Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009614.1 Hibiscus syriacus cultivar Beakdansim tig00117000_pilon, whole genome shotgun sequence
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: 2129691
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 10
Found at i:750783 original size:5 final size:5
Alignment explanation
Indices: 750773--750798 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
750763 CACCACAAGC
750773 CGAAG CGAAG CGAAG CGAAG CGAAG C
1 CGAAG CGAAG CGAAG CGAAG CGAAG C
750799 ACAGCAAAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.23, G:0.38, T:0.00
Consensus pattern (5 bp):
CGAAG
Found at i:753751 original size:67 final size:67
Alignment explanation
Indices: 753643--753771 Score: 258
Period size: 67 Copynumber: 1.9 Consensus size: 67
753633 AGGTAAGTGT
753643 CTTCTTGTTCATTGATGAATTCTTTTTTTGTTACTTTGTCAATGGTGTTGGATAAATGAATCCTA
1 CTTCTTGTTCATTGATGAATTCTTTTTTTGTTACTTTGTCAATGGTGTTGGATAAATGAATCCTA
753708 CA
66 CA
753710 CTTCTTGTTCATTGATGAATTCTTTTTTTGTTACTTTGTCAATGGTGTTGGATAAATGAATC
1 CTTCTTGTTCATTGATGAATTCTTTTTTTGTTACTTTGTCAATGGTGTTGGATAAATGAATC
753772 TGTAGGATGG
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
67 62 1.00
ACGTcount: A:0.22, C:0.12, G:0.17, T:0.49
Consensus pattern (67 bp):
CTTCTTGTTCATTGATGAATTCTTTTTTTGTTACTTTGTCAATGGTGTTGGATAAATGAATCCTA
CA
Found at i:755224 original size:22 final size:22
Alignment explanation
Indices: 755176--755223 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 22
755166 TAAATTATTC
**
755176 AAAATAAATCAATCCATATTTT
1 AAAATAAATCAATCCATATAAT
755198 AAAATAAATCAATCCATACTAAT
1 AAAATAAATCAATCCATA-TAAT
755221 AAA
1 AAA
755224 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.56, C:0.15, G:0.00, T:0.29
Consensus pattern (22 bp):
AAAATAAATCAATCCATATAAT
Found at i:755227 original size:54 final size:54
Alignment explanation
Indices: 755163--755516 Score: 443
Period size: 54 Copynumber: 6.4 Consensus size: 54
755153 ACAGCTACAA
*
755163 TAATAAATTATTCAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
* *
755217 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATAAATCTATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
*
755271 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATGC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
* **
755325 TAATAAATTATTTAAAATAAATGAATCCATATTTTAAAATAAATCAATATATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
755379 TAATAAATTATTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAAT-C---C--AT--A-T-TTTAAAATAAATCAATCCATAC
* *
755443 TAATAAATTATTT----TAAATAAAT---TATTTTAAAATAAATCAATCCATATTTTA
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATA----C
755494 TAATAAATTATTTTAAAATAAAT
1 TAATAAATTA-TTTAAAATAAAT
755517 TATTTTATAA
Statistics
Matches: 266, Mismatches: 15, Indels: 36
0.84 0.05 0.11
Matches are distributed among these distances:
47 21 0.08
48 1 0.00
49 1 0.00
51 11 0.04
52 3 0.01
54 177 0.67
55 1 0.00
56 5 0.02
58 1 0.00
60 10 0.04
62 1 0.00
63 1 0.00
64 33 0.12
ACGTcount: A:0.52, C:0.10, G:0.01, T:0.37
Consensus pattern (54 bp):
TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
Found at i:755233 original size:32 final size:32
Alignment explanation
Indices: 755195--755464 Score: 267
Period size: 32 Copynumber: 9.4 Consensus size: 32
755185 CAATCCATAT
755195 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
755227 TTTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
* *
755249 TTTAAAATAAATAAATCTATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
755281 TTTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
755303 TTTAAAATAAATCAATCCATGCTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
755335 TTTAAAATAAATGAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
**
755357 TTTAAAATAAATCAATATATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
755389 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
755421 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
755453 TTTTAAATAAAT
1 TTTAAAATAAAT
755465 TATTTTAAAA
Statistics
Matches: 198, Mismatches: 10, Indels: 60
0.74 0.04 0.22
Matches are distributed among these distances:
22 46 0.23
23 4 0.02
24 3 0.02
26 9 0.05
28 9 0.05
30 3 0.02
31 5 0.03
32 119 0.60
ACGTcount: A:0.53, C:0.10, G:0.01, T:0.36
Consensus pattern (32 bp):
TTTAAAATAAATCAATCCATACTAATAAATTA
Found at i:755332 original size:22 final size:22
Alignment explanation
Indices: 755283--755331 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
755273 ATAAATTATT
**
755283 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
*
755305 TAAAATAAATCAATCCATGCTAA
1 TAAAATAAATCAATCCAT-ATAA
755328 TAAA
1 TAAA
755332 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.53, C:0.14, G:0.02, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:755339 original size:86 final size:81
Alignment explanation
Indices: 755249--755584 Score: 275
Period size: 86 Copynumber: 4.1 Consensus size: 81
755239 CAATCCATAT
*
755249 TTTAAAATAAATAAATCTATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
1 TTTAAAATAAAT-AATCCATA-TAATAAATTATTT-AAATAAATCAAT--ATATTTTAAAATAAA
*
755314 TCAATCCATGCTAATAAATTA
61 TCAATCCATACTAATAAATTA
** * ** * * *
755335 TTTAAAATAAATGAATCCATATTTTAAAATAAATCAATATATACTAATAAATTATTTAAAATAAA
1 TTTAAAATAAAT-AATCCATATAATAAATTATTTAAATAAAT-C-AATATA-T-TTTAAAATAAA
755400 TCAATCCATACTAATAAATTA
61 TCAATCCATACTAATAAATTA
*
755421 TTTAAAATAAATCAATCCATACTAATAAATTATTT---TAAATAAAT-TATTTTAAAATAAATCA
1 TTTAAAATAAAT-AATCCATA-TAATAAATTATTTAAATAAATCAATATATTTTAAAATAAATCA
*
755482 ATCCATATTTTATAATAAATTA
64 ATCCATA----CTAATAAATTA
* ** * *
755504 TTTTAAAATAAATTAT-TTTATAATAAATTATTT-TA-AAATAAAT-TATTTTAAAATAAAT-AA
1 -TTTAAAATAAATAATCCATATAATAAATTATTTAAATAAATCAATATATTTTAAAATAAATCAA
755564 -CCATA-T--TAAATTA
65 TCCATACTAATAAATTA
755577 TTTAAAAT
1 TTTAAAAT
755585 TATTTTAATA
Statistics
Matches: 214, Mismatches: 24, Indels: 38
0.78 0.09 0.14
Matches are distributed among these distances:
72 8 0.04
73 7 0.03
75 1 0.00
79 21 0.10
80 6 0.03
81 16 0.07
82 28 0.13
83 12 0.06
84 24 0.11
85 10 0.05
86 73 0.34
87 8 0.04
ACGTcount: A:0.52, C:0.08, G:0.01, T:0.40
Consensus pattern (81 bp):
TTTAAAATAAATAATCCATATAATAAATTATTTAAATAAATCAATATATTTTAAAATAAATCAAT
CCATACTAATAAATTA
Found at i:755417 original size:18 final size:18
Alignment explanation
Indices: 755394--755450 Score: 59
Period size: 18 Copynumber: 3.4 Consensus size: 18
755384 AATTATTTAA
755394 AATAAATCAATCCATACT
1 AATAAATCAATCCATACT
* * *
755412 AATAAAT-TAT--TTA-A
1 AATAAATCAATCCATACT
755426 AATAAATCAATCCATACT
1 AATAAATCAATCCATACT
755444 AATAAAT
1 AATAAAT
755451 TATTTTAAAT
Statistics
Matches: 29, Mismatches: 6, Indels: 8
0.67 0.14 0.19
Matches are distributed among these distances:
14 7 0.24
15 4 0.14
17 4 0.14
18 14 0.48
ACGTcount: A:0.54, C:0.14, G:0.00, T:0.32
Consensus pattern (18 bp):
AATAAATCAATCCATACT
Found at i:755477 original size:15 final size:15
Alignment explanation
Indices: 755444--755561 Score: 148
Period size: 15 Copynumber: 7.5 Consensus size: 15
755434 AATCCATACT
755444 AATAAATTATTTT-A
1 AATAAATTATTTTAA
755458 AATAAATTATTTTAA
1 AATAAATTATTTTAA
*
755473 AATAAATCAATCCATATTTTAT
1 AAT--A--AAT---TATTTTAA
755495 AATAAATTATTTTAA
1 AATAAATTATTTTAA
*
755510 AATAAATTATTTTAT
1 AATAAATTATTTTAA
755525 AATAAATTATTTTAA
1 AATAAATTATTTTAA
755540 AATAAATTATTTTAA
1 AATAAATTATTTTAA
755555 AATAAAT
1 AATAAAT
755562 AACCATATTA
Statistics
Matches: 92, Mismatches: 4, Indels: 15
0.83 0.04 0.14
Matches are distributed among these distances:
14 13 0.14
15 61 0.66
17 1 0.01
18 3 0.03
19 3 0.03
20 1 0.01
22 10 0.11
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.46
Consensus pattern (15 bp):
AATAAATTATTTTAA
Found at i:755479 original size:47 final size:49
Alignment explanation
Indices: 755412--755561 Score: 179
Period size: 45 Copynumber: 3.1 Consensus size: 49
755402 AATCCATACT
*
755412 AATAAATTA-TTTAAAATAAATCAATCCATA-CTAATAAATTATTTT-A
1 AATAAATTATTTTAAAATAAATCAATCCATATATAATAAATTATTTTAA
755458 AATAAATTATTTTAAAATAAATCAATCCATATTTTATAATAAATTATTTTAA
1 AATAAATTATTTTAAAATAAATCAATCCATA---TATAATAAATTATTTTAA
* * * *
755510 AATAAATTATTTTATAATAAAT-TAT---TTTAAAATAAATTATTTTAA
1 AATAAATTATTTTAAAATAAATCAATCCATATATAATAAATTATTTTAA
755555 AATAAAT
1 AATAAAT
755562 AACCATATTA
Statistics
Matches: 93, Mismatches: 5, Indels: 13
0.84 0.05 0.12
Matches are distributed among these distances:
45 24 0.26
46 9 0.10
47 21 0.23
48 1 0.01
51 16 0.17
52 22 0.24
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (49 bp):
AATAAATTATTTTAAAATAAATCAATCCATATATAATAAATTATTTTAA
Found at i:755595 original size:133 final size:131
Alignment explanation
Indices: 755325--755609 Score: 316
Period size: 133 Copynumber: 2.3 Consensus size: 131
755315 CAATCCATGC
* *
755325 TAATAAATTATTTAAAATAAATGAATCCATATTTTAAAATAAATCAATATATACTAATAAATTAT
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATATATACAAATAAATTAT
*
755390 TTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACTAATAAATTATT
66 TTAAAATAAATCAATCCATACAAATAAATTATTTAAAATAAATCAATCCATACTAATAAATTATT
755455 T
131 T
* * *
755456 TAAATAAATTATTTTAAAATAAATCAATCCATATTTTATAATAAAT-TAT-TTTA-AAATAAATT
1 T-AATAAATTA-TTTAAAATAAATCAATCCATATTTTAAAATAAATCAATATATACAAATAAATT
* * **
755518 ATTTTATAATAAAT-TAT-TTTA-AAATAAATTATTTTAAAATAAAT-AA-CCATA-T--TAAAT
64 A-TTTAAAATAAATCAATCCATACAAATAAATTA-TTTAAAATAAATCAATCCATACTAATAAAT
755575 TA-TT
127 TATTT
*
755579 T-A-AAATTATTT-TAATAAAT-AAT-CATATTTTA
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTA
755610 TAATTATTCT
Statistics
Matches: 139, Mismatches: 11, Indels: 23
0.80 0.06 0.13
Matches are distributed among these distances:
116 9 0.06
117 3 0.02
118 7 0.05
119 3 0.02
120 6 0.04
121 1 0.01
123 3 0.02
124 7 0.05
126 1 0.01
127 5 0.04
128 11 0.08
129 14 0.10
130 11 0.08
131 15 0.11
132 11 0.08
133 32 0.23
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (131 bp):
TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATATATACAAATAAATTAT
TTAAAATAAATCAATCCATACAAATAAATTATTTAAAATAAATCAATCCATACTAATAAATTATT
T
Found at i:758500 original size:80 final size:80
Alignment explanation
Indices: 758365--758527 Score: 283
Period size: 80 Copynumber: 2.0 Consensus size: 80
758355 ATGCAGCCTA
758365 TTTCTAAGGAATAATCAGATTTACTCTGCAACCGGTACTTGCTTTGTCATCCATCATCAAGAACA
1 TTTCTAAGGAATAATCAGATTTACTCTGCAACCGGTACTTGCTTTGTCATCCATCATCAAGAACA
758430 TCGAGCCTACATTTT
66 TCGAGCCTACATTTT
* *
758445 TTTCTAAGGAATAATCAGATTTACTTTGCAACCGGTACTTGCTTCT-TCATTCATCATCAAGAAC
1 TTTCTAAGGAATAATCAGATTTACTCTGCAACCGGTACTTGCTT-TGTCATCCATCATCAAGAAC
*
758509 ATCTAGCCTACATTTT
65 ATCGAGCCTACATTTT
758525 TTT
1 TTT
758528 TCTTCGCACA
Statistics
Matches: 79, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
80 78 0.99
81 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.12, T:0.37
Consensus pattern (80 bp):
TTTCTAAGGAATAATCAGATTTACTCTGCAACCGGTACTTGCTTTGTCATCCATCATCAAGAACA
TCGAGCCTACATTTT
Found at i:762780 original size:29 final size:29
Alignment explanation
Indices: 762740--762820 Score: 101
Period size: 29 Copynumber: 2.8 Consensus size: 29
762730 AATTCAATTG
*
762740 ATTTACTAATTATTTTATAATTTATTAAA
1 ATTTAATAATTATTTTATAATTTATTAAA
* **
762769 ATTTAATAATTATTTTTTAATAAATTAAA
1 ATTTAATAATTATTTTATAATTTATTAAA
*
762798 ATATAAT-ATTCATTTTATAATTT
1 ATTTAATAATT-ATTTTATAATTT
762821 TAAAAATATA
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
28 3 0.07
29 40 0.93
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.54
Consensus pattern (29 bp):
ATTTAATAATTATTTTATAATTTATTAAA
Found at i:762827 original size:28 final size:27
Alignment explanation
Indices: 762746--762836 Score: 85
Period size: 29 Copynumber: 3.1 Consensus size: 27
762736 ATTGATTTAC
*
762746 TAATTATTTTATAATTTATTAAAATTTAA
1 TAATTATTTTATAA-TT-TTAAAATATAA
* *
762775 TAATTATTTTTTAATAAATTAAAATATAA
1 TAATTATTTTATAAT--TTTAAAATATAA
762804 T-ATTCATTTTATAATTTTAAAAATATAAA
1 TAATT-ATTTTATAATTTT-AAAATAT-AA
762833 TAAT
1 TAAT
762837 CAAATTATTT
Statistics
Matches: 51, Mismatches: 5, Indels: 11
0.76 0.07 0.16
Matches are distributed among these distances:
27 2 0.04
28 11 0.22
29 36 0.71
30 2 0.04
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (27 bp):
TAATTATTTTATAATTTTAAAATATAA
Found at i:768389 original size:46 final size:46
Alignment explanation
Indices: 768338--768442 Score: 167
Period size: 46 Copynumber: 2.3 Consensus size: 46
768328 CTATATGACT
* *
768338 ATATGAAATGATATATGAATATGCAATACATGATACGTGTGATATG
1 ATATGAAATGACATATGAATATGCAATACATGATACATGTGATATG
* *
768384 ATATGAAATGACATATGAATATGTAATACGTGATACATGTGATATG
1 ATATGAAATGACATATGAATATGCAATACATGATACATGTGATATG
768430 ATATGAAAT-ACAT
1 ATATGAAATGACAT
768443 GGTTACACAT
Statistics
Matches: 55, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
45 4 0.07
46 51 0.93
ACGTcount: A:0.43, C:0.07, G:0.18, T:0.32
Consensus pattern (46 bp):
ATATGAAATGACATATGAATATGCAATACATGATACATGTGATATG
Found at i:768876 original size:20 final size:20
Alignment explanation
Indices: 768840--768935 Score: 73
Period size: 20 Copynumber: 5.0 Consensus size: 20
768830 TGACATGATT
*
768840 TATATATATGTCATATTGAAA
1 TATATACATG-CATATTGAAA
768861 TATATACATGCATATTGAAA
1 TATATACATGCATATTGAAA
*
768881 TGT-T--ATG---ATT-AAA
1 TATATACATGCATATTGAAA
* *
768894 TGGTA-AGAATGCATATTGAAA
1 T-ATATA-CATGCATATTGAAA
768915 TATATACATGCATATTGAAA
1 TATATACATGCATATTGAAA
768935 T
1 T
768936 GTTATGATTA
Statistics
Matches: 61, Mismatches: 4, Indels: 21
0.71 0.05 0.24
Matches are distributed among these distances:
13 4 0.07
14 5 0.08
17 6 0.10
19 1 0.02
20 31 0.51
21 14 0.23
ACGTcount: A:0.43, C:0.06, G:0.14, T:0.38
Consensus pattern (20 bp):
TATATACATGCATATTGAAA
Found at i:768914 original size:54 final size:54
Alignment explanation
Indices: 768851--768964 Score: 228
Period size: 54 Copynumber: 2.1 Consensus size: 54
768841 ATATATATGT
768851 CATATTGAAATATATACATGCATATTGAAATGTTATGATTAAATGGTAAGAATG
1 CATATTGAAATATATACATGCATATTGAAATGTTATGATTAAATGGTAAGAATG
768905 CATATTGAAATATATACATGCATATTGAAATGTTATGATTAAATGGTAAGAATG
1 CATATTGAAATATATACATGCATATTGAAATGTTATGATTAAATGGTAAGAATG
768959 CATATT
1 CATATT
768965 CATGAAATCT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 60 1.00
ACGTcount: A:0.42, C:0.06, G:0.16, T:0.36
Consensus pattern (54 bp):
CATATTGAAATATATACATGCATATTGAAATGTTATGATTAAATGGTAAGAATG
Found at i:770730 original size:2 final size:2
Alignment explanation
Indices: 770723--770756 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
770713 ATATCATTGG
770723 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
770757 GTATGTATGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:770761 original size:4 final size:4
Alignment explanation
Indices: 770754--770792 Score: 78
Period size: 4 Copynumber: 9.8 Consensus size: 4
770744 TATATATATA
770754 TATG TATG TATG TATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TAT
770793 ATAATAATAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 35 1.00
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.51
Consensus pattern (4 bp):
TATG
Found at i:771260 original size:2 final size:2
Alignment explanation
Indices: 771253--771289 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
771243 ATTTGGTTCC
771253 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
771290 GATTAAGGCA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:774532 original size:23 final size:22
Alignment explanation
Indices: 774505--774579 Score: 71
Period size: 23 Copynumber: 3.3 Consensus size: 22
774495 TGATATATGA
774505 ATATGCAATACGTGATACATGTG
1 ATATG-AATACGTGATACATGTG
* ** *
774528 ATATG-ATATGAAATGACATATG
1 ATATGAATACGTGAT-ACATGTG
774550 AATATGTAATACGTGATACATGTG
1 -ATATG-AATACGTGATACATGTG
774574 ATATGA
1 ATATGA
774580 TATGAAATAC
Statistics
Matches: 40, Mismatches: 8, Indels: 9
0.70 0.14 0.16
Matches are distributed among these distances:
21 6 0.15
22 7 0.17
23 15 0.38
24 6 0.15
25 6 0.15
ACGTcount: A:0.40, C:0.08, G:0.20, T:0.32
Consensus pattern (22 bp):
ATATGAATACGTGATACATGTG
Found at i:774539 original size:46 final size:46
Alignment explanation
Indices: 774487--774591 Score: 185
Period size: 46 Copynumber: 2.3 Consensus size: 46
774477 CTATATGACT
*
774487 ATATGAAATGATATATGAATATGCAATACGTGATACATGTGATATG
1 ATATGAAATGACATATGAATATGCAATACGTGATACATGTGATATG
*
774533 ATATGAAATGACATATGAATATGTAATACGTGATACATGTGATATG
1 ATATGAAATGACATATGAATATGCAATACGTGATACATGTGATATG
774579 ATATGAAAT-ACAT
1 ATATGAAATGACAT
774592 GGTTACACAT
Statistics
Matches: 57, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
45 4 0.07
46 53 0.93
ACGTcount: A:0.43, C:0.07, G:0.18, T:0.32
Consensus pattern (46 bp):
ATATGAAATGACATATGAATATGCAATACGTGATACATGTGATATG
Found at i:774796 original size:38 final size:38
Alignment explanation
Indices: 774740--774835 Score: 129
Period size: 38 Copynumber: 2.5 Consensus size: 38
774730 TATAAGACAT
* * *
774740 ATGATAGGTCCTACGGGACACAGATTACATCATTCGGG
1 ATGATAGGTCCTTCGGGACACAGATGACATCATTCGAG
* *
774778 ATGACAGGTCCTTCGGGACACAGATGACATCCTTCGAG
1 ATGATAGGTCCTTCGGGACACAGATGACATCATTCGAG
**
774816 ATGATAGGTAATTCGGGACA
1 ATGATAGGTCCTTCGGGACA
774836 TTTATACGAG
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 50 1.00
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.23
Consensus pattern (38 bp):
ATGATAGGTCCTTCGGGACACAGATGACATCATTCGAG
Found at i:775025 original size:20 final size:20
Alignment explanation
Indices: 774989--775084 Score: 73
Period size: 20 Copynumber: 5.0 Consensus size: 20
774979 TGACATGATT
*
774989 TATATATATGTCATATTGAAA
1 TATATACATG-CATATTGAAA
775010 TATATACATGCATATTGAAA
1 TATATACATGCATATTGAAA
*
775030 TGT-T--ATG---ATT-AAA
1 TATATACATGCATATTGAAA
* *
775043 TGGTA-AGAATGCATATTGAAA
1 T-ATATA-CATGCATATTGAAA
775064 TATATACATGCATATTGAAA
1 TATATACATGCATATTGAAA
775084 T
1 T
775085 GTTATGATTA
Statistics
Matches: 61, Mismatches: 4, Indels: 21
0.71 0.05 0.24
Matches are distributed among these distances:
13 4 0.07
14 5 0.08
17 6 0.10
19 1 0.02
20 31 0.51
21 14 0.23
ACGTcount: A:0.43, C:0.06, G:0.14, T:0.38
Consensus pattern (20 bp):
TATATACATGCATATTGAAA
Found at i:775063 original size:54 final size:54
Alignment explanation
Indices: 775000--775113 Score: 228
Period size: 54 Copynumber: 2.1 Consensus size: 54
774990 ATATATATGT
775000 CATATTGAAATATATACATGCATATTGAAATGTTATGATTAAATGGTAAGAATG
1 CATATTGAAATATATACATGCATATTGAAATGTTATGATTAAATGGTAAGAATG
775054 CATATTGAAATATATACATGCATATTGAAATGTTATGATTAAATGGTAAGAATG
1 CATATTGAAATATATACATGCATATTGAAATGTTATGATTAAATGGTAAGAATG
775108 CATATT
1 CATATT
775114 CATGAAATCT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 60 1.00
ACGTcount: A:0.42, C:0.06, G:0.16, T:0.36
Consensus pattern (54 bp):
CATATTGAAATATATACATGCATATTGAAATGTTATGATTAAATGGTAAGAATG
Found at i:786104 original size:2 final size:2
Alignment explanation
Indices: 786097--786122 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
786087 ACTTGGTTAT
786097 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
786123 ATTAATATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:788956 original size:66 final size:66
Alignment explanation
Indices: 788850--788983 Score: 268
Period size: 66 Copynumber: 2.0 Consensus size: 66
788840 TATTCCATTC
788850 ATTCATGAAATAACTAAAGTTTCGTTCCTTTGCATGTCACCAAGGATGAAATAACTGGAATTTTA
1 ATTCATGAAATAACTAAAGTTTCGTTCCTTTGCATGTCACCAAGGATGAAATAACTGGAATTTTA
788915 A
66 A
788916 ATTCATGAAATAACTAAAGTTTCGTTCCTTTGCATGTCACCAAGGATGAAATAACTGGAATTTTA
1 ATTCATGAAATAACTAAAGTTTCGTTCCTTTGCATGTCACCAAGGATGAAATAACTGGAATTTTA
788981 A
66 A
788982 AT
1 AT
788984 AAAACTAAAA
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
66 68 1.00
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.34
Consensus pattern (66 bp):
ATTCATGAAATAACTAAAGTTTCGTTCCTTTGCATGTCACCAAGGATGAAATAACTGGAATTTTA
A
Found at i:790250 original size:25 final size:25
Alignment explanation
Indices: 790221--790273 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
790211 ACATATATAG
790221 CTTCATGCACTACTTATCTAATATC
1 CTTCATGCACTACTTATCTAATATC
790246 CTTCATGCACTACTTATCTAATATC
1 CTTCATGCACTACTTATCTAATATC
790271 CTT
1 CTT
790274 TTATACTTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.26, C:0.28, G:0.04, T:0.42
Consensus pattern (25 bp):
CTTCATGCACTACTTATCTAATATC
Found at i:790280 original size:21 final size:22
Alignment explanation
Indices: 790229--790296 Score: 68
Period size: 25 Copynumber: 3.0 Consensus size: 22
790219 AGCTTCATGC
*
790229 ACTACTTATCTAATATCCTTCATGC
1 ACTACTTATCTAATATCCTT--T-T
790254 ACTACTTATCTAATATCCTTTT
1 ACTACTTATCTAATATCCTTTT
*
790276 A-TACTTAT-TTATATACCTTTT
1 ACTACTTATCTAATAT-CCTTTT
790297 CCTTAATTAA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
20 5 0.12
21 13 0.32
22 1 0.03
23 1 0.03
25 20 0.50
ACGTcount: A:0.28, C:0.22, G:0.01, T:0.49
Consensus pattern (22 bp):
ACTACTTATCTAATATCCTTTT
Found at i:790701 original size:21 final size:21
Alignment explanation
Indices: 790676--790716 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
790666 GGCACTGTAT
790676 ATTTGTCCCGAAGGACCACTG
1 ATTTGTCCCGAAGGACCACTG
*
790697 ATTTGTCCCGAATGACCACT
1 ATTTGTCCCGAAGGACCACT
790717 CCTTAAGAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (21 bp):
ATTTGTCCCGAAGGACCACTG
Found at i:794426 original size:19 final size:19
Alignment explanation
Indices: 794402--794438 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
794392 ATGACCAACA
*
794402 AAATCGCAATGCGATCTCT
1 AAATCGCAACGCGATCTCT
794421 AAATCGCAACGCGATCTC
1 AAATCGCAACGCGATCTC
794439 CTATATCGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.30, G:0.16, T:0.22
Consensus pattern (19 bp):
AAATCGCAACGCGATCTCT
Found at i:794508 original size:21 final size:20
Alignment explanation
Indices: 794484--794523 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
794474 ATTTTGACTA
794484 TCGCATTGCAATTTTTCAAAT
1 TCGCATTGCAA-TTTTCAAAT
* *
794505 TCGCGTTGCGATTTTCAAA
1 TCGCATTGCAATTTTCAAA
794524 GCGCCATTAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.25, C:0.20, G:0.15, T:0.40
Consensus pattern (20 bp):
TCGCATTGCAATTTTCAAAT
Found at i:794680 original size:22 final size:21
Alignment explanation
Indices: 794655--794712 Score: 80
Period size: 22 Copynumber: 2.6 Consensus size: 21
794645 TCACTCTCTA
794655 CGACAACATCCGTCCCCATCTC
1 CGACAA-ATCCGTCCCCATCTC
*
794677 CGACGAAGTCCGTCCCCATCTC
1 CGAC-AAATCCGTCCCCATCTC
794699 CGACAAAATCCGTC
1 CGAC-AAATCCGTC
794713 TATCTCCATC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
22 30 0.94
23 2 0.06
ACGTcount: A:0.24, C:0.45, G:0.14, T:0.17
Consensus pattern (21 bp):
CGACAAATCCGTCCCCATCTC
Found at i:795207 original size:20 final size:19
Alignment explanation
Indices: 795104--795209 Score: 113
Period size: 20 Copynumber: 5.4 Consensus size: 19
795094 AAATCGCAAC
795104 GCGATTTTCATTTCGCGTT
1 GCGATTTTCATTTCGCGTT
795123 GCGATTTTCATTTCGCGTT
1 GCGATTTTCATTTCGCGTT
** *
795142 GCGATAGTCAAATTCGCGTT
1 GCGATTTTC-ATTTCGCGTT
** *
795162 GCGATAGTCATTTTCGTGTT
1 GCGATTTTCA-TTTCGCGTT
* *
795182 GTGATTTTCATTTTCGTGTT
1 GCGATTTTCA-TTTCGCGTT
795202 GCGATTTT
1 GCGATTTT
795210 AAGTTTCAGA
Statistics
Matches: 76, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
19 27 0.36
20 49 0.64
ACGTcount: A:0.14, C:0.17, G:0.23, T:0.46
Consensus pattern (19 bp):
GCGATTTTCATTTCGCGTT
Found at i:795216 original size:20 final size:20
Alignment explanation
Indices: 795173--795216 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
795163 CGATAGTCAT
* * *
795173 TTTCGTGTTGTGATTTTCAT
1 TTTCGTGTTGCGATTTTAAG
795193 TTTCGTGTTGCGATTTTAAG
1 TTTCGTGTTGCGATTTTAAG
795213 TTTC
1 TTTC
795217 AGAAACTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.11, C:0.11, G:0.20, T:0.57
Consensus pattern (20 bp):
TTTCGTGTTGCGATTTTAAG
Found at i:796822 original size:21 final size:21
Alignment explanation
Indices: 796798--796853 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
796788 TGGTGCATGG
* * *
796798 CGTGATGAGGTATCTACTTTA
1 CGTGATGAGGTAGCGACTCTA
*
796819 CGTGGTGAGGTAGCGACTCTA
1 CGTGATGAGGTAGCGACTCTA
796840 CGTGA-GATGGTAGC
1 CGTGATGA-GGTAGC
796854 ATCGTTGCAA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
20 2 0.07
21 27 0.93
ACGTcount: A:0.21, C:0.16, G:0.34, T:0.29
Consensus pattern (21 bp):
CGTGATGAGGTAGCGACTCTA
Found at i:797154 original size:20 final size:20
Alignment explanation
Indices: 797123--797191 Score: 102
Period size: 20 Copynumber: 3.5 Consensus size: 20
797113 GAAACTTAAA
*
797123 ATCGCAATGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
*
797143 ATCACAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
**
797163 ATCGCAACGCGAATTTGACT
1 ATCGCAACGCGAAAATGACT
797183 ATCGCAACG
1 ATCGCAACG
797192 GGATAATCGC
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.38, C:0.25, G:0.19, T:0.19
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:797248 original size:20 final size:20
Alignment explanation
Indices: 797225--797262 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
797215 AATCGCAACT
*
797225 TGAAAATCGCAATGCGAAAA
1 TGAAAATCGCAACGCGAAAA
797245 TGAAAATCGCAACGCGAA
1 TGAAAATCGCAACGCGAA
797263 TTTAGTTTCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.13
Consensus pattern (20 bp):
TGAAAATCGCAACGCGAAAA
Found at i:797290 original size:19 final size:20
Alignment explanation
Indices: 797263--797301 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
797253 GCAACGCGAA
*
797263 TTTAGTTTCGCGTTGCGATT
1 TTTAGTTTCGCATTGCGATT
*
797283 TTTA-TTTCGTATTGCGATT
1 TTTAGTTTCGCATTGCGATT
797302 ATCTTGTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.13, C:0.13, G:0.21, T:0.54
Consensus pattern (20 bp):
TTTAGTTTCGCATTGCGATT
Found at i:797337 original size:20 final size:20
Alignment explanation
Indices: 797307--797354 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
797297 CGATTATCTT
*
797307 GTTAAGATAGTCAAATTCGC
1 GTTACGATAGTCAAATTCGC
* **
797327 GTTGCGATAGTCATTTTCGC
1 GTTACGATAGTCAAATTCGC
797347 GTTACGAT
1 GTTACGAT
797355 TTTAAGTTTC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.25, C:0.17, G:0.23, T:0.35
Consensus pattern (20 bp):
GTTACGATAGTCAAATTCGC
Found at i:797364 original size:20 final size:20
Alignment explanation
Indices: 797341--797384 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
797331 CGATAGTCAT
797341 TTTCGCGTTACGATTTTAAG
1 TTTCGCGTTACGATTTTAAG
* *
797361 TTTCGTGTTGCGATTTTAAG
1 TTTCGCGTTACGATTTTAAG
797381 TTTC
1 TTTC
797385 AGAAACTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.16, C:0.14, G:0.20, T:0.50
Consensus pattern (20 bp):
TTTCGCGTTACGATTTTAAG
Found at i:797953 original size:21 final size:21
Alignment explanation
Indices: 797860--797967 Score: 101
Period size: 21 Copynumber: 5.1 Consensus size: 21
797850 GCCCGACTCA
797860 CCTGTCATCGTTCAAGAGGCC
1 CCTGTCATCGTTCAAGAGGCC
* *
797881 TCT-CCTATCGTTCAAGAGGCC
1 CCTGTC-ATCGTTCAAGAGGCC
* ** * *
797902 CCTATCATCCCTCAAAAGTCC
1 CCTGTCATCGTTCAAGAGGCC
**
797923 CCTCCCATCGTTCAAGAGGCC
1 CCTGTCATCGTTCAAGAGGCC
* *
797944 CCTGTCATCGTTGAAGAGGTC
1 CCTGTCATCGTTCAAGAGGCC
797965 CCT
1 CCT
797968 CCTATAATTC
Statistics
Matches: 67, Mismatches: 18, Indels: 4
0.75 0.20 0.04
Matches are distributed among these distances:
20 1 0.01
21 65 0.97
22 1 0.01
ACGTcount: A:0.20, C:0.36, G:0.19, T:0.25
Consensus pattern (21 bp):
CCTGTCATCGTTCAAGAGGCC
Found at i:797979 original size:42 final size:42
Alignment explanation
Indices: 797860--797982 Score: 142
Period size: 42 Copynumber: 2.9 Consensus size: 42
797850 GCCCGACTCA
797860 CCTGTCATCGTTCAAGAGG-CCTCTCCTATCGTTCAAGAGGCC
1 CCTGTCATCGTTCAAGAGGTCC-CTCCTATCGTTCAAGAGGCC
* ** * *
797902 CCTATCATCCCTCAA-AAGTCCCCTCCCATCGTTCAAGAGGCC
1 CCTGTCATCGTTCAAGAGGT-CCCTCCTATCGTTCAAGAGGCC
* **
797944 CCTGTCATCGTTGAAGAGGTCCCTCCTATAATTCAAGAG
1 CCTGTCATCGTTCAAGAGGTCCCTCCTATCGTTCAAGAG
797983 CCCGATTCAC
Statistics
Matches: 65, Mismatches: 13, Indels: 6
0.77 0.15 0.07
Matches are distributed among these distances:
41 2 0.03
42 58 0.89
43 5 0.08
ACGTcount: A:0.23, C:0.34, G:0.18, T:0.25
Consensus pattern (42 bp):
CCTGTCATCGTTCAAGAGGTCCCTCCTATCGTTCAAGAGGCC
Found at i:799384 original size:14 final size:14
Alignment explanation
Indices: 799365--799401 Score: 74
Period size: 14 Copynumber: 2.6 Consensus size: 14
799355 GCTTGTTTAA
799365 TTGATTTGTAAAAG
1 TTGATTTGTAAAAG
799379 TTGATTTGTAAAAG
1 TTGATTTGTAAAAG
799393 TTGATTTGT
1 TTGATTTGT
799402 TTAATTGATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.30, C:0.00, G:0.22, T:0.49
Consensus pattern (14 bp):
TTGATTTGTAAAAG
Found at i:799546 original size:20 final size:20
Alignment explanation
Indices: 799521--799598 Score: 77
Period size: 20 Copynumber: 3.9 Consensus size: 20
799511 AGGTATACTT
*
799521 TCGCAACGCTAAACTCAAAA
1 TCGCAACGCGAAACTCAAAA
* *
799541 TCGCAATGCGAAAGTCAAAA
1 TCGCAACGCGAAACTCAAAA
* *
799561 TTGCAATGCGAAAGC-CAAAA
1 TCGCAACGCGAAA-CTCAAAA
* *
799581 TCGCAACTCGAAAGTCAA
1 TCGCAACGCGAAACTCAA
799599 TTCGCGTTGT
Statistics
Matches: 47, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.44, C:0.24, G:0.17, T:0.15
Consensus pattern (20 bp):
TCGCAACGCGAAACTCAAAA
Found at i:799767 original size:20 final size:20
Alignment explanation
Indices: 799637--799760 Score: 143
Period size: 20 Copynumber: 6.5 Consensus size: 20
799627 GCGATTTTCT
* *
799637 CGTTGCGATAGTCCAATTCC
1 CGTTGCGATAGTCAAATTCG
* *
799657 CGTTGCGATAATCAAATTCA
1 CGTTGCGATAGTCAAATTCG
799677 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
799697 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
*
799717 CGTTGCGAT--T----TTTG
1 CGTTGCGATAGTCAAATTCG
*
799731 AGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
*
799751 TGTTGCGATA
1 CGTTGCGATA
799761 TTGAAATGAA
Statistics
Matches: 89, Mismatches: 9, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
14 11 0.12
16 1 0.01
18 1 0.01
20 76 0.85
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.33
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATTCG
Found at i:799990 original size:140 final size:140
Alignment explanation
Indices: 799738--800020 Score: 521
Period size: 140 Copynumber: 2.0 Consensus size: 140
799728 TTGAGTTGCG
* *
799738 ATAGTCAAATTCGTGTTGCGATATTGAAATGAATGTGTAATAAGTGATAACAACTGAACAGATCA
1 ATAGTCAAATTCGCGTTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACAGATCA
799803 TAACAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACAAATAA
66 TAACAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACAAATAA
799868 AATACACATA
131 AATACACATA
*
799878 ATAGTCAAATTCGCGTTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACATATCA
1 ATAGTCAAATTCGCGTTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACAGATCA
* *
799943 TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
66 TAACAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACAAATAA
800008 AATACACATA
131 AATACACATA
800018 ATA
1 ATA
800021 CAACGTTTGC
Statistics
Matches: 138, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
140 138 1.00
ACGTcount: A:0.44, C:0.14, G:0.13, T:0.29
Consensus pattern (140 bp):
ATAGTCAAATTCGCGTTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACAGATCA
TAACAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACAAATAA
AATACACATA
Found at i:802395 original size:24 final size:24
Alignment explanation
Indices: 802361--802414 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
802351 CTGAAACATC
802361 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
802385 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
802409 ATCAAA
1 ATCAAA
802415 TTTCGAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:802428 original size:24 final size:24
Alignment explanation
Indices: 802361--802428 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
802351 CTGAAACATC
* * *
802361 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
** *
802385 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
* *
802409 ATCAAATTTCGAATACTGAC
1 ATCAAAGTCCGAATACTGAC
802429 TAGTACTCAT
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.24
Consensus pattern (24 bp):
ATCAAAGTCCGAATACTGACCAAG
Found at i:803279 original size:20 final size:20
Alignment explanation
Indices: 803233--803486 Score: 214
Period size: 20 Copynumber: 12.5 Consensus size: 20
803223 TTGAAATTCA
*
803233 GCGTTGCGACAGTCAGAATC
1 GCGTTGCGATAGTCAGAATC
*
803253 GCATTGCGATAGTCAGAATC
1 GCGTTGCGATAGTCAGAATC
* **
803273 GAGTTGCGATTATGT-ATTATC
1 GCGTTGCGA-TA-GTCAGAATC
*
803294 GCGTTGCAATAGTCAGAATC
1 GCGTTGCGATAGTCAGAATC
* * **
803314 GAGTTACGATTATGT-ATTATC
1 GCGTTGCGA-TA-GTCAGAATC
803335 GCGTTGCGATAGTCAGAATC
1 GCGTTGCGATAGTCAGAATC
**
803355 GCGTTGCGATTATGT-ATTATC
1 GCGTTGCGA-TA-GTCAGAATC
803376 GCGTTGCGATAGTCAGAATC
1 GCGTTGCGATAGTCAGAATC
*
803396 GCGTTGCGATTA-T-ATATTATC
1 GCGTTGCGA-TAGTCAGA--ATC
803417 GCGTTGCGATAGTCAGAATC
1 GCGTTGCGATAGTCAGAATC
** * * *
803437 GCGTTGTAAT-TTACATATTC
1 GCGTTGCGATAGT-CAGAATC
803457 GCGTTGCGATAGTCAGAATC
1 GCGTTGCGATAGTCAGAATC
803477 GCGTTGCGAT
1 GCGTTGCGAT
803487 TTTCTAAAAT
Statistics
Matches: 183, Mismatches: 35, Indels: 32
0.73 0.14 0.13
Matches are distributed among these distances:
19 9 0.05
20 109 0.60
21 57 0.31
22 8 0.04
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (20 bp):
GCGTTGCGATAGTCAGAATC
Found at i:803295 original size:41 final size:41
Alignment explanation
Indices: 803250--803487 Score: 363
Period size: 41 Copynumber: 5.8 Consensus size: 41
803240 GACAGTCAGA
* *
803250 ATCGCATTGCGATAGTCAGAATCGAGTTGCGATTATGTATT
1 ATCGCGTTGCGATAGTCAGAATCGCGTTGCGATTATGTATT
* * *
803291 ATCGCGTTGCAATAGTCAGAATCGAGTTACGATTATGTATT
1 ATCGCGTTGCGATAGTCAGAATCGCGTTGCGATTATGTATT
803332 ATCGCGTTGCGATAGTCAGAATCGCGTTGCGATTATGTATT
1 ATCGCGTTGCGATAGTCAGAATCGCGTTGCGATTATGTATT
*
803373 ATCGCGTTGCGATAGTCAGAATCGCGTTGCGATTATATATT
1 ATCGCGTTGCGATAGTCAGAATCGCGTTGCGATTATGTATT
** **
803414 ATCGCGTTGCGATAGTCAGAATCGCGTTGTAATT-TACA-T
1 ATCGCGTTGCGATAGTCAGAATCGCGTTGCGATTATGTATT
803453 ATTCGCGTTGCGATAGTCAGAATCGCGTTGCGATT
1 A-TCGCGTTGCGATAGTCAGAATCGCGTTGCGATT
803488 TTCTAAAATC
Statistics
Matches: 184, Mismatches: 12, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
39 2 0.01
40 34 0.18
41 148 0.80
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.34
Consensus pattern (41 bp):
ATCGCGTTGCGATAGTCAGAATCGCGTTGCGATTATGTATT
Found at i:803299 original size:21 final size:21
Alignment explanation
Indices: 803270--803426 Score: 146
Period size: 21 Copynumber: 7.6 Consensus size: 21
803260 GATAGTCAGA
*
803270 ATCGAGTTGCGATTATGTATT
1 ATCGCGTTGCGATTATGTATT
* **
803291 ATCGCGTTGC-AATA-GTCAGA
1 ATCGCGTTGCGATTATGT-ATT
* *
803311 ATCGAGTTACGATTATGTATT
1 ATCGCGTTGCGATTATGTATT
**
803332 ATCGCGTTGCGA-TA-GTCAGA
1 ATCGCGTTGCGATTATGT-ATT
803352 ATCGCGTTGCGATTATGTATT
1 ATCGCGTTGCGATTATGTATT
**
803373 ATCGCGTTGCGA-TA-GTCAGA
1 ATCGCGTTGCGATTATGT-ATT
*
803393 ATCGCGTTGCGATTATATATT
1 ATCGCGTTGCGATTATGTATT
803414 ATCGCGTTGCGAT
1 ATCGCGTTGCGAT
803427 AGTCAGAATC
Statistics
Matches: 107, Mismatches: 20, Indels: 18
0.74 0.14 0.12
Matches are distributed among these distances:
19 6 0.06
20 42 0.39
21 54 0.50
22 5 0.05
ACGTcount: A:0.24, C:0.16, G:0.25, T:0.35
Consensus pattern (21 bp):
ATCGCGTTGCGATTATGTATT
Found at i:803587 original size:20 final size:19
Alignment explanation
Indices: 803562--803607 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
803552 AGAAACTGAT
* *
803562 TTGCGATACTGGAGATCGCG
1 TTGCGAT-CTAGAGATCGCA
*
803582 TTGCGATTTAGAGATCGCA
1 TTGCGATCTAGAGATCGCA
803601 TTGCGAT
1 TTGCGAT
803608 TTTGTTGGTC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.22, C:0.17, G:0.30, T:0.30
Consensus pattern (19 bp):
TTGCGATCTAGAGATCGCA
Found at i:803597 original size:19 final size:19
Alignment explanation
Indices: 803573--803609 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
803563 TGCGATACTG
*
803573 GAGATCGCGTTGCGATTTA
1 GAGATCGCATTGCGATTTA
803592 GAGATCGCATTGCGATTT
1 GAGATCGCATTGCGATTT
803610 TGTTGGTCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.22, C:0.16, G:0.30, T:0.32
Consensus pattern (19 bp):
GAGATCGCATTGCGATTTA
Found at i:804749 original size:21 final size:21
Alignment explanation
Indices: 804706--804746 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
804696 TTTTATTCGA
* *
804706 CTTCATTCAATTGTTCTTATT
1 CTTCATTCAATTATTCTCATT
804727 CTTCATTC-ATTATTCTCATT
1 CTTCATTCAATTATTCTCATT
804747 TCTATGGTAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.20, C:0.22, G:0.02, T:0.56
Consensus pattern (21 bp):
CTTCATTCAATTATTCTCATT
Found at i:806922 original size:24 final size:25
Alignment explanation
Indices: 806888--806946 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 25
806878 GGTGGTGATG
*
806888 GTGATGGAGATG-GAGATGATGGTA
1 GTGATGTAGATGTGAGATGATGGTA
*
806912 GTGATGTAGATGATTGAGATGGTGGTA
1 GTGATGTAGATG--TGAGATGATGGTA
806939 GTGATGTA
1 GTGATGTA
806947 AATGACTGAG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
24 11 0.37
27 19 0.63
ACGTcount: A:0.27, C:0.00, G:0.42, T:0.31
Consensus pattern (25 bp):
GTGATGTAGATGTGAGATGATGGTA
Found at i:806960 original size:27 final size:27
Alignment explanation
Indices: 806900--806960 Score: 95
Period size: 27 Copynumber: 2.3 Consensus size: 27
806890 GATGGAGATG
* * *
806900 GAGATGATGGTAGTGATGTAGATGATT
1 GAGATGGTGGTAGTGATGTAAATGACT
806927 GAGATGGTGGTAGTGATGTAAATGACT
1 GAGATGGTGGTAGTGATGTAAATGACT
806954 GAGATGG
1 GAGATGG
806961 AGATGGTGGT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.30, C:0.02, G:0.39, T:0.30
Consensus pattern (27 bp):
GAGATGGTGGTAGTGATGTAAATGACT
Found at i:806964 original size:33 final size:30
Alignment explanation
Indices: 806894--806979 Score: 106
Period size: 33 Copynumber: 2.9 Consensus size: 30
806884 GATGGTGATG
*
806894 GAGATGGAGATGATGGTAGTGATGT-AGAT
1 GAGATGGAGATGGTGGTAGTGATGTAAGAT
*
806923 --GATTGAGATGGTGGTAGTGATGTAAATGACT
1 GAGATGGAGATGGTGGTAGTGATGT-AA-GA-T
806954 GAGATGGAGATGGTGGTAGTGATGTA
1 GAGATGGAGATGGTGGTAGTGATGTA
806980 GTAGTTGTGA
Statistics
Matches: 48, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
27 21 0.44
29 1 0.02
30 2 0.04
31 1 0.02
32 1 0.02
33 22 0.46
ACGTcount: A:0.29, C:0.01, G:0.41, T:0.29
Consensus pattern (30 bp):
GAGATGGAGATGGTGGTAGTGATGTAAGAT
Found at i:806994 original size:33 final size:30
Alignment explanation
Indices: 806897--806994 Score: 94
Period size: 33 Copynumber: 3.2 Consensus size: 30
806887 GGTGATGGAG
*
806897 ATGGAGATGATGGTAGTGATGTAGA--TG-
1 ATGGAGATGGTGGTAGTGATGTAGATGTGA
* *
806924 ATTGAGATGGTGGTAGTGATGTAAATGACTGA
1 ATGGAGATGGTGGTAGTGATGTAGATG--TGA
806956 GATGGAGATGGTGGTAGTGATGTAGTAGTTGTGA
1 -ATGGAGATGGTGGTAGTGATGTAG-A--TGTGA
806990 ATGGA
1 ATGGA
806995 TGAGACGAAG
Statistics
Matches: 57, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
27 22 0.39
31 2 0.04
33 27 0.47
34 4 0.07
36 2 0.04
ACGTcount: A:0.29, C:0.01, G:0.40, T:0.31
Consensus pattern (30 bp):
ATGGAGATGGTGGTAGTGATGTAGATGTGA
Found at i:807876 original size:20 final size:20
Alignment explanation
Indices: 807856--807961 Score: 106
Period size: 20 Copynumber: 5.2 Consensus size: 20
807846 AAATCGTAAT
*
807856 GCGATACTGACTATCGCAAT
1 GCGATACTGACTATCGCAAC
* *
807876 GCGATACTTACTATCGCAAT
1 GCGATACTGACTATCGCAAC
* *
807896 GCGATAAT-ACAAAATCGCAAC
1 GCGATACTGAC--TATCGCAAC
* *
807917 GAGATACTGACTTTCGCAAC
1 GCGATACTGACTATCGCAAC
* *
807937 GCGATTCTGACTTTCGCAAC
1 GCGATACTGACTATCGCAAC
807957 GCGAT
1 GCGAT
807962 TTACATAGTG
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
19 2 0.03
20 56 0.77
21 13 0.18
22 2 0.03
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (20 bp):
GCGATACTGACTATCGCAAC
Found at i:808506 original size:20 final size:19
Alignment explanation
Indices: 808481--808532 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
808471 GAGAATGAAA
808481 ATCGCAACGCGGAAATAACT
1 ATCGCAACGC-GAAATAACT
**
808501 ATCGCAACGCGAAATAAAA
1 ATCGCAACGCGAAATAACT
808520 ATCGC-ACGCGAAA
1 ATCGCAACGCGAAA
808533 CCAAAATCGC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
18 8 0.27
19 12 0.40
20 10 0.33
ACGTcount: A:0.44, C:0.25, G:0.19, T:0.12
Consensus pattern (19 bp):
ATCGCAACGCGAAATAACT
Found at i:808530 original size:18 final size:19
Alignment explanation
Indices: 808478--808543 Score: 80
Period size: 18 Copynumber: 3.5 Consensus size: 19
808468 TTCGAGAATG
808478 AAAATCGCAACGCGGAAATA
1 AAAATCGCAACGC-GAAATA
**
808498 ACTATCGCAACGCGAAATA
1 AAAATCGCAACGCGAAATA
**
808517 AAAATCGC-ACGCGAAACC
1 AAAATCGCAACGCGAAATA
808535 AAAATCGCA
1 AAAATCGCA
808544 TTGCGATTTT
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
18 16 0.41
19 12 0.31
20 11 0.28
ACGTcount: A:0.47, C:0.26, G:0.17, T:0.11
Consensus pattern (19 bp):
AAAATCGCAACGCGAAATA
Found at i:808561 original size:19 final size:19
Alignment explanation
Indices: 808539--808589 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 19
808529 GAAACCAAAA
808539 TCGCATTGCGATTTTCAAT
1 TCGCATTGCGATTTTCAAT
* *
808558 TCGCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTCAAT
808577 TCG-AGTTGCGATT
1 TCGCA-TTGCGATT
808590 CTCTCGTCGC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.16, C:0.20, G:0.22, T:0.43
Consensus pattern (19 bp):
TCGCATTGCGATTTTCAAT
Found at i:808609 original size:33 final size:33
Alignment explanation
Indices: 808572--808659 Score: 149
Period size: 33 Copynumber: 2.6 Consensus size: 33
808562 GTTGCGATTT
*
808572 TCATTTCGAGTTGCGATTCTCTCGTCGCGATAG
1 TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
*
808605 TCATTTCGCGTTGCGATTCTCTCGTTGCGATAG
1 TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
808638 TCATTTCCGCGTTGCGATTCTC
1 TCATTT-CGCGTTGCGATTCTC
808660 ATTATCTCGT
Statistics
Matches: 52, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
33 37 0.71
34 15 0.29
ACGTcount: A:0.12, C:0.26, G:0.23, T:0.39
Consensus pattern (33 bp):
TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
Found at i:808661 original size:20 final size:20
Alignment explanation
Indices: 808627--808684 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
808617 GCGATTCTCT
**
808627 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATTCTCATTTCCG
*
808647 CGTTGCGATTCTCATTAT-CT
1 CGTTGCGATTCTCATT-TCCG
*
808667 CGTTGCGATTTTCATTTC
1 CGTTGCGATTCTCATTTC
808685 AACCAAAAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
19 1 0.03
20 30 0.94
21 1 0.03
ACGTcount: A:0.14, C:0.24, G:0.19, T:0.43
Consensus pattern (20 bp):
CGTTGCGATTCTCATTTCCG
Found at i:810490 original size:14 final size:14
Alignment explanation
Indices: 810471--810506 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
810461 ATTGTTTAAT
810471 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
*
810485 TGATTTGTAAAAGT
1 TGATTTGTAAAAGG
810499 TGATTTGT
1 TGATTTGT
810507 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Found at i:810637 original size:19 final size:19
Alignment explanation
Indices: 810613--810659 Score: 85
Period size: 19 Copynumber: 2.5 Consensus size: 19
810603 AAAAAGTACT
*
810613 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
810632 ATCGCAACGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
810651 ATCGCAACG
1 ATCGCAACG
810660 AGAGAATCGC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.45, C:0.21, G:0.21, T:0.13
Consensus pattern (19 bp):
ATCGCAACGCGAAATGAAA
Found at i:810731 original size:33 final size:32
Alignment explanation
Indices: 810688--810814 Score: 139
Period size: 33 Copynumber: 3.9 Consensus size: 32
810678 ATTAAATTCG
* *
810688 CGTTGCGATTTTTATTTCACATTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATT-CCT
* * * **
810721 CGTTGTGATTTTCATTTTGTATTGCGAAATT-AG
1 CGTTGCGATTTTCATTTCGCATTGCG--ATTCCT
*
810754 CGTTGTGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTC-CT
810787 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
810815 AGTAATTTCC
Statistics
Matches: 78, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
31 3 0.04
33 72 0.92
35 3 0.04
ACGTcount: A:0.16, C:0.19, G:0.19, T:0.46
Consensus pattern (32 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCCT
Found at i:810764 original size:66 final size:66
Alignment explanation
Indices: 810681--810813 Score: 194
Period size: 66 Copynumber: 2.0 Consensus size: 66
810671 ACGCGAAATT
* * * * *
810681 AAATTCGCGTTGCGATTTTTATTTCACATTGCGATTCCCTCGTTGTGATTTTCATTTTGTATTGC
1 AAATTAGCGTTGCGATTTTCATTTCACATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
810746 G
66 G
* * *
810747 AAATTAGCGTTGTGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGC
1 AAATTAGCGTTGCGATTTTCATTTCACATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
810812 G
66 G
810813 A
1 A
810814 TAGTAATTTC
Statistics
Matches: 59, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
66 59 1.00
ACGTcount: A:0.17, C:0.19, G:0.19, T:0.45
Consensus pattern (66 bp):
AAATTAGCGTTGCGATTTTCATTTCACATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
G
Found at i:810813 original size:19 final size:19
Alignment explanation
Indices: 810760--810834 Score: 70
Period size: 19 Copynumber: 4.2 Consensus size: 19
810750 TTAGCGTTGT
810760 GATTTTCATTTCGCATTGC
1 GATTTTCATTTCGCATTGC
*
810779 GA--TTC-TCTCG--TTGC
1 GATTTTCATTTCGCATTGC
810793 GATTTTCATTTCGCATTGC
1 GATTTTCATTTCGCATTGC
** *
810812 GATAGTAATTTCCGCATTGC
1 GATTTTCATTT-CGCATTGC
810832 GAT
1 GAT
810835 AGACATTAAG
Statistics
Matches: 45, Mismatches: 5, Indels: 11
0.74 0.08 0.18
Matches are distributed among these distances:
14 6 0.13
16 7 0.16
17 7 0.16
19 14 0.31
20 11 0.24
ACGTcount: A:0.17, C:0.21, G:0.19, T:0.43
Consensus pattern (19 bp):
GATTTTCATTTCGCATTGC
Found at i:813125 original size:12 final size:12
Alignment explanation
Indices: 813108--813144 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
813098 TCTTCGGGGA
*
813108 CTTTTTCTTCTT
1 CTTTTTATTCTT
*
813120 CTTTTTTTTCTT
1 CTTTTTATTCTT
813132 CTTTTTATTCTT
1 CTTTTTATTCTT
813144 C
1 C
813145 AGGATTATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.03, C:0.22, G:0.00, T:0.76
Consensus pattern (12 bp):
CTTTTTATTCTT
Found at i:813353 original size:24 final size:24
Alignment explanation
Indices: 813319--813372 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
813309 CTGAAACATC
*
813319 ATCAAAATCCGAGTATTGACCAAT
1 ATCAAAATCCGAGTATTGACCAAG
* *
813343 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
813367 ATCAAA
1 ATCAAA
813373 TTTCGAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.41, C:0.20, G:0.17, T:0.22
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:814182 original size:20 final size:21
Alignment explanation
Indices: 814157--814208 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
814147 TTTTCCTAAT
*
814157 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
**
814177 TCGCAATGCGAATTTGGAAAA
1 TCGCAATGCGAATTAAGAAAA
814198 TCGCAATGCGA
1 TCGCAATGCGA
814209 TACTGACTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 12 0.43
21 16 0.57
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.21
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:814282 original size:20 final size:20
Alignment explanation
Indices: 814235--814284 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
814225 GAGATAATAC
814235 AAAATCGCAACGAGATTCTG
1 AAAATCGCAACGAGATTCTG
***
814255 ACTTTCGCAACGAGATTCTG
1 AAAATCGCAACGAGATTCTG
814275 AAAATCGCAA
1 AAAATCGCAA
814285 TCATCTTCAA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.38, C:0.22, G:0.18, T:0.22
Consensus pattern (20 bp):
AAAATCGCAACGAGATTCTG
Found at i:814561 original size:20 final size:20
Alignment explanation
Indices: 814501--814565 Score: 60
Period size: 20 Copynumber: 3.2 Consensus size: 20
814491 CGGGGAAATT
*
814501 GCAACGCGAAAATGGCTATC
1 GCAACGCGAAAATGGATATC
** * *
814521 GCAATTCG-AAATGAAAAATC
1 GCAACGCGAAAATG-GATATC
*
814541 GCAACGCGAAAATGGTTATC
1 GCAACGCGAAAATGGATATC
814561 GCAAC
1 GCAAC
814566 TAGAAAATCG
Statistics
Matches: 33, Mismatches: 10, Indels: 4
0.70 0.21 0.09
Matches are distributed among these distances:
19 5 0.15
20 23 0.70
21 5 0.15
ACGTcount: A:0.40, C:0.22, G:0.22, T:0.17
Consensus pattern (20 bp):
GCAACGCGAAAATGGATATC
Found at i:814787 original size:14 final size:14
Alignment explanation
Indices: 814770--814804 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
814760 CAATTAAACA
814770 AAATCAACATTTAC
1 AAATCAACATTTAC
* *
814784 AAATCATCTTTTAC
1 AAATCAACATTTAC
814798 AAATCAA
1 AAATCAA
814805 TTAAACAATC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.49, C:0.20, G:0.00, T:0.31
Consensus pattern (14 bp):
AAATCAACATTTAC
Found at i:816275 original size:41 final size:42
Alignment explanation
Indices: 816221--816312 Score: 141
Period size: 42 Copynumber: 2.2 Consensus size: 42
816211 CCTCTTCAAC
* *
816221 GATGACAGTGGCCTCTTGAACG-GTGGGGGGGACTCTTGAGG
1 GATGACAGGGGCCTCTTGAACGAGTGGAGGGGACTCTTGAGG
* *
816262 GATGATAGGGGCCTCTTGAACGATTGGAGGGGACTCTTGAGG
1 GATGACAGGGGCCTCTTGAACGAGTGGAGGGGACTCTTGAGG
816304 GATGACAGG
1 GATGACAGG
816313 TGAGTCGGGC
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
41 20 0.44
42 25 0.56
ACGTcount: A:0.21, C:0.15, G:0.42, T:0.22
Consensus pattern (42 bp):
GATGACAGGGGCCTCTTGAACGAGTGGAGGGGACTCTTGAGG
Found at i:816277 original size:21 final size:21
Alignment explanation
Indices: 816248--816308 Score: 70
Period size: 21 Copynumber: 2.9 Consensus size: 21
816238 GAACGGTGGG
*
816248 GGGGACTCTTGAGGGATGATA
1 GGGGACTCTTGAGGGATGAGA
* **
816269 GGGGCCTCTTGAACGATTG-GA
1 GGGGACTCTTGAGGGA-TGAGA
816290 GGGGACTCTTGAGGGATGA
1 GGGGACTCTTGAGGGATGA
816309 CAGGTGAGTC
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
20 2 0.06
21 27 0.87
22 2 0.06
ACGTcount: A:0.21, C:0.13, G:0.43, T:0.23
Consensus pattern (21 bp):
GGGGACTCTTGAGGGATGAGA
Found at i:816701 original size:20 final size:20
Alignment explanation
Indices: 816678--816727 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
816668 CTTAAAATCG
816678 CAACGCGAAAATGACTATCA
1 CAACGCGAAAATGACTATCA
* * *
816698 CAACGCGGAAATGGCTATCG
1 CAACGCGAAAATGACTATCA
*
816718 CAATGCGAAA
1 CAACGCGAAA
816728 TGAAAATCGC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.40, C:0.24, G:0.22, T:0.14
Consensus pattern (20 bp):
CAACGCGAAAATGACTATCA
Found at i:816736 original size:19 final size:19
Alignment explanation
Indices: 816714--816804 Score: 87
Period size: 14 Copynumber: 5.4 Consensus size: 19
816704 GGAAATGGCT
816714 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
816733 ATCGCAAT--G--A-CAAA
1 ATCGCAATGCGAAATGAAA
816747 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
816766 ATCGCAA--CG--A-CAAA
1 ATCGCAATGCGAAATGAAA
816780 ATCGCAATGCGAAATG-AA
1 ATCGCAATGCGAAATGAAA
816798 ATCGCAA
1 ATCGCAA
816805 CGACAAAATC
Statistics
Matches: 58, Mismatches: 4, Indels: 21
0.70 0.05 0.25
Matches are distributed among these distances:
14 21 0.36
15 2 0.03
16 3 0.05
17 3 0.05
18 11 0.19
19 18 0.31
ACGTcount: A:0.47, C:0.20, G:0.19, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:816805 original size:32 final size:33
Alignment explanation
Indices: 816714--816825 Score: 190
Period size: 33 Copynumber: 3.4 Consensus size: 33
816704 GGAAATGGCT
*
816714 ATCGCAATGCGAAATGAAAATCGCAATGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
816747 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
816780 ATCGCAATGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
* *
816812 ATCACAACGCGAAA
1 ATCGCAATGCGAAA
816826 CACAAATCGC
Statistics
Matches: 76, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
32 28 0.37
33 48 0.63
ACGTcount: A:0.48, C:0.21, G:0.18, T:0.12
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:816819 original size:14 final size:14
Alignment explanation
Indices: 816730--816820 Score: 65
Period size: 14 Copynumber: 5.9 Consensus size: 14
816720 ATGCGAAATG
*
816730 AAAATCGCAATGAC
1 AAAATCGCAACGAC
*
816744 AAAATCGCAATGCGAAATG
1 AAAATCGCAA--CG--A-C
816763 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
816777 AAAATCGCAATGCGAA
1 AAAATCGCAA--CGAC
816793 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
*
816809 AAAATCACAACG
1 AAAATCGCAACG
816821 CGAAACACAA
Statistics
Matches: 62, Mismatches: 6, Indels: 18
0.72 0.07 0.21
Matches are distributed among these distances:
14 30 0.48
15 1 0.02
16 9 0.15
17 2 0.03
18 10 0.16
19 10 0.16
ACGTcount: A:0.49, C:0.22, G:0.16, T:0.12
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:816833 original size:65 final size:66
Alignment explanation
Indices: 816714--816836 Score: 187
Period size: 65 Copynumber: 1.9 Consensus size: 66
816704 GGAAATGGCT
* * * *
816714 ATCGCAATGCGAAATGAAAATCGCAATGACAAAATCGCAATGCGAAATGAAAATCGCAACGACAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAAATCACAACGCGAAATCAAAATCGCAACGACAA
816779 A
66 A
816780 ATCGCAATGCGAAATG-AAATCGCAACGACAAAATCACAACGCGAAA-CACAAATCGCA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAAATCACAACGCGAAATCA-AAATCGCA
816837 TTGCGATTTT
Statistics
Matches: 52, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
64 1 0.02
65 35 0.67
66 16 0.31
ACGTcount: A:0.48, C:0.23, G:0.17, T:0.12
Consensus pattern (66 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAAATCACAACGCGAAATCAAAATCGCAACGACAA
A
Found at i:816873 original size:14 final size:14
Alignment explanation
Indices: 816854--816911 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
816844 TTTCATTTCG
816854 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
816868 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
816884 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
816900 CGTTGCGATTTT
1 CGTTGCGATTTT
816912 CATTTCGCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.10, C:0.17, G:0.24, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:816918 original size:33 final size:33
Alignment explanation
Indices: 816837--816927 Score: 166
Period size: 32 Copynumber: 2.8 Consensus size: 33
816827 ACAAATCGCA
*
816837 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
816870 TTGCGA-TTTCATTTCGCATTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
816902 TTGCGATTTTCATTTCGCATTGCGAT
1 TTGCGATTTTCATTTCGCATTGCGAT
816928 AGCCATTTCC
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
32 31 0.55
33 25 0.45
ACGTcount: A:0.12, C:0.19, G:0.22, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
Found at i:816946 original size:20 final size:19
Alignment explanation
Indices: 816912--816966 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
816902 TTGCGATTTT
*
816912 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
816931 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
*
816951 CATTTTCGTGTTGCGA
1 CA-TTTCGCGTTGCGA
816967 AAGTAAACTA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 5 0.16
20 23 0.74
21 3 0.10
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.36
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:817474 original size:18 final size:18
Alignment explanation
Indices: 817448--817487 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
817438 GTCAATCAGA
* *
817448 TGATGGCTCTGGGTGAGG
1 TGATAGCTCTGGGCGAGG
817466 TGATAGCTCTGGGCGAGG
1 TGATAGCTCTGGGCGAGG
817484 TGAT
1 TGAT
817488 GGCACCCGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.15, C:0.12, G:0.45, T:0.28
Consensus pattern (18 bp):
TGATAGCTCTGGGCGAGG
Found at i:818837 original size:20 final size:20
Alignment explanation
Indices: 818812--818885 Score: 69
Period size: 20 Copynumber: 3.8 Consensus size: 20
818802 AATAGTTTCT
*
818812 GAAAATGAAAATCGCAACAC
1 GAAAATGAAAATCGCAACGC
**
818832 GAAAATGACTATCGCAACGC
1 GAAAATGAAAATCGCAACGC
** **
818852 GAATTTGACTATCGCAACGC
1 GAAAATGAAAATCGCAACGC
*
818872 GAAACT-AAAATCGC
1 GAAAATGAAAATCGC
818886 GTTGCGATTT
Statistics
Matches: 45, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
19 6 0.13
20 39 0.87
ACGTcount: A:0.43, C:0.23, G:0.18, T:0.16
Consensus pattern (20 bp):
GAAAATGAAAATCGCAACGC
Found at i:819146 original size:22 final size:22
Alignment explanation
Indices: 819119--819162 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
819109 GATGGAGATA
819119 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
*
819141 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
819163 TGAGAGAGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.18, C:0.16, G:0.45, T:0.20
Consensus pattern (22 bp):
GACGGATTTCGCCGGAGATGGG
Found at i:819436 original size:20 final size:20
Alignment explanation
Indices: 819350--819464 Score: 124
Period size: 20 Copynumber: 5.7 Consensus size: 20
819340 GATTATGTAT
* *
819350 TATCGCGTTGCGAAAGTCAG
1 TATCGCATTGCGATAGTCAG
* * *
819370 AATCGCGTTGCGAAAGTCAG
1 TATCGCATTGCGATAGTCAG
* * * *
819390 TATCTCGTTGCGATTTTGT-AT
1 TATCGCATTGCGA--TAGTCAG
819411 TATCGCATTGCGATAGTCAG
1 TATCGCATTGCGATAGTCAG
819431 TATCGCATTGCGATAGTCAG
1 TATCGCATTGCGATAGTCAG
819451 TATCGCATTGCGAT
1 TATCGCATTGCGAT
819465 TTTCCCAATT
Statistics
Matches: 82, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
19 3 0.04
20 65 0.79
21 12 0.15
22 2 0.02
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.32
Consensus pattern (20 bp):
TATCGCATTGCGATAGTCAG
Found at i:819442 original size:61 final size:61
Alignment explanation
Indices: 819340--819467 Score: 184
Period size: 61 Copynumber: 2.1 Consensus size: 61
819330 ATCACATTTT
* * * * *
819340 GATTATGTATTATCGCGTTGCGAAAGTCAGAATCGCGTTGCGAAAGTCAGTATCTCGTTGC
1 GATTTTGTATTATCGCATTGCGAAAGTCAGAATCGCATTGCGAAAGTCAGTATCGCATTGC
* * *
819401 GATTTTGTATTATCGCATTGCGATAGTCAGTATCGCATTGCGATAGTCAGTATCGCATTGC
1 GATTTTGTATTATCGCATTGCGAAAGTCAGAATCGCATTGCGAAAGTCAGTATCGCATTGC
819462 GATTTT
1 GATTTT
819468 CCCAATTCGC
Statistics
Matches: 59, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
61 59 1.00
ACGTcount: A:0.23, C:0.17, G:0.24, T:0.35
Consensus pattern (61 bp):
GATTTTGTATTATCGCATTGCGAAAGTCAGAATCGCATTGCGAAAGTCAGTATCGCATTGC
Found at i:819483 original size:61 final size:61
Alignment explanation
Indices: 819350--819485 Score: 166
Period size: 61 Copynumber: 2.2 Consensus size: 61
819340 GATTATGTAT
* * * * ** *
819350 TATCGCGTTGCGAAAGTCAGAATCGCGTTGCGAAAGTCAGTATCTCGTTGCGATTTTGTAT
1 TATCGCGTTGCGATAGTCAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTCCAA
* * *
819411 TATCGCATTGCGATAGTCAGTATCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCCCAA
1 TATCGCGTTGCGATAGTCAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTT-CCAA
819473 T-TCGCGTTGCGAT
1 TATCGCGTTGCGAT
819486 TTACTTATTC
Statistics
Matches: 63, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
61 61 0.97
62 2 0.03
ACGTcount: A:0.22, C:0.21, G:0.24, T:0.33
Consensus pattern (61 bp):
TATCGCGTTGCGATAGTCAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTCCAA
Found at i:819575 original size:21 final size:21
Alignment explanation
Indices: 819535--819575 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
819525 ACTGTAGACC
** *
819535 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGAAATGCAACT
819556 ATCGCAACGCGAAATGCAAC
1 ATCGCAACGCGAAATGCAAC
819576 GCGAATTTGC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.34, C:0.29, G:0.17, T:0.20
Consensus pattern (21 bp):
ATCGCAACGCGAAATGCAACT
Found at i:823376 original size:35 final size:35
Alignment explanation
Indices: 823328--823395 Score: 118
Period size: 35 Copynumber: 1.9 Consensus size: 35
823318 AAATAGGGGG
*
823328 AAAATACCAATGATGAAACAATTGATGGTAGACAA
1 AAAATACCAATGATGAAACAATCGATGGTAGACAA
*
823363 AAAATACCGATGATGAAACAATCGATGGTAGAC
1 AAAATACCAATGATGAAACAATCGATGGTAGAC
823396 GGTGGACGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.49, C:0.13, G:0.19, T:0.19
Consensus pattern (35 bp):
AAAATACCAATGATGAAACAATCGATGGTAGACAA
Found at i:824522 original size:42 final size:42
Alignment explanation
Indices: 824475--824594 Score: 222
Period size: 42 Copynumber: 2.9 Consensus size: 42
824465 TTTTTCCGAA
*
824475 TTCCCGTGTTTGTTTCACGTAATTCGTTTTTCGGAAAATGTT
1 TTCCCGTGTTTGTTTCACGTAATTGGTTTTTCGGAAAATGTT
*
824517 TTCCCGTGTTTGTTTCACGTAATTGGTTTTCCGGAAAATGTT
1 TTCCCGTGTTTGTTTCACGTAATTGGTTTTTCGGAAAATGTT
824559 TTCCCGTGTTTGTTTCACGTAATTGGTTTTTCGGAA
1 TTCCCGTGTTTGTTTCACGTAATTGGTTTTTCGGAA
824595 TGTAATTCAT
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 75 1.00
ACGTcount: A:0.16, C:0.17, G:0.21, T:0.47
Consensus pattern (42 bp):
TTCCCGTGTTTGTTTCACGTAATTGGTTTTTCGGAAAATGTT
Found at i:824815 original size:22 final size:23
Alignment explanation
Indices: 824785--824828 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
824775 TTTATTTATT
824785 TATTAATATTTATAATAATATAA
1 TATTAATATTTATAATAATATAA
* *
824808 TATT-ATATTTTTAATATTATA
1 TATTAATATTTATAATAATATA
824829 TAAAATAATC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (23 bp):
TATTAATATTTATAATAATATAA
Found at i:824938 original size:28 final size:30
Alignment explanation
Indices: 824774--824938 Score: 107
Period size: 30 Copynumber: 5.6 Consensus size: 30
824764 TAAAAATATT
* *
824774 ATTTATTTATTTA-TTAAT-ATTTATAATA
1 ATTTATTTATATATTTAATAATATATAATA
* * *
824802 ATATAATATTATATTTTTAATATTATATAA-A
1 AT-TTAT-TTATATATTTAATAATATATAATA
* * *
824833 ATAATCAATTATAT-TATAATAATATA-AGAT-
1 AT--TTATTTATATATTTAATAATATATA-ATA
*
824863 ATTATATTTTTAT-TTTAATAATATATAATA
1 ATT-TATTTATATATTTAATAATATATAATA
*
824893 ATTTTTTTATATATTTAATAATGA-ATAAT-
1 ATTTATTTATATATTTAATAAT-ATATAATA
824922 A-TTATTTATATATTTAA
1 ATTTATTTATATATTTAA
824939 ATACTATTTT
Statistics
Matches: 109, Mismatches: 16, Indels: 24
0.73 0.11 0.16
Matches are distributed among these distances:
28 18 0.17
29 31 0.28
30 36 0.33
31 15 0.14
32 9 0.08
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.53
Consensus pattern (30 bp):
ATTTATTTATATATTTAATAATATATAATA
Found at i:825119 original size:48 final size:47
Alignment explanation
Indices: 825065--825174 Score: 114
Period size: 48 Copynumber: 2.3 Consensus size: 47
825055 ATGCAGAAAT
*
825065 TATTATTTTTATTAATAAAATTATAAAAATAATATTTAATAATAAATAA
1 TATTATTTTTATT-ATAAAATAATAAAAATAA-ATTTAATAATAAATAA
* * * * *
825114 T-TTATTTTAATATTTTAAAATAATAATATTAAATTTTATGATAAATAA
1 TATTATTTT--TATTATAAAATAATAAAAATAAATTTAATAATAAATAA
825162 TATTATTTATTAT
1 TATTATTT-TTAT
825175 ATTTAATATT
Statistics
Matches: 51, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
48 25 0.49
49 21 0.41
50 5 0.10
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (47 bp):
TATTATTTTTATTATAAAATAATAAAAATAAATTTAATAATAAATAA
Found at i:825145 original size:22 final size:22
Alignment explanation
Indices: 825120--825166 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
825110 ATAATTTATT
825120 TTAATATTTTAAAAT-AATAATA
1 TTAA-ATTTTAAAATAAATAATA
**
825142 TTAAATTTTATGATAAATAATA
1 TTAAATTTTAAAATAAATAATA
825164 TTA
1 TTA
825167 TTTATTATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 8 0.36
22 14 0.64
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (22 bp):
TTAAATTTTAAAATAAATAATA
Found at i:825327 original size:14 final size:14
Alignment explanation
Indices: 825293--825328 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
825283 AAATGTAATC
*
825293 CATTTTACGGAAAA
1 CATTTTCCGGAAAA
825307 CATTTTCCGGAAAA
1 CATTTTCCGGAAAA
*
825321 CGTTTTCC
1 CATTTTCC
825329 AAAAATGTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.22, G:0.14, T:0.33
Consensus pattern (14 bp):
CATTTTCCGGAAAA
Found at i:835976 original size:33 final size:32
Alignment explanation
Indices: 835904--836003 Score: 130
Period size: 33 Copynumber: 3.1 Consensus size: 32
835894 AAACATGAAA
* *
835904 AATAAGTTGGCCACCTACCAAA-GAATTTTCC
1 AATAAGTTGGCCACCAACCAAATTAATTTTCC
* *
835935 AATGAGTTGGCCACCAACCAAGATTAATTTTTC
1 AATAAGTTGGCCACCAACCAA-ATTAATTTTCC
*
835968 AATAAGTTGGCCACCAACCAAAATTAAATTTCC
1 AATAAGTTGGCCACCAACC-AAATTAATTTTCC
836001 AAT
1 AAT
836004 CTTGCCAAAC
Statistics
Matches: 59, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
31 19 0.32
32 1 0.02
33 37 0.63
34 2 0.03
ACGTcount: A:0.38, C:0.23, G:0.12, T:0.27
Consensus pattern (32 bp):
AATAAGTTGGCCACCAACCAAATTAATTTTCC
Found at i:845560 original size:37 final size:37
Alignment explanation
Indices: 845519--845626 Score: 135
Period size: 37 Copynumber: 2.9 Consensus size: 37
845509 AACATAACGT
* * *
845519 TAGAGTTTTATTAGGATTCAAACTTCTAGAAATAAGA
1 TAGAGTTTTACTAGGATTCAAACTCCTAAAAATAAGA
* *
845556 TAGAGTTTTACTATGATTCAAACTCCTAAAAATATGA
1 TAGAGTTTTACTAGGATTCAAACTCCTAAAAATAAGA
* * * *
845593 TAAAGTTTTACCAAGATTTAAACTCCTAAAAATA
1 TAGAGTTTTACTAGGATTCAAACTCCTAAAAATA
845627 GGATCCATAA
Statistics
Matches: 62, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 62 1.00
ACGTcount: A:0.43, C:0.12, G:0.11, T:0.34
Consensus pattern (37 bp):
TAGAGTTTTACTAGGATTCAAACTCCTAAAAATAAGA
Found at i:846152 original size:20 final size:20
Alignment explanation
Indices: 846128--846172 Score: 65
Period size: 19 Copynumber: 2.3 Consensus size: 20
846118 TTCATGAAAT
846128 ATTTTTTTACATT-TTATAC
1 ATTTTTTTACATTATTATAC
* *
846147 ATTTTTTTACTTTATTATAT
1 ATTTTTTTACATTATTATAC
846167 ATTTTT
1 ATTTTT
846173 ATTTTTTTAG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 12 0.52
20 11 0.48
ACGTcount: A:0.24, C:0.07, G:0.00, T:0.69
Consensus pattern (20 bp):
ATTTTTTTACATTATTATAC
Found at i:846211 original size:40 final size:40
Alignment explanation
Indices: 846166--846310 Score: 109
Period size: 43 Copynumber: 3.4 Consensus size: 40
846156 CTTTATTATA
* *
846166 TATTTTTATTTTTTTAGATTACATATATATATATATA-TGT
1 TATTTTTATTTTTTTATATTA-ATATATATATATATACTAT
*
846206 TATTTTTTATTATCTGTTT-TATTAATTTATATATATATTTACTAT
1 TA-TTTTTATT-T-T-TTTATATTAA--TATATATATATATACTAT
*
846251 T-TTTTTATGTTTTTTATA-TATATATATATATATATTACTTTT
1 TATTTTTAT-TTTTTTATATTA-ATATATATATATA-TAC-TAT
*
846293 TATTATTATTTTATTTAT
1 TATTTTTATTTT-TTTAT
846311 TTGTTTTATT
Statistics
Matches: 85, Mismatches: 6, Indels: 25
0.73 0.05 0.22
Matches are distributed among these distances:
40 13 0.15
41 16 0.19
42 12 0.14
43 24 0.28
44 17 0.20
45 3 0.04
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.65
Consensus pattern (40 bp):
TATTTTTATTTTTTTATATTAATATATATATATATACTAT
Found at i:849443 original size:14 final size:13
Alignment explanation
Indices: 849388--849454 Score: 59
Period size: 14 Copynumber: 5.1 Consensus size: 13
849378 CAATCAGAAC
849388 AAAAAG-GAAAAA
1 AAAAAGAGAAAAA
849400 AAAGAAGA-AAAAA
1 AAA-AAGAGAAAAA
**
849413 GCAAAGAGAAAATA
1 AAAAAGAGAAAA-A
849427 AAAAAGAGAAACAA
1 AAAAAGAGAAA-AA
849441 AAATAA-AGAAAAA
1 AAA-AAGAGAAAAA
849454 A
1 A
849455 GTGAAGAAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
12 7 0.16
13 16 0.36
14 19 0.42
15 3 0.07
ACGTcount: A:0.79, C:0.03, G:0.15, T:0.03
Consensus pattern (13 bp):
AAAAAGAGAAAAA
Found at i:849877 original size:26 final size:27
Alignment explanation
Indices: 849827--849888 Score: 106
Period size: 27 Copynumber: 2.3 Consensus size: 27
849817 CGTCAGGATT
*
849827 AATCTTTATTTGCAAAAAGCTTTTTAA
1 AATCTTTATTTACAAAAAGCTTTTTAA
849854 AATCTTTATTTACAAAAAGCTTTTTAA
1 AATCTTTATTTACAAAAAGCTTTTTAA
*
849881 AATATTTA
1 AATCTTTA
849889 ATGCATGATA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.40, C:0.10, G:0.05, T:0.45
Consensus pattern (27 bp):
AATCTTTATTTACAAAAAGCTTTTTAA
Found at i:851085 original size:116 final size:116
Alignment explanation
Indices: 850877--851098 Score: 338
Period size: 116 Copynumber: 1.9 Consensus size: 116
850867 TTCAGAGTCA
* * * *
850877 ATTTCAACTTCACAGTGAAGGATATTCAAGTTAAGGCTCAACTTCACAACGAAGGGGCCATCCAC
1 ATTTCAACTTCACAGCGAAGGATATCCAAGTTAAGACTCAACTTCACAACGAAAGGGCCATCCAC
** * *
850942 GGTTTCAACTTCACGACAAAGGGAATCGTGCTCACCAGCAATATTCATTGG
66 GGTTTCAACTTCACGACAAAGAAAATCGTACCCACCAGCAATATTCATTGG
*
850993 ATTTCAACTTCACGGCGAAGGATATCCAA-TTCAAGACTCAACTTCACAACGAAAGGGCCATCCA
1 ATTTCAACTTCACAGCGAAGGATATCCAAGTT-AAGACTCAACTTCACAACGAAAGGGCCATCCA
*
851057 CGGTTTCAACTTCACGACGAAGAAAATCGTACCCACCAGCAA
65 CGGTTTCAACTTCACGACAAAGAAAATCGTACCCACCAGCAA
851099 CATTTATCTT
Statistics
Matches: 95, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
115 2 0.02
116 93 0.98
ACGTcount: A:0.34, C:0.27, G:0.18, T:0.22
Consensus pattern (116 bp):
ATTTCAACTTCACAGCGAAGGATATCCAAGTTAAGACTCAACTTCACAACGAAAGGGCCATCCAC
GGTTTCAACTTCACGACAAAGAAAATCGTACCCACCAGCAATATTCATTGG
Found at i:851241 original size:36 final size:37
Alignment explanation
Indices: 851191--851270 Score: 144
Period size: 36 Copynumber: 2.2 Consensus size: 37
851181 AATTTACCCA
851191 AAACAAAGTTTTATCTCTCTTGAGACAGTTTCCCTTG
1 AAACAAAGTTTTATCTCTCTTGAGACAGTTTCCCTTG
851228 AAACAAA-TTTTATCTCTCTTGAGACAGTTTCCCTTG
1 AAACAAAGTTTTATCTCTCTTGAGACAGTTTCCCTTG
*
851264 TAACAAA
1 AAACAAA
851271 ATCTTTGAAT
Statistics
Matches: 42, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
36 35 0.83
37 7 0.17
ACGTcount: A:0.31, C:0.21, G:0.11, T:0.36
Consensus pattern (37 bp):
AAACAAAGTTTTATCTCTCTTGAGACAGTTTCCCTTG
Found at i:851384 original size:21 final size:21
Alignment explanation
Indices: 851359--851424 Score: 63
Period size: 21 Copynumber: 3.4 Consensus size: 21
851349 TGATACAGTT
851359 TCTCTTGAAACAAATTTTGTC
1 TCTCTTGAAACAAATTTTGTC
*
851380 TCTCTTGAAA-TAA--TT-TC
1 TCTCTTGAAACAAATTTTGTC
851397 -C-CTTGAAACAAAGTTTTGTC
1 TCTCTTGAAACAAA-TTTTGTC
*
851417 CCTCTTGA
1 TCTCTTGA
851425 GACAGTTTCT
Statistics
Matches: 36, Mismatches: 2, Indels: 13
0.71 0.04 0.25
Matches are distributed among these distances:
15 7 0.19
16 3 0.08
17 2 0.06
18 2 0.06
19 2 0.06
20 4 0.11
21 11 0.31
22 5 0.14
ACGTcount: A:0.27, C:0.21, G:0.11, T:0.41
Consensus pattern (21 bp):
TCTCTTGAAACAAATTTTGTC
Found at i:851384 original size:36 final size:36
Alignment explanation
Indices: 851285--851443 Score: 176
Period size: 37 Copynumber: 4.4 Consensus size: 36
851275 TTGAATCTGT
* *
851285 TTTC-CTTGAAACAAATTTCGTCTCCCTTGAGACAG
1 TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAG
* * * ** *
851320 TTTTTTTTGGAACTAGGTTTTGTCTCTCTTGATACAG
1 TTTCTCTTGAAAC-AAATTTTGTCTCTCTTGAGACAG
* * *
851357 TTTCTCTTGAAACAAATTTTGTCTCTCTTGAAATAA
1 TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAG
* *
851393 TTTCCCTTGAAACAAAGTTTTGTCCCTCTTGAGACAG
1 TTTCTCTTGAAACAAA-TTTTGTCTCTCTTGAGACAG
851430 TTTCTCTTGAAACA
1 TTTCTCTTGAAACA
851444 CCAATCTTTG
Statistics
Matches: 99, Mismatches: 22, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
35 3 0.03
36 39 0.39
37 57 0.58
ACGTcount: A:0.25, C:0.20, G:0.14, T:0.42
Consensus pattern (36 bp):
TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAG
Found at i:851492 original size:67 final size:68
Alignment explanation
Indices: 851384--851547 Score: 190
Period size: 67 Copynumber: 2.4 Consensus size: 68
851374 TTTGTCTCTC
** * * * * *
851384 TTGAAATAATTTCCCTTGAAACAAAGTTTTGTCCCTCTTGAGACAGTTTCTCTTGAAACAC-CAA
1 TTGAAATTGTTTCTCTTGAAACAAAATTTTGTCCCCCTTGAGACAGTTTATCTTGAAACACAAAA
*
851448 TCT
66 CCT
851451 TTG-AATATGTTTCTCTTGAAACAAAATTTTG-CCTCCCTTGAGACAGTTTATCTTGAAACACGA
1 TTGAAAT-TGTTTCTCTTGAAACAAAATTTTGTCC-CCCTTGAGACAGTTTATCTTGAAACAC--
851514 AAAAACCT
62 -AAAACCT
851522 TTGAAATTGTTTCTCTTGAAACAAAA
1 TTGAAATTGTTTCTCTTGAAACAAAA
851548 AAAAAAACCT
Statistics
Matches: 82, Mismatches: 8, Indels: 10
0.82 0.08 0.10
Matches are distributed among these distances:
66 5 0.06
67 48 0.59
71 26 0.32
72 3 0.04
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.35
Consensus pattern (68 bp):
TTGAAATTGTTTCTCTTGAAACAAAATTTTGTCCCCCTTGAGACAGTTTATCTTGAAACACAAAA
CCT
Found at i:851586 original size:35 final size:35
Alignment explanation
Indices: 851496--851614 Score: 186
Period size: 35 Copynumber: 3.4 Consensus size: 35
851486 CCTTGAGACA
* *
851496 GTTTATCTTGAAACAC-GAAAAAACCTTTGAAATT
1 GTTTCTCTTGAAACACAAAAAAAACCTTTGAAATT
*
851530 GTTTCTCTTGAAACAAAAAAAAAAACCTTTGAAATT
1 GTTTCTCTTGAAAC-ACAAAAAAAACCTTTGAAATT
*
851566 GTTTCTCTTGAAACACAAAAAAAACCTTTGAAAAT
1 GTTTCTCTTGAAACACAAAAAAAACCTTTGAAATT
851601 GTTTCTCTTGAAAC
1 GTTTCTCTTGAAAC
851615 CCAAGACATT
Statistics
Matches: 78, Mismatches: 5, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
34 13 0.17
35 34 0.44
36 31 0.40
ACGTcount: A:0.42, C:0.16, G:0.10, T:0.32
Consensus pattern (35 bp):
GTTTCTCTTGAAACACAAAAAAAACCTTTGAAATT
Found at i:852141 original size:37 final size:37
Alignment explanation
Indices: 852033--852144 Score: 170
Period size: 37 Copynumber: 3.0 Consensus size: 37
852023 AACATAACGT
* * *
852033 TAGAGTTTTACTAGGATTCAAACTCCTAGAAATAAGA
1 TAGAGTTTTACTAAGATTCAAACTCCTAAAAATAGGA
*
852070 TAGAGTTTTACTATGATTCAAACTCCTAAAAATAGGA
1 TAGAGTTTTACTAAGATTCAAACTCCTAAAAATAGGA
* *
852107 TAGAGTTTTACTAAGATTTAAACTACTAAAAATAGGA
1 TAGAGTTTTACTAAGATTCAAACTCCTAAAAATAGGA
852144 T
1 T
852145 CCATAAGCAT
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.42, C:0.12, G:0.14, T:0.32
Consensus pattern (37 bp):
TAGAGTTTTACTAAGATTCAAACTCCTAAAAATAGGA
Found at i:852666 original size:19 final size:18
Alignment explanation
Indices: 852608--852668 Score: 52
Period size: 17 Copynumber: 3.4 Consensus size: 18
852598 ATTGTTTTGT
* * *
852608 TATTTTTTTCATGTAATA
1 TATTTTTTACATTTTATA
*
852626 T-TTTTTTACATTTTATG
1 TATTTTTTACATTTTATA
* *
852643 CATTTTTTACTTTATTATA
1 TATTTTTTACATT-TTATA
852662 TATTTTT
1 TATTTTT
852669 ATTTTTTTAG
Statistics
Matches: 33, Mismatches: 8, Indels: 3
0.75 0.18 0.07
Matches are distributed among these distances:
17 12 0.36
18 11 0.33
19 10 0.30
ACGTcount: A:0.23, C:0.07, G:0.03, T:0.67
Consensus pattern (18 bp):
TATTTTTTACATTTTATA
Found at i:852848 original size:22 final size:21
Alignment explanation
Indices: 852796--852849 Score: 54
Period size: 22 Copynumber: 2.5 Consensus size: 21
852786 TTTATTATTA
*
852796 TTTTATTTATATATTTCTTTT
1 TTTTATTTATATATTTCTTTG
* *
852817 TCTTTTTTTATATTTTATCTTTG
1 T-TTTATTTATATATT-TCTTTG
*
852840 TTTTCTTTAT
1 TTTTATTTAT
852850 CTTATCTTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
21 1 0.04
22 20 0.74
23 6 0.22
ACGTcount: A:0.15, C:0.07, G:0.02, T:0.76
Consensus pattern (21 bp):
TTTTATTTATATATTTCTTTG
Found at i:854876 original size:21 final size:21
Alignment explanation
Indices: 854850--855027 Score: 143
Period size: 21 Copynumber: 8.6 Consensus size: 21
854840 GTTTCCAGAT
* *
854850 TCGCAACGCGAACTTCGACTA
1 TCGCAATGCGAACTTGGACTA
854871 TCGCAATGCGAACTTGGACTA
1 TCGCAATGCGAACTTGGACTA
**
854892 TCGCAATGCGATTTTGGACTA
1 TCGCAATGCGAACTTGGACTA
*
854913 TCGTAATGCGAACTTGGACTA
1 TCGCAATGCGAACTTGGACTA
* * *
854934 TCGCAGTGCGAA-TATGTA-AA
1 TCGCAATGCGAACT-TGGACTA
* *
854954 TCGCAATGCGATA-GTCGACTA
1 TCGCAATGCGA-ACTTGGACTA
* * *
854975 TCGCATTGCGAA-TATGTA-AA
1 TCGCAATGCGAACT-TGGACTA
* *
854995 TCGCAATGCGATA-GTCGACTA
1 TCGCAATGCGA-ACTTGGACTA
855016 TCGCAATGCGAA
1 TCGCAATGCGAA
855028 TATGTAAATC
Statistics
Matches: 125, Mismatches: 26, Indels: 13
0.76 0.16 0.08
Matches are distributed among these distances:
20 29 0.23
21 96 0.77
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.25
Consensus pattern (21 bp):
TCGCAATGCGAACTTGGACTA
Found at i:854958 original size:20 final size:20
Alignment explanation
Indices: 854933--855046 Score: 110
Period size: 20 Copynumber: 5.6 Consensus size: 20
854923 AACTTGGACT
*
854933 ATCGCAGTGCGAATATGTAA
1 ATCGCAATGCGAATATGTAA
*
854953 ATCGCAATGCG-ATA-GTCGACT
1 ATCGCAATGCGAATATGT--A-A
*
854974 ATCGCATTGCGAATATGTAA
1 ATCGCAATGCGAATATGTAA
*
854994 ATCGCAATGCG-ATA-GTCGACT
1 ATCGCAATGCGAATATGT--A-A
855015 ATCGCAATGCGAATATGTAA
1 ATCGCAATGCGAATATGTAA
855035 ATCGCAATGCGA
1 ATCGCAATGCGA
855047 TAGTCGAAGT
Statistics
Matches: 77, Mismatches: 7, Indels: 20
0.74 0.07 0.19
Matches are distributed among these distances:
18 4 0.05
19 6 0.08
20 34 0.44
21 23 0.30
22 6 0.08
23 4 0.05
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.25
Consensus pattern (20 bp):
ATCGCAATGCGAATATGTAA
Found at i:855067 original size:41 final size:41
Alignment explanation
Indices: 854929--855053 Score: 232
Period size: 41 Copynumber: 3.0 Consensus size: 41
854919 TGCGAACTTG
*
854929 GACTATCGCAGTGCGAATATGTAAATCGCAATGCGATAGTC
1 GACTATCGCATTGCGAATATGTAAATCGCAATGCGATAGTC
854970 GACTATCGCATTGCGAATATGTAAATCGCAATGCGATAGTC
1 GACTATCGCATTGCGAATATGTAAATCGCAATGCGATAGTC
*
855011 GACTATCGCAATGCGAATATGTAAATCGCAATGCGATAGTC
1 GACTATCGCATTGCGAATATGTAAATCGCAATGCGATAGTC
855052 GA
1 GA
855054 AGTTCACGTT
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 82 1.00
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.25
Consensus pattern (41 bp):
GACTATCGCATTGCGAATATGTAAATCGCAATGCGATAGTC
Found at i:855086 original size:21 final size:22
Alignment explanation
Indices: 854867--855089 Score: 118
Period size: 21 Copynumber: 10.7 Consensus size: 22
854857 GCGAACTTCG
* * *
854867 ACTATCGCAATGCGA-ACTTGG
1 ACTATCGCAATGCGATAGTCGT
* * *
854888 ACTATCGCAATGCGAT-TTTGG
1 ACTATCGCAATGCGATAGTCGT
* * * *
854909 ACTATCGTAATGCGA-ACTTGG
1 ACTATCGCAATGCGATAGTCGT
*
854930 ACTATCGCAGTGCGAATA-T-GT
1 ACTATCGCAATGCG-ATAGTCGT
*
854951 A-AATCGCAATGCGATAGTCG-
1 ACTATCGCAATGCGATAGTCGT
*
854971 ACTATCGCATTGCGAATA-T-GT
1 ACTATCGCAATGCG-ATAGTCGT
*
854992 A-AATCGCAATGCGATAGTCG-
1 ACTATCGCAATGCGATAGTCGT
855012 ACTATCGCAATGCGAATA-T-GT
1 ACTATCGCAATGCG-ATAGTCGT
* *
855033 A-AATCGCAATGCGATAGTCGA
1 ACTATCGCAATGCGATAGTCGT
* * **
855054 AGT-TCACGTTGCGATAGTCG-
1 ACTATCGCAATGCGATAGTCGT
*
855074 ACTATCGCATTGCGAT
1 ACTATCGCAATGCGAT
855090 TTACATATTC
Statistics
Matches: 162, Mismatches: 22, Indels: 36
0.74 0.10 0.16
Matches are distributed among these distances:
19 9 0.06
20 40 0.25
21 104 0.64
22 8 0.05
23 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (22 bp):
ACTATCGCAATGCGATAGTCGT
Found at i:855244 original size:12 final size:11
Alignment explanation
Indices: 855227--855262 Score: 56
Period size: 10 Copynumber: 3.3 Consensus size: 11
855217 GACACGTATT
855227 ACCACGACCACG
1 ACCACGACC-CG
855239 ACCACGACCCG
1 ACCACGACCCG
855250 ACC-CGACCCG
1 ACCACGACCCG
855260 ACC
1 ACC
855263 CGAGACGGAC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 10 0.42
11 5 0.21
12 9 0.38
ACGTcount: A:0.28, C:0.56, G:0.17, T:0.00
Consensus pattern (11 bp):
ACCACGACCCG
Done.