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 170 of 211
Found at i:50238519 original size:61 final size:61
Alignment explanation
Indices: 50238217--50238642 Score: 282
Period size: 61 Copynumber: 7.1 Consensus size: 61
50238207 TTATTATTAA
* *
50238217 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTAAATGAATTTACTAAAATCATAAT
1 ATATAATTTAATAAAATTTTTAATATTAAATATTCTTAAATGAATTTAATAAAATCATAAT
* * * * * ** * *
50238278 ATATAATACT-ATAAAATATAATTTAA-AATAATTATTATTAAA--AATATAATTTAGT-AAAAT
1 ATATAAT-TTAATAAAAT-T--TTTAATATTAAATATTCTTAAATGAATTTAATAAAATCATAAT
* * * *
50238338 ATATAATTTAATAAAATTATTAACATTAAATATTCCT---TGAATTTACTAAAATCATAAT
1 ATATAATTTAATAAAATTTTTAATATTAAATATTCTTAAATGAATTTAATAAAATCATAAT
* * * * *
50238396 ATATAATACT-ATAAAATATAATTTAA-AAT-AATAATTATTAAATATAATTTAGT-AAA--AT-
1 ATATAAT-TTAATAAAAT-T--TTTAATATTAAAT-ATTCTTAAAT-GAATTTAATAAAATCATA
50238454 -T
60 AT
* *
50238455 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTAAATGAATTTACTAAAATCATAAT
1 ATATAATTTAATAAAATTTTTAATATTAAATATTCTTAAATGAATTTAATAAAATCATAAT
** * * * ** * *
50238516 ATATAACACT-ATAAAATATAATTTAA-AAT-AATAATTATTAAA--AATATAATTTAATAAAAA
1 ATATAA-TTTAATAAAAT-T--TTTAATATTAAAT-ATTCTTAAATGAATTTAATAAAATCATAA
50238576 T
61 T
*
50238577 ATATAATTTAATAAAATTTTTAATATTAAATATTCTTATATGAATTTAATAAAATCATAAT
1 ATATAATTTAATAAAATTTTTAATATTAAATATTCTTAAATGAATTTAATAAAATCATAAT
50238638 ATATA
1 ATATA
50238643 CTACTATAAA
Statistics
Matches: 272, Mismatches: 57, Indels: 72
0.68 0.14 0.18
Matches are distributed among these distances:
56 11 0.04
57 26 0.10
58 37 0.14
59 33 0.12
60 29 0.11
61 87 0.32
62 7 0.03
63 27 0.10
64 15 0.06
ACGTcount: A:0.53, C:0.04, G:0.01, T:0.41
Consensus pattern (61 bp):
ATATAATTTAATAAAATTTTTAATATTAAATATTCTTAAATGAATTTAATAAAATCATAAT
Found at i:50238548 original size:15 final size:14
Alignment explanation
Indices: 50238528--50238593 Score: 53
Period size: 15 Copynumber: 4.4 Consensus size: 14
50238518 ATAACACTAT
50238528 AAAATATAATTTAA
1 AAAATATAATTTAA
* *
50238542 AATA-ATAATTATTA
1 AAAATATAATT-TAA
50238556 AAAATATAATTTAATAA
1 AAAATATAA-TT--TAA
50238573 AAATATATAATTTAA
1 AAA-ATATAATTTAA
50238588 TAAAAT
1 -AAAAT
50238594 TTTTAATATT
Statistics
Matches: 42, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
13 6 0.14
14 8 0.19
15 9 0.21
16 5 0.12
17 8 0.19
18 6 0.14
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (14 bp):
AAAATATAATTTAA
Found at i:50238561 original size:16 final size:16
Alignment explanation
Indices: 50238540--50238592 Score: 63
Period size: 16 Copynumber: 3.2 Consensus size: 16
50238530 AATATAATTT
*
50238540 AAAATAATAATTATTA
1 AAAATAATAATTAATA
50238556 AAAAT-ATAATTTAATA
1 AAAATAATAA-TTAATA
50238572 AAAATATATAATTTAATA
1 AAAATA-ATAA-TTAATA
50238590 AAA
1 AAA
50238593 TTTTTAATAT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
15 4 0.12
16 15 0.45
18 14 0.42
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (16 bp):
AAAATAATAATTAATA
Found at i:50238593 original size:33 final size:29
Alignment explanation
Indices: 50238525--50238593 Score: 77
Period size: 28 Copynumber: 2.3 Consensus size: 29
50238515 TATATAACAC
* *
50238525 TATAAAATATAATTTAAAATAATAATTAT
1 TATAAAATATAATTTAAAAAAATAATAAT
50238554 TA-AAAATATAATTTAATAAAAATATATAATT
1 TATAAAATATAATTTAA-AAAAATA-ATAA-T
50238585 TAATAAAAT
1 T-ATAAAAT
50238594 TTTTAATATT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
28 14 0.42
29 8 0.24
30 3 0.09
31 2 0.06
32 1 0.03
33 5 0.15
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (29 bp):
TATAAAATATAATTTAAAAAAATAATAAT
Found at i:50238661 original size:38 final size:38
Alignment explanation
Indices: 50238614--50239187 Score: 154
Period size: 38 Copynumber: 14.4 Consensus size: 38
50238604 AAATATTCTT
*
50238614 ATATGAATTTAATAAAATCATAATATATACTACTATAAA
1 ATAT-AATTTAATAAAATCATAATATATAATACTATAAA
50238653 ATATAA-TT--T-AAA--ATAAT-TAT--TA-T-T-AA
1 ATATAATTTAATAAAATCATAATATATAATACTATAAA
* * * *
50238679 ATATAATTTAATAAAATTCTTAATAT-TAAATATTCTTAA
1 ATATAATTTAATAAAA-TCATAATATAT-AATACTATAAA
* *
50238718 AT-GAATTTACTAAAATCATAATATATAATACTATAAA
1 ATATAATTTAATAAAATCATAATATATAATACTATAAA
* * * *
50238755 ATATAATTTAA-AATAATTATTAATTTAATAA-AATCATAAT
1 ATATAATTTAATAA-AATCA-TAATAT-ATAATACT-ATAAA
* * * * *
50238795 ATATAATACT-ATGAAAT-ATAATTTAAAATAATTATTATTAA
1 ATATAAT-TTAATAAAATCATAA--T-ATATAA-TACTATAAA
* * *
50238836 ATATAATTTAATAAAAATATATAATTTAATAAAATTCTTCATATTAA
1 ATATAATTTAAT-AAAAT-CATAA--T-ATATAATAC-T-ATA--AA
*
50238883 ATATTCTTAAATGAATTCACTAAAATCATAATATATAATACTATAAA
1 ATA----T-AAT---TT-AATAAAATCATAATATATAATACTATAAA
* * * *
50238930 ATATAATTTAAAATAATAATTATTAAAAATATAATTTAGTAAAAA
1 ATATAATTT--AATAA-AATCA-T-AATATATAA--TACTATAAA
* **
50238975 TATATAATTTAATAAAATTATTAATAT-TAA-A-TAT-TC
1 -ATATAATTTAATAAAATCA-TAATATATAATACTATAAA
* * *
50239011 TTAGAATTTACTAAAATCATAATATATAATACTATAAA
1 ATATAATTTAATAAAATCATAATATATAATACTATAAA
* * * *
50239049 ATATAATTTAAAATAATAATTATTAAAAATATAATTTAGTAAAAA
1 ATATAATTT--AATAA-AATCA-T-AATATATAA--TACTATAAA
* ***
50239094 TATATAATTTAATAAAATTCTTAATAT-TAA-A-TATTCTT
1 -ATATAATTTAATAAAA-TCATAATATATAATACTA-TAAA
*
50239132 ATATGAATTTACTAAAATCATAATATATAATACTATAAAA
1 ATAT-AATTTAATAAAATCATAATATATAATACTAT-AAA
*
50239172 ATATAATTTATTAAAA
1 ATATAATTTAATAAAA
50239188 ATATATAATT
Statistics
Matches: 398, Mismatches: 67, Indels: 140
0.66 0.11 0.23
Matches are distributed among these distances:
26 8 0.02
27 3 0.01
28 1 0.00
29 3 0.01
30 3 0.01
31 3 0.01
32 5 0.01
33 5 0.01
34 10 0.03
35 19 0.05
36 3 0.01
37 42 0.11
38 51 0.13
39 31 0.08
40 39 0.10
41 28 0.07
42 19 0.05
43 28 0.07
44 24 0.06
45 16 0.04
46 18 0.05
47 10 0.03
49 3 0.01
50 1 0.00
51 8 0.02
52 4 0.01
54 4 0.01
55 7 0.02
56 2 0.01
ACGTcount: A:0.53, C:0.05, G:0.01, T:0.41
Consensus pattern (38 bp):
ATATAATTTAATAAAATCATAATATATAATACTATAAA
Found at i:50238787 original size:55 final size:55
Alignment explanation
Indices: 50238721--50238831 Score: 204
Period size: 55 Copynumber: 2.0 Consensus size: 55
50238711 TTCTTAAATG
*
50238721 AATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATT
1 AATTTAATAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATT
*
50238776 AATTTAATAAAATCATAATATATAATACTATGAAATATAATTTAAAATAATTATT
1 AATTTAATAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATT
50238831 A
1 A
50238832 TTAAATATAA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 54 1.00
ACGTcount: A:0.55, C:0.05, G:0.01, T:0.40
Consensus pattern (55 bp):
AATTTAATAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATT
Found at i:50238958 original size:28 final size:28
Alignment explanation
Indices: 50238927--50239086 Score: 87
Period size: 28 Copynumber: 5.5 Consensus size: 28
50238917 ATAATACTAT
50238927 AAAATATAATTTAAAATAATAATTATTA
1 AAAATATAATTTAAAATAATAATTATTA
*
50238955 AAAATATAATTTAGTAAA-AATATATAATTTA
1 AAAATATAATTTA--AAATAATA-ATTA-TTA
* * *
50238986 ATAAA-ATTA-TTAATATTAA-ATATTCTTA
1 A-AAATATAATTTAA-AATAATA-ATTATTA
** * * * *
50239014 GAATTTACTAAAATCATAATATATAA-TACTA
1 -AAAATA-T-AATTTAAAATA-ATAATTATTA
50239045 TAAAATATAATTTAAAATAATAATTATTA
1 -AAAATATAATTTAAAATAATAATTATTA
50239074 AAAATATAATTTA
1 AAAATATAATTTA
50239087 GTAAAAATAT
Statistics
Matches: 97, Mismatches: 20, Indels: 30
0.66 0.14 0.20
Matches are distributed among these distances:
28 35 0.36
29 23 0.24
30 13 0.13
31 18 0.19
32 7 0.07
33 1 0.01
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.40
Consensus pattern (28 bp):
AAAATATAATTTAAAATAATAATTATTA
Found at i:50238960 original size:16 final size:17
Alignment explanation
Indices: 50238939--50239110 Score: 74
Period size: 16 Copynumber: 10.2 Consensus size: 17
50238929 AATATAATTT
50238939 AAAATAATAA-TTATTA
1 AAAATAATAATTTATTA
*
50238955 AAAAT-ATAATTTAGTA
1 AAAATAATAATTTATTA
*
50238971 AAAATATATAATTTAATA
1 AAAATA-ATAATTTATTA
* *
50238989 AAATTATTAA--TATTA
1 AAAATAATAATTTATTA
* * * *
50239004 AATATTCTTAGAATTTACT-
1 AA-A--ATAATAATTTATTA
* *
50239023 AAAATCATAATATA-TA
1 AAAATAATAATTTATTA
* * *
50239039 ATACTATAA-AATATAATTT
1 A-A-AATAATAAT-TTATTA
50239058 AAAATAATAA-TTATTA
1 AAAATAATAATTTATTA
*
50239074 AAAAT-ATAATTTAGTA
1 AAAATAATAATTTATTA
*
50239090 AAAATATATAATTTAATA
1 AAAATA-ATAATTTATTA
50239108 AAA
1 AAA
50239111 TTCTTAATAT
Statistics
Matches: 115, Mismatches: 24, Indels: 32
0.67 0.14 0.19
Matches are distributed among these distances:
15 15 0.13
16 43 0.37
17 11 0.10
18 39 0.34
19 4 0.03
20 3 0.03
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (17 bp):
AAAATAATAATTTATTA
Found at i:50239004 original size:18 final size:17
Alignment explanation
Indices: 50238939--50239004 Score: 64
Period size: 18 Copynumber: 3.9 Consensus size: 17
50238929 AATATAATTT
* *
50238939 AAAATAATAA-TTATTA
1 AAAATATTAATTTAATA
*
50238955 AAAATA-TAATTTAGTA
1 AAAATATTAATTTAATA
50238971 AAAATATATAATTTAATA
1 AAAATAT-TAATTTAATA
*
50238989 AAATTATTAATATTAA
1 AAAATATTAAT-TTAA
50239005 ATATTCTTAG
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
15 3 0.07
16 17 0.40
17 4 0.09
18 19 0.44
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (17 bp):
AAAATATTAATTTAATA
Found at i:50239098 original size:18 final size:17
Alignment explanation
Indices: 50239073--50239110 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
50239063 AATAATTATT
*
50239073 AAAAATATAATTTAGTA
1 AAAAATATAATTTAATA
50239090 AAAATATATAATTTAATA
1 AAAA-ATATAATTTAATA
50239108 AAA
1 AAA
50239111 TTCTTAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (17 bp):
AAAAATATAATTTAATA
Found at i:50239181 original size:95 final size:95
Alignment explanation
Indices: 50239072--50239275 Score: 374
Period size: 95 Copynumber: 2.2 Consensus size: 95
50239062 TAATAATTAT
50239072 TAAAAATATAATTTAGTAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATG
1 TAAAAATATAATTTAGTAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATG
*
50239137 AATTTACTAAAATCATAATATATAATACTA
66 AATTTAATAAAATCATAATATATAATACTA
* *
50239167 TAAAAATATAATTTATTAAAAATATATAATTTAATAAAATTCTTAATATTGAATATTCTTATATG
1 TAAAAATATAATTTAGTAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATG
50239232 AATTTAATAAAATCATAATATATAATACTA
66 AATTTAATAAAATCATAATATATAATACTA
50239262 T-AAAATATAATTTA
1 TAAAAATATAATTTA
50239276 AAATAATTAT
Statistics
Matches: 106, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
94 13 0.12
95 93 0.88
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (95 bp):
TAAAAATATAATTTAGTAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATG
AATTTAATAAAATCATAATATATAATACTA
Found at i:50239187 original size:15 final size:16
Alignment explanation
Indices: 50239166--50239205 Score: 53
Period size: 18 Copynumber: 2.4 Consensus size: 16
50239156 ATATAATACT
50239166 ATAAAAATATAATTTA
1 ATAAAAATATAATTTA
*
50239182 TTAAAAATATATAATTTA
1 AT-AAAA-ATATAATTTA
50239200 ATAAAA
1 ATAAAA
50239206 TTCTTAATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
16 1 0.05
17 8 0.40
18 11 0.55
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
ATAAAAATATAATTTA
Found at i:50239243 original size:56 final size:54
Alignment explanation
Indices: 50239172--50239363 Score: 163
Period size: 56 Copynumber: 3.3 Consensus size: 54
50239162 TACTATAAAA
50239172 ATATAATTTATTAAAAATATATAATTTAATAAAATTCTTAATATTGAATATTCTT
1 ATATAATTTATTAAAAATATATAATTTAATAAAATTCTTAATATT-AATATTCTT
* * * * *
50239227 ATATGAATTTAAT-AAAATCATAATATATAATACTATAAAATATAATTTAA-AATAATTATTATT
1 ATAT-AATTTATTAAAAAT-AT-ATA-AT-TTA--ATAAAAT-T--CTTAATATTAA-TATTCTT
50239290 AAATATAATTTATTAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTT
1 --ATATAATTTATTAAAAATATATAATTTAATAAAATTCTTAATATT-AATATTCTT
* *
50239347 AAATGAATTTACTAAAA
1 ATAT-AATTTATTAAAA
50239364 TCAGAATATA
Statistics
Matches: 108, Mismatches: 12, Indels: 33
0.71 0.08 0.22
Matches are distributed among these distances:
55 12 0.11
56 24 0.22
57 11 0.10
58 5 0.05
59 9 0.08
61 9 0.08
62 5 0.05
63 11 0.10
64 13 0.12
65 9 0.08
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.43
Consensus pattern (54 bp):
ATATAATTTATTAAAAATATATAATTTAATAAAATTCTTAATATTAATATTCTT
Found at i:50239421 original size:18 final size:16
Alignment explanation
Indices: 50239377--50239435 Score: 56
Period size: 16 Copynumber: 3.9 Consensus size: 16
50239367 GAATATATAA
50239377 TACTATAAAATATAATT
1 TACTA-AAAATATAATT
50239394 TA--AAATAAT-T-A-T
1 TACTAAA-AATATAATT
50239406 TACTAAAAATATAATT
1 TACTAAAAATATAATT
*
50239422 TAGTAAAAATATAA
1 TACTAAAAATATAA
50239436 ATTTCATAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 13
0.71 0.02 0.27
Matches are distributed among these distances:
12 3 0.09
13 4 0.11
14 7 0.20
15 5 0.14
16 14 0.40
17 2 0.06
ACGTcount: A:0.58, C:0.03, G:0.02, T:0.37
Consensus pattern (16 bp):
TACTAAAAATATAATT
Found at i:50239883 original size:15 final size:14
Alignment explanation
Indices: 50239863--50239928 Score: 53
Period size: 15 Copynumber: 4.4 Consensus size: 14
50239853 ATAATACTAT
50239863 AAAATATAATTTAA
1 AAAATATAATTTAA
* *
50239877 AATA-ATAATTATTA
1 AAAATATAATT-TAA
50239891 AAAATATAATTTAGTAA
1 AAAATATAA-TT--TAA
50239908 AAATATATAATTTAA
1 AAA-ATATAATTTAA
50239923 TAAAAT
1 -AAAAT
50239929 GCTTAATATT
Statistics
Matches: 41, Mismatches: 5, Indels: 11
0.72 0.09 0.19
Matches are distributed among these distances:
13 6 0.15
14 8 0.20
15 9 0.22
16 5 0.12
17 7 0.17
18 6 0.15
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.38
Consensus pattern (14 bp):
AAAATATAATTTAA
Found at i:50239884 original size:28 final size:29
Alignment explanation
Indices: 50239848--50239903 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 29
50239838 ATAAAATCAT
50239848 AATATATAA-TACTATAAAATATAATTTAA
1 AATATATAATTACTA-AAAATATAATTTAA
*
50239877 AATA-ATAATTATTAAAAATATAATTTA
1 AATATATAATTACTAAAAATATAATTTA
50239904 GTAAAAATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 17 0.68
29 8 0.32
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (29 bp):
AATATATAATTACTAAAAATATAATTTAA
Found at i:50239896 original size:16 final size:16
Alignment explanation
Indices: 50239875--50239919 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
50239865 AATATAATTT
*
50239875 AAAATAATAATTATTA
1 AAAATAATAATTAGTA
50239891 AAAAT-ATAATTTAGTA
1 AAAATAATAA-TTAGTA
50239907 AAAATATATAATT
1 AAAATA-ATAATT
50239920 TAATAAAATG
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
15 4 0.16
16 15 0.60
17 2 0.08
18 4 0.16
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (16 bp):
AAAATAATAATTAGTA
Found at i:50239915 original size:18 final size:17
Alignment explanation
Indices: 50239890--50239927 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
50239880 AATAATTATT
*
50239890 AAAAATATAATTTAGTA
1 AAAAATATAATTTAATA
50239907 AAAATATATAATTTAATA
1 AAAA-ATATAATTTAATA
50239925 AAA
1 AAA
50239928 TGCTTAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (17 bp):
AAAAATATAATTTAATA
Found at i:50240311 original size:601 final size:596
Alignment explanation
Indices: 50237678--50240593 Score: 3271
Period size: 601 Copynumber: 4.9 Consensus size: 596
50237668 AATAATTATT
* * * *
50237678 AATTTAATAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATTATT--AAATA
1 AATTTACTAAAATCATAATATATAACACTATAAAATATAATTTAAAATAATAATCATTAAAAATA
* * *
50237741 TAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTAAATGAATTTACT
66 TAATTTAGTAAAAATATATAAGTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACT
* *
50237806 AAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATTATTAAAAATATAATTTAG
131 AAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTAGTATT--AAATATAATTTAT
* * * * *
50237871 TAAAAATATATAATTTAATAAAAGTATTAACATTAAATATTC--CT-TGAATTTACTAAAATCAT
194 TAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTAATAAAATCAT
* * *
50237933 AATATATAATACTATAAAATATAATTT-AAATAATAATTATTAAATATAATTTAGTAAAATTATA
259 AATATATAATACTATAAAATATAATTTAAAATAATTATTATTAAATATAATTTAATAAAAATATA
* *
50237997 TAATTTAATAAAATTCTTAATATTAAATATTCTTAAATGAATTTACTAAAATCATAATATATAAC
324 TAATTTAATAAAATTCTTAATATTAAATATTCTT-AATGAATTTAATAAAATCATAATATATAAT
*
50238062 ACTATAAAATATAATTTAAAATAATAATTATTAAAAATATAATTTAATAAAAATATATAATTTAA
388 ACTATAAAATATAATTTAAAATAATTATTATT--AAATATAATTTAATAAAAATATATAATTTAA
* *
50238127 TAAAATT-TTAATATTAAATATTCTTATATGAATTTAATAAAATCATAATATATACTACTATAAA
451 TAAAATTCTTAATATTAAATATTC-T-TATGAATTTACTAAAATCATAATATATAATACTATAAA
50238191 ATATAATTTAAAAT-A--A-T-T----AT-T-A--T--T--AAATAT-AATTTAATAAAATTCTT
514 ATATAATTTAAAATAATTATTATAAAAATATAATTTAATAAAAATATAAATTTAATAAAATTCTT
50238238 AATATTAAATATTCTTAAATG
579 AATATTAAATATTC-T-AA-G
* * *
50238259 AATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATTATTAAAAATA
1 AATTTACTAAAATCATAATATATAACACTATAAAATATAATTTAAAATAATAATCATTAAAAATA
* * * *
50238324 TAATTTAGT-AAAATATATAATTTAATAAAATTATTAACATTAAATATTC--CT-TGAATTTACT
66 TAATTTAGTAAAAATATATAAGTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACT
* * *
50238385 AAAATCATAATATATAATACTATAAAATATAATTTAAAATAATAATTATTAAATATAATTTAGTA
131 AAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTAGTATTAAATATAATTTATTA
* * *
50238450 AAATTATATAATTTAATAAAATTCTTAATATTAAATATTCTTAAATGAATTTACTAAAATCATAA
196 AAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTAATAAAATCATAA
* *
50238515 TATATAACACTATAAAATATAATTTAAAATAATAATTATTAAAAATATAATTTAATAAAAATATA
261 TATATAATACTATAAAATATAATTTAAAATAATTATTATT--AAATATAATTTAATAAAAATATA
* *
50238580 TAATTTAATAAAATTTTTAATATTAAATATTCTTATATGAATTTAATAAAATCATAATATATACT
324 TAATTTAATAAAATTCTTAATATTAAATATTCTTA-ATGAATTTAATAAAATCATAATATATAAT
50238645 ACTATAAAATATAATTT--AA-AA-TA--ATT--AT-T-A--T--T---AA-ATATAATTTAATA
388 ACTATAAAATATAATTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATA
50238692 AAATTCTTAATATTAAATATTCTTAAATGAATTTACTAAAATCATAATATATAATACTATAAAAT
453 AAATTCTTAATATTAAATATTCTT--ATGAATTTACTAAAATCATAATATATAATACTATAAAAT
50238757 ATAATTTAAAATAATTATTAATTTAATAAAATCATAATATATAATACTATGAAATAT-AATTTAA
516 ATAATTTAAAATAATTATT-A--T-A-AAAAT-ATAAT-T-TAATA--A--AAATATAAATTT--
* * * *** *
50238821 AATAATTATTATTAAATATAATTTAATAAAAATATAT
567 AATAA-AATTCTT--A-AT-ATTAAAT-ATTCTA-AG
* * * * * * * * *
50238858 AATTTAATAAAATTCTTCATAT-TAAATATTCTTAAAT-GAATTCACTAAAATCATAATATATAA
1 AATTTACTAAAA-TCATAATATAT-AACACTATAAAATATAATT---T-AAA--ATAATA-ATCA
* * * * *
50238921 TACTATAAAATATAATTTAAAATAATAATTATTAAAAATATAATTTAGTAAAAATATATAATTTA
57 T--TA-AAAATATAATTT--AGTAA-AA--A-T----ATATAAGTTAATAAAATTCT-TAA--T-
* *
50238986 ATAAAATTATTAATATTAAATATTCTTAGAATTTACTAAAATCATAATATATAATACTATAAAAT
105 ATTAAA-TA-T--TCTT--ATA----T-GAATTTACTAAAATCATAATATATAATACTATAAAAT
* * *
50239051 ATAATTTAAAATAATAATTATTAAAAATATAATTTAGTAAAAATATATAATTTAATAAAATTCTT
159 ATAATTTAAAATAATTAGTATT--AAATATAATTTATTAAAAATATATAATTTAATAAAATTCTT
*
50239116 AATATTAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAAATATAATTT
222 AATATTAAATATTCTTATATGAATTTAATAAAATCATAATATATAATACTAT-AAAATATAATTT
* * * * *
50239181 --ATTAA--A--A--ATATATAATTTAATAAAATTCT-TAATATTGAAT---ATTCTT-ATA-TG
286 AAAATAATTATTATTAAATATAATTTAATAAAAATATATAAT-TT-AATAAAATTCTTAATATTA
** * * *
50239232 AAT-TTAATAA--AATCATAATATATAATACTATAAAATATAAT--T-TAAAATAATTATTATTA
349 AATATTCTTAATGAAT-TTAATA-A-AAT-C-ATAATATATAATACTATAAAAT-A-TAAT-TTA
** * * *
50239291 AATATAATTTATTAAAAATATATAATTTAATAAAATTCT-TAATATT-A-AATATTCTTAA-A-T
406 AA-ATAA-TTATTATTAA-ATATAATTTAATAAAAATATATAAT-TTAATAAAATTCTTAATATT
* ** **** * *
50239351 GAAT-TTAC-TAAAATCAGAATATA-----------TAATACTATAAAATATAATTTAAAATAAT
467 AAATATT-CTTATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAAT
* *
50239403 TATTACTAAAAATATAATTTAGTAAAAATATAAATTTCATAAAATTCTTAATATTAAATATTCTA
531 TATTA-TAAAAATATAATTTAATAAAAATATAAATTTAATAAAATTCTTAATATTAAATATTCTA
50239468 AG
595 AG
* *
50239470 AATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATCATTAAAAATA
1 AATTTACTAAAATCATAATATATAACACTATAAAATATAATTTAAAATAATAATCATTAAAAATA
*
50239535 TAATTTAGTAAAAGTATATAAGTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACT
66 TAATTTAGTAAAAATATATAAGTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACT
*
50239600 AAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATTATTAAATATAATTTATTA
131 AAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTAGTATTAAATATAATTTATTA
50239665 AAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTAATAAAATCATAA
196 AAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTAATAAAATCATAA
50239730 TATATAATACTATAAAATATAATTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATA
261 TATATAATACTATAAAATATAATTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATA
* *
50239795 ATTTAATGAAATTCTTAATATTAAATATTCTTAAATGGATTTAATAAAATCATAATATATAATAC
326 ATTTAATAAAATTCTTAATATTAAATATTCTT-AATGAATTTAATAAAATCATAATATATAATAC
* *
50239860 TATAAAATATAATTTAAAATAATAATTATTAAAAATATAATTTAGTAAAAATATATAATTTAATA
390 TATAAAATATAATTTAAAATAATTATTATT--AAATATAATTTAATAAAAATATATAATTTAATA
*
50239925 AAATGCTTAATATTAAATATTCTTA-GAATTTACTAAAATCATAATATATAATACTATAAAATAT
453 AAATTCTTAATATTAAATATTCTTATGAATTTACTAAAATCATAATATATAATACTATAAAATAT
* **
50239989 AATTTAAATTAATTATT-TTTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAAT
518 AATTTAAAATAATTATTATAAAAATATAATTTAATAAAAATATA-AATTTAATAAAATTCTTAAT
50240053 ATTAAATATTCTTAAATG
582 ATTAAATATTC-T-AA-G
* *
50240071 AATTTACTAAAATCATAATATATAACACTATAAAATATAATTTAAAATAATAATTATTAAAAGTA
1 AATTTACTAAAATCATAATATATAACACTATAAAATATAATTTAAAATAATAATCATTAAAAATA
* *
50240136 TAATTTAGTAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAGTTTACT
66 TAATTTAGTAAAAATATATAAGTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACT
50240201 AAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTAGTATTAAATATAATTTATTA
131 AAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTAGTATTAAATATAATTTATTA
50240266 AAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTAATAAAATCATAA
196 AAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTAATAAAATCATAA
50240331 TATATAATACTATAAAATATAATTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATA
261 TATATAATACTATAAAATATAATTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATA
*
50240396 ATTTAATAAAATTCTTAATATTAAATATTCTT-A-GAATTTACTAAAATCATAATATATAATACT
326 ATTTAATAAAATTCTTAATATTAAATATTCTTAATGAATTTAATAAAATCATAATATATAATACT
* * *
50240459 ATAAAATATAATTTAAATTAGTTATTTTTAAATATAATTTAATAAAAATATATAATTTAATAAAA
391 ATAAAATATAATTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAA
50240524 TTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATA
456 TTCTTAATATTAAATATTC-T-TATGAATTTACTAAAATCATAATATATAATACTATAAAATATA
50240589 ATTTA
519 ATTTA
50240594 TAATCTACTT
Statistics
Matches: 2003, Mismatches: 154, Indels: 338
0.80 0.06 0.14
Matches are distributed among these distances:
562 1 0.00
563 19 0.01
564 67 0.03
565 1 0.00
567 2 0.00
568 1 0.00
569 1 0.00
571 1 0.00
572 2 0.00
573 2 0.00
574 12 0.01
575 91 0.05
576 4 0.00
577 112 0.06
578 4 0.00
579 60 0.03
580 48 0.02
581 77 0.04
582 63 0.03
583 119 0.06
584 32 0.02
585 27 0.01
586 18 0.01
587 12 0.01
588 24 0.01
589 10 0.00
590 2 0.00
591 3 0.00
592 16 0.01
593 11 0.01
595 5 0.00
596 59 0.03
597 24 0.01
598 86 0.04
599 100 0.05
600 31 0.02
601 350 0.17
602 13 0.01
603 5 0.00
605 9 0.00
606 9 0.00
608 5 0.00
609 13 0.01
611 19 0.01
612 18 0.01
613 5 0.00
614 6 0.00
615 3 0.00
616 2 0.00
618 5 0.00
619 4 0.00
620 24 0.01
621 8 0.00
622 1 0.00
623 3 0.00
624 14 0.01
625 11 0.01
626 15 0.01
627 13 0.01
628 17 0.01
629 6 0.00
630 6 0.00
631 55 0.03
632 6 0.00
634 2 0.00
635 1 0.00
636 1 0.00
637 2 0.00
638 59 0.03
639 6 0.00
640 91 0.05
641 13 0.01
642 6 0.00
643 1 0.00
644 3 0.00
645 6 0.00
646 1 0.00
647 10 0.00
648 6 0.00
649 3 0.00
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.41
Consensus pattern (596 bp):
AATTTACTAAAATCATAATATATAACACTATAAAATATAATTTAAAATAATAATCATTAAAAATA
TAATTTAGTAAAAATATATAAGTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACT
AAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTAGTATTAAATATAATTTATTA
AAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTAATAAAATCATAA
TATATAATACTATAAAATATAATTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATA
ATTTAATAAAATTCTTAATATTAAATATTCTTAATGAATTTAATAAAATCATAATATATAATACT
ATAAAATATAATTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAA
TTCTTAATATTAAATATTCTTATGAATTTACTAAAATCATAATATATAATACTATAAAATATAAT
TTAAAATAATTATTATAAAAATATAATTTAATAAAAATATAAATTTAATAAAATTCTTAATATTA
AATATTCTAAG
Found at i:50242037 original size:49 final size:49
Alignment explanation
Indices: 50241981--50242084 Score: 181
Period size: 49 Copynumber: 2.1 Consensus size: 49
50241971 AAAAAAAAAC
* * *
50241981 AAATTAAAATTAAGTTTAATATCATGAATCAAAAGGTGAACACTTTATA
1 AAATTAAAATTAAGTTCAATATCATGAATCAAAAGCTCAACACTTTATA
50242030 AAATTAAAATTAAGTTCAATATCATGAATCAAAAGCTCAACACTTTATA
1 AAATTAAAATTAAGTTCAATATCATGAATCAAAAGCTCAACACTTTATA
50242079 AAATTA
1 AAATTA
50242085 TAACACATGA
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
49 52 1.00
ACGTcount: A:0.50, C:0.11, G:0.08, T:0.32
Consensus pattern (49 bp):
AAATTAAAATTAAGTTCAATATCATGAATCAAAAGCTCAACACTTTATA
Found at i:50245692 original size:22 final size:22
Alignment explanation
Indices: 50245667--50245708 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
50245657 TAAGAAAATG
50245667 ATGGAAGAAGAAGCAGAAATCA
1 ATGGAAGAAGAAGCAGAAATCA
50245689 ATGGAAGAAGAAGCAGAAAT
1 ATGGAAGAAGAAGCAGAAAT
50245709 TACCTCTGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.55, C:0.07, G:0.29, T:0.10
Consensus pattern (22 bp):
ATGGAAGAAGAAGCAGAAATCA
Found at i:50251368 original size:18 final size:17
Alignment explanation
Indices: 50251331--50251369 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
50251321 TCGTCTACCC
* *
50251331 ATTAGTTTTTAATATTA
1 ATTAGTTTTTAAAATAA
50251348 ATTAGTTTTTAAAACTAA
1 ATTAGTTTTTAAAA-TAA
50251366 ATTA
1 ATTA
50251370 TTAGTCATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 13 0.68
18 6 0.32
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (17 bp):
ATTAGTTTTTAAAATAA
Found at i:50255779 original size:18 final size:19
Alignment explanation
Indices: 50255757--50255796 Score: 53
Period size: 21 Copynumber: 2.0 Consensus size: 19
50255747 CGGTATTTCA
*
50255757 AAAAATATCGATACTTAAT
1 AAAAGTATCGATACTTAAT
50255776 AAAATGGTATCGATACTTAAT
1 AAAA--GTATCGATACTTAAT
50255797 GAGTTTGTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 4 0.22
21 14 0.78
ACGTcount: A:0.47, C:0.10, G:0.10, T:0.33
Consensus pattern (19 bp):
AAAAGTATCGATACTTAAT
Found at i:50258738 original size:25 final size:26
Alignment explanation
Indices: 50258704--50258755 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
50258694 TTGTTTGTGG
** *
50258704 TTTACGGGTTTAATTTTTATGGTTAA
1 TTTACGGGTTTAAGATTTACGGTTAA
50258730 TTTA-GGGTTTAAGATTTACGGTTAA
1 TTTACGGGTTTAAGATTTACGGTTAA
50258755 T
1 T
50258756 GCGTACTATA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 19 0.83
26 4 0.17
ACGTcount: A:0.25, C:0.04, G:0.21, T:0.50
Consensus pattern (26 bp):
TTTACGGGTTTAAGATTTACGGTTAA
Found at i:50260092 original size:16 final size:16
Alignment explanation
Indices: 50260071--50260102 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
50260061 ACTTAGTAAT
50260071 TAAAAGATACAGTTAA
1 TAAAAGATACAGTTAA
50260087 TAAAAGATACAGTTAA
1 TAAAAGATACAGTTAA
50260103 GAAATAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.56, C:0.06, G:0.12, T:0.25
Consensus pattern (16 bp):
TAAAAGATACAGTTAA
Found at i:50261173 original size:47 final size:47
Alignment explanation
Indices: 50261104--50261197 Score: 143
Period size: 47 Copynumber: 2.0 Consensus size: 47
50261094 TGCTTCGATT
*
50261104 CCCCTTCCAAAAGATAATTTAGGGCTTGATTAATGCATATGGAGGTG
1 CCCCTTCCAAAAGATAATTTAGGACTTGATTAATGCATATGGAGGTG
* * * *
50261151 CCCCTTCTAAAATATAATTTAGGATTTGATTAATGCATGTGGAGGTG
1 CCCCTTCCAAAAGATAATTTAGGACTTGATTAATGCATATGGAGGTG
50261198 GTCTAGTGTT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 42 1.00
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.33
Consensus pattern (47 bp):
CCCCTTCCAAAAGATAATTTAGGACTTGATTAATGCATATGGAGGTG
Found at i:50262798 original size:21 final size:21
Alignment explanation
Indices: 50262772--50262822 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
50262762 CTACAACTTA
* *
50262772 AAGCAGATGCGGCAGCGAGAG
1 AAGCAGAGGCAGCAGCGAGAG
50262793 AAGCAGAGGCAGCAGCGAGAG
1 AAGCAGAGGCAGCAGCGAGAG
*
50262814 AAGCTGAGG
1 AAGCAGAGG
50262823 TTCAACGAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.35, C:0.18, G:0.43, T:0.04
Consensus pattern (21 bp):
AAGCAGAGGCAGCAGCGAGAG
Found at i:50262859 original size:87 final size:87
Alignment explanation
Indices: 50262722--50262889 Score: 268
Period size: 87 Copynumber: 1.9 Consensus size: 87
50262712 AGGCAACATT
50262722 GAGAGAAGCTGAGGTTCAAAAAAGATATGAAGAACTCCAGCTACAACTTAAAGCAGATGCGGCAG
1 GAGAGAAGCTGAGGTTCAAAAAAGATATGAAGAACTCCAGCTACAACTTAAAGCAGATGCGGCAG
50262787 CGAGAGAAGCAGAGGCAGCAGC
66 CGAGAGAAGCAGAGGCAGCAGC
* * *
50262809 GAGAGAAGCTGAGGTTCAACGAAAG-TATGAAGAACTCTAGC-AGCAGCTTAAAGCAGATGCGGC
1 GAGAGAAGCTGAGGTTCAA-AAAAGATATGAAGAACTCCAGCTA-CAACTTAAAGCAGATGCGGC
*
50262872 AGTGAGAGAAGCAGAGGC
64 AGCGAGAGAAGCAGAGGC
50262890 TAAAGCGAAG
Statistics
Matches: 75, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
86 1 0.01
87 70 0.93
88 4 0.05
ACGTcount: A:0.39, C:0.17, G:0.32, T:0.12
Consensus pattern (87 bp):
GAGAGAAGCTGAGGTTCAAAAAAGATATGAAGAACTCCAGCTACAACTTAAAGCAGATGCGGCAG
CGAGAGAAGCAGAGGCAGCAGC
Found at i:50263294 original size:43 final size:43
Alignment explanation
Indices: 50263233--50263538 Score: 395
Period size: 43 Copynumber: 7.1 Consensus size: 43
50263223 CAAAATTAGC
* *
50263233 GGCG-TTTTTTGCATAAGCGCCACTAAAGACCATGGTCTATAGT
1 GGCGTTTTTTTG-TTAAGCGCCGCTAAAGACCATGGTCTATAGT
** * *
50263276 GGCGTTTTTTTCCTAAGCGCCGCGAAAGACCATGGTCTATAAT
1 GGCGTTTTTTTGTTAAGCGCCGCTAAAGACCATGGTCTATAGT
* * *
50263319 GACGTTTTTCAT-CTAAGCGCCGCTAAAGACCATGGTCTATAGT
1 GGCGTTTTT-TTGTTAAGCGCCGCTAAAGACCATGGTCTATAGT
* * *
50263362 GGCGTTTGTTGGTTAAGCGCCACTAAAGACCATGGTCTATAGT
1 GGCGTTTTTTTGTTAAGCGCCGCTAAAGACCATGGTCTATAGT
* *
50263405 GGCGTTTGTTGGTTAAGCGCCGCTAAAGACCATGGTCTATAGT
1 GGCGTTTTTTTGTTAAGCGCCGCTAAAGACCATGGTCTATAGT
* * *
50263448 GGCG-TTTTTTGGTAAGCGCCGCTAAATACCACGGTCTATAGT
1 GGCGTTTTTTTGTTAAGCGCCGCTAAAGACCATGGTCTATAGT
*
50263490 GGCGTTTTTATT-TTAAGCGCCGCTAAAGACCATGGTCTATAGC
1 GGCGTTTTT-TTGTTAAGCGCCGCTAAAGACCATGGTCTATAGT
50263533 GGCGTT
1 GGCGTT
50263539 GTAAAAAAAA
Statistics
Matches: 233, Mismatches: 25, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
42 37 0.16
43 187 0.80
44 9 0.04
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.31
Consensus pattern (43 bp):
GGCGTTTTTTTGTTAAGCGCCGCTAAAGACCATGGTCTATAGT
Found at i:50263579 original size:85 final size:87
Alignment explanation
Indices: 50263246--50263586 Score: 347
Period size: 86 Copynumber: 4.0 Consensus size: 87
50263236 GTTTTTTGCA
* * *** *
50263246 TAAGCGCCACTAAAGACCATGGTCTATAGTGGCGTTTTTTTCCTAAGCGCCGCGAAAG-ACCATG
1 TAAGCGCCGCTAAAGACCATGGTCTATAGTGGCG-TTGTTAGATAAGCGCCGCTAAAGTACCATG
* * *
50263310 GTCTATAATGACGTTT-TTCAT-C
65 GTCTATAGTGGCGTTTATT-ATGT
* * *
50263332 TAAGCGCCGCTAAAGACCATGGTCTATAGTGGCGTTTGTTGGTTAAGCGCCACTAAAG-ACCATG
1 TAAGCGCCGCTAAAGACCATGGTCTATAGTGGCG-TTGTTAGATAAGCGCCGCTAAAGTACCATG
* *
50263396 GTCTATAGTGGCGTTTGTT-GGT
65 GTCTATAGTGGCGTTTATTATGT
* * * *
50263418 TAAGCGCCGCTAAAGACCATGGTCTATAGTGGCGTTTTTTGGTAAGCGCCGCTAAA-TACCACGG
1 TAAGCGCCGCTAAAGACCATGGTCTATAGTGGCGTTGTTAGATAAGCGCCGCTAAAGTACCATGG
*
50263482 TCTATAGTGGCGTTT-TTATTT
66 TCTATAGTGGCGTTTATTATGT
* * * * * * *
50263503 TAAGCGCCGCTAAAGACCATGGTCTATAGCGGCGTTGTAAAAAAAACGCCGCTAAAGTTCC-TGA
1 TAAGCGCCGCTAAAGACCATGGTCTATAGTGGCGTTGTTAGATAAGCGCCGCTAAAGTACCATGG
* *
50263567 TCTTTAGCGGCGTTTATTAT
66 TCTATAGTGGCGTTTATTAT
50263587 AGAAAGTGCC
Statistics
Matches: 218, Mismatches: 31, Indels: 12
0.84 0.12 0.05
Matches are distributed among these distances:
84 2 0.01
85 102 0.47
86 112 0.51
87 2 0.01
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.30
Consensus pattern (87 bp):
TAAGCGCCGCTAAAGACCATGGTCTATAGTGGCGTTGTTAGATAAGCGCCGCTAAAGTACCATGG
TCTATAGTGGCGTTTATTATGT
Found at i:50264762 original size:21 final size:21
Alignment explanation
Indices: 50264728--50264785 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 21
50264718 TTAATAAAAC
*
50264728 TAAAA-TTAATAAAACATAT-T
1 TAAAATTTTATAAAA-ATATAT
*
50264748 TAAAATTTTATAAAAATGTAT
1 TAAAATTTTATAAAAATATAT
*
50264769 TAAAATTCTATAAAAAT
1 TAAAATTTTATAAAAAT
50264786 CATAAAAATT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 8 0.24
21 25 0.76
ACGTcount: A:0.57, C:0.03, G:0.02, T:0.38
Consensus pattern (21 bp):
TAAAATTTTATAAAAATATAT
Found at i:50264811 original size:8 final size:9
Alignment explanation
Indices: 50264755--50264830 Score: 55
Period size: 9 Copynumber: 8.0 Consensus size: 9
50264745 ATTTAAAATT
*
50264755 TTATAAAAA
1 TTATTAAAA
50264764 TGTATTAAAA
1 T-TATTAAAA
*
50264774 TTCTATAAAAA
1 -T-TATTAAAA
* *
50264785 TCATAAAAA
1 TTATTAAAA
50264794 TTATTAAAA
1 TTATTAAAA
*
50264803 TTATTAAAT
1 TTATTAAAA
50264812 TTGATATAAAA
1 TT-AT-TAAAA
50264823 TTA-TAAAA
1 TTATTAAAA
50264831 AAAATCTTAA
Statistics
Matches: 55, Mismatches: 8, Indels: 9
0.76 0.11 0.12
Matches are distributed among these distances:
8 5 0.09
9 25 0.45
10 11 0.20
11 14 0.25
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.38
Consensus pattern (9 bp):
TTATTAAAA
Found at i:50264822 original size:29 final size:29
Alignment explanation
Indices: 50264750--50264831 Score: 85
Period size: 29 Copynumber: 2.8 Consensus size: 29
50264740 AACATATTTA
* *
50264750 AAATTTTATAAAAATGTATTAAAATTCTAT
1 AAATTTCATAAAAAT-TATTAAAATTATAT
**
50264780 AAAAATCATAAAAATTATTAAAATTAT-T
1 AAATTTCATAAAAATTATTAAAATTATAT
* *
50264808 AAATTTGATATAAAATTATAAAAA
1 AAATTTCATA-AAAATTATTAAAA
50264832 AAATCTTAAA
Statistics
Matches: 43, Mismatches: 8, Indels: 3
0.80 0.15 0.06
Matches are distributed among these distances:
28 8 0.19
29 23 0.53
30 12 0.28
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.38
Consensus pattern (29 bp):
AAATTTCATAAAAATTATTAAAATTATAT
Found at i:50265336 original size:28 final size:26
Alignment explanation
Indices: 50265305--50265379 Score: 80
Period size: 27 Copynumber: 2.8 Consensus size: 26
50265295 GTTTTATTAA
* *
50265305 TTTTGTAATTTTTATAATTTATTAGAT
1 TTTTTTAATTTTTATAATTTATAAG-T
*
50265332 TTTTTATAATTTATA-ATATTTATAAGT
1 TTTTT-TAATTTTTATA-ATTTATAAGT
50265359 TTTTTTAATATTTTATAATTT
1 TTTTTTAAT-TTTTATAATTT
50265380 TTATAATTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
26 4 0.10
27 19 0.47
28 17 0.43
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (26 bp):
TTTTTTAATTTTTATAATTTATAAGT
Found at i:50265352 original size:19 final size:19
Alignment explanation
Indices: 50265313--50265352 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
50265303 AATTTTGTAA
*
50265313 TTTTTATAATTTATTAGAT
1 TTTTTATAATTTATAAGAT
*
50265332 TTTTTATAATTTATAATAT
1 TTTTTATAATTTATAAGAT
50265351 TT
1 TT
50265353 ATAAGTTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.65
Consensus pattern (19 bp):
TTTTTATAATTTATAAGAT
Found at i:50265367 original size:19 final size:19
Alignment explanation
Indices: 50265341--50265398 Score: 75
Period size: 19 Copynumber: 3.1 Consensus size: 19
50265331 TTTTTTATAA
50265341 TTTATAATATTTATAAGTT
1 TTTATAATATTTATAAGTT
*
50265360 TTTTTAATATTTTATAA-TT
1 TTTATAATA-TTTATAAGTT
50265379 TTTATAAT-TTTAGTAAGTT
1 TTTATAATATTTA-TAAGTT
50265398 T
1 T
50265399 ATATCAATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
17 4 0.12
18 3 0.09
19 20 0.59
20 7 0.21
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (19 bp):
TTTATAATATTTATAAGTT
Found at i:50265787 original size:18 final size:21
Alignment explanation
Indices: 50265751--50265788 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
50265741 ATGAGTACAC
50265751 ATTTAATATATCTTGACTTTT
1 ATTTAATATATCTTGACTTTT
50265772 ATTT-ATATAT-TT-ACTTT
1 ATTTAATATATCTTGACTTT
50265789 AATTAAATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 5 0.29
19 2 0.12
20 6 0.35
21 4 0.24
ACGTcount: A:0.29, C:0.08, G:0.03, T:0.61
Consensus pattern (21 bp):
ATTTAATATATCTTGACTTTT
Found at i:50274072 original size:47 final size:48
Alignment explanation
Indices: 50274015--50274109 Score: 120
Period size: 48 Copynumber: 2.0 Consensus size: 48
50274005 CTCGATATTG
* * ** *
50274015 GCTCGCATGAGCTTCCCAA-ATTTGGCTCTCTTGAGCTTCTCGTTATA
1 GCTCGCATGAGCTTCCCAATAATTGGCTCGCAAGAGCTTCCCGTTATA
* *
50274062 GCTCGTATGAGCTTCTCAATAATTGGCTCGCAAGAGCTTCCCGTTATA
1 GCTCGCATGAGCTTCCCAATAATTGGCTCGCAAGAGCTTCCCGTTATA
50274110 CAGCTTAAAT
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
47 17 0.43
48 23 0.57
ACGTcount: A:0.20, C:0.26, G:0.20, T:0.34
Consensus pattern (48 bp):
GCTCGCATGAGCTTCCCAATAATTGGCTCGCAAGAGCTTCCCGTTATA
Found at i:50274165 original size:25 final size:23
Alignment explanation
Indices: 50274093--50274165 Score: 65
Period size: 25 Copynumber: 3.0 Consensus size: 23
50274083 ATTGGCTCGC
* *
50274093 AAGAGCTTCCCGTTATACAGCTTA
1 AAGAGCTTCCCGTTATA-TGCTCA
* *
50274117 AATGAGCTTCCCGTCACATGGCTCA
1 AA-GAGCTTCCCGTTATAT-GCTCA
50274142 GAAGAGCTTCCCGATTATATGCTC
1 -AAGAGCTTCCCG-TTATATGCTC
50274166 GTATGGGCAT
Statistics
Matches: 39, Mismatches: 6, Indels: 7
0.75 0.12 0.13
Matches are distributed among these distances:
24 2 0.05
25 31 0.79
26 6 0.15
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.27
Consensus pattern (23 bp):
AAGAGCTTCCCGTTATATGCTCA
Found at i:50277299 original size:131 final size:131
Alignment explanation
Indices: 50277141--50277402 Score: 479
Period size: 131 Copynumber: 2.0 Consensus size: 131
50277131 AAAACCTTGT
*
50277141 GTTGTTGCTTTACTTGTTGAATTCACAAAGGGATGAATTTAGTGGTGAGAGTATCGAGTTTTCAA
1 GTTGTTGCTTTACTTGTTAAATTCACAAAGGGATGAATTTAGTGGTGAGAGTATCGAGTTTTCAA
*
50277206 AGTACAAAGGTGAGGGAAATTATCATGGGGTGTGATTGAGTAGGTTCATTTTGTGCAATTGTGAA
66 AGTACAAAGGTGAGGGAAATTATCATGGGGTGTGATTGAGTAAGTTCATTTTGTGCAATTGTGAA
50277271 G
131 G
* *
50277272 GTTGTTGTTTTACTTGTTAAATTCACAAATGGATGAATTTAGTGGTGAGAGTATCGAGTTTTCAA
1 GTTGTTGCTTTACTTGTTAAATTCACAAAGGGATGAATTTAGTGGTGAGAGTATCGAGTTTTCAA
*
50277337 AGTACAAATGTGAGGGAAATTATCATGGGGTGTGATTGAGTAAGTTCATTTTGTGCAATTGTGAA
66 AGTACAAAGGTGAGGGAAATTATCATGGGGTGTGATTGAGTAAGTTCATTTTGTGCAATTGTGAA
50277402 G
131 G
50277403 AGAGTAGATA
Statistics
Matches: 126, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
131 126 1.00
ACGTcount: A:0.28, C:0.07, G:0.28, T:0.36
Consensus pattern (131 bp):
GTTGTTGCTTTACTTGTTAAATTCACAAAGGGATGAATTTAGTGGTGAGAGTATCGAGTTTTCAA
AGTACAAAGGTGAGGGAAATTATCATGGGGTGTGATTGAGTAAGTTCATTTTGTGCAATTGTGAA
G
Found at i:50286446 original size:17 final size:17
Alignment explanation
Indices: 50286424--50286458 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
50286414 ACAAAGGTTT
50286424 CTTCATCTGTAGGATGC
1 CTTCATCTGTAGGATGC
50286441 CTTCATCTGTAGGATGC
1 CTTCATCTGTAGGATGC
50286458 C
1 C
50286459 AAAAAAGAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.17, C:0.26, G:0.23, T:0.34
Consensus pattern (17 bp):
CTTCATCTGTAGGATGC
Found at i:50298858 original size:19 final size:20
Alignment explanation
Indices: 50298833--50298888 Score: 78
Period size: 19 Copynumber: 2.8 Consensus size: 20
50298823 AAAAGGTTTT
50298833 CTTTTTTCCTTTTTCGATTG
1 CTTTTTTCCTTTTTCGATTG
*
50298853 -TTTTTTTCTTTTTCGATTG
1 CTTTTTTCCTTTTTCGATTG
50298872 CTCTTCTTTCCTTTTTC
1 CT-TT-TTTCCTTTTTC
50298889 TGTTTTGCTA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
19 18 0.58
20 1 0.03
21 2 0.06
22 10 0.32
ACGTcount: A:0.04, C:0.21, G:0.07, T:0.68
Consensus pattern (20 bp):
CTTTTTTCCTTTTTCGATTG
Found at i:50298886 original size:21 final size:20
Alignment explanation
Indices: 50298832--50298886 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 20
50298822 GAAAAGGTTT
50298832 TCTTTTTTCCTTTTTCGATTG
1 TCTTTTTTCC-TTTTCGATTG
*
50298853 T-TTTTTTCTTTTTCGATTG
1 TCTTTTTTCCTTTTCGATTG
*
50298872 CTCTTCTTTCCTTTT
1 -TCTTTTTTCCTTTT
50298887 TCTGTTTTGC
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
19 10 0.34
20 8 0.28
21 11 0.38
ACGTcount: A:0.04, C:0.20, G:0.07, T:0.69
Consensus pattern (20 bp):
TCTTTTTTCCTTTTCGATTG
Found at i:50302190 original size:18 final size:17
Alignment explanation
Indices: 50302169--50302214 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 17
50302159 TTCTTTCCAG
50302169 TTTCTTCTTTT-CTTTTAT
1 TTTC-TCTTTTCCTTTT-T
50302187 TTTCTCTATTTCCTTTTT
1 TTTCTCT-TTTCCTTTTT
50302205 TTTCTCTTTT
1 TTTCTCTTTT
50302215 TTGTTCTAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
17 6 0.23
18 15 0.58
19 5 0.19
ACGTcount: A:0.04, C:0.20, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTCTCTTTTCCTTTTT
Found at i:50304024 original size:28 final size:28
Alignment explanation
Indices: 50303976--50304042 Score: 82
Period size: 28 Copynumber: 2.4 Consensus size: 28
50303966 GATCAAAATA
50303976 AAATAAAAACTAAACTAAAGAAAAACTT
1 AAATAAAAACTAAACTAAAGAAAAACTT
* * * *
50304004 -AATGAAAAACTAAATTGAAGATAAAGTT
1 AAAT-AAAAACTAAACTAAAGAAAAACTT
50304032 AAATAAAAACT
1 AAATAAAAACT
50304043 TGAATAAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
27 3 0.09
28 27 0.82
29 3 0.09
ACGTcount: A:0.64, C:0.07, G:0.07, T:0.21
Consensus pattern (28 bp):
AAATAAAAACTAAACTAAAGAAAAACTT
Found at i:50307449 original size:30 final size:30
Alignment explanation
Indices: 50307403--50307526 Score: 203
Period size: 30 Copynumber: 4.1 Consensus size: 30
50307393 TTTTATTATG
*
50307403 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
50307434 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
50307464 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* * *
50307494 CTATTATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
50307524 CCA
1 CCA
50307527 TAAATATGGA
Statistics
Matches: 88, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
30 81 0.92
31 7 0.08
ACGTcount: A:0.26, C:0.24, G:0.06, T:0.44
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:50307458 original size:15 final size:15
Alignment explanation
Indices: 50307413--50307520 Score: 78
Period size: 15 Copynumber: 7.2 Consensus size: 15
50307403 CCAATATCTC
50307413 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
50307428 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
50307443 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
50307458 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
50307473 GATACCCATATCTTT
1 GATACCCATATCTTT
** * *
50307488 GACTTTCTAT-TATTT
1 GA-TACCCATATCTTT
50307503 GATACCCATATCTTT
1 GATACCCATATCTTT
50307518 GAT
1 GAT
50307521 TTTCCATAAA
Statistics
Matches: 67, Mismatches: 20, Indels: 12
0.68 0.20 0.12
Matches are distributed among these distances:
14 12 0.18
15 43 0.64
16 12 0.18
ACGTcount: A:0.26, C:0.22, G:0.07, T:0.44
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:50312141 original size:30 final size:30
Alignment explanation
Indices: 50312095--50312218 Score: 203
Period size: 30 Copynumber: 4.1 Consensus size: 30
50312085 TTTTATTATG
*
50312095 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
50312126 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
50312156 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* * *
50312186 CTATTATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
50312216 CCA
1 CCA
50312219 TAAATATGGA
Statistics
Matches: 88, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
30 81 0.92
31 7 0.08
ACGTcount: A:0.26, C:0.24, G:0.06, T:0.44
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:50312150 original size:15 final size:15
Alignment explanation
Indices: 50312105--50312212 Score: 78
Period size: 15 Copynumber: 7.2 Consensus size: 15
50312095 CCAATATCTC
50312105 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
50312120 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
50312135 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
50312150 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
50312165 GATACCCATATCTTT
1 GATACCCATATCTTT
** * *
50312180 GACTTTCTAT-TATTT
1 GA-TACCCATATCTTT
50312195 GATACCCATATCTTT
1 GATACCCATATCTTT
50312210 GAT
1 GAT
50312213 TTTCCATAAA
Statistics
Matches: 67, Mismatches: 20, Indels: 12
0.68 0.20 0.12
Matches are distributed among these distances:
14 12 0.18
15 43 0.64
16 12 0.18
ACGTcount: A:0.26, C:0.22, G:0.07, T:0.44
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:50315064 original size:30 final size:30
Alignment explanation
Indices: 50315028--50315086 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
50315018 ATAACCATCC
* * *
50315028 CCTAGTTTTTATGGGTTAACTAGAACTCTT
1 CCTAGTTTTTATGGCTCAACTAAAACTCTT
*
50315058 CCTAGTTTTTGTGGCTCAACTAAAACTCT
1 CCTAGTTTTTATGGCTCAACTAAAACTCT
50315087 CCCAATTTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.24, C:0.20, G:0.15, T:0.41
Consensus pattern (30 bp):
CCTAGTTTTTATGGCTCAACTAAAACTCTT
Found at i:50333928 original size:29 final size:29
Alignment explanation
Indices: 50333841--50333920 Score: 97
Period size: 29 Copynumber: 2.7 Consensus size: 29
50333831 GTAATTTGTA
* *
50333841 TCGGTGTTCATGTTGTATTAGGCACTATGTT
1 TCGGTGTT-ATATT-TATTAGGCACTATGTG
* **
50333872 TTGGTGTTATATTTATCGGGCACTATGTG
1 TCGGTGTTATATTTATTAGGCACTATGTG
50333901 TCGGTGTTATATTTATTAGG
1 TCGGTGTTATATTTATTAGG
50333921 TACCATGTAC
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
29 30 0.73
30 4 0.10
31 7 0.17
ACGTcount: A:0.17, C:0.10, G:0.26, T:0.46
Consensus pattern (29 bp):
TCGGTGTTATATTTATTAGGCACTATGTG
Found at i:50341454 original size:16 final size:16
Alignment explanation
Indices: 50341433--50341469 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
50341423 TACAAAACCC
50341433 ATTTTGACTCATTCCT
1 ATTTTGACTCATTCCT
50341449 ATTTTGACTCATTCCT
1 ATTTTGACTCATTCCT
50341465 ATTTT
1 ATTTT
50341470 TATTTAGGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.19, C:0.22, G:0.05, T:0.54
Consensus pattern (16 bp):
ATTTTGACTCATTCCT
Found at i:50351629 original size:18 final size:19
Alignment explanation
Indices: 50351589--50351629 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
50351579 CAAACCAGTA
* *
50351589 GAAATTAAATTAAACTAAT
1 GAAATTAAATTAAAATAAC
50351608 GAAATT-AATTAAAATAAC
1 GAAATTAAATTAAAATAAC
50351626 GAAA
1 GAAA
50351630 CCAAATTACA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 14 0.70
19 6 0.30
ACGTcount: A:0.61, C:0.05, G:0.07, T:0.27
Consensus pattern (19 bp):
GAAATTAAATTAAAATAAC
Found at i:50354095 original size:16 final size:16
Alignment explanation
Indices: 50354074--50354104 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
50354064 ACATATGCTC
50354074 TTTCTTCTTTTTTTCT
1 TTTCTTCTTTTTTTCT
*
50354090 TTTCTTTTTTTTTTC
1 TTTCTTCTTTTTTTC
50354105 ACAAGCATTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (16 bp):
TTTCTTCTTTTTTTCT
Found at i:50367105 original size:36 final size:35
Alignment explanation
Indices: 50367034--50367105 Score: 81
Period size: 36 Copynumber: 2.0 Consensus size: 35
50367024 AGCACAATAT
* * * *
50367034 ATGGCATGATAACATATCCGCTTATTTACTGTCAC
1 ATGGCATGAAAACATACCCGCATATTCACTGTCAC
* *
50367069 ATGGCATGAAAAACATACCCTCATATTCACTTTCAC
1 ATGGCATG-AAAACATACCCGCATATTCACTGTCAC
50367105 A
1 A
50367106 ATGGTCATTA
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
35 8 0.27
36 22 0.73
ACGTcount: A:0.33, C:0.25, G:0.11, T:0.31
Consensus pattern (35 bp):
ATGGCATGAAAACATACCCGCATATTCACTGTCAC
Found at i:50373076 original size:18 final size:19
Alignment explanation
Indices: 50373038--50373076 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
50373028 TACAACCCCT
*
50373038 CACACGCCTGTGTGGACAAA
1 CACACGCCTGTGT-GAAAAA
50373058 CACACGCCTGTGT-AAAAA
1 CACACGCCTGTGTGAAAAA
50373076 C
1 C
50373077 CACTACACCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 5 0.28
20 13 0.72
ACGTcount: A:0.33, C:0.31, G:0.21, T:0.15
Consensus pattern (19 bp):
CACACGCCTGTGTGAAAAA
Found at i:50387480 original size:20 final size:19
Alignment explanation
Indices: 50387457--50387498 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
50387447 TAAAGAAAGT
50387457 AAAT-AAAATGGAAAGTAATG
1 AAATGAAAAT-GAAAGTAA-G
*
50387477 AAATGCAAATGAAAGTAAG
1 AAATGAAAATGAAAGTAAG
50387496 AAA
1 AAA
50387499 ATTTGAAAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 4 0.20
20 12 0.60
21 4 0.20
ACGTcount: A:0.62, C:0.02, G:0.19, T:0.17
Consensus pattern (19 bp):
AAATGAAAATGAAAGTAAG
Found at i:50389990 original size:27 final size:27
Alignment explanation
Indices: 50389956--50390091 Score: 132
Period size: 27 Copynumber: 5.0 Consensus size: 27
50389946 CACGACAATT
* *
50389956 AAGAATAGCCTTTGT-GACGAGCTCTGA
1 AAGAATAGCCTTTGTGGA-AAACTCTGA
50389983 AAGAATAGCCTTTGTGGAAAACTCTGA
1 AAGAATAGCCTTTGTGGAAAACTCTGA
* * *
50390010 AAGAATAGCCTTTATGGCAAACTTTGA
1 AAGAATAGCCTTTGTGGAAAACTCTGA
** * ** *
50390037 AAGAATATTCTTTATGGCGAACTCTAA
1 AAGAATAGCCTTTGTGGAAAACTCTGA
*
50390064 AAGAGAT-GCCTTTGTGGAAAATTCTGA
1 AAGA-ATAGCCTTTGTGGAAAACTCTGA
50390091 A
1 A
50390092 TGGATTGTCT
Statistics
Matches: 90, Mismatches: 17, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
27 86 0.96
28 4 0.04
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.29
Consensus pattern (27 bp):
AAGAATAGCCTTTGTGGAAAACTCTGA
Found at i:50390229 original size:9 final size:9
Alignment explanation
Indices: 50390215--50390243 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
50390205 GATATGAGTA
50390215 AGTTTTAGT
1 AGTTTTAGT
50390224 AGTTTTAGT
1 AGTTTTAGT
50390233 AGTTTT-GT
1 AGTTTTAGT
50390241 AGT
1 AGT
50390244 AACTATAGCC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 5 0.25
9 15 0.75
ACGTcount: A:0.21, C:0.00, G:0.24, T:0.55
Consensus pattern (9 bp):
AGTTTTAGT
Found at i:50395854 original size:14 final size:15
Alignment explanation
Indices: 50395829--50395857 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
50395819 AACTTGTTGC
50395829 CTTTTTTCTTTTATT
1 CTTTTTTCTTTTATT
50395844 CTTTTTT-TTTTATT
1 CTTTTTTCTTTTATT
50395858 TGCTACAGGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.07, C:0.10, G:0.00, T:0.83
Consensus pattern (15 bp):
CTTTTTTCTTTTATT
Found at i:50403202 original size:20 final size:22
Alignment explanation
Indices: 50403163--50403203 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
50403153 CCTTTTTTAA
*
50403163 AATCGTAAATAAGTAAAAAAAT
1 AATCGTAAATAAGAAAAAAAAT
50403185 AATCG-AAA-AAGAAAAAAAA
1 AATCGTAAATAAGAAAAAAAA
50403204 AGAAAATAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 10 0.56
21 3 0.17
22 5 0.28
ACGTcount: A:0.71, C:0.05, G:0.10, T:0.15
Consensus pattern (22 bp):
AATCGTAAATAAGAAAAAAAAT
Found at i:50403402 original size:22 final size:22
Alignment explanation
Indices: 50403367--50403424 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
50403357 AAAGGGTATC
* *
50403367 TACAAATTAAATCTT-TAAGAT
1 TACAAATCATATCTTCTAAGAT
50403388 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
50403411 TGCATATCATATCT
1 TACAAATCATATCT
50403425 AAGATTGTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 20 0.65
23 8 0.26
ACGTcount: A:0.41, C:0.16, G:0.05, T:0.38
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:50405958 original size:23 final size:24
Alignment explanation
Indices: 50405932--50405981 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 24
50405922 AGGTGCTGAT
*
50405932 TTTTTTAAAATT-AAAATTTTGAA
1 TTTTTGAAAATTCAAAATTTTGAA
**
50405955 -TTTTGAATTTTCAAAATTTTGAA
1 TTTTTGAAAATTCAAAATTTTGAA
50405978 TTTT
1 TTTT
50405982 CATTTCATTG
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
22 8 0.36
23 11 0.50
24 3 0.14
ACGTcount: A:0.36, C:0.02, G:0.06, T:0.56
Consensus pattern (24 bp):
TTTTTGAAAATTCAAAATTTTGAA
Found at i:50405974 original size:16 final size:16
Alignment explanation
Indices: 50405953--50405983 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
50405943 TAAAATTTTG
50405953 AATTTTGAATTTTCAA
1 AATTTTGAATTTTCAA
50405969 AATTTTGAATTTTCA
1 AATTTTGAATTTTCA
50405984 TTTCATTGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.35, C:0.06, G:0.06, T:0.52
Consensus pattern (16 bp):
AATTTTGAATTTTCAA
Found at i:50416691 original size:44 final size:44
Alignment explanation
Indices: 50416643--50417474 Score: 932
Period size: 44 Copynumber: 19.4 Consensus size: 44
50416633 ATTACTGCTT
* * *
50416643 AGGGAGACAGGA-TCTACAATCTTCAACCTATTCCACTGCTGTCC
1 AGGGAGATAGGACT-TACAATCTTCCACCTATTCCACTGCTGTTC
*
50416687 AGGGATATAGGACTTACAATCTTCCACCTATTCCACTGCTGTTC
1 AGGGAGATAGGACTTACAATCTTCCACCTATTCCACTGCTGTTC
* * *
50416731 AAGGAGATAGGACTTACAACCTTCCACCTATTCCACTACTGTTC
1 AGGGAGATAGGACTTACAATCTTCCACCTATTCCACTGCTGTTC
* *
50416775 AGGGAGATAGGACTTATAATCTTCCACCTACTCCACTGCTGTTC
1 AGGGAGATAGGACTTACAATCTTCCACCTATTCCACTGCTGTTC
* * *
50416819 AGGGAGATAGGACTTACAACCTTCCACCTCTTCCACTACTGTTC
1 AGGGAGATAGGACTTACAATCTTCCACCTATTCCACTGCTGTTC
* * * * * * * * *
50416863 AGAGAGATAGAACTTATAGTTTTCTACTTATTCCACTGTTGTTT
1 AGGGAGATAGGACTTACAATCTTCCACCTATTCCACTGCTGTTC
* *
50416907 AGGGAGATAGGACTTACAACCTTCCACCTATTCCACTACTGTTC
1 AGGGAGATAGGACTTACAATCTTCCACCTATTCCACTGCTGTTC
* * *
50416951 A-GG-G--A-GA--TAC---CTTCCACCTATTCCACTACTCTTT
1 AGGGAGATAGGACTTACAATCTTCCACCTATTCCACTGCTGTTC
* * *
50416985 AGGGAGATAGGACTTACAATCTTCCATCTATTCCACTGTTGTTT
1 AGGGAGATAGGACTTACAATCTTCCACCTATTCCACTGCTGTTC
* *
50417029 AGGGAGATAGGACTTAAAATCTTCCACCTATTCCACTACTGTTC
1 AGGGAGATAGGACTTACAATCTTCCACCTATTCCACTGCTGTTC
* *
50417073 AGGGAGATAGGACTTATAATCTTCCACCTACTCCACTGCTGTTC
1 AGGGAGATAGGACTTACAATCTTCCACCTATTCCACTGCTGTTC
* * *
50417117 AGGGAGATAGGACTTACAACCTTCCACCTCTTCCACTACTGTTC
1 AGGGAGATAGGACTTACAATCTTCCACCTATTCCACTGCTGTTC
* * * * * * * * *
50417161 AGAGAGATAGAACTTATAGTTTTCTACTTATTCCACTGTTGTTT
1 AGGGAGATAGGACTTACAATCTTCCACCTATTCCACTGCTGTTC
* *
50417205 AGGGAGATAGGACTTACAACCTTCCACCTATTCCACTACTGTTC
1 AGGGAGATAGGACTTACAATCTTCCACCTATTCCACTGCTGTTC
* * *
50417249 A-GG-G--A-GA--TAC---CTTCCACCTATTCCACTACTCTTT
1 AGGGAGATAGGACTTACAATCTTCCACCTATTCCACTGCTGTTC
* * *
50417283 AGGGAGATAGGACTTACAATCTTCCATCTATTCCACTGTTGTTT
1 AGGGAGATAGGACTTACAATCTTCCACCTATTCCACTGCTGTTC
* * *
50417327 AGGGAGATAGGACTTAAAATCTTCCACCTATTCCACTACTGTCC
1 AGGGAGATAGGACTTACAATCTTCCACCTATTCCACTGCTGTTC
* * * *
50417371 AGGGAGATAGGACTTATAGTCTTCCACCTATTCCACTGATGCTC
1 AGGGAGATAGGACTTACAATCTTCCACCTATTCCACTGCTGTTC
* * *
50417415 AAGGAGATAGGACTTACAATCTTCCACCTATTCCATTGTTGTTC
1 AGGGAGATAGGACTTACAATCTTCCACCTATTCCACTGCTGTTC
*
50417459 AGGGAGATATGACTTA
1 AGGGAGATAGGACTTA
50417475 TAGTTTTACC
Statistics
Matches: 658, Mismatches: 109, Indels: 42
0.81 0.13 0.05
Matches are distributed among these distances:
34 46 0.07
35 4 0.01
36 2 0.00
37 6 0.01
38 2 0.00
39 8 0.01
40 2 0.00
41 6 0.01
42 2 0.00
43 4 0.01
44 575 0.87
45 1 0.00
ACGTcount: A:0.27, C:0.26, G:0.17, T:0.31
Consensus pattern (44 bp):
AGGGAGATAGGACTTACAATCTTCCACCTATTCCACTGCTGTTC
Found at i:50416964 original size:34 final size:34
Alignment explanation
Indices: 50416925--50416993 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
50416915 AGGACTTACA
*
50416925 ACCTTCCACCTATTCCACTACTGTTCAGGGAGAT
1 ACCTTCCACCTATTCCACTACTCTTCAGGGAGAT
*
50416959 ACCTTCCACCTATTCCACTACTCTTTAGGGAGAT
1 ACCTTCCACCTATTCCACTACTCTTCAGGGAGAT
50416993 A
1 A
50416994 GGACTTACAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.25, C:0.32, G:0.13, T:0.30
Consensus pattern (34 bp):
ACCTTCCACCTATTCCACTACTCTTCAGGGAGAT
Found at i:50417204 original size:298 final size:298
Alignment explanation
Indices: 50416663--50417481 Score: 1406
Period size: 298 Copynumber: 2.7 Consensus size: 298
50416653 GATCTACAAT
* * * ** * * *
50416663 CTTCAACCTATTCCACTGCTGTCCAGGGATATAGGACTTACAATCTTCCACCTATTCCACTGCTG
1 CTTCCACCTATTCCACTACTCTTTAGGGAGATAGGACTTACAATCTTCCATCTATTCCACTGTTG
* * * *
50416728 TTCAAGGAGATAGGACTTACAACCTTCCACCTATTCCACTACTGTTCAGGGAGATAGGACTTATA
66 TTTAGGGAGATAGGACTTAAAATCTTCCACCTATTCCACTACTGTTCAGGGAGATAGGACTTATA
50416793 ATCTTCCACCTACTCCACTGCTGTTCAGGGAGATAGGACTTACAACCTTCCACCTCTTCCACTAC
131 ATCTTCCACCTACTCCACTGCTGTTCAGGGAGATAGGACTTACAACCTTCCACCTCTTCCACTAC
50416858 TGTTCAGAGAGATAGAACTTATAGTTTTCTACTTATTCCACTGTTGTTTAGGGAGATAGGACTTA
196 TGTTCAGAGAGATAGAACTTATAGTTTTCTACTTATTCCACTGTTGTTTAGGGAGATAGGACTTA
50416923 CAACCTTCCACCTATTCCACTACTGTTCAGGGAGATAC
261 CAACCTTCCACCTATTCCACTACTGTTCAGGGAGATAC
50416961 CTTCCACCTATTCCACTACTCTTTAGGGAGATAGGACTTACAATCTTCCATCTATTCCACTGTTG
1 CTTCCACCTATTCCACTACTCTTTAGGGAGATAGGACTTACAATCTTCCATCTATTCCACTGTTG
50417026 TTTAGGGAGATAGGACTTAAAATCTTCCACCTATTCCACTACTGTTCAGGGAGATAGGACTTATA
66 TTTAGGGAGATAGGACTTAAAATCTTCCACCTATTCCACTACTGTTCAGGGAGATAGGACTTATA
50417091 ATCTTCCACCTACTCCACTGCTGTTCAGGGAGATAGGACTTACAACCTTCCACCTCTTCCACTAC
131 ATCTTCCACCTACTCCACTGCTGTTCAGGGAGATAGGACTTACAACCTTCCACCTCTTCCACTAC
50417156 TGTTCAGAGAGATAGAACTTATAGTTTTCTACTTATTCCACTGTTGTTTAGGGAGATAGGACTTA
196 TGTTCAGAGAGATAGAACTTATAGTTTTCTACTTATTCCACTGTTGTTTAGGGAGATAGGACTTA
50417221 CAACCTTCCACCTATTCCACTACTGTTCAGGGAGATAC
261 CAACCTTCCACCTATTCCACTACTGTTCAGGGAGATAC
50417259 CTTCCACCTATTCCACTACTCTTTAGGGAGATAGGACTTACAATCTTCCATCTATTCCACTGTTG
1 CTTCCACCTATTCCACTACTCTTTAGGGAGATAGGACTTACAATCTTCCATCTATTCCACTGTTG
*
50417324 TTTAGGGAGATAGGACTTAAAATCTTCCACCTATTCCACTACTGTCCAGGGAGATAGGACTTATA
66 TTTAGGGAGATAGGACTTAAAATCTTCCACCTATTCCACTACTGTTCAGGGAGATAGGACTTATA
* * * * * * * * **
50417389 GTCTTCCACCTATTCCACTGATGCTCAAGGAGATAGGACTTACAATCTTCCACCTATTCCATTGT
131 ATCTTCCACCTACTCCACTGCTGTTCAGGGAGATAGGACTTACAACCTTCCACCTCTTCCACTAC
*
50417454 TGTTCAGGGAGATATG-ACTTATAGTTTT
196 TGTTCAGAGAGATA-GAACTTATAGTTTT
50417482 ACCGGTTTGT
Statistics
Matches: 496, Mismatches: 24, Indels: 2
0.95 0.05 0.00
Matches are distributed among these distances:
298 495 1.00
299 1 0.00
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.32
Consensus pattern (298 bp):
CTTCCACCTATTCCACTACTCTTTAGGGAGATAGGACTTACAATCTTCCATCTATTCCACTGTTG
TTTAGGGAGATAGGACTTAAAATCTTCCACCTATTCCACTACTGTTCAGGGAGATAGGACTTATA
ATCTTCCACCTACTCCACTGCTGTTCAGGGAGATAGGACTTACAACCTTCCACCTCTTCCACTAC
TGTTCAGAGAGATAGAACTTATAGTTTTCTACTTATTCCACTGTTGTTTAGGGAGATAGGACTTA
CAACCTTCCACCTATTCCACTACTGTTCAGGGAGATAC
Found at i:50417262 original size:34 final size:34
Alignment explanation
Indices: 50417223--50417291 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
50417213 AGGACTTACA
*
50417223 ACCTTCCACCTATTCCACTACTGTTCAGGGAGAT
1 ACCTTCCACCTATTCCACTACTCTTCAGGGAGAT
*
50417257 ACCTTCCACCTATTCCACTACTCTTTAGGGAGAT
1 ACCTTCCACCTATTCCACTACTCTTCAGGGAGAT
50417291 A
1 A
50417292 GGACTTACAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.25, C:0.32, G:0.13, T:0.30
Consensus pattern (34 bp):
ACCTTCCACCTATTCCACTACTCTTCAGGGAGAT
Found at i:50418766 original size:15 final size:15
Alignment explanation
Indices: 50418736--50418778 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
50418726 CCTTAGCCTC
* *
50418736 TCCATTTTTACTTTT
1 TCCATTTTTTCATTT
50418751 TCCATTTTTTCATTT
1 TCCATTTTTTCATTT
50418766 TCATCATTTTTTC
1 TC--CATTTTTTC
50418779 GACTCAAAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 15 0.62
17 9 0.38
ACGTcount: A:0.14, C:0.21, G:0.00, T:0.65
Consensus pattern (15 bp):
TCCATTTTTTCATTT
Found at i:50441373 original size:267 final size:267
Alignment explanation
Indices: 50440898--50441424 Score: 982
Period size: 267 Copynumber: 2.0 Consensus size: 267
50440888 TCGAAAGGTC
*
50440898 CTTCTGGGGTATCGACTAGTTGATTGAATAAGAAACCCTAAAGTGACAGTTGGTTATGATTACCA
1 CTTCTGGGGTATCGACTAGTTGATTGAATAAGAAAACCTAAAGTGACAGTTGGTTATGATTACCA
50440963 AAGCGAGCTAATCACCCATGCTCAAATTTGACAAATTCTATTATTTAATTTCTCGTTACTTATTC
66 AAGCGAGCTAATCACCCATGCTCAAATTTGACAAATTCTATTATTTAATTTCTCGTTACTTATTC
*
50441028 TTTTCTTTTTATTATTAAAAATCCCAAAAACCTTTCTTAATATTTCATTGTAATATAATCTATCT
131 TTTTCTTTTTATTATTAAAAATCCCAAAAACCTTTCTTAATATTTCATCGTAATATAATCTATCT
50441093 AAAGTACTAATTAGATATATTTGTGCTTAGGTTTAGAATTAACCTAGTACTCGCATCCCTTGGGT
196 AAAGTACTAATTAGATATATTTGTGCTTAGGTTTAGAATTAACCTAGTACTCGCATCCCTTGGGT
50441158 TTCGATT
261 TTCGATT
* * *
50441165 CTTCTGGGGTATCGACTAGTTGATTGAATAAGAAAACCTAAAGTGATAGTTTGTTATGATTACCG
1 CTTCTGGGGTATCGACTAGTTGATTGAATAAGAAAACCTAAAGTGACAGTTGGTTATGATTACCA
*
50441230 AAGCGAGCTAATCACCCATGCTCAAATTTTACAAATTCTATTATTTAATTTCTCGTTACTTATTC
66 AAGCGAGCTAATCACCCATGCTCAAATTTGACAAATTCTATTATTTAATTTCTCGTTACTTATTC
50441295 TTTTCTTTTTATTATTAAAAATCCCAAAAACCTTTCTTAATATTTCATCGTAATATAATCTATCT
131 TTTTCTTTTTATTATTAAAAATCCCAAAAACCTTTCTTAATATTTCATCGTAATATAATCTATCT
* *
50441360 AAAGTACTAATTAGATCTATTTGTGCTTAGGTTTAGAATTAACCTAGTACTCGTATCCCTTGGGT
196 AAAGTACTAATTAGATATATTTGTGCTTAGGTTTAGAATTAACCTAGTACTCGCATCCCTTGGGT
50441425 ACGATCCTCA
Statistics
Matches: 252, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
267 252 1.00
ACGTcount: A:0.31, C:0.17, G:0.13, T:0.40
Consensus pattern (267 bp):
CTTCTGGGGTATCGACTAGTTGATTGAATAAGAAAACCTAAAGTGACAGTTGGTTATGATTACCA
AAGCGAGCTAATCACCCATGCTCAAATTTGACAAATTCTATTATTTAATTTCTCGTTACTTATTC
TTTTCTTTTTATTATTAAAAATCCCAAAAACCTTTCTTAATATTTCATCGTAATATAATCTATCT
AAAGTACTAATTAGATATATTTGTGCTTAGGTTTAGAATTAACCTAGTACTCGCATCCCTTGGGT
TTCGATT
Found at i:50453668 original size:10 final size:10
Alignment explanation
Indices: 50453641--50453684 Score: 56
Period size: 10 Copynumber: 4.6 Consensus size: 10
50453631 AAATTAAAAC
50453641 GAGAGAG-TT
1 GAGAGAGTTT
*
50453650 GAGAAAGTTT
1 GAGAGAGTTT
*
50453660 GAGGGAGTTT
1 GAGAGAGTTT
50453670 GAGAGAG-TT
1 GAGAGAGTTT
50453679 GAGAGA
1 GAGAGA
50453685 AGGATGTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
9 14 0.47
10 16 0.53
ACGTcount: A:0.34, C:0.00, G:0.43, T:0.23
Consensus pattern (10 bp):
GAGAGAGTTT
Found at i:50454340 original size:32 final size:32
Alignment explanation
Indices: 50454295--50454369 Score: 132
Period size: 32 Copynumber: 2.3 Consensus size: 32
50454285 AATTGGTTCT
* *
50454295 TGTTTTATCTAATTTGTTAATTGTTGTATTGG
1 TGTTTGATATAATTTGTTAATTGTTGTATTGG
50454327 TGTTTGATATAATTTGTTAATTGTTGTATTGG
1 TGTTTGATATAATTTGTTAATTGTTGTATTGG
50454359 TGTTTGATATA
1 TGTTTGATATA
50454370 CTTTCAAGAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 41 1.00
ACGTcount: A:0.21, C:0.01, G:0.20, T:0.57
Consensus pattern (32 bp):
TGTTTGATATAATTTGTTAATTGTTGTATTGG
Found at i:50456438 original size:20 final size:18
Alignment explanation
Indices: 50456413--50456456 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 18
50456403 TCTCAAGCTC
50456413 CTTCTTTAAATTATCTATTT
1 CTTCTTTAAA-TATCT-TTT
*
50456433 CTTCTTTCAATATCTTTT
1 CTTCTTTAAATATCTTTT
*
50456451 CCTCTT
1 CTTCTT
50456457 CTGTTTCTGG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 8 0.36
19 5 0.23
20 9 0.41
ACGTcount: A:0.18, C:0.23, G:0.00, T:0.59
Consensus pattern (18 bp):
CTTCTTTAAATATCTTTT
Found at i:50457921 original size:48 final size:48
Alignment explanation
Indices: 50457850--50457946 Score: 194
Period size: 48 Copynumber: 2.0 Consensus size: 48
50457840 CAGAGGAATG
50457850 TTATGATATTGGAAAAATTCACATGCCACATTTAGTTCAAGAAAACAA
1 TTATGATATTGGAAAAATTCACATGCCACATTTAGTTCAAGAAAACAA
50457898 TTATGATATTGGAAAAATTCACATGCCACATTTAGTTCAAGAAAACAA
1 TTATGATATTGGAAAAATTCACATGCCACATTTAGTTCAAGAAAACAA
50457946 T
1 T
50457947 CTTAACATGA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.43, C:0.14, G:0.12, T:0.30
Consensus pattern (48 bp):
TTATGATATTGGAAAAATTCACATGCCACATTTAGTTCAAGAAAACAA
Found at i:50460569 original size:17 final size:19
Alignment explanation
Indices: 50460547--50460584 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
50460537 AAGTTTAGAA
50460547 GTAAAA-AAT-TATATTAT
1 GTAAAATAATATATATTAT
50460564 GTAAAATAATATATATTAT
1 GTAAAATAATATATATTAT
50460583 GT
1 GT
50460585 CCCCTTAAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 6 0.32
18 3 0.16
19 10 0.53
ACGTcount: A:0.50, C:0.00, G:0.08, T:0.42
Consensus pattern (19 bp):
GTAAAATAATATATATTAT
Found at i:50464703 original size:14 final size:14
Alignment explanation
Indices: 50464684--50464715 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
50464674 AATATTATTT
50464684 ATTTAATTTAAATA
1 ATTTAATTTAAATA
50464698 ATTTAATTTAAATA
1 ATTTAATTTAAATA
50464712 ATTT
1 ATTT
50464716 TTCAATTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
ATTTAATTTAAATA
Found at i:50468885 original size:16 final size:16
Alignment explanation
Indices: 50468864--50468899 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
50468854 TTGAGTTGTT
50468864 TCATACGCCAATGTCA
1 TCATACGCCAATGTCA
50468880 TCATACGCCAATGTCA
1 TCATACGCCAATGTCA
50468896 TCAT
1 TCAT
50468900 GGAGTAGCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.31, C:0.31, G:0.11, T:0.28
Consensus pattern (16 bp):
TCATACGCCAATGTCA
Found at i:50470997 original size:142 final size:142
Alignment explanation
Indices: 50470775--50471202 Score: 639
Period size: 142 Copynumber: 3.0 Consensus size: 142
50470765 TACAGTGGAG
* ** * *
50470775 CAGATT-AAAGCCAGAAATATTTTCTCCCTGAGATTACAGCGGAGCAGA-TGAAGCTATTAATCC
1 CAGATTGAAA-CCAAAAATATCATCTCCTTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCC
50470838 TATC-TCCGTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGT
65 TATCTTCC-TGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGT
50470902 AGAGTAGATCGCAT
129 AGAGTAGATCGCAT
* *
50470916 CAGATTGAAACCAAAAATCTCATCTCCTTGAGATTACAGCGGAGCAAATTGAAGCTAGTAATCCT
1 CAGATTGAAACCAAAAATATCATCTCCTTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
*
50470981 ATCTTCCTGAGATTACAGTGGAGCAGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
66 ATCTTCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
*
50471046 AGTAGATCGTAT
131 AGTAGATCGCAT
* * *
50471058 CAGATTGAAGCTAAAAATATCAT-TTCTCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCC
1 CAGATTGAAACCAAAAATATCATCTCCT-TGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCC
* * * * *
50471122 TATCTCCCTGAGATTACAGTGGAGTGTATTAAAATAAAAGATTTTATCTCTCTGAAGTTACAGTA
65 TATCTTCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTA
*
50471187 GAGTAGATAGCAT
130 GAGTAGATCGCAT
50471200 CAG
1 CAG
50471203 GTCTTATCTC
Statistics
Matches: 261, Mismatches: 22, Indels: 7
0.90 0.08 0.02
Matches are distributed among these distances:
141 41 0.16
142 217 0.83
143 3 0.01
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.29
Consensus pattern (142 bp):
CAGATTGAAACCAAAAATATCATCTCCTTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
ATCTTCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
AGTAGATCGCAT
Found at i:50471456 original size:100 final size:100
Alignment explanation
Indices: 50471248--50472536 Score: 1427
Period size: 100 Copynumber: 12.9 Consensus size: 100
50471238 GAGAATTACA
*
50471248 AATCTTACCTCCCAGGCGATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCG
1 AATCTTACCTCCCAGGCGATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCTG
* *
50471313 ACATTGCAGTTTAAAAAGATTAAAGCTACAACAGTG
66 ACATTGCAG-TTAAAAAGATTAAAGCTACAGCAGCG
* * * *
50471349 AAT-TTACCTCCCAGGCGATGCAGTGGAACAGATTAAAGCCACAACAGTTAATCTTGCGTCCCTG
1 AATCTTACCTCCCAGGCGATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCTG
* *
50471413 ACATTACGGTTAAAAAGATTAAAGCTACAGCAGCG
66 ACATTGCAGTTAAAAAGATTAAAGCTACAGCAGCG
* * * * *
50471448 AATCTTACCTCCCAGGCGGTGCAGTGGAACATATTAAAGCCACAACGGTGAATCTCGCCTCCCTG
1 AATCTTACCTCCCAGGCGATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCTG
* *
50471513 ACATTGCGGTTAAAAAGATTAAAGCTACAGCAGTG
66 ACATTGCAGTTAAAAAGATTAAAGCTACAGCAGCG
* * * *
50471548 AATCTTACCTCTCAGGC-AGTGCAGTGGAACAGATTAAAGCCACAAT-GATGAATCTTGCCTCCG
1 AATCTTACCTCCCAGGCGA-TGCAGTGGAACAGATTAAAGCCAC-ATCGGTGAATCTTGCTTCCC
*
50471611 TGACATTGCGGTTAAAAAGATTAAAGCTACAGCAGCG
64 TGACATTGCAGTTAAAAAGATTAAAGCTACAGCAGCG
* * * *
50471648 ACTCTTACCTCCCAAGCGGTGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGTTTCCCT-
1 AATCTTACCTCCCAGGCGATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCTG
* *
50471712 AGCATTGCAGTTAAAAAGATTAAAGCTACAACAGCA
66 A-CATTGCAGTTAAAAAGATTAAAGCTACAGCAGCG
* * * ** * * * *
50471748 AATCTTACAC-CCTAAGCAATGCAGTGGAGTAGATTAAATCTACAACGGTGAATCTTGTTGTCCC
1 AATCTTAC-CTCCCAGGCGATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCT-TCCC
* * * * *
50471812 -GGCATTACAGTTAAAAATATTAAAGCTACAGTATCG
64 TGACATTGCAGTTAAAAAGATTAAAGCTACAGCAGCG
* * * * *
50471848 AGTCTTACCTCCCAAGCGGTGCAGTGGAACAAATTAAAGCCACATCGGTGAATCTTG-TTTCCTC
1 AATCTTACCTCCCAGGCGATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCT-
* * *
50471912 GGCATTGCAGTTAAAAAGATTAAAGCCACAGCGGCG
65 GACATTGCAGTTAAAAAGATTAAAGCTACAGCAGCG
* * * * * * * *
50471948 AATCCTACTTCCTTAGCCG-TGCAGTAGAGCAGATTAAAGCCACATCGGTGAATCTTACTTCCCC
1 AATCTTACCTCC-CAGGCGATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCT
* *
50472012 AACATTACAGTTAAAAAGATTAAAGCTACAAG-AGCG
65 GACATTGCAGTTAAAAAGATTAAAGCTAC-AGCAGCG
* * *
50472048 AATCTTA-CTCCCCAGGCGATGCAGTGGAGCAGATTAAAGCCACAACAGTGAATCTTGCTATCCC
1 AATCTTACCT-CCCAGGCGATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCT-TCCC
50472112 -GACATTGCAGTTAAAAAGATTAAAGCTACAGCAGCG
64 TGACATTGCAGTTAAAAAGATTAAAGCTACAGCAGCG
* * * ** *
50472148 AATCTTACCTCCCAGGCGGTGCATTGGAACAGATTAAAGACACATCGGTGAATCTTATTTCCCCG
1 AATCTTACCTCCCAGGCGATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCTG
** * *
50472213 GTATTGCAGTTAAAAAGATTAAAGCCACAGCGGCG
66 ACATTGCAGTTAAAAAGATTAAAGCTACAGCAGCG
* * * * *
50472248 AATCCTACTTCCCTAGTG-G-TGCAGTAGAGCAGATTAAAGCCACATCGGTGAATCTTACTTCCC
1 AATCTTACCTCCC-AG-GCGATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCC
* * *
50472311 TGAAATTGCAGTTAAAAATATTAAAGCCACAGCAGCG
64 TGACATTGCAGTTAAAAAGATTAAAGCTACAGCAGCG
* * * * *
50472348 AATCTTACCTCCCTGGCAATGCAGTGGAACAGATGAAAGCCACATCGGTGAATCTTACTTCCCCG
1 AATCTTACCTCCCAGGCGATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCTG
* * * **
50472413 ATATTGTAGTTAAAAAGATTAAAGCCACAGTGGCG
66 ACATTGCAGTTAAAAAGATTAAAGCTACAGCAGCG
* * * * * * * * * *
50472448 AATCTTACTTCCCTGGCGGTGCAGTGGAATAGATTGAAGCTACAACAGCGAATCTTACTT-CCTC
1 AATCTTACCTCCCAGGCGATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCT-
** *
50472512 GACATCACAGTTAAATAGATTAAAG
65 GACATTGCAGTTAAAAAGATTAAAG
50472537 TTACGAGTTA
Statistics
Matches: 1013, Mismatches: 149, Indels: 53
0.83 0.12 0.04
Matches are distributed among these distances:
98 4 0.00
99 46 0.05
100 935 0.92
101 27 0.03
102 1 0.00
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.24
Consensus pattern (100 bp):
AATCTTACCTCCCAGGCGATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCTG
ACATTGCAGTTAAAAAGATTAAAGCTACAGCAGCG
Found at i:50478919 original size:21 final size:21
Alignment explanation
Indices: 50478895--50478945 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 21
50478885 ATTCAGATTC
50478895 AATAAAAAAAACCAAAATCAA
1 AATAAAAAAAACCAAAATCAA
* *
50478916 AAT-AAAAAAATCAAAGTCAA
1 AATAAAAAAAACCAAAATCAA
*
50478936 AAGAAAAAAA
1 AATAAAAAAA
50478946 GAGAAATCAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 17 0.65
21 9 0.35
ACGTcount: A:0.76, C:0.10, G:0.04, T:0.10
Consensus pattern (21 bp):
AATAAAAAAAACCAAAATCAA
Found at i:50481423 original size:44 final size:43
Alignment explanation
Indices: 50481271--50481424 Score: 111
Period size: 44 Copynumber: 3.5 Consensus size: 43
50481261 AAAATAGTGA
* * * *
50481271 ATCTTATCTCTCTGATG-TTACAGTGGAGCAGATTGAAGCCAGAAAT
1 ATCTTATCTCCCTGA-GATTACAGCGGAGCAGATT-AA--AATAAAT
* ** *
50481317 AT-TT-TCTCCCTGAGATTACAGCGGAGCAGATGAAGCT-ATT
1 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTAAAATAAAT
* *
50481357 AATCCTATCTCCCTGAGATTACAGGGGAGCAGATTAAAATAAAT
1 -ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTAAAATAAAT
*
50481401 GATCTTATCTCTCTGA-AGTTACAG
1 -ATCTTATCTCCCTGAGA-TTACAG
50481425 TAGAGTAGAT
Statistics
Matches: 86, Mismatches: 16, Indels: 14
0.74 0.14 0.12
Matches are distributed among these distances:
40 2 0.02
41 2 0.02
42 1 0.01
43 33 0.38
44 44 0.51
45 2 0.02
46 2 0.02
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.30
Consensus pattern (43 bp):
ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTAAAATAAAT
Found at i:50481555 original size:142 final size:142
Alignment explanation
Indices: 50481299--50482003 Score: 1063
Period size: 142 Copynumber: 5.0 Consensus size: 142
50481289 TACAGTGGAG
* * *
50481299 CAGATTGAAGCCAGAAATATTTTCTCCCTGAGATTACAGCGGAGCAGA-TGAAGCTATTAATCCT
1 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
* * *
50481363 ATCTCCCTGAGATTACAGGGGAGCAGATTAAAATAAATGATCTTATCTCTCTGAAGTTACAGTAG
66 ATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
*
50481428 AGTAGATCGTAT
131 AGTAGATCGCAT
* * *
50481440 TAGATTGAAGCCAGAAATCTCATCTCCATGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
1 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
* *
50481505 ATCTCCCTAAGATTACAGTGGAACGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
66 ATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
50481570 AGTAGATCGCAT
131 AGTAGATCGCAT
* * *
50481582 CAGATTGAAGCCAGAAATCTCATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGCAATCTT
1 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
* ** *
50481647 ATCTCCCTGACATT-CTAGTGGAGCATATTAAAATAAAGGATCTTATCTCTCTGAAGCTACAGTA
66 ATCTCCCTGAGATTAC-AGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTA
* *
50481711 GTGTAGATCACAT
130 GAGTAGATCGCAT
* *
50481724 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGTGGAACAGATTGAAGCTAGTAATCCT
1 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
* * *
50481789 AACTCCCTGAGATTACAGTGGAGCGGATTAAAATAAGGGATCTTATCTCTCTGAAGTTATAGTAG
66 ATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
50481854 AGTAGATCGCAT
131 AGTAGATCGCAT
* * *
50481866 CAGATTGAAGCCAGAAATCTTATCTCCCTGATATTACAGTGGAGCAGATTGGAGCTAGTAATCCT
1 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
* * * * * *
50481931 AACTCCCTGAGATTACAGTGGAGCGAAGTAAAATAAATGATATTATATCTCTGAAGTTACAGTAG
66 ATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
*
50481996 ATTAGATC
131 AGTAGATC
50482004 ACATAAGGTC
Statistics
Matches: 512, Mismatches: 49, Indels: 5
0.90 0.09 0.01
Matches are distributed among these distances:
141 44 0.09
142 467 0.91
143 1 0.00
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.28
Consensus pattern (142 bp):
CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
ATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
AGTAGATCGCAT
Found at i:50481795 original size:44 final size:44
Alignment explanation
Indices: 50481724--50481954 Score: 185
Period size: 44 Copynumber: 5.0 Consensus size: 44
50481714 TAGATCACAT
* *
50481724 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGTGGAA
1 CAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGTGGAG
* * *
50481768 CAGATTGAAGCTAGTAATCCTAACTCCCTGAGATTACAGTGGAG
1 CAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGTGGAG
* ** ** * * *
50481812 CGGATT-AAAATAAGGGATCTTATCTCTCTGAAGTTATAGTAGAGTAGATCGCAT
1 CAGATTGAAGCT-AGAAATCTTATCTCCCTG-AG--AT--TACAGT-G---G-AG
* *
50481866 CAGATTGAAGCCAGAAATCTTATCTCCCTGATATTACAGTGGAG
1 CAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGTGGAG
* * * *
50481910 CAGATTGGAGCTAGTAATCCTAACTCCCTGAGATTACAGTGGAG
1 CAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGTGGAG
50481954 C
1 C
50481955 GAAGTAAAAT
Statistics
Matches: 144, Mismatches: 31, Indels: 24
0.72 0.16 0.12
Matches are distributed among these distances:
43 3 0.02
44 97 0.67
45 3 0.02
47 2 0.01
48 1 0.01
49 10 0.07
50 1 0.01
51 2 0.01
53 2 0.01
54 21 0.15
55 2 0.01
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (44 bp):
CAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGTGGAG
Found at i:50482284 original size:100 final size:100
Alignment explanation
Indices: 50482056--50483296 Score: 1371
Period size: 100 Copynumber: 12.4 Consensus size: 100
50482046 AAGAATTACA
* * *
50482056 AATCCTACCTCCCAGGCGATGTAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCG
1 AATCTTACCTCCCAGGCGGTGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCG
* *
50482121 ACATTGCAGTTCAAAAAGATTAAAGCTACAACAGCA
66 ACATTGCAGTT-AAAAAGATTAAAGCTACAGCAGCG
* * * * * * *
50482157 AATCTTGCCTCCCAGGCGATGCAGTGGAACAGATTAAAGCCACAACGATGAATCTTGCCTCTCTG
1 AATCTTACCTCCCAGGCGGTGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCG
*** *
50482222 ACATTATGGTTAAAAAGATTAAAGCTACAGCAGTG
66 ACATTGCAGTTAAAAAGATTAAAGCTACAGCAGCG
* * * * * * *
50482257 AATTTTACCTCCCAGGCGGTGCAGTGGAATAGATTAAAGCCACAACAGTGAATCTTACCTCCCTG
1 AATCTTACCTCCCAGGCGGTGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCG
* *
50482322 ACATTGCGGTTAAAAAGATTAAAGCTACAGCAGCA
66 ACATTGCAGTTAAAAAGATTAAAGCTACAGCAGCG
* * * *
50482357 AATCTTACCTCCCAGGCGGTGCAGTGGAACAGATTAAAGCCACAACGATGAATCTTACCTCCCTC
1 AATCTTACCTCCCAGGCGGTGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCC-C
*
50482422 -ACATTGCGGTTAAAAAGATTAAAGCTACAGCAGCG
65 GACATTGCAGTTAAAAAGATTAAAGCTACAGCAGCG
** * * * *
50482457 AATCTTACCTCTTAGGCGGTGCATTGGAATAGATTAAAGCCATATCGGTGAATCTTGTTTCCCCG
1 AATCTTACCTCCCAGGCGGTGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCG
* * * *
50482522 GCATTGCACTTAAAAAGATTAAAGCTACAACAGTG
66 ACATTGCAGTTAAAAAGATTAAAGCTACAGCAGCG
* * * *
50482557 AATCTTA-CTCCCCAGGCGATGCAGTGGAGCAGATTAAAGCCACAGCGGTGAATCTTGCTGT-TC
1 AATCTTACCT-CCCAGGCGGTGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCT-TCCC
* * * *
50482620 TGACATTGCAGTTAAAAAGGTTAAAGCTACAGCATCA
64 CGACATTGCAGTTAAAAAGATTAAAGCTACAGCAGCG
* *
50482657 AATCTTACCTCTCAGGCGGTGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGTTTCCCCG
1 AATCTTACCTCCCAGGCGGTGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCG
* * * * *
50482722 GCATTGCAGTTAAAAAAATTAAAGCCACAGCGGCA
66 ACATTGCAGTTAAAAAGATTAAAGCTACAGCAGCG
* * * * * *
50482757 AATCCTGCTTCCCTA-GCGGTGCAGTAGAGCAGATTAAAGCCACATCGGTGAATCTTACTTCCCC
1 AATCTTACCTCCC-AGGCGGTGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCC
* * *
50482821 GATATTGCAGTTAAAAAGATTAAAGCTACAACAACG
65 GACATTGCAGTTAAAAAGATTAAAGCTACAGCAGCG
* * *
50482857 AATCTTA-CTCCCCAGGCGATGCAGTGGAGCAGATTAAAGCCACAACGGTGAATCTTGCTGT-CC
1 AATCTTACCT-CCCAGGCGGTGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCT-TCCC
* * *
50482920 CGACATTGCAGCTAAAAAGGTTAAAGCTACAGCAGCA
64 CGACATTGCAGTTAAAAAGATTAAAGCTACAGCAGCG
* * * * *
50482957 AATCTTACCTCTCAGGCGGTGTAGTGGAACAGATTAAAGCCACATCGGTGAGTCTTGTTTCCCTG
1 AATCTTACCTCCCAGGCGGTGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCG
* * *
50483022 GCATTGCAGTTAAAAAGATTAAAGCCACAGCGGCG
66 ACATTGCAGTTAAAAAGATTAAAGCTACAGCAGCG
* * * * * * * * * *
50483057 AATCCTACTTCCTTA-GTGGTGTAGTAGAGCAGATTAAAGCCACATTGGCGAATCTTACTTCCCC
1 AATCTTACCTCC-CAGGCGGTGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCC
* * *
50483121 AAAATTGCAGTTAAAAAGATTAAAGCCACAGCAGCG
65 GACATTGCAGTTAAAAAGATTAAAGCTACAGCAGCG
* * * * * * *
50483157 AATCTTACCTCCCTGGTGATGTAGTGGAACAGATGAAACCCACATCGGTGAATCTTACTTCCCCG
1 AATCTTACCTCCCAGGCGGTGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCG
* * ** *
50483222 ATATTGCAGTTAAAAAGATTAAAGCCACAGTGGTG
66 ACATTGCAGTTAAAAAGATTAAAGCTACAGCAGCG
* * * * * * *
50483257 AATCATACTTCTCTGGCGGTGCAATGGAATAGATTGAAGC
1 AATCTTACCTCCCAGGCGGTGCAGTGGAACAGATTAAAGC
50483297 TACAACAACG
Statistics
Matches: 961, Mismatches: 165, Indels: 29
0.83 0.14 0.03
Matches are distributed among these distances:
99 7 0.01
100 881 0.92
101 73 0.08
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.24
Consensus pattern (100 bp):
AATCTTACCTCCCAGGCGGTGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCG
ACATTGCAGTTAAAAAGATTAAAGCTACAGCAGCG
Found at i:50483044 original size:50 final size:50
Alignment explanation
Indices: 50482086--50483260 Score: 524
Period size: 50 Copynumber: 23.5 Consensus size: 50
50482076 GTAGTGGAAC
* * *
50482086 AGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTCAAAA
1 AGATTAAAGCCACAGCGGTGAATCTTGCTTCCCAGGCATTGCAGTT-AAAA
* * * ** * ** *
50482137 AGATTAAAGCTACAACAGCAAATCTTGCCTCCCAGGCGA-TGCAGTGGAAC
1 AGATTAAAGCCACAGCGGTGAATCTTGCTTCCCAGGC-ATTGCAGTTAAAA
* * * * * * ***
50482187 AGATTAAAGCCACAACGATGAATCTTGCCTCTCTGACATTATGGTTAAAA
1 AGATTAAAGCCACAGCGGTGAATCTTGCTTCCCAGGCATTGCAGTTAAAA
* * * * * ** ** *
50482237 AGATTAAAGCTACAGCAGTGAATTTTACCTCCCAGGCGGTGCAGTGGAAT
1 AGATTAAAGCCACAGCGGTGAATCTTGCTTCCCAGGCATTGCAGTTAAAA
* * * * * * *
50482287 AGATTAAAGCCACAACAGTGAATCTTACCTCCCTGACATTGCGGTTAAAA
1 AGATTAAAGCCACAGCGGTGAATCTTGCTTCCCAGGCATTGCAGTTAAAA
* * ** * * ** ** *
50482337 AGATTAAAGCTACAGCAGCAAATCTTACCTCCCAGGCGGTGCAGTGGAAC
1 AGATTAAAGCCACAGCGGTGAATCTTGCTTCCCAGGCATTGCAGTTAAAA
* * * * *** *
50482387 AGATTAAAGCCACAACGATGAATCTTACCTCCCTCACATTGCGGTTAAAA
1 AGATTAAAGCCACAGCGGTGAATCTTGCTTCCCAGGCATTGCAGTTAAAA
* * * * * ** ** * *
50482437 AGATTAAAGCTACAGCAGCGAATCTTACCTCTTAGGCGGTGCA-TTGGAAT
1 AGATTAAAGCCACAGCGGTGAATCTTGCTTCCCAGGCATTGCAGTT-AAAA
* * * * *
50482487 AGATTAAAGCCATATCGGTGAATCTTGTTTCCCCGGCATTGCACTTAAAA
1 AGATTAAAGCCACAGCGGTGAATCTTGCTTCCCAGGCATTGCAGTTAAAA
* * * * * ** **
50482537 AGATTAAAGCTACAACAGTGAATCTTACTCCCCAGGCGA-TGCAGTGGAGC
1 AGATTAAAGCCACAGCGGTGAATCTTGCTTCCCAGGC-ATTGCAGTTAAAA
* * *
50482587 AGATTAAAGCCACAGCGGTGAATCTTGCTGT-TCTGACATTGCAGTTAAAA
1 AGATTAAAGCCACAGCGGTGAATCTTGCT-TCCCAGGCATTGCAGTTAAAA
* * * * * * * ** ** *
50482637 AGGTTAAAGCTACAGC-ATCAAATCTTACCTCTCAGGCGGTGCAGTGGAAC
1 AGATTAAAGCCACAGCGGT-GAATCTTGCTTCCCAGGCATTGCAGTTAAAA
* * *
50482687 AGATTAAAGCCACATCGGTGAATCTTGTTTCCCCGGCATTGCAGTTAAAA
1 AGATTAAAGCCACAGCGGTGAATCTTGCTTCCCAGGCATTGCAGTTAAAA
* ** * ** **
50482737 AAATTAAAGCCACAGCGGCAAATCCTGCTTCCCTA-GCGGTGCAG-TAGAGC
1 AGATTAAAGCCACAGCGGTGAATCTTGCTTCCC-AGGCATTGCAGTTA-AAA
* * * **
50482787 AGATTAAAGCCACATCGGTGAATCTTACTTCCCCGATATTGCAGTTAAAA
1 AGATTAAAGCCACAGCGGTGAATCTTGCTTCCCAGGCATTGCAGTTAAAA
* * *** * * ** **
50482837 AGATTAAAGCTACAACAACGAATCTTACTCCCCAGGCGA-TGCAGTGGAGC
1 AGATTAAAGCCACAGCGGTGAATCTTGCTTCCCAGGC-ATTGCAGTTAAAA
* * *
50482887 AGATTAAAGCCACAACGGTGAATCTTGCTGTCCC-GACATTGCAGCTAAAA
1 AGATTAAAGCCACAGCGGTGAATCTTGCT-TCCCAGGCATTGCAGTTAAAA
* * * ** * * * ** * ** *
50482937 AGGTTAAAGCTACAGCAGCAAATCTTACCTCTCAGGCGGTGTAGTGGAAC
1 AGATTAAAGCCACAGCGGTGAATCTTGCTTCCCAGGCATTGCAGTTAAAA
* * * *
50482987 AGATTAAAGCCACATCGGTGAGTCTTGTTTCCCTGGCATTGCAGTTAAAA
1 AGATTAAAGCCACAGCGGTGAATCTTGCTTCCCAGGCATTGCAGTTAAAA
* * * * * * **
50483037 AGATTAAAGCCACAGCGGCGAATCCTACTTCCTTAGTG--GTGTAG-TAGAGC
1 AGATTAAAGCCACAGCGGTGAATCTTGCTTCC-CAG-GCATTGCAGTTA-AAA
** * * **
50483087 AGATTAAAGCCACATTGGCGAATCTTACTTCCCCA-AAATTGCAGTTAAAA
1 AGATTAAAGCCACAGCGGTGAATCTTGCTT-CCCAGGCATTGCAGTTAAAA
* * * * * * * ** *
50483137 AGATTAAAGCCACAGCAGCGAATCTTACCTCCCTGGTGA-TGTAGTGGAAC
1 AGATTAAAGCCACAGCGGTGAATCTTGCTTCCCAGG-CATTGCAGTTAAAA
* * * * * **
50483187 AGATGAAACCCACATCGGTGAATCTTACTTCCCCGATATTGCAGTTAAAA
1 AGATTAAAGCCACAGCGGTGAATCTTGCTTCCCAGGCATTGCAGTTAAAA
*
50483237 AGATTAAAGCCACAGTGGTGAATC
1 AGATTAAAGCCACAGCGGTGAATC
50483261 ATACTTCTCT
Statistics
Matches: 800, Mismatches: 296, Indels: 57
0.69 0.26 0.05
Matches are distributed among these distances:
49 18 0.02
50 729 0.91
51 51 0.06
52 2 0.00
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.24
Consensus pattern (50 bp):
AGATTAAAGCCACAGCGGTGAATCTTGCTTCCCAGGCATTGCAGTTAAAA
Found at i:50484881 original size:16 final size:16
Alignment explanation
Indices: 50484857--50484892 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
50484847 TTTATTTTTG
*
50484857 ATATTTTCATATATAC
1 ATATATTCATATATAC
*
50484873 ATATATTCATATATAT
1 ATATATTCATATATAC
50484889 ATAT
1 ATAT
50484893 GTTGGGATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.42, C:0.08, G:0.00, T:0.50
Consensus pattern (16 bp):
ATATATTCATATATAC
Found at i:50505639 original size:20 final size:21
Alignment explanation
Indices: 50505602--50505641 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
50505592 ATTTCTTTTA
*
50505602 TTTTTAATTTCCATTTATTTC
1 TTTTTAATTGCCATTTATTTC
*
50505623 TTTTTAATTGCTA-TTATTT
1 TTTTTAATTGCCATTTATTT
50505642 AATGTTGTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.20, C:0.10, G:0.03, T:0.68
Consensus pattern (21 bp):
TTTTTAATTGCCATTTATTTC
Found at i:50515498 original size:2 final size:2
Alignment explanation
Indices: 50515491--50515535 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
50515481 TTCTTCTTCT
50515491 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
50515533 TC T
1 TC T
50515536 TTGCTTGTTT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:50515600 original size:13 final size:12
Alignment explanation
Indices: 50515582--50515615 Score: 52
Period size: 11 Copynumber: 2.8 Consensus size: 12
50515572 TCTAAACATT
50515582 TTCTCTCTCAAAA
1 TTCTCTCT-AAAA
50515595 TTCTCTCTAAAA
1 TTCTCTCTAAAA
50515607 -TCTCTCTAA
1 TTCTCTCTAA
50515616 CTAATTTTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 9 0.43
12 4 0.19
13 8 0.38
ACGTcount: A:0.29, C:0.29, G:0.00, T:0.41
Consensus pattern (12 bp):
TTCTCTCTAAAA
Found at i:50524516 original size:50 final size:50
Alignment explanation
Indices: 50524441--50524623 Score: 276
Period size: 50 Copynumber: 3.6 Consensus size: 50
50524431 TACACGGAAT
* * * *
50524441 CACTTATCATTTATCTCTTCTCACTGATCAGATAAGTGTAGCTAAGCTAC
1 CACTTATCACTTATCACTTGTCACTAATCAGATAAGTGTAGCTAAGCTAC
* * *
50524491 CACTTATCACTTATCACTTTTCACTGATCAGATAAATGTAGCTAAGCTAC
1 CACTTATCACTTATCACTTGTCACTAATCAGATAAGTGTAGCTAAGCTAC
*
50524541 CACTTATCACTTATCACTTGTCACTAATCAAATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTATCACTTGTCACTAATCAGATAAGTGTAGCT-AAGCTAC
*
50524592 CACTTATCACTTGTCACTTGTCACTAATCAGA
1 CACTTATCACTTATCACTTGTCACTAATCAGA
50524624 AGTACTCAAA
Statistics
Matches: 122, Mismatches: 10, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
50 85 0.70
51 37 0.30
ACGTcount: A:0.31, C:0.25, G:0.10, T:0.34
Consensus pattern (50 bp):
CACTTATCACTTATCACTTGTCACTAATCAGATAAGTGTAGCTAAGCTAC
Found at i:50526581 original size:19 final size:19
Alignment explanation
Indices: 50526557--50526596 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
50526547 AAATCATGAA
50526557 GCCTATGGCCATGGGGCTT
1 GCCTATGGCCATGGGGCTT
50526576 GCCTATGGCCATGGGGCTT
1 GCCTATGGCCATGGGGCTT
50526595 GC
1 GC
50526597 TTACATACAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.10, C:0.28, G:0.38, T:0.25
Consensus pattern (19 bp):
GCCTATGGCCATGGGGCTT
Found at i:50530308 original size:22 final size:24
Alignment explanation
Indices: 50530268--50530314 Score: 62
Period size: 22 Copynumber: 2.0 Consensus size: 24
50530258 TACTTGTATT
* *
50530268 TCTATTTTATTTTTTTCA-TTATA
1 TCTATTTTATTTGTATCATTTATA
50530291 TCTA-TTTATTTGTATCATTTATA
1 TCTATTTTATTTGTATCATTTATA
50530314 T
1 T
50530315 AAATAATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 11 0.52
23 10 0.48
ACGTcount: A:0.23, C:0.09, G:0.02, T:0.66
Consensus pattern (24 bp):
TCTATTTTATTTGTATCATTTATA
Found at i:50535145 original size:24 final size:24
Alignment explanation
Indices: 50535118--50535163 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
50535108 AGAACAATCC
* *
50535118 CAAAAGGAAATGCAGGAGCAGCTT
1 CAAAAGCAAATGAAGGAGCAGCTT
*
50535142 CAAAAGCAAATGAATGAGCAGC
1 CAAAAGCAAATGAAGGAGCAGC
50535164 AAAAGATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.46, C:0.17, G:0.26, T:0.11
Consensus pattern (24 bp):
CAAAAGCAAATGAAGGAGCAGCTT
Found at i:50536383 original size:20 final size:20
Alignment explanation
Indices: 50536337--50536383 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
50536327 AGCTCGTTTC
*
50536337 CAGCTCACTCGAGCTCAAGT
1 CAGCTCACTCAAGCTCAAGT
* *
50536357 CAACTCACTCAAGCTCAATT
1 CAGCTCACTCAAGCTCAAGT
50536377 CAGCTCA
1 CAGCTCA
50536384 ATCTTAACCC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.30, C:0.36, G:0.13, T:0.21
Consensus pattern (20 bp):
CAGCTCACTCAAGCTCAAGT
Found at i:50544740 original size:40 final size:40
Alignment explanation
Indices: 50544675--50544787 Score: 149
Period size: 40 Copynumber: 2.9 Consensus size: 40
50544665 GTGGCGTTTG
*
50544675 TACAAAAAATGCCGCTAAAAATCGAGCATTAGCGGCGCTT
1 TACAAAAAACGCCGCTAAAAATCGAGCATTAGCGGCGCTT
* *
50544715 TACATAAAACGCCGCTAAAGATCGAGCATTAGCGGCGCTT
1 TACAAAAAACGCCGCTAAAAATCGAGCATTAGCGGCGCTT
* * *
50544755 T-CAGGAAATCGCCGCCAAAAAT-GAGCATTAGCG
1 TACA-AAAAACGCCGCTAAAAATCGAGCATTAGCG
50544788 TCGTTTTTTA
Statistics
Matches: 65, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
39 13 0.20
40 52 0.80
ACGTcount: A:0.35, C:0.24, G:0.22, T:0.19
Consensus pattern (40 bp):
TACAAAAAACGCCGCTAAAAATCGAGCATTAGCGGCGCTT
Found at i:50544910 original size:41 final size:40
Alignment explanation
Indices: 50544853--50544964 Score: 163
Period size: 41 Copynumber: 2.8 Consensus size: 40
50544843 ACCTTTTGGG
*
50544853 GCTTTAGCGGCGTTTTTGAAGAAGCGTCGCTAATGCTCAAA
1 GCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTC-AA
*
50544894 GCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCAG
1 GCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCAA
*
50544934 GCTTTTAGTGGCGTTTTTGATA-AAGCGCCGC
1 GC-TTTAGCGGCGTTTTTGA-AGAAGCGCCGC
50544965 AACAACATTT
Statistics
Matches: 66, Mismatches: 3, Indels: 4
0.90 0.04 0.05
Matches are distributed among these distances:
40 3 0.05
41 62 0.94
42 1 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.30
Consensus pattern (40 bp):
GCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCAA
Found at i:50550268 original size:43 final size:43
Alignment explanation
Indices: 50550204--50550298 Score: 145
Period size: 43 Copynumber: 2.2 Consensus size: 43
50550194 TTCAGGATAC
* * * *
50550204 TTTATTACCAAGATTTCCTTGATTAAGTAAATGTATTATATCT
1 TTTATTACCAAGATTTACTTGATTAAGAAAATGCATTATATAT
*
50550247 TTTATTACCAAGATTTACTTGATTAAGAAAATGCATTGTATAT
1 TTTATTACCAAGATTTACTTGATTAAGAAAATGCATTATATAT
50550290 TTTATTACC
1 TTTATTACC
50550299 TTGCATATGT
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 47 1.00
ACGTcount: A:0.34, C:0.12, G:0.09, T:0.45
Consensus pattern (43 bp):
TTTATTACCAAGATTTACTTGATTAAGAAAATGCATTATATAT
Found at i:50550646 original size:43 final size:43
Alignment explanation
Indices: 50550570--50550757 Score: 211
Period size: 43 Copynumber: 4.4 Consensus size: 43
50550560 TAAAAGATAA
* * * ***
50550570 GTTTTTAGCGGCGTTTTTGTGAAAAGCATCGCTAAAGGT-CATG
1 GTTTATAGCGGCGTTTGTGGGAAAAGTGCCGCTAAAGGTAC-TG
*
50550613 GTTTATAGTGGCGTTTGTGGGAAAAGTGCCGCTAAAGGTACTG
1 GTTTATAGCGGCGTTTGTGGGAAAAGTGCCGCTAAAGGTACTG
* * * *
50550656 GTCTATAGCGACGTTTGTGGGAAAAGTGTCGCTAAAGGTATTG
1 GTTTATAGCGGCGTTTGTGGGAAAAGTGCCGCTAAAGGTACTG
* *
50550699 GTCTT-TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTTA-TG
1 GT-TTATAGCGGCGTTTGTGGGAAAAGTGCCGCT-AAAGGTACTG
50550742 GTTTATAGCGGCGTTT
1 GTTTATAGCGGCGTTT
50550758 ATTTCAAAAA
Statistics
Matches: 124, Mismatches: 17, Indels: 8
0.83 0.11 0.05
Matches are distributed among these distances:
42 2 0.02
43 114 0.92
44 8 0.06
ACGTcount: A:0.23, C:0.13, G:0.32, T:0.32
Consensus pattern (43 bp):
GTTTATAGCGGCGTTTGTGGGAAAAGTGCCGCTAAAGGTACTG
Found at i:50550720 original size:86 final size:86
Alignment explanation
Indices: 50550575--50550757 Score: 237
Period size: 86 Copynumber: 2.1 Consensus size: 86
50550565 GATAAGTTTT
* * * *
50550575 TAGCGGCGTTTTTGTGAAAAGCATCGCTAAAGGTCATGGTTTATAGTGGCGTTTGTGGGAAAAGT
1 TAGCGGCGTTTGTGGGAAAAGCATCGCTAAAGGTCATGGTTTATAGCGGCGTTTGTGGGAAAAGC
50550640 GCCGCT-AAAGGTACTGGTCTA
66 GCCGCTAAAAGGTA-TGGTCTA
* **
50550661 TAGCGACGTTTGTGGGAAAAGTGTCGCTAAAGGT-ATTGGTCTT-TAGCGGCGTTTGTGGGAAAA
1 TAGCGGCGTTTGTGGGAAAAGCATCGCTAAAGGTCA-TGGT-TTATAGCGGCGTTTGTGGGAAAA
* *
50550724 GCGCCGCTAAAAGTTATGGTTTA
64 GCGCCGCTAAAAGGTATGGTCTA
50550747 TAGCGGCGTTT
1 TAGCGGCGTTT
50550758 ATTTCAAAAA
Statistics
Matches: 84, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
85 1 0.01
86 75 0.89
87 8 0.10
ACGTcount: A:0.23, C:0.14, G:0.32, T:0.31
Consensus pattern (86 bp):
TAGCGGCGTTTGTGGGAAAAGCATCGCTAAAGGTCATGGTTTATAGCGGCGTTTGTGGGAAAAGC
GCCGCTAAAAGGTATGGTCTA
Found at i:50550978 original size:45 final size:45
Alignment explanation
Indices: 50550912--50551209 Score: 180
Period size: 45 Copynumber: 6.8 Consensus size: 45
50550902 ACAGATCGAG
*
50550912 TCTTATC-CTCCTGAAGTTGCAGTGAGGCAGACTAAAGATGGCAAA
1 TCTTATCTC-CCTGAAGTTGCAGTGAGGCAGATTAAAGATGGCAAA
* * ** *
50550957 TTTTATCTCCCTGAAGTTGCAGTG-GAGTAGATTAAAGCCGG-TAA
1 TCTTATCTCCCTGAAGTTGCAGTGAG-GCAGATTAAAGATGGCAAA
* * * * * *
50551001 TCCTATCTCGCTGAAGTTGCAGTGA-GCGGATTAAAACAT--TAGA
1 TCTTATCTCCCTGAAGTTGCAGTGAGGCAGATT-AAAGATGGCAAA
* * * * * *
50551044 TTTTATCTCTCTGAAGTTGCAGAGA-GCAGA-T--CGCAT--CTAG
1 TCTTATCTCCCTGAAGTTGCAGTGAGGCAGATTAAAG-ATGGCAAA
* * * *
50551084 CCTTATCTCCCTGAAGTTGCAGTG-GAGCAAAAT-AAG-TGGGCAAG
1 TCTTATCTCCCTGAAGTTGCAGTGAG-GCAGATTAAAGAT-GGCAAA
*
50551128 TCTTATC-CTCCTGAAGTTGCAGTGAGGCAGACTAAAGATGGCAAA
1 TCTTATCTC-CCTGAAGTTGCAGTGAGGCAGATTAAAGATGGCAAA
* *
50551173 TCTCATCTCCCTGAAGTTGTAGTG-GAGCAGATTAAAG
1 TCTTATCTCCCTGAAGTTGCAGTGAG-GCAGATTAAAG
50551210 CCGATAATCC
Statistics
Matches: 193, Mismatches: 41, Indels: 38
0.71 0.15 0.14
Matches are distributed among these distances:
40 22 0.11
41 5 0.03
42 2 0.01
43 33 0.17
44 57 0.30
45 71 0.37
46 3 0.02
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (45 bp):
TCTTATCTCCCTGAAGTTGCAGTGAGGCAGATTAAAGATGGCAAA
Found at i:50551976 original size:21 final size:24
Alignment explanation
Indices: 50551945--50551990 Score: 71
Period size: 21 Copynumber: 2.0 Consensus size: 24
50551935 TACTTGTATT
50551945 TCTATTTTATTTTT-TCA-TTATA
1 TCTATTTTATTTTTATCATTTATA
50551967 TCTA-TTTATTTTTATCATTTATA
1 TCTATTTTATTTTTATCATTTATA
50551990 T
1 T
50551991 AAATAATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 9 0.41
22 7 0.32
23 6 0.27
ACGTcount: A:0.24, C:0.09, G:0.00, T:0.67
Consensus pattern (24 bp):
TCTATTTTATTTTTATCATTTATA
Found at i:50559233 original size:41 final size:43
Alignment explanation
Indices: 50559123--50559239 Score: 123
Period size: 43 Copynumber: 2.8 Consensus size: 43
50559113 CTACTTAAGA
* * * *
50559123 CTTAGTTTTCTCGATTGCAATCTTATTTCAGTTCATTTCTTTC
1 CTTAGGTTTCTCAATTGCAATTTTATTTCAGTTCACTTCTTTC
** *
50559166 CTTAGGTTTCTCAATTGTGATTTTATTTCAGTTTACTTCATTT-
1 CTTAGGTTTCTCAATTGCAATTTTATTTCAGTTCACTTC-TTTC
* *
50559209 TTTTGG-TT-TCAATTGCAATTTTATTTCAGTT
1 CTTAGGTTTCTCAATTGCAATTTTATTTCAGTT
50559240 GATTTACGTT
Statistics
Matches: 62, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
41 21 0.34
42 2 0.03
43 36 0.58
44 3 0.05
ACGTcount: A:0.18, C:0.15, G:0.11, T:0.56
Consensus pattern (43 bp):
CTTAGGTTTCTCAATTGCAATTTTATTTCAGTTCACTTCTTTC
Found at i:50564882 original size:59 final size:59
Alignment explanation
Indices: 50564780--50564893 Score: 192
Period size: 59 Copynumber: 1.9 Consensus size: 59
50564770 TTTTCATCAT
*
50564780 TTAACTACTGGATTTTTCGATTTAGTCACTTAGTTTCTCAAAATTAAATATTCTAGTCG
1 TTAACTACTGGATTTTTCGATTTAGTCACTTAATTTCTCAAAATTAAATATTCTAGTCG
* * *
50564839 TTAACTATTGGATTTTTCGATTTAGTCACTTAATTTTTTAAAATTAAATATTCTA
1 TTAACTACTGGATTTTTCGATTTAGTCACTTAATTTCTCAAAATTAAATATTCTA
50564894 TTCGCTATTG
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
59 51 1.00
ACGTcount: A:0.31, C:0.12, G:0.10, T:0.47
Consensus pattern (59 bp):
TTAACTACTGGATTTTTCGATTTAGTCACTTAATTTCTCAAAATTAAATATTCTAGTCG
Found at i:50566383 original size:25 final size:25
Alignment explanation
Indices: 50566331--50566527 Score: 155
Period size: 25 Copynumber: 7.9 Consensus size: 25
50566321 GATTACCTGA
* * * * *
50566331 AAAGCTTTTATGGCAATTTCTTTGG
1 AAAGCCTTTGTGGCAAATTCTCTAG
* *
50566356 AAAGTCTTTGTTGCAAATTCTCTAG
1 AAAGCCTTTGTGGCAAATTCTCTAG
**
50566381 AAAGATTTTGTGG-AGAATTCTCTAG
1 AAAGCCTTTGTGGCA-AATTCTCTAG
* ** * * *
50566406 AAAGCCTTTGTAGTGAACTATCTGG
1 AAAGCCTTTGTGGCAAATTCTCTAG
** * *
50566431 AAAGCCTTTGTGGTGAATTCTTTGG
1 AAAGCCTTTGTGGCAAATTCTCTAG
* * *
50566456 AAAACCTTTGTGGGAAACTCTCTAG
1 AAAGCCTTTGTGGCAAATTCTCTAG
*
50566481 AAAGCCTTTGT-GCAAACTCTCTAG
1 AAAGCCTTTGTGGCAAATTCTCTAG
*
50566505 AAAGCCTTTGTGGCGAATTCTCT
1 AAAGCCTTTGTGGCAAATTCTCT
50566528 TAAATGCTTT
Statistics
Matches: 138, Mismatches: 31, Indels: 6
0.79 0.18 0.03
Matches are distributed among these distances:
24 24 0.17
25 114 0.83
ACGTcount: A:0.27, C:0.16, G:0.21, T:0.36
Consensus pattern (25 bp):
AAAGCCTTTGTGGCAAATTCTCTAG
Found at i:50566608 original size:25 final size:24
Alignment explanation
Indices: 50566566--50566636 Score: 70
Period size: 25 Copynumber: 2.9 Consensus size: 24
50566556 AAATCCTTTG
* * *
50566566 TGGCATATCATTTGGAAAGTCTTCA
1 TGGCATATCATCTAGAAAGCCTT-A
50566591 TGGCATATCATCTAGAAAGCCTTA
1 TGGCATATCATCTAGAAAGCCTTA
** * *
50566615 TGGTGTGTCAACTAGAAAGCCT
1 TGGCATATCATCTAGAAAGCCT
50566637 ATACGGTGGA
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
24 19 0.49
25 20 0.51
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.31
Consensus pattern (24 bp):
TGGCATATCATCTAGAAAGCCTTA
Found at i:50566629 original size:24 final size:25
Alignment explanation
Indices: 50566597--50566667 Score: 83
Period size: 25 Copynumber: 2.9 Consensus size: 25
50566587 TTCATGGCAT
*
50566597 ATCATCTAGAAAGCCT-TATGGTGTG
1 ATCAACTAGAAAGCCTATATGGTG-G
*
50566622 -TCAACTAGAAAGCCTATACGGTGG
1 ATCAACTAGAAAGCCTATATGGTGG
* *
50566646 ATCACCTGGAAAGCCTATATGG
1 ATCAACTAGAAAGCCTATATGG
50566668 CGAATTCTGT
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
24 15 0.38
25 24 0.62
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (25 bp):
ATCAACTAGAAAGCCTATATGGTGG
Found at i:50572710 original size:21 final size:21
Alignment explanation
Indices: 50572671--50572710 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
50572661 TCTATTTACG
*
50572671 AAAAACCTTAGTTTTTAGAAA
1 AAAAACCGTAGTTTTTAGAAA
50572692 AAAAACCGT-GTTTTGTAGA
1 AAAAACCGTAGTTTT-TAGA
50572711 GTTGCAGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.42, C:0.10, G:0.15, T:0.33
Consensus pattern (21 bp):
AAAAACCGTAGTTTTTAGAAA
Found at i:50582848 original size:32 final size:32
Alignment explanation
Indices: 50582807--50582871 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
50582797 TGCTCCTTCA
50582807 AGTGACAAAGTTTCCTCCTACAAGAGTACAAT
1 AGTGACAAAGTTTCCTCCTACAAGAGTACAAT
50582839 AGTGACAAAGTTTCCTCCTACAAGAGTACAAT
1 AGTGACAAAGTTTCCTCCTACAAGAGTACAAT
50582871 A
1 A
50582872 ACTCGTTGTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.38, C:0.22, G:0.15, T:0.25
Consensus pattern (32 bp):
AGTGACAAAGTTTCCTCCTACAAGAGTACAAT
Found at i:50597828 original size:21 final size:21
Alignment explanation
Indices: 50597804--50597856 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
50597794 CTACAACTTA
* *
50597804 AAGCGGAGGCAGCAGCGAGGG
1 AAGCAGAGGCAGCAGCAAGGG
*
50597825 AAGCAGAGGCAGTAGCAAGGG
1 AAGCAGAGGCAGCAGCAAGGG
*
50597846 TAGCAGAGGCA
1 AAGCAGAGGCA
50597857 ACAAGAAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.34, C:0.17, G:0.45, T:0.04
Consensus pattern (21 bp):
AAGCAGAGGCAGCAGCAAGGG
Found at i:50603280 original size:24 final size:24
Alignment explanation
Indices: 50603253--50603315 Score: 72
Period size: 24 Copynumber: 2.6 Consensus size: 24
50603243 GCCAAGGAGT
*
50603253 CCACTCAAGTTGCTACTAAAGCAC
1 CCACTCAAATTGCTACTAAAGCAC
* * * *
50603277 CCACTCAACTTGCTGCTGAGGCAC
1 CCACTCAAATTGCTACTAAAGCAC
*
50603301 CTACTCAAATTGCTA
1 CCACTCAAATTGCTA
50603316 GGAAGATCCT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.29, C:0.33, G:0.14, T:0.24
Consensus pattern (24 bp):
CCACTCAAATTGCTACTAAAGCAC
Found at i:50609459 original size:28 final size:28
Alignment explanation
Indices: 50609419--50609476 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
50609409 TCATTTGATC
50609419 CTTGGTTTAATATCCATTTAAGACATTG
1 CTTGGTTTAATATCCATTTAAGACATTG
50609447 CTTGGTTTAATATCCATTTAAGACATTG
1 CTTGGTTTAATATCCATTTAAGACATTG
50609475 CT
1 CT
50609477 CAATTCTTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.28, C:0.16, G:0.14, T:0.43
Consensus pattern (28 bp):
CTTGGTTTAATATCCATTTAAGACATTG
Found at i:50610905 original size:20 final size:20
Alignment explanation
Indices: 50610859--50610912 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
50610849 CCAAAAGGCC
* *
50610859 AAGTTTAAGGTTCAGGATTTA
1 AAGTTTAAGGTT-TGGATTCA
*
50610880 AGGTTTAAGGTTTGGATTCA
1 AAGTTTAAGGTTTGGATTCA
*
50610900 AAGTTTGAGGTTT
1 AAGTTTAAGGTTT
50610913 AAGGATCAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
20 17 0.61
21 11 0.39
ACGTcount: A:0.28, C:0.04, G:0.28, T:0.41
Consensus pattern (20 bp):
AAGTTTAAGGTTTGGATTCA
Found at i:50611009 original size:21 final size:21
Alignment explanation
Indices: 50610983--50611023 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
50610973 TTGGATTCGA
50610983 GGTTCGAGATTTGAGG-TTTAG
1 GGTTCGAGATTT-AGGATTTAG
*
50611004 GGTTCGGGATTTAGGATTTA
1 GGTTCGAGATTTAGGATTTA
50611024 TGATTTAGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.20, C:0.05, G:0.37, T:0.39
Consensus pattern (21 bp):
GGTTCGAGATTTAGGATTTAG
Found at i:50613381 original size:17 final size:17
Alignment explanation
Indices: 50613361--50613395 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
50613351 TAGTAGCTAA
50613361 AATGCTATAGTACAAGG
1 AATGCTATAGTACAAGG
50613378 AATGCTATAGTACAAGG
1 AATGCTATAGTACAAGG
50613395 A
1 A
50613396 CTAAGTACCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.43, C:0.11, G:0.23, T:0.23
Consensus pattern (17 bp):
AATGCTATAGTACAAGG
Found at i:50619895 original size:26 final size:26
Alignment explanation
Indices: 50619866--50619942 Score: 109
Period size: 26 Copynumber: 3.0 Consensus size: 26
50619856 AAATATACTG
* *
50619866 TACTGGTAGCTTTGCTGCGATATTGT
1 TACTGGCAGCTTTGCTGCAATATTGT
* *
50619892 TACTGGCAGCTTTGCTGCAATACTAT
1 TACTGGCAGCTTTGCTGCAATATTGT
*
50619918 TATTGGCAGCTTTGCTGCAATATTG
1 TACTGGCAGCTTTGCTGCAATATTG
50619943 GTGTGTTGGC
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 44 1.00
ACGTcount: A:0.19, C:0.18, G:0.23, T:0.39
Consensus pattern (26 bp):
TACTGGCAGCTTTGCTGCAATATTGT
Found at i:50622759 original size:27 final size:27
Alignment explanation
Indices: 50622716--50622846 Score: 136
Period size: 27 Copynumber: 4.9 Consensus size: 27
50622706 GGCATTTTGT
* *
50622716 TAGCCTTTTTGACGAACTCTGAAAGAA
1 TAGCCTTTATGGCGAACTCTGAAAGAA
* * * *
50622743 TAGTCTTTATGGTGAACTTTGAAAAAA
1 TAGCCTTTATGGCGAACTCTGAAAGAA
*** * * *
50622770 TATTATTTGTGGCGAGCTTTGAAAGAA
1 TAGCCTTTATGGCGAACTCTGAAAGAA
*
50622797 TAGCCTTTATGGCAAACTCTGAAAGAA
1 TAGCCTTTATGGCGAACTCTGAAAGAA
*
50622824 TAGCCTTTGTGGCGAACTCTGAA
1 TAGCCTTTATGGCGAACTCTGAA
50622847 TGGACTAACT
Statistics
Matches: 83, Mismatches: 21, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 83 1.00
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.32
Consensus pattern (27 bp):
TAGCCTTTATGGCGAACTCTGAAAGAA
Found at i:50622833 original size:54 final size:54
Alignment explanation
Indices: 50622716--50622846 Score: 154
Period size: 54 Copynumber: 2.4 Consensus size: 54
50622706 GGCATTTTGT
* * * ** *
50622716 TAGCCTTTTTGACGAACTCTGAAAGAATAGTCTTTATGGTGAACTTTGAAAAAA
1 TAGCCTTTGTGGCGAACTCTGAAAGAATAGCCTTTATGGCAAACTCTGAAAAAA
*** * * *
50622770 TATTATTTGTGGCGAGCTTTGAAAGAATAGCCTTTATGGCAAACTCTGAAAGAA
1 TAGCCTTTGTGGCGAACTCTGAAAGAATAGCCTTTATGGCAAACTCTGAAAAAA
50622824 TAGCCTTTGTGGCGAACTCTGAA
1 TAGCCTTTGTGGCGAACTCTGAA
50622847 TGGACTAACT
Statistics
Matches: 60, Mismatches: 17, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
54 60 1.00
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.32
Consensus pattern (54 bp):
TAGCCTTTGTGGCGAACTCTGAAAGAATAGCCTTTATGGCAAACTCTGAAAAAA
Found at i:50626183 original size:30 final size:30
Alignment explanation
Indices: 50626142--50626211 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 30
50626132 TCGATTATGT
* * *
50626142 AAAGGAAGGTGACGACCAGCTAACTATTAA
1 AAAGGATGGTGACGACCAGCGAACTATGAA
* * *
50626172 AAGGGATGGTGACTACCATCGAACTATGAA
1 AAAGGATGGTGACGACCAGCGAACTATGAA
50626202 AAAGGATGGT
1 AAAGGATGGT
50626212 TTCGGCTATT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.40, C:0.14, G:0.27, T:0.19
Consensus pattern (30 bp):
AAAGGATGGTGACGACCAGCGAACTATGAA
Found at i:50626226 original size:30 final size:30
Alignment explanation
Indices: 50626192--50626330 Score: 104
Period size: 30 Copynumber: 4.6 Consensus size: 30
50626182 GACTACCATC
*
50626192 GAACTATGAAAAAGGATGGTTTCGGCTATT
1 GAACTATGAAAAAGGATGGCTTCGGCTATT
** **
50626222 GAACTATG-AAAAGAGATAACTTCAACTATT
1 GAACTATGAAAAAG-GATGGCTTCGGCTATT
* *
50626252 -AATTTATGAAAAGGGATGGCTTCGGCTA-T
1 GAA-CTATGAAAAAGGATGGCTTCGGCTATT
* * * *
50626281 CAATCTATGAAAAAGGATAGCTTCAGCTATC
1 GAA-CTATGAAAAAGGATGGCTTCGGCTATT
* * *
50626312 AAATTATGAAAAGGGATGG
1 GAACTATGAAAAAGGATGG
50626331 TGACGACCAT
Statistics
Matches: 84, Mismatches: 20, Indels: 10
0.74 0.18 0.09
Matches are distributed among these distances:
29 8 0.10
30 70 0.83
31 6 0.07
ACGTcount: A:0.39, C:0.12, G:0.22, T:0.27
Consensus pattern (30 bp):
GAACTATGAAAAAGGATGGCTTCGGCTATT
Found at i:50626260 original size:60 final size:61
Alignment explanation
Indices: 50626196--50626422 Score: 198
Period size: 60 Copynumber: 3.8 Consensus size: 61
50626186 ACCATCGAAC
* * *
50626196 TATGAAAAAGGATGGTTTCGGCTATTGAACTATGAAAAGA-GATAACTTCAACTATTAATT
1 TATGAAAAGGGATGGTTTCGGCTATTGAACTATGAAAAGAGGATAACTTCAACTATCAAAT
* * * *
50626256 TATGAAAAGGGATGGCTTCGGCTA-TCAATCTATGAAAA-AGGATAGCTTCAGCTATCAAAT
1 TATGAAAAGGGATGGTTTCGGCTATTGAA-CTATGAAAAGAGGATAACTTCAACTATCAAAT
** * * * ** * *
50626316 TATGAAAAGGGATGGTGACGACCATCGAACTATGAAAAG-GGAT-GGTGACGACTATCAAAT
1 TATGAAAAGGGATGGTTTCGGCTATTGAACTATGAAAAGAGGATAACT-TCAACTATCAAAT
* * * * *
50626376 TATGAAAAGGGATAGCTTCGCCCATCGAACTATG-AAAG-GGATAACTT
1 TATGAAAAGGGATGGTTTCGGCTATTGAACTATGAAAAGAGGATAACTT
50626423 TGGTTATCGA
Statistics
Matches: 135, Mismatches: 26, Indels: 13
0.78 0.15 0.07
Matches are distributed among these distances:
59 14 0.10
60 119 0.88
61 2 0.01
ACGTcount: A:0.38, C:0.14, G:0.23, T:0.26
Consensus pattern (61 bp):
TATGAAAAGGGATGGTTTCGGCTATTGAACTATGAAAAGAGGATAACTTCAACTATCAAAT
Done.