732870 AGGGATTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTC
1 -GGGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTC
** * * *
10732911 AAAGCTTTAGCTGCGTTTTTAAAGAAGCGCCACTAATGCTC
1 -GGGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTC
* *
10732952 GGGGCTTTAGCGGCGATTTTGAAGAAGCGCCACTAATGCTC
1 -GGGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTC
* *
10732993 GGGTCTTTAGCGGCGTTTTTTAAAGAAGCGCTGCTAATGCTC
1 GGG-CTTTAGCGGCG-TTTTTGAAGAAGCGCCGCTAATGCTC
* * *
10733035 GGGTCTTTAGCGGTGTTTTTGAAGAAGCGTCGCTAGTGCTC
1 GGG-CTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTC
* * * *
10733076 GAGGCTTTAGCGGCGTTTTTTAAAAAGCCCCGCTAATACTC
1 G-GGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTC
* * * *
10733117 AAGGCTTTAGCTGCGTTTTTAAAGAAGCGCCACTAATGCTC
1 -GGGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTC
*
10733158 GCGGCTTTAGCGGCGTTTTTGAAGAAGCGCCACTAATGCTC
1 G-GGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTC
* **
10733199 GGGTTTTTAGCGGCGTTTTTGAAGAAGCGTTGCTAATGCTC
1 GGG-CTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTC
* *
10733240 GGGTCTTTAGCGGCGTTTTTGATGAAGCGCCACTAATGCTC
1 GGG-CTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTC
* * * * *
10733281 GGGGCTTTAACGTCATTTTTGAAAAAGCCCCGCTAATGCTC
1 -GGGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTC
* *
10733322 AGGGCTTTAGCGGCTTTTTTGAAAAAGCGCCGC
1 -GGGCTTTAGCGGCGTTTTTGAAGAAGCGCCGC
10733355 AAAAATTTTT
Statistics
Matches: 414, Mismatches: 63, Indels: 14
0.84 0.13 0.03
Matches are distributed among these distances:
40 5 0.01
41 368 0.89
42 41 0.10
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.30
Consensus pattern (40 bp):
GGGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTC
Found at i:10733847 original size:18 final size:18
Alignment explanation
Indices: 10733824--10733858 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
10733814 TTTCTACAAA
* *
10733824 TAATTTCTAATAAAAATT
1 TAATTTATAAAAAAAATT
10733842 TAATTTATAAAAAAAAT
1 TAATTTATAAAAAAAAT
10733859 AATAAATATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (18 bp):
TAATTTATAAAAAAAATT
Found at i:10738534 original size:43 final size:43
Alignment explanation
Indices: 10738486--10738606 Score: 127
Period size: 50 Copynumber: 2.7 Consensus size: 43
10738476 TTTTTGTGAG
*
10738486 AAGCGTCGCTAAAGGTCATGGTCTTTAGC-AGCGTTTGTGACAA
1 AAGCGTTGCTAAAGGTCATGGTCTTTAGCGA-CGTTTGTGACAA
*
10738529 AAGCGTTGCTAAAGGTCATGAGGTCATGGTTTTAGCGACGTTTGTGATAA
1 AAGCGTTGCTAAAGGTCAT--GGTC-----TTTAGCGACGTTTGTGACAA
**
10738579 AAGCGTTGCTAAAGGTCATAATCTTTAG
1 AAGCGTTGCTAAAGGTCATGGTCTTTAG
10738607 TGGCGGTGTC
Statistics
Matches: 66, Mismatches: 4, Indels: 16
0.77 0.05 0.19
Matches are distributed among these distances:
43 23 0.35
45 4 0.06
48 2 0.03
50 36 0.55
51 1 0.02
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.31
Consensus pattern (43 bp):
AAGCGTTGCTAAAGGTCATGGTCTTTAGCGACGTTTGTGACAA
Found at i:10738574 original size:50 final size:51
Alignment explanation
Indices: 10738498--10738597 Score: 168
Period size: 50 Copynumber: 2.0 Consensus size: 51
10738488 GCGTCGCTAA
10738498 AGGTCATGGTCTTTAGCAGCGTTTGTGACAAAAGCGTTGCTAAAGGTCATG
1 AGGTCATGGTCTTTAGCAGCGTTTGTGACAAAAGCGTTGCTAAAGGTCATG
*
10738549 AGGTCATGGT-TTTAGC-GACGTTTGTGATAAAAGCGTTGCTAAAGGTCAT
1 AGGTCATGGTCTTTAGCAG-CGTTTGTGACAAAAGCGTTGCTAAAGGTCAT
10738598 AATCTTTAGT
Statistics
Matches: 47, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
49 1 0.02
50 36 0.77
51 10 0.21
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (51 bp):
AGGTCATGGTCTTTAGCAGCGTTTGTGACAAAAGCGTTGCTAAAGGTCATG
Found at i:10743488 original size:26 final size:26
Alignment explanation
Indices: 10743431--10743526 Score: 70
Period size: 26 Copynumber: 3.7 Consensus size: 26
10743421 TGCTTAATAC
*
10743431 ATTATTTTATCTTAAATTGTTTTATAA
1 ATTA-TTTATATTAAATTGTTTTATAA
* * *
10743458 ATTATTTATATTAGATTTTTTTATAT
1 ATTATTTATATTAAATTGTTTTATAA
* * **
10743484 TTTATTCT-T-TTAAATTCTTTTATGT
1 ATTATT-TATATTAAATTGTTTTATAA
* *
10743509 ATTGTTTATTTTAAATTG
1 ATTATTTATATTAAATTG
10743527 GTTTGAATTA
Statistics
Matches: 55, Mismatches: 11, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
24 1 0.02
25 18 0.33
26 31 0.56
27 5 0.09
ACGTcount: A:0.28, C:0.03, G:0.05, T:0.64
Consensus pattern (26 bp):
ATTATTTATATTAAATTGTTTTATAA
Found at i:10753726 original size:789 final size:789
Alignment explanation
Indices: 10752206--10753788 Score: 2914
Period size: 789 Copynumber: 2.0 Consensus size: 789
10752196 TGGGATGAGG
10752206 CAGTTATATATGCGTGCCATCTAATTAACCGGTTACCATCAGCTGCAATAAATGGAAAAACTCCT
1 CAGTTATATATGCGTGCCATCTAATTAACCGGTTACCATCAGCTGCAATAAATGGAAAAACTCCT
* * *
10752271 TTGGAGATGTGGACTGGTAAACCTGTTATTGATTATGATTCTTTACATATTTTTGGTTCCACTGC
66 ATGGAGATGTGGACTGGTAAACCTGCTACTGATTATGATTCTTTACATATTTTTGGTTCCACTGC
*
10752336 ATATTATCATGTAAAAGAATCTAAGTTAGACCCAAGAGCAGAGAAAGCATTATTCGTAGGTATAA
131 ATATTATCATGTAAAAGAATCTAAGTTAGACCCAAGAGCAAAGAAAGCATTATTCGTAGGTATAA
*
10752401 CTGGTGGAGTAAAAGGATACCGTCTCTGGTGTCCTGATACAAGGAAGATTGTTTTCAGTAGAGAT
196 CTGGTGGAGTAAAAGGATACCGTATCTGGTGTCCTGATACAAGGAAGATTGTTTTCAGTAGAGAT
*
10752466 GTGACTTTTGATGAATCAACAAAGATAAAGTACAATGATTCACAAAAGGATGACAAAACCAATAG
261 GTGACTTTTGATGAATCAACAAAGATAAAGTACAAGGATTCACAAAAGGATGACAAAACCAATAG
* * *
10752531 TACTTTGCAGCCGGTAGAGCTTGAAAAGGTTAATGATGATCCAGCTAATATTGAAGGAATAAATG
326 TACTTTACAGCAGGTAGAGCTTGAAAAGGTTAATGATGATCCAACTAATATTGAAGGAATAAATG
*
10752596 ATGATGAAGTTTCGACCCAAGAACTTTTACAGCAACAAGATTCAATTACATATAGGAGGCCAAGA
391 ATGATGAAGTTTCGACCCAAGAACTTCTACAGCAACAAGATTCAATTACATATAGGAGGCCAAGA
*
10752661 AGAGAGATTCGTAAGCCTGCTCGCTTTGATGATATAGTGGCCTATGCACTTCCAATTGCAGATGA
456 AGAGAGATTCGTAAGCCTGCTCGCTTTGATGATATAGTGGCCTATGCACTTCCAATTACAGATGA
* * *
10752726 TGATGTTCCTTCTACTTACACAGAAGCAATAAGTAACCTTGATGGTGTAAAGTGGAAGCAAGTTA
521 TGATGTTCCTTCTACTTACACAAAAGCAATAAGTAACCCTGATGATGTAAAGTGGAAGCAAGTTA
* *
10752791 TGAATGAAGAAATATAGTCTCTTCATAAAAATAGGACTTGGGAGTTGGTGACACTGCCCAAGGGA
586 TGAATGAAGAAATACAGTCTCTTCATAAAAATAGGACTTGAGAGTTGGTGACACTGCCCAAGGGA
*
10752856 AAGAAGACAATTGGATGCAAATGGGTATATGCAAAGAAGGAATGATTTTCTGGTAAAAATAAAAT
651 AAGAAGACAATTGGATGCAAATGGGTATATGCAAAGAAGGAAGGATTTTCTGGTAAAAATAAAAT
* *
10752921 TCGATACAAGGCTAGATTGGTAGCAAAGGGTTACGCTCAGAAAGAAGGAATAGACTACAATGAAG
716 TCGATACAAGGCTAGATTAGTAGCAAAGGGTTACACTCAGAAAGAAGGAATAGACTACAATGAAG
10752986 TGTTTTCTC
781 TGTTTTCTC
10752995 CAGTTATATATGCGTGCCATCTAATTAACCGGTTACCATCAGCTGCAATAAATGGAAAAACTCCT
1 CAGTTATATATGCGTGCCATCTAATTAACCGGTTACCATCAGCTGCAATAAATGGAAAAACTCCT
*
10753060 ATGGAGATGTGGACTGGTAAACCTGCTACTGATTATGATTCTTTACATATTTTTGGTTGCACTGC
66 ATGGAGATGTGGACTGGTAAACCTGCTACTGATTATGATTCTTTACATATTTTTGGTTCCACTGC
10753125 ATATTATCATGTAAAAGAATCTAAGTTAGACCCAAGAGCAAAGAAAGCATTATTCGTAGGTATAA
131 ATATTATCATGTAAAAGAATCTAAGTTAGACCCAAGAGCAAAGAAAGCATTATTCGTAGGTATAA
10753190 CTGGTGGAGTAAAAGGATACCGTATCTGGTGTCCTGATACAAGGAAGATTGTTTTCAGTAGAGAT
196 CTGGTGGAGTAAAAGGATACCGTATCTGGTGTCCTGATACAAGGAAGATTGTTTTCAGTAGAGAT
* *
10753255 GTGACTTTTGATGAATCAACAATGATAAAGTACAAGGATTCACAAAAGGATGACAAAACCAGTAG
261 GTGACTTTTGATGAATCAACAAAGATAAAGTACAAGGATTCACAAAAGGATGACAAAACCAATAG
*
10753320 TACTTTACAGCAGGTGGAGCTTGAAAAGGTTAATGATGATCCAACTAATATTGAAGGAATAAATG
326 TACTTTACAGCAGGTAGAGCTTGAAAAGGTTAATGATGATCCAACTAATATTGAAGGAATAAATG
10753385 ATGATGAAGTTTCGACCCAAGAACTTCTACAGCAACAAGATTCAATTACATATAGGAGGCCAAGA
391 ATGATGAAGTTTCGACCCAAGAACTTCTACAGCAACAAGATTCAATTACATATAGGAGGCCAAGA
*
10753450 AGAGAGATTCGTATGCCTGCTCGCTTTGATGATATAGTGGCCTATGCACTTCCAATTACAGATGA
456 AGAGAGATTCGTAAGCCTGCTCGCTTTGATGATATAGTGGCCTATGCACTTCCAATTACAGATGA
10753515 TGATGTTCCTTCTACTTACACAAAAGCAATAAGTAACCCTGATGATGTAAAGTGGAAGCAAGTTA
521 TGATGTTCCTTCTACTTACACAAAAGCAATAAGTAACCCTGATGATGTAAAGTGGAAGCAAGTTA
*
10753580 TGAATGAAGAAATGCAGTCTCTTCATAAAAATAGGACTTGAGAGTTGGTGACACTGCCCAAGGGA
586 TGAATGAAGAAATACAGTCTCTTCATAAAAATAGGACTTGAGAGTTGGTGACACTGCCCAAGGGA
* *
10753645 AAGAAGGCAATTGGATGCAAATGGGTATATGCAAAGAAGGAAGGATTTTCTGGTAAAAATGAAAT
651 AAGAAGACAATTGGATGCAAATGGGTATATGCAAAGAAGGAAGGATTTTCTGGTAAAAATAAAAT
*
10753710 TCGATACAATGCTAGATTAGTAGCAAAGGGTTACACTCAGAAAGAAGGAATAGACTACAATGAAG
716 TCGATACAAGGCTAGATTAGTAGCAAAGGGTTACACTCAGAAAGAAGGAATAGACTACAATGAAG
10753775 TGTTTTCTC
781 TGTTTTCTC
10753784 CAGTT
1 CAGTT
10753789 GTGAAGCATT
Statistics
Matches: 766, Mismatches: 28, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
789 766 1.00
ACGTcount: A:0.36, C:0.15, G:0.22, T:0.27
Consensus pattern (789 bp):
CAGTTATATATGCGTGCCATCTAATTAACCGGTTACCATCAGCTGCAATAAATGGAAAAACTCCT
ATGGAGATGTGGACTGGTAAACCTGCTACTGATTATGATTCTTTACATATTTTTGGTTCCACTGC
ATATTATCATGTAAAAGAATCTAAGTTAGACCCAAGAGCAAAGAAAGCATTATTCGTAGGTATAA
CTGGTGGAGTAAAAGGATACCGTATCTGGTGTCCTGATACAAGGAAGATTGTTTTCAGTAGAGAT
GTGACTTTTGATGAATCAACAAAGATAAAGTACAAGGATTCACAAAAGGATGACAAAACCAATAG
TACTTTACAGCAGGTAGAGCTTGAAAAGGTTAATGATGATCCAACTAATATTGAAGGAATAAATG
ATGATGAAGTTTCGACCCAAGAACTTCTACAGCAACAAGATTCAATTACATATAGGAGGCCAAGA
AGAGAGATTCGTAAGCCTGCTCGCTTTGATGATATAGTGGCCTATGCACTTCCAATTACAGATGA
TGATGTTCCTTCTACTTACACAAAAGCAATAAGTAACCCTGATGATGTAAAGTGGAAGCAAGTTA
TGAATGAAGAAATACAGTCTCTTCATAAAAATAGGACTTGAGAGTTGGTGACACTGCCCAAGGGA
AAGAAGACAATTGGATGCAAATGGGTATATGCAAAGAAGGAAGGATTTTCTGGTAAAAATAAAAT
TCGATACAAGGCTAGATTAGTAGCAAAGGGTTACACTCAGAAAGAAGGAATAGACTACAATGAAG
TGTTTTCTC
Found at i:10757909 original size:15 final size:16
Alignment explanation
Indices: 10757889--10757922 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
10757879 ATTGAAAATA
10757889 TTAA-TTTTCAATGAT
1 TTAATTTTTCAATGAT
*
10757904 TTAATTTTTCAATGGT
1 TTAATTTTTCAATGAT
10757920 TTA
1 TTA
10757923 CCAATGCTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.29, C:0.06, G:0.09, T:0.56
Consensus pattern (16 bp):
TTAATTTTTCAATGAT
Found at i:10758570 original size:36 final size:36
Alignment explanation
Indices: 10758471--10758549 Score: 94
Period size: 36 Copynumber: 2.3 Consensus size: 36
10758461 TAACAATAAT
* *
10758471 TTTA-AATAATATTATTAAT-ATA-TA-TTAAAAATA
1 TTTATAATAATATT-TTAATAATACAATTTATAAATA
*
10758504 TTTATATTAATATTTTAATAATACAATTTATAAATA
1 TTTATAATAATATTTTAATAATACAATTTATAAATA
10758540 TTTATAATAA
1 TTTATAATAA
10758550 ATCTTTTATA
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
33 9 0.24
34 11 0.29
35 1 0.03
36 17 0.45
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (36 bp):
TTTATAATAATATTTTAATAATACAATTTATAAATA
Found at i:10760889 original size:66 final size:65
Alignment explanation
Indices: 10760774--10760911 Score: 197
Period size: 66 Copynumber: 2.1 Consensus size: 65
10760764 TCAAGATTAA
* * *
10760774 AATTTTAGAATTCAAAAAATTAGTGACTTGGAATGATCTAATAAGAGAATATGAGCTAAATCTTC
1 AATTTTAAAATTCAAAAAATTAGAGACTTCGAATGATCTAATAAGAGAATATGAGCTAAATCTTC
* * *
10760839 AATTTTAAAATTCGAAAAATTTAGAGACTTCGAATGATCTAAT-CGAAGAATATGAGTTAAATCT
1 AATTTTAAAATTC-AAAAAATTAGAGACTTCGAATGATCTAATAAG-AGAATATGAGCTAAATCT
10760903 TC
64 TC
10760905 AATTTTA
1 AATTTTA
10760912 CTGTAACACC
Statistics
Matches: 65, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
65 13 0.20
66 52 0.80
ACGTcount: A:0.43, C:0.09, G:0.14, T:0.34
Consensus pattern (65 bp):
AATTTTAAAATTCAAAAAATTAGAGACTTCGAATGATCTAATAAGAGAATATGAGCTAAATCTTC
Found at i:10763726 original size:24 final size:25
Alignment explanation
Indices: 10763684--10763731 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
10763674 TCCGGTGCTC
* *
10763684 TCTGTTAAAGTGCTTTTCGGAGCTT
1 TCTGTTAAAGTACTCTTCGGAGCTT
10763709 TCTGTT-AAGTACTCTTCGGAGCT
1 TCTGTTAAAGTACTCTTCGGAGCT
10763732 ACCCGATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 15 0.71
25 6 0.29
ACGTcount: A:0.17, C:0.19, G:0.23, T:0.42
Consensus pattern (25 bp):
TCTGTTAAAGTACTCTTCGGAGCTT
Found at i:10766568 original size:20 final size:19
Alignment explanation
Indices: 10766545--10766601 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 19
10766535 AAGGGCACTA
10766545 AAGTGCAATCAGGGGCATTG
1 AAGTGCAATCAGGGGCA-TG
*
10766565 AAGTGCATTCAGGGGCATG
1 AAGTGCAATCAGGGGCATG
**
10766584 AATGTGCTGTCAGGGGCA
1 AA-GTGCAATCAGGGGCA
10766602 CCAGAGTGCA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
19 4 0.12
20 29 0.88
ACGTcount: A:0.26, C:0.16, G:0.37, T:0.21
Consensus pattern (19 bp):
AAGTGCAATCAGGGGCATG
Found at i:10770400 original size:124 final size:126
Alignment explanation
Indices: 10770094--10770445 Score: 521
Period size: 126 Copynumber: 2.8 Consensus size: 126
10770084 TAATTTCGAG
** * *
10770094 TTGACGTTTCTGATAAAATAATATAAAATCGCTTCTAGCAGGATGATATTTGAGAAGAATTTGTG
1 TTGACGTTTCTGAGCAAATAATATAAAATTGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
* *
10770159 AAATCGCACCCTCGTGGATGCGCTTTTGCTACAGTAGGTCACGGAAGAAATAATTGTTTTT
66 AAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCACGGAAGAAATAATTGTTTTT
* *
10770220 TTGACGTTTCTGAGCAAATAGTATAAAATTGCTTCTAGCAGGATGCTATTTGAGAAGAACTTGTG
1 TTGACGTTTCTGAGCAAATAATATAAAATTGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
* * * * * *
10770285 AAATTGCGGCCTTGT-CAGCGCGCTTTTGCTACAGTAGGTCATGTAAGAAATAA-T-TTTTT
66 AAATCGCGCCCTCGTGGA-CGCGCTTTTGCTACAGTAGGTCACGGAAGAAATAATTGTTTTT
* *
10770344 TTGACGTTTCTGAGCAAATAATATAAAATTGCTTCTAACAGGATGCTATTTGAGAAGAATTTATG
1 TTGACGTTTCTGAGCAAATAATATAAAATTGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
*
10770409 AAATCGCGCCCTCGTGGACCCGCTTTTGCTACAGTAG
66 AAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAG
10770446 CATGTTTGGG
Statistics
Matches: 201, Mismatches: 23, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
124 96 0.48
125 3 0.01
126 102 0.51
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.33
Consensus pattern (126 bp):
TTGACGTTTCTGAGCAAATAATATAAAATTGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
AAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCACGGAAGAAATAATTGTTTTT
Found at i:10774033 original size:23 final size:23
Alignment explanation
Indices: 10773998--10774042 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
10773988 TGGAGTATAA
* *
10773998 AAGTTTTATATTTTTATATGTAC
1 AAGTTTTATATTTATACATGTAC
10774021 AAGTTTTGA-ATTTATACATGTA
1 AAGTTTT-ATATTTATACATGTA
10774043 TATACAAGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.33, C:0.04, G:0.11, T:0.51
Consensus pattern (23 bp):
AAGTTTTATATTTATACATGTAC
Found at i:10774817 original size:83 final size:83
Alignment explanation
Indices: 10774622--10775053 Score: 599
Period size: 83 Copynumber: 5.2 Consensus size: 83
10774612 CAGTGCCTAT
* *
10774622 CAGGTTTATTGCCAGTGAAACATTTCAGACTTTACGTCTAGCAGGCTTAATGCCGGTGAAACAAT
1 CAGGCTTAATGCCAGTGAAACATTTCAGACTTTACGTCTAGCAGGCTTAATGCCGGTGAAACAAT
10774687 ATCAGAC-TTACGTCTAG
66 ATCAGACTTTACGTCTAG
* * *
10774704 CAGGCTTAATGCCGGTGAAATAATTCCAGACTTTACGTCTAGCAGGCTTAATGCCGGTGAAACAA
1 CAGGCTTAATGCCAGTGAAA-CATTTCAGACTTTACGTCTAGCAGGCTTAATGCCGGTGAAACAA
10774769 TATCAGACTTTACGTCTAG
65 TATCAGACTTTACGTCTAG
*
10774788 CAGGCTTAATGCCGGTGAAACATTTCAGACTTTACGTCTAGCAGGCTTAATGCCGGTGAAACAAT
1 CAGGCTTAATGCCAGTGAAACATTTCAGACTTTACGTCTAGCAGGCTTAATGCCGGTGAAACAAT
10774853 ATCAGAC-TTACGTCTAG
66 ATCAGACTTTACGTCTAG
* * * * *
10774870 CAGGCTTAATGTCAGTGAAAGAATTCCAGACTTTACGTCTAGCAGGCTTAATGCCGGTGAAATAG
1 CAGGCTTAATGCCAGTGAAA-CATTTCAGACTTTACGTCTAGCAGGCTTAATGCCGGTGAAACAA
10774935 TATCAGACTTTACGTCTAG
65 TATCAGACTTTACGTCTAG
* * * * * *
10774954 CAGGCTTAGTG-CGGTGAAACATTTCAGACTATATGTCTAGCAGGC-TAAGTGCCGGTG-TACTG
1 CAGGCTTAATGCCAGTGAAACATTTCAGACTTTACGTCTAGCAGGCTTAA-TGCCGGTGAAAC-A
* *
10775016 A-ATCAGGCTTTAAGTCTAG
64 ATATCAGACTTTACGTCTAG
10775035 CAGGC-TAAGTGCCAGTGAA
1 CAGGCTTAA-TGCCAGTGAA
10775054 TCTGTTTAAA
Statistics
Matches: 315, Mismatches: 27, Indels: 16
0.88 0.08 0.04
Matches are distributed among these distances:
80 2 0.01
81 27 0.09
82 81 0.26
83 155 0.49
84 50 0.16
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (83 bp):
CAGGCTTAATGCCAGTGAAACATTTCAGACTTTACGTCTAGCAGGCTTAATGCCGGTGAAACAAT
ATCAGACTTTACGTCTAG
Found at i:10775033 original size:41 final size:41
Alignment explanation
Indices: 10774646--10775053 Score: 323
Period size: 41 Copynumber: 9.9 Consensus size: 41
10774636 GTGAAACATT
*
10774646 TCAGACTTTACGTCTAGCAGGCTTAA-TGCCGGTGAAAC-AATA
1 TCAGACTTTACGTCTAGCAGGC-TAAGTGCCGGTG-AACTGA-A
*
10774688 TCAGAC-TTACGTCTAGCAGGCTTAA-TGCCGGTGAAAT-AA
1 TCAGACTTTACGTCTAGCAGGC-TAAGTGCCGGTGAACTGAA
*
10774727 TTCCAGACTTTACGTCTAGCAGGCTTAA-TGCCGGTGAAAC-AATA
1 -T-CAGACTTTACGTCTAGCAGGC-TAAGTGCCGGTG-AACTGA-A
*
10774771 TCAGACTTTACGTCTAGCAGGCTTAA-TGCCGGTGAAAC--ATT
1 TCAGACTTTACGTCTAGCAGGC-TAAGTGCCGGTG-AACTGA-A
*
10774812 TCAGACTTTACGTCTAGCAGGCTTAA-TGCCGGTGAAAC-AATA
1 TCAGACTTTACGTCTAGCAGGC-TAAGTGCCGGTG-AACTGA-A
* * *
10774854 TCAGAC-TTACGTCTAGCAGGCTTAA-TGTCAGTGAA-AGAA
1 TCAGACTTTACGTCTAGCAGGC-TAAGTGCCGGTGAACTGAA
* *
10774893 TTCCAGACTTTACGTCTAGCAGGCTTAA-TGCCGGTGAAATAGTA
1 -T-CAGACTTTACGTCTAGCAGGC-TAAGTGCCGGTGAACT-GAA
* *
10774937 TCAGACTTTACGTCTAGCAGGCTTAGTG-CGGTGAAAC--ATT
1 TCAGACTTTACGTCTAGCAGGCTAAGTGCCGGTG-AACTGA-A
* * *
10774977 TCAGACTATATGTCTAGCAGGCTAAGTGCCGGTGTACTGAA
1 TCAGACTTTACGTCTAGCAGGCTAAGTGCCGGTGAACTGAA
* * *
10775018 TCAGGCTTTAAGTCTAGCAGGCTAAGTGCCAGTGAA
1 TCAGACTTTACGTCTAGCAGGCTAAGTGCCGGTGAA
10775054 TCTGTTTAAA
Statistics
Matches: 321, Mismatches: 25, Indels: 41
0.83 0.06 0.11
Matches are distributed among these distances:
39 2 0.01
40 35 0.11
41 145 0.45
42 131 0.41
43 5 0.02
44 3 0.01
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (41 bp):
TCAGACTTTACGTCTAGCAGGCTAAGTGCCGGTGAACTGAA
Found at i:10777027 original size:116 final size:116
Alignment explanation
Indices: 10776818--10777035 Score: 391
Period size: 116 Copynumber: 1.9 Consensus size: 116
10776808 TGATAAATTG
* *
10776818 TATTTAGTCAAAAAATTGTATTAATGGTTAGTAAAATTATCAAATTATATACAATTATTAATTGT
1 TATTAAGTCAAAAAATTGTATTAATGGTTAGTAAAATTATCAAATTATATAAAATTATTAATTGT
*
10776883 TAGTACCAGTCAAAGCATTTTTCCAAATCTAACATTATGTGAATGTAAAAT
66 TAGTACCAGTCAAAACATTTTTCCAAATCTAACATTATGTGAATGTAAAAT
* *
10776934 TATTAAGTCAAAAAATTGTATTAATGGTTAGTAAAATTATCAAATTATGTAAAATTATTATTTGT
1 TATTAAGTCAAAAAATTGTATTAATGGTTAGTAAAATTATCAAATTATATAAAATTATTAATTGT
10776999 TAGTACCAGTCAAAACATTTTTCCAAATCTAACATTA
66 TAGTACCAGTCAAAACATTTTTCCAAATCTAACATTA
10777036 CGTTAAGGTT
Statistics
Matches: 97, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
116 97 1.00
ACGTcount: A:0.42, C:0.10, G:0.10, T:0.39
Consensus pattern (116 bp):
TATTAAGTCAAAAAATTGTATTAATGGTTAGTAAAATTATCAAATTATATAAAATTATTAATTGT
TAGTACCAGTCAAAACATTTTTCCAAATCTAACATTATGTGAATGTAAAAT
Found at i:10777147 original size:22 final size:22
Alignment explanation
Indices: 10777122--10777177 Score: 94
Period size: 22 Copynumber: 2.5 Consensus size: 22
10777112 AAATATAGAT
10777122 TTGAGAGAATTTTGGAAGGAAA
1 TTGAGAGAATTTTGGAAGGAAA
*
10777144 TTGAGAGAATTTTGGAAGGCAA
1 TTGAGAGAATTTTGGAAGGAAA
10777166 TTGAGAGGAATT
1 TTGAGA-GAATT
10777178 GAGAGGAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
22 27 0.84
23 5 0.16
ACGTcount: A:0.38, C:0.02, G:0.32, T:0.29
Consensus pattern (22 bp):
TTGAGAGAATTTTGGAAGGAAA
Found at i:10779210 original size:15 final size:15
Alignment explanation
Indices: 10779200--10779240 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
10779190 ACTATTCAGT
*
10779200 TTAATATTATTATTA
1 TTAATATTATTAGTA
*
10779215 TTACTATTATTAGTA
1 TTAATATTATTAGTA
*
10779230 TTAGTATTATT
1 TTAATATTATT
10779241 TTTTTATCAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.34, C:0.02, G:0.05, T:0.59
Consensus pattern (15 bp):
TTAATATTATTAGTA
Found at i:10779344 original size:21 final size:24
Alignment explanation
Indices: 10779290--10779344 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 24
10779280 TTATTATGTA
10779290 GTATTATTTTAAGTTTTCCATATAT
1 GTATTATTTTAAG-TTTCCATATAT
10779315 -TATTA-TTTAA-TTT-CATA-AT
1 GTATTATTTTAAGTTTCCATATAT
10779334 GTATTATTTTA
1 GTATTATTTTA
10779345 TATATATATT
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
19 2 0.07
20 9 0.32
21 7 0.25
23 5 0.18
24 5 0.18
ACGTcount: A:0.31, C:0.05, G:0.05, T:0.58
Consensus pattern (24 bp):
GTATTATTTTAAGTTTCCATATAT
Found at i:10781681 original size:154 final size:153
Alignment explanation
Indices: 10781395--10781960 Score: 868
Period size: 154 Copynumber: 3.7 Consensus size: 153
10781385 TTAGTGTGTT
* *
10781395 TTTTATTGAAAGTAATAAAATCCGGGGAAAAAATACGAACAAATGGCCGAAATAAGGGTTTTTTT
1 TTTTATTAAAAGTAATAAAATCC-GGAAAAAAATACGAACAAATGGCCGAAATAAGGG-TTTTTT
* *
10781460 TTAAAATTTATTTAAAAAACACAGTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTA
64 TT-AAATTTATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATCTA
*
10781525 AAATAATAAAATATGAAAATAATATA
128 AAATAATAAAATATGAAAATAGTATA
*
10781551 CTTTTATTAAAAGTAATAAAATCCGGAAAAAAATACGAACAAATGGCTGAAATAAGGGTTTTTTT
1 -TTTTATTAAAAGTAATAAAATCCGGAAAAAAATACGAACAAATGGCCGAAATAAGGGTTTTTTT
*
10781616 TAAATTTATTTAAAAAACACACTAAATGAATACATTTCAAACGTAATGTACTAAAATAATCTAAA
65 TAAATTTATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATCTAAA
10781681 ATAATAAAATTAT-AAAATAGTATA
130 ATAATAAAA-TATGAAAATAGTATA
* * * *
10781705 TTTTTATTGAAAGTAATAAAATCCGGAAAAAAATACGAACAAAGGGCTGAAATAAAGGTTTTTTT
1 -TTTTATTAAAAGTAATAAAATCCGGAAAAAAATACGAACAAATGGCCGAAATAAGGGTTTTTTT
* *
10781770 AAAATTTATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATTTAAA
65 TAAATTTATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATCTAAA
10781835 ATAATAAAAT-TAGAAAATAGTATA
130 ATAATAAAATAT-GAAAATAGTATA
* * * * *
10781859 TTTTTTTAAAA-TAATAAAATCTAGGGAAAAAATACGAACAAAAGGCCGAAATAATGGTTTTTTT
1 TTTTATTAAAAGTAATAAAATC-CGGAAAAAAATACGAACAAATGGCCGAAATAA-GGGTTTTTT
10781923 TTAAATTTATTTAAAAAACACACTAAATGAATACATTT
64 TTAAATTTATTTAAAAAACACACTAAATGAATACATTT
10781961 TTAAAAATAT
Statistics
Matches: 381, Mismatches: 23, Indels: 13
0.91 0.06 0.03
Matches are distributed among these distances:
152 11 0.03
153 38 0.10
154 267 0.70
155 11 0.03
156 32 0.08
157 22 0.06
ACGTcount: A:0.50, C:0.08, G:0.10, T:0.31
Consensus pattern (153 bp):
TTTTATTAAAAGTAATAAAATCCGGAAAAAAATACGAACAAATGGCCGAAATAAGGGTTTTTTTT
AAATTTATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATCTAAAA
TAATAAAATATGAAAATAGTATA
Found at i:10790263 original size:3 final size:3
Alignment explanation
Indices: 10790255--10790316 Score: 124
Period size: 3 Copynumber: 20.7 Consensus size: 3
10790245 TTAAATGTAG
10790255 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
10790303 AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AA
10790317 GGGCAAATTA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:10814984 original size:5 final size:5
Alignment explanation
Indices: 10814974--10815004 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
10814964 TGAGCATTCG
10814974 ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA A
1 ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA A
10815005 AATTTTCGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.19
Consensus pattern (5 bp):
ATCGA
Found at i:10815519 original size:19 final size:19
Alignment explanation
Indices: 10815486--10815533 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
10815476 TAAACAATTC
10815486 AATAATATAAA--TAATAT
1 AATAATATAAATTTAATAT
*
10815503 AA-AATATGAAATTTAATTT
1 AATAATAT-AAATTTAATAT
10815522 AATAATATAAAT
1 AATAATATAAAT
10815534 AGTAGATATA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
16 5 0.19
17 5 0.19
19 11 0.42
20 5 0.19
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (19 bp):
AATAATATAAATTTAATAT
Done.