Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold160
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: 5021213
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 92036 characters in sequence are not A, C, G, or T
File 24 of 30
Found at i:3969274 original size:21 final size:21
Alignment explanation
Indices: 3969250--3969307 Score: 82
Period size: 20 Copynumber: 2.8 Consensus size: 21
3969240 AGCTTTAAAT
*
3969250 ATTTTATTTAGGGGGAGAAAA
1 ATTTTATTAAGGGGGAGAAAA
* *
3969271 ATTTTATCAA-TGGGAGAAAA
1 ATTTTATTAAGGGGGAGAAAA
3969291 ATTTTATTAAGGGGGAG
1 ATTTTATTAAGGGGGAG
3969308 TTTTATATAT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
20 18 0.58
21 13 0.42
ACGTcount: A:0.38, C:0.02, G:0.28, T:0.33
Consensus pattern (21 bp):
ATTTTATTAAGGGGGAGAAAA
Found at i:3970092 original size:19 final size:20
Alignment explanation
Indices: 3970058--3970108 Score: 86
Period size: 19 Copynumber: 2.6 Consensus size: 20
3970048 ATGGTATATT
*
3970058 GTATCGATATATAGTGAAAA
1 GTATCGATACATAGTGAAAA
3970078 GTATCGAT-CATAGTGAAAA
1 GTATCGATACATAGTGAAAA
3970097 GTATCGATACAT
1 GTATCGATACAT
3970109 TGTCCTAACG
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 18 0.62
20 11 0.38
ACGTcount: A:0.41, C:0.10, G:0.20, T:0.29
Consensus pattern (20 bp):
GTATCGATACATAGTGAAAA
Found at i:3974209 original size:47 final size:47
Alignment explanation
Indices: 3974152--3974313 Score: 270
Period size: 47 Copynumber: 3.4 Consensus size: 47
3974142 TCTTGGTTTG
* *
3974152 TATATATATATGTATGTATCTTAATAAAATTCTTATTTCAATATATA
1 TATATATATATATATATATCTTAATAAAATTCTTATTTCAATATATA
*
3974199 TATATATATATATATATCTCTTAATAAAATTCTTATTTCAATATATA
1 TATATATATATATATATATCTTAATAAAATTCTTATTTCAATATATA
3974246 TATATATATATATATATATCTCTTAATAAAATTCTTATTTCAATATATA
1 TATATATATATATATATA--TCTTAATAAAATTCTTATTTCAATATATA
*
3974295 TATATATATATGTATATAT
1 TATATATATATATATATAT
3974314 AAACTAGAAC
Statistics
Matches: 108, Mismatches: 5, Indels: 4
0.92 0.04 0.03
Matches are distributed among these distances:
47 62 0.57
49 46 0.43
ACGTcount: A:0.42, C:0.07, G:0.02, T:0.49
Consensus pattern (47 bp):
TATATATATATATATATATCTTAATAAAATTCTTATTTCAATATATA
Found at i:3974246 original size:2 final size:2
Alignment explanation
Indices: 3974239--3974264 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
3974229 TCTTATTTCA
3974239 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
3974265 CTCTTAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3974311 original size:49 final size:49
Alignment explanation
Indices: 3974152--3974313 Score: 278
Period size: 49 Copynumber: 3.4 Consensus size: 49
3974142 TCTTGGTTTG
*
3974152 TATATATATATGTATGTA--TCTTAATAAAATTCTTATTTCAATATATA
1 TATATATATATGTATATATCTCTTAATAAAATTCTTATTTCAATATATA
3974199 TATATATATA--TATATATCTCTTAATAAAATTCTTATTTCAATATATA
1 TATATATATATGTATATATCTCTTAATAAAATTCTTATTTCAATATATA
*
3974246 TATATATATATATATATATCTCTTAATAAAATTCTTATTTCAATATATA
1 TATATATATATGTATATATCTCTTAATAAAATTCTTATTTCAATATATA
3974295 TATATATATATGTATATAT
1 TATATATATATGTATATAT
3974314 AAACTAGAAC
Statistics
Matches: 109, Mismatches: 2, Indels: 6
0.93 0.02 0.05
Matches are distributed among these distances:
45 5 0.05
47 49 0.45
49 55 0.50
ACGTcount: A:0.42, C:0.07, G:0.02, T:0.49
Consensus pattern (49 bp):
TATATATATATGTATATATCTCTTAATAAAATTCTTATTTCAATATATA
Found at i:3974642 original size:76 final size:75
Alignment explanation
Indices: 3974561--3974704 Score: 216
Period size: 76 Copynumber: 1.9 Consensus size: 75
3974551 TTGCCATTTA
* * * * **
3974561 AAAAAGTAGCTAAGATAATAATGGTTTTACGAGGGTTTGTGTTTACAAAAAATGTATGCAACCAA
1 AAAAAGTAGCAAAGATAATAATGGTTTTAAGAGGATTTGTGGTTAC-AAAAATGTAAACAACCAA
3974626 ATTAGCCACTT
65 ATTAGCCACTT
*
3974637 AAAAAGTAGCAAAGATAATAATGGTTTTAAGAGTATTTGTGGTTACAAAAATGTAAACAACCAAA
1 AAAAAGTAGCAAAGATAATAATGGTTTTAAGAGGATTTGTGGTTACAAAAATGTAAACAACCAAA
3974702 TTA
66 TTA
3974705 AATAGAGAAG
Statistics
Matches: 61, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
75 20 0.33
76 41 0.67
ACGTcount: A:0.44, C:0.10, G:0.17, T:0.29
Consensus pattern (75 bp):
AAAAAGTAGCAAAGATAATAATGGTTTTAAGAGGATTTGTGGTTACAAAAATGTAAACAACCAAA
TTAGCCACTT
Found at i:3976909 original size:21 final size:21
Alignment explanation
Indices: 3976869--3976909 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
3976859 TTATATATGA
*
3976869 ATTATTCACATTAATGTTTAT
1 ATTATTCAAATTAATGTTTAT
3976890 ATTATTCAAAGTTAAT-TTTA
1 ATTATTCAAA-TTAATGTTTA
3976910 AATATAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.37, C:0.07, G:0.05, T:0.51
Consensus pattern (21 bp):
ATTATTCAAATTAATGTTTAT
Found at i:3977890 original size:18 final size:18
Alignment explanation
Indices: 3977852--3977890 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
3977842 TATTTATAGG
*
3977852 TAAAATTAATTTGTTATA
1 TAAAATTAATTTGTTAAA
3977870 TAAAATTAATTT-TTCAAA
1 TAAAATTAATTTGTT-AAA
3977888 TAA
1 TAA
3977891 TATATTATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 2 0.11
18 17 0.89
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (18 bp):
TAAAATTAATTTGTTAAA
Found at i:3978058 original size:23 final size:23
Alignment explanation
Indices: 3978025--3978071 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 23
3978015 AATTAATATT
3978025 TAAAAATTTAAAA-TATATTTAA
1 TAAAAATTTAAAACTATATTTAA
*
3978047 TAAAATATTTAAAACTTTATTTAA
1 TAAAA-ATTTAAAACTATATTTAA
3978071 T
1 T
3978072 TTTAACTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 5 0.23
23 8 0.36
24 9 0.41
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (23 bp):
TAAAAATTTAAAACTATATTTAA
Found at i:3979817 original size:33 final size:33
Alignment explanation
Indices: 3979780--3979843 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
3979770 TTAAAAGTAA
* * *
3979780 TGTATCAATACAATTTATCATGTATTGATACGT
1 TGTATCAATACAATGTACCATGTATCGATACGT
*
3979813 TGTATCGATACAATGTACCATGTATCGATAC
1 TGTATCAATACAATGTACCATGTATCGATAC
3979844 AAATAGTGGT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.38
Consensus pattern (33 bp):
TGTATCAATACAATGTACCATGTATCGATACGT
Found at i:3982505 original size:20 final size:20
Alignment explanation
Indices: 3982480--3982517 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
3982470 GGGTTTTCCA
* *
3982480 AATATATCGATGCATTCTTC
1 AATATATCAATACATTCTTC
3982500 AATATATCAATACATTCT
1 AATATATCAATACATTCT
3982518 AGAAAATTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.18, G:0.05, T:0.39
Consensus pattern (20 bp):
AATATATCAATACATTCTTC
Found at i:3988646 original size:13 final size:13
Alignment explanation
Indices: 3988628--3988657 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
3988618 CAATTCATCC
*
3988628 TGTATCGATACAT
1 TGTATCGATACAA
3988641 TGTATCGATACAA
1 TGTATCGATACAA
3988654 TGTA
1 TGTA
3988658 CCATGTATCG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3988650 original size:33 final size:33
Alignment explanation
Indices: 3988608--3988672 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
3988598 TTAGAAGCAA
3988608 TGTATCGATACAAT-TCATCC-TGTATCGATACAT
1 TGTATCGATACAATGT-A-CCATGTATCGATACAT
3988641 TGTATCGATACAATGTACCATGTATCGATACA
1 TGTATCGATACAATGTACCATGTATCGATACA
3988673 AATAGTGGTA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
32 2 0.07
33 27 0.90
34 1 0.03
ACGTcount: A:0.32, C:0.20, G:0.14, T:0.34
Consensus pattern (33 bp):
TGTATCGATACAATGTACCATGTATCGATACAT
Found at i:3990846 original size:22 final size:23
Alignment explanation
Indices: 3990809--3990860 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
3990799 AATATATTTA
*
3990809 TATTTTTATAATGTAT-TTATAT
1 TATTTTTATAATGTATCATATAT
*
3990831 TATTTTTAT-ATCGTATCATATTT
1 TATTTTTATAAT-GTATCATATAT
3990854 TATTTTT
1 TATTTTT
3990861 TTTTTAATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
21 2 0.08
22 13 0.50
23 11 0.42
ACGTcount: A:0.27, C:0.04, G:0.04, T:0.65
Consensus pattern (23 bp):
TATTTTTATAATGTATCATATAT
Found at i:3990856 original size:23 final size:22
Alignment explanation
Indices: 3990800--3990860 Score: 70
Period size: 23 Copynumber: 2.7 Consensus size: 22
3990790 ATGTTAATAA
3990800 ATATATTTATATTTTTATAATGT
1 ATATATTT-TATTTTTATAATGT
* *
3990823 ATTTATATTATTTTTAT-ATCGT
1 ATATATTTTATTTTTATAAT-GT
3990845 ATCATATTTTATTTTT
1 AT-ATATTTTATTTTT
3990861 TTTTTAATTA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
21 2 0.06
22 13 0.41
23 17 0.53
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.64
Consensus pattern (22 bp):
ATATATTTTATTTTTATAATGT
Found at i:3992705 original size:33 final size:33
Alignment explanation
Indices: 3992638--3992732 Score: 174
Period size: 33 Copynumber: 2.9 Consensus size: 33
3992628 TGATTCAAAG
3992638 GTGCTAGTGGAAGAGCTAAAAATGC-AAAAAAA
1 GTGCTAGTGGAAGAGCTAAAAATGCAAAAAAAA
3992670 GTGCTAGTGGAAGAGCTAAAAATGCAAAAAAAA
1 GTGCTAGTGGAAGAGCTAAAAATGCAAAAAAAA
*
3992703 GTGCTAGTGGAAGAGCTAAAAAAGCAAAAA
1 GTGCTAGTGGAAGAGCTAAAAATGCAAAAA
3992733 GAAAAAAAGT
Statistics
Matches: 61, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
32 25 0.41
33 36 0.59
ACGTcount: A:0.51, C:0.09, G:0.25, T:0.15
Consensus pattern (33 bp):
GTGCTAGTGGAAGAGCTAAAAATGCAAAAAAAA
Found at i:3993511 original size:21 final size:20
Alignment explanation
Indices: 3993479--3993540 Score: 63
Period size: 20 Copynumber: 2.9 Consensus size: 20
3993469 TATATTAATA
3993479 TTAATATATTATAACGTATTATT
1 TTAA-ATATTATAA--TATTATT
*
3993502 TTAAAT-TTATTAATATTTTT
1 TTAAATATTA-TAATATTATT
3993522 TTAAATATTATATATATTA
1 TTAAATATTATA-ATATTA
3993541 ATAATATATA
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
20 14 0.41
21 11 0.32
22 5 0.15
23 4 0.12
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (20 bp):
TTAAATATTATAATATTATT
Found at i:3993587 original size:40 final size:40
Alignment explanation
Indices: 3993509--3993588 Score: 101
Period size: 40 Copynumber: 2.0 Consensus size: 40
3993499 ATTTTAAATT
* * *
3993509 TATTAATATTTTTTTAAATATTATATATATTAATAATATA
1 TATTAATATTTTTTTAAAAATTATATATATAAAAAATATA
3993549 TATTAA-ATTTTTTTATAAAA-TATATATTATAAAAAATATA
1 TATTAATATTTTTTTA-AAAATTATATA-TATAAAAAATATA
3993589 AATACATTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
39 15 0.43
40 20 0.57
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (40 bp):
TATTAATATTTTTTTAAAAATTATATATATAAAAAATATA
Found at i:3993598 original size:39 final size:39
Alignment explanation
Indices: 3993516--3993598 Score: 89
Period size: 39 Copynumber: 2.1 Consensus size: 39
3993506 ATTTATTAAT
* * * *
3993516 ATTTTTTTAAATATTATATATATTAATAATATATATTAA
1 ATTTTTTTAAAAATTATATATATAAAAAATATATAATAA
*
3993555 ATTTTTTTATAAAA-TATATATTATAAAAAATATA-AATAC
1 ATTTTTTTA-AAAATTATATA-TATAAAAAATATATAATAA
3993594 ATTTT
1 ATTTT
3993599 CATTACATAC
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
39 23 0.62
40 14 0.38
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (39 bp):
ATTTTTTTAAAAATTATATATATAAAAAATATATAATAA
Found at i:3993884 original size:20 final size:20
Alignment explanation
Indices: 3993850--3993912 Score: 58
Period size: 20 Copynumber: 3.2 Consensus size: 20
3993840 AATTTTAAAA
* *
3993850 AAAATTATATCAATTAATAT
1 AAAATAATATTAATTAATAT
* *
3993870 AAACTAATATTAATTTATA-
1 AAAATAATATTAATTAATAT
*
3993889 AAAATAA-ATATAAATAATAT
1 AAAATAATAT-TAATTAATAT
3993909 AAAA
1 AAAA
3993913 ATTAAAATTA
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
18 2 0.06
19 13 0.38
20 19 0.56
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (20 bp):
AAAATAATATTAATTAATAT
Found at i:3994552 original size:11 final size:11
Alignment explanation
Indices: 3994525--3994587 Score: 65
Period size: 11 Copynumber: 5.5 Consensus size: 11
3994515 ATAATTTTAG
3994525 ATATAATATAA
1 ATATAATATAA
3994536 TTATATAATATAA
1 --ATATAATATAA
*
3994549 ATATTATATAA
1 ATATAATATAA
*
3994560 AAATAAT-TAAA
1 ATATAATAT-AA
3994571 ATATAATATAAA
1 ATATAATAT-AA
3994583 ATATA
1 ATATA
3994588 TATTACAATA
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
10 1 0.02
11 23 0.52
12 9 0.20
13 11 0.25
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
ATATAATATAA
Found at i:3994565 original size:22 final size:22
Alignment explanation
Indices: 3994525--3994597 Score: 67
Period size: 22 Copynumber: 3.1 Consensus size: 22
3994515 ATAATTTTAG
*
3994525 ATATAATATAATTATATAA-TATAA
1 ATATAATATAA--AAATAATTA-AA
*
3994549 ATATTATATAAAAATAATTAAA
1 ATATAATATAAAAATAATTAAA
*
3994571 ATATAATATAAAATATATATTACA
1 ATATAATATAAAA-ATA-ATTAAA
3994595 ATA
1 ATA
3994598 CAAGATTAAC
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
22 19 0.45
23 5 0.12
24 18 0.43
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.38
Consensus pattern (22 bp):
ATATAATATAAAAATAATTAAA
Found at i:3994928 original size:28 final size:28
Alignment explanation
Indices: 3994910--3994985 Score: 89
Period size: 32 Copynumber: 2.6 Consensus size: 28
3994900 CATAATTATA
3994910 TTTAATATATTAATATATCAATATAAAT
1 TTTAATATATTAATATATCAATATAAAT
* *
3994938 TTTAATATATTAATAATTTTTATTATATAAAT
1 TTTAATATATTAAT-A-TATCA--ATATAAAT
*
3994970 TTTAATATATTTATAT
1 TTTAATATATTAATAT
3994986 TTTTTAACTT
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
28 14 0.34
29 1 0.02
30 4 0.10
31 1 0.02
32 21 0.51
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.54
Consensus pattern (28 bp):
TTTAATATATTAATATATCAATATAAAT
Found at i:3994947 original size:14 final size:14
Alignment explanation
Indices: 3994930--3994979 Score: 55
Period size: 14 Copynumber: 3.3 Consensus size: 14
3994920 TAATATATCA
3994930 ATATAAATTTTAAT
1 ATATAAATTTTAAT
*
3994944 ATATTAATAATTTTTATT
1 ATA-T-A-AA-TTTTAAT
3994962 ATATAAATTTTAAT
1 ATATAAATTTTAAT
3994976 ATAT
1 ATAT
3994980 TTATATTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
14 13 0.43
15 3 0.10
16 2 0.07
17 3 0.10
18 9 0.30
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (14 bp):
ATATAAATTTTAAT
Found at i:3994957 original size:17 final size:17
Alignment explanation
Indices: 3994931--3994980 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 17
3994921 AATATATCAA
3994931 TATAAATTTTAATATAT
1 TATAAATTTTAATATAT
*
3994948 TA-ATAATTTTTAT-TA-
1 TATA-AATTTTAATATAT
3994963 TATAAATTTTAATATAT
1 TATAAATTTTAATATAT
3994980 T
1 T
3994981 TATATTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
15 10 0.37
16 6 0.22
17 11 0.41
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
TATAAATTTTAATATAT
Found at i:3994971 original size:32 final size:32
Alignment explanation
Indices: 3994930--3994991 Score: 106
Period size: 32 Copynumber: 1.9 Consensus size: 32
3994920 TAATATATCA
3994930 ATATAAATTTTAATATATTAATAATTTTTATT
1 ATATAAATTTTAATATATTAATAATTTTTATT
* *
3994962 ATATAAATTTTAATATATTTATATTTTTTA
1 ATATAAATTTTAATATATTAATAATTTTTA
3994992 ACTTAGAGGC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (32 bp):
ATATAAATTTTAATATATTAATAATTTTTATT
Found at i:3994984 original size:18 final size:18
Alignment explanation
Indices: 3994881--3994984 Score: 65
Period size: 20 Copynumber: 5.8 Consensus size: 18
3994871 TTGTACGGTG
*
3994881 TTAATATATTTTTAAATAT
1 TTAATATATTTATAAAT-T
* * *
3994900 CATAATTATATTTA-ATATA
1 -TTAA-TATATTTATAAATT
*
3994919 TTAATATATCAATATAAATT
1 TTAATATAT--TTATAAATT
*
3994939 TTAATATATTAAT-AATT
1 TTAATATATTTATAAATT
*
3994956 TT--TAT-TATATAAATT
1 TTAATATATTTATAAATT
3994971 TTAATATATTTATA
1 TTAATATATTTATA
3994985 TTTTTTAACT
Statistics
Matches: 63, Mismatches: 13, Indels: 18
0.67 0.14 0.19
Matches are distributed among these distances:
14 3 0.05
15 9 0.14
17 14 0.22
18 10 0.16
19 2 0.03
20 18 0.29
21 7 0.11
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (18 bp):
TTAATATATTTATAAATT
Found at i:3997992 original size:20 final size:21
Alignment explanation
Indices: 3997961--3998000 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
3997951 GCTATATTTT
3997961 CAAATATGTATCGATACATTA
1 CAAATATGTATCGATACATTA
3997982 CAAAT-TGTATCGATACATT
1 CAAATATGTATCGATACATT
3998001 CACACGGGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.40, C:0.15, G:0.10, T:0.35
Consensus pattern (21 bp):
CAAATATGTATCGATACATTA
Found at i:4006631 original size:20 final size:22
Alignment explanation
Indices: 4006600--4006643 Score: 74
Period size: 20 Copynumber: 2.1 Consensus size: 22
4006590 GCTATATTTT
4006600 CAAATATGTATCGATACA-TCA
1 CAAATATGTATCGATACATTCA
4006621 CAAAT-TGTATCGATACATTCA
1 CAAATATGTATCGATACATTCA
4006642 CA
1 CA
4006644 CGGGAAATCA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (22 bp):
CAAATATGTATCGATACATTCA
Found at i:4011127 original size:447 final size:447
Alignment explanation
Indices: 4009936--4011725 Score: 2858
Period size: 450 Copynumber: 4.0 Consensus size: 447
4009926 ATTTTGGTGA
* * *
4009936 CAAAATAATATAATTGATGC-TTTTTGGAATTTCATTTTCTAAAAAACACAATGCATCCATTTCA
1 CAAAATAATATAATTGATGCTTTTTTGGAATTTCATTTTCCAAAGAACACAATGCATCCATTGCA
*
4010000 TTTGAAATTAAATACGGGGAATGAGAAAAAACAATTTCATTCATTGACCTTCTTTGACTAGTCAT
66 TTTGAAATTAAATACGGGGAATGAGAAAAGACAATTTCATTCATTGACCTTCTTTGACTAGTCAT
* *
4010065 GCTTTACACAACTTCTTAATTTGAGTAGTCAATGTTTTTCCTATTAATCTCTTAGTTGAAGTTGG
131 GCTTTACACAACTTCTCAATTTGAGTAGTCAATGTTTTTCCTATTGATCTCTTAGTTGAAGTTGG
* *
4010130 TTTTTTGCCTTTATCTACTACAACTCCCAAAACTTGCTTGCACTAATTAAAAGTTTCGAGAGAAA
196 TTTTTTGCCTTTATCTTCTACAACTCCCAAAACTTGCTTGCACCAATTAAAAGTTTCGAGAGAAA
* * *
4010195 CAATTAGGGCTATTTTATTATTAAGTGCAACTTTATTATAAAGTGTATCCTTATTCCTTATATCA
261 GATTTAGGGCTATTTTATTATTAAGTGCAACTTTATTATAAAGTGTATCCTTATTCTTTATATCA
* *
4010260 TGTTCATCATGTTGCAACGTGGTCGGGATGTGAATCTTGACCAAGCTCGACTTAAATGGCCCTCA
326 TGTTCATCTTGTTGCAACGTGGTCGGGATGCGAATCTTGACCAAGCTCGACTTAAATGGCCCTCA
*
4010325 ATTTTGTATTCATTGATATATTACTATTTTTTTGAATTTTTTTTTATTTTGTATGGCCT
391 ATTTTGTATTCATTGATATATTACTATTTTTTTGAA--TTTTTCTATTTTGTATGGCCT
* * *
4010384 CAAAATAATATAATTGATGCTTTTTTGGAATTTCATTTTCCAAAGAACATAATGCATGCATTTCA
1 CAAAATAATATAATTGATGCTTTTTTGGAATTTCATTTTCCAAAGAACACAATGCATCCATTGCA
*
4010449 TTTGAAATTAAATATGGGGAATGAGAAAAAGACAATTTCATTCATTGACCTTCTTTGACTAGTCA
66 TTTGAAATTAAATACGGGGAATGAG-AAAAGACAATTTCATTCATTGACCTTCTTTGACTAGTCA
* * *
4010514 TGCTTTACACAATTTCTTAATTTGAGTAATCAATGTTTTTCCTATTGATCTCTTAGTTGAAGTTG
130 TGCTTTACACAACTTCTCAATTTGAGTAGTCAATGTTTTTCCTATTGATCTCTTAGTTGAAGTTG
* * *
4010579 GTTTTTTGCCTTTATCTTTTACAACTCCCAAAACTTGCTTGC-CCTAATTAAAAGTTTTGAGAGG
195 GTTTTTTGCCTTTATCTTCTACAACTCCCAAAACTTGCTTGCACC-AATTAAAAGTTTCGAGAGA
4010643 AAGATTTAGGGCTATTTTATTATTAAGTGCAACTTTATTATAAAGTGTATCCTTATTCTTTATAT
259 AAGATTTAGGGCTATTTTATTATTAAGTGCAACTTTATTATAAAGTGTATCCTTATTCTTTATAT
* *
4010708 CATGTTCATCTTGTTGCAACTTGGTTC-GGATGTGAATCTTGACCAAGCTCGACTTAAATGGCCC
324 CATGTTCATCTTGTTGCAACGTGG-TCGGGATGCGAATCTTGACCAAGCTCGACTTAAATGGCCC
** * * * *
4010772 TCAATTTCATTTTCATTGATAAATTACTATGTTTTT-AATTTTTTTTTATTTTGTATGGCCT
388 TCAATTTTGTATTCATTGATATATTACTATTTTTTTGAA--TTTTTCTATTTTGTATGGCCT
* *
4010833 CAAAATAATATAATTGATGCTTTTTTGGAATTTCATTTTCCAGAGATCACAATGCATCCATTGCA
1 CAAAATAATATAATTGATGCTTTTTTGGAATTTCATTTTCCAAAGAACACAATGCATCCATTGCA
4010898 TTTGAAATTAAATACGGGGAATGAGAAAAGACAATTTCATTCATTGACCTTC-TTGACTAGTCAT
66 TTTGAAATTAAATACGGGGAATGAGAAAAGACAATTTCATTCATTGACCTTCTTTGACTAGTCAT
*
4010962 G-TTTCACAGAACTTCTCAATTTGAGTAGTCAATGTTTTTCCTATTGATCTCTTAGTTGAAGTTG
131 GCTTT-ACACAACTTCTCAATTTGAGTAGTCAATGTTTTTCCTATTGATCTCTTAGTTGAAGTTG
* *
4011026 GTTTTTTGCCTTTATCTTCTACAGCTCGCAAAACTTGCTTGCACCAATTAAAAGTTTCGAGAGAA
195 GTTTTTTGCCTTTATCTTCTACAACTCCCAAAACTTGCTTGCACCAATTAAAAGTTTCGAGAGAA
* *
4011091 AGATTTAGGGCTATTTTATTATTAAGTGCAACTTTATTATAAAGTGTATCATTATTCTCTATATC
260 AGATTTAGGGCTATTTTATTATTAAGTGCAACTTTATTATAAAGTGTATCCTTATTCTTTATATC
* * *
4011156 ATGTTCATCTTGTTGCAACGTGGCTC-GGTTGCGAATCTTAACTAAGCTCGACTTAAATGGCCCT
325 ATGTTCATCTTGTTGCAACGTGG-TCGGGATGCGAATCTTGACCAAGCTCGACTTAAATGGCCCT
* *
4011220 CAATTTTGTATTCATTAATATATCACTATTTTTTTGGAA-TTTTCTATTTTGTATGGCCCT
389 CAATTTTGTATTCATTGATATATTACTATTTTTTT-GAATTTTTCTATTTTGTATGG-CCT
* *
4011280 CAAAATAATATAATTGATGCTTTTTTGGAATTTCATTTTTCAAAGAACATAATGCATCCATTGCA
1 CAAAATAATATAATTGATGCTTTTTTGGAATTTCATTTTCCAAAGAACACAATGCATCCATTGCA
* *
4011345 TTTGACATTAAATATGGGGAATGAGAAAAGACAATTTCATTCATTGACCTTCTTTGACTAGTCAT
66 TTTGAAATTAAATACGGGGAATGAGAAAAGACAATTTCATTCATTGACCTTCTTTGACTAGTCAT
** *
4011410 GCTTCGCACAACTTCTCAATTTGAGTAGTCAATATTTTTCCTATTGATCTCTTAGTTGAAGTTAG
131 GCTTTACACAACTTCTCAATTTGAGTAGTCAATGTTTTTCCTATTGATCTCTTAGTTGAAGTT-G
* * *
4011475 TTTTTTTTGCCTTTATCTTTTACAACTCCCAAAACTTGCTTACACCAATTAAAAGTTTCGAGAGA
195 -GTTTTTTGCCTTTATCTTCTACAACTCCCAAAACTTGCTTGCACCAATTAAAAGTTTCGAGAGA
* * *
4011540 AAGATTTAGGGCAATTTTATTATTAAGTGCAACTGTATTATAAAGCGTATCCTTATTCTTTATAT
259 AAGATTTAGGGCTATTTTATTATTAAGTGCAACTTTATTATAAAGTGTATCCTTATTCTTTATAT
* * *
4011605 CATGTTCATCTTGTTGCAACGTGGTCTGGATGCGAATCTTGACCAAGCCCGACTTAAATGGTCCT
324 CATGTTCATCTTGTTGCAACGTGGTCGGGATGCGAATCTTGACCAAGCTCGACTTAAATGGCCCT
*
4011670 CAATTTTGTATTCATTGATATATTACTATTTTTTTGGATTTTTCTATTTTGTATGG
389 CAATTTTGTATTCATTGATATATTACTATTTTTTTGAATTTTTCTATTTTGTATGG
4011726 GCCATATCGT
Statistics
Matches: 1244, Mismatches: 83, Indels: 28
0.92 0.06 0.02
Matches are distributed among these distances:
446 19 0.02
447 388 0.31
448 117 0.09
449 183 0.15
450 535 0.43
451 2 0.00
ACGTcount: A:0.29, C:0.16, G:0.14, T:0.41
Consensus pattern (447 bp):
CAAAATAATATAATTGATGCTTTTTTGGAATTTCATTTTCCAAAGAACACAATGCATCCATTGCA
TTTGAAATTAAATACGGGGAATGAGAAAAGACAATTTCATTCATTGACCTTCTTTGACTAGTCAT
GCTTTACACAACTTCTCAATTTGAGTAGTCAATGTTTTTCCTATTGATCTCTTAGTTGAAGTTGG
TTTTTTGCCTTTATCTTCTACAACTCCCAAAACTTGCTTGCACCAATTAAAAGTTTCGAGAGAAA
GATTTAGGGCTATTTTATTATTAAGTGCAACTTTATTATAAAGTGTATCCTTATTCTTTATATCA
TGTTCATCTTGTTGCAACGTGGTCGGGATGCGAATCTTGACCAAGCTCGACTTAAATGGCCCTCA
ATTTTGTATTCATTGATATATTACTATTTTTTTGAATTTTTCTATTTTGTATGGCCT
Found at i:4011673 original size:897 final size:894
Alignment explanation
Indices: 4009936--4011725 Score: 2923
Period size: 897 Copynumber: 2.0 Consensus size: 894
4009926 ATTTTGGTGA
* *
4009936 CAAAATAATATAATTGATGCTTTTTGGAATTTCATTTTCTAAAAAACACAATGCATCCATTTCAT
1 CAAAATAATATAATTGATGCTTTTTGGAATTTCATTTTCCAAAAAACACAATGCATCCATTGCAT
4010001 TTGAAATTAAATACGGGGAATGAGAAAAAACAATTTCATTCATTGACCTTCTTTGACTAGTCATG
66 TTGAAATTAAATACGGGGAATGAGAAAAAACAATTTCATTCATTGACCTTCTTTGACTAGTCATG
*
4010066 CTTTACACAACTTCTTAATTTGAGTAGTCAATGTTTTTCCTATTAATCTCTTAGTTGAAGTTGGT
131 CTTTACACAACTTCTCAATTTGAGTAGTCAATGTTTTTCCTATTAATCTCTTAGTTGAAGTTGGT
*
4010131 TTTTTGCCTTTATCTACTACAACTCCCAAAACTTGCTTGCACTAATTAAAAGTTTCGAGAGAAAC
196 TTTTTGCCTTTATCTACTACAACTCCCAAAACTTGCTTGCACCAATTAAAAGTTTCGAGAGAAAC
*
4010196 AATTAGGGCTATTTTATTATTAAGTGCAACTTTATTATAAAGTGTATCCTTATTCCTTATATCAT
261 AATTAGGGCTATTTTATTATTAAGTGCAACTTTATTATAAAGTGTATCATTATTCCTTATATCAT
* *
4010261 GTTCATCATGTTGCAACGTGGTCGGGATGTGAATCTTGACCAAGCTCGACTTAAATGGCCCTCAA
326 GTTCATCATGTTGCAACGTGGTCGGGATGCGAATCTTAACCAAGCTCGACTTAAATGGCCCTCAA
* * *
4010326 TTTTGTATTCATTGATATATTACTATTTTTTTGAATTTTTTTTTATTTTGTATGGCCTCAAAATA
391 TTTTGTATTCATTAATATATCACTATTTTTTTGAA--TTTTTCTATTTTGTATGGCCTCAAAATA
* *
4010391 ATATAATTGATGCTTTTTTGGAATTTCATTTTCCAAAGAACATAATGCATGCATTTCATTTGAAA
454 ATATAATTGATGCTTTTTTGGAATTTCATTTTCCAAAGAACATAATGCATCCATTGCATTTGAAA
*
4010456 TTAAATATGGGGAATGAGAAAAAGACAATTTCATTCATTGACCTTCTTTGACTAGTCATGCTTTA
519 TTAAATATGGGGAATGAGAAAAAGACAATTTCATTCATTGACCTTCTTTGACTAGTCATGCTTCA
* * *
4010521 CACAATTTCTTAATTTGAGTAATCAATGTTTTTCCTATTGATCTCTTAGTTGAAGTTGGTTTTTT
584 CACAACTTCTCAATTTGAGTAATCAATATTTTTCCTATTGATCTCTTAGTTGAAGTTGGTTTTTT
* * *
4010586 GCCTTTATCTTTTACAACTCCCAAAACTTGCTTGCCCTAATTAAAAGTTTTGAGAGGAAGATTTA
649 GCCTTTATCTTTTACAACTCCCAAAACTTGCTTACCCTAATTAAAAGTTTCGAGAGAAAGATTTA
* * *
4010651 GGGCTATTTTATTATTAAGTGCAACTTTATTATAAAGTGTATCCTTATTCTTTATATCATGTTCA
714 GGGCAATTTTATTATTAAGTGCAACTGTATTATAAAGCGTATCCTTATTCTTTATATCATGTTCA
* * *
4010716 TCTTGTTGCAACTTGGTTCGGATGTGAATCTTGACCAAGCTCGACTTAAATGGCCCTCAATTTCA
779 TCTTGTTGCAACGTGGTTCGGATGCGAATCTTGACCAAGCCCGACTTAAATGGCCCTCAATTTCA
* *
4010781 TTTTCATTGATAAATTACTATGTTTTT-AATTTTTTTTTATTTTGTATGGCCT
844 TATTCATTGATAAATTACTATGTTTTTGAA--TTTTTCTATTTTGTATGGCCT
* * *
4010833 CAAAATAATATAATTGATGCTTTTTTGGAATTTCATTTTCCAGAGATCACAATGCATCCATTGCA
1 CAAAATAATATAATTGATGC-TTTTTGGAATTTCATTTTCCAAAAAACACAATGCATCCATTGCA
*
4010898 TTTGAAATTAAATACGGGGAATGAGAAAAGACAATTTCATTCATTGACCTTC-TTGACTAGTCAT
65 TTTGAAATTAAATACGGGGAATGAGAAAAAACAATTTCATTCATTGACCTTCTTTGACTAGTCAT
* *
4010962 G-TTTCACAGAACTTCTCAATTTGAGTAGTCAATGTTTTTCCTATTGATCTCTTAGTTGAAGTTG
130 GCTTT-ACACAACTTCTCAATTTGAGTAGTCAATGTTTTTCCTATTAATCTCTTAGTTGAAGTTG
* * *
4011026 GTTTTTTGCCTTTATCTTCTACAGCTCGCAAAACTTGCTTGCACCAATTAAAAGTTTCGAGAGAA
194 GTTTTTTGCCTTTATCTACTACAACTCCCAAAACTTGCTTGCACCAATTAAAAGTTTCGAGAGAA
* *
4011091 AGATTTAGGGCTATTTTATTATTAAGTGCAACTTTATTATAAAGTGTATCATTATT-CTCTATAT
259 ACAATTAGGGCTATTTTATTATTAAGTGCAACTTTATTATAAAGTGTATCATTATTCCT-TATAT
* * *
4011155 CATGTTCATCTTGTTGCAACGTGGCTC-GGTTGCGAATCTTAACTAAGCTCGACTTAAATGGCCC
323 CATGTTCATCATGTTGCAACGTGG-TCGGGATGCGAATCTTAACCAAGCTCGACTTAAATGGCCC
4011219 TCAATTTTGTATTCATTAATATATCACTATTTTTTTGGAA-TTTTCTATTTTGTATGGCCCTCAA
387 TCAATTTTGTATTCATTAATATATCACTATTTTTTT-GAATTTTTCTATTTTGTATGG-CCTCAA
*
4011283 AATAATATAATTGATGCTTTTTTGGAATTTCATTTTTCAAAGAACATAATGCATCCATTGCATTT
450 AATAATATAATTGATGCTTTTTTGGAATTTCATTTTCCAAAGAACATAATGCATCCATTGCATTT
*
4011348 GACATTAAATATGGGGAATGAG-AAAAGACAATTTCATTCATTGACCTTCTTTGACTAGTCATGC
515 GAAATTAAATATGGGGAATGAGAAAAAGACAATTTCATTCATTGACCTTCTTTGACTAGTCATGC
* * *
4011412 TTCGCACAACTTCTCAATTTGAGTAGTCAATATTTTTCCTATTGATCTCTTAGTTGAAGTTAGTT
580 TTCACACAACTTCTCAATTTGAGTAATCAATATTTTTCCTATTGATCTCTTAGTTGAAGTT-G-G
4011477 TTTTTTGCCTTTATCTTTTACAACTCCCAAAACTTGCTTACACC-AATTAAAAGTTTCGAGAGAA
643 TTTTTTGCCTTTATCTTTTACAACTCCCAAAACTTGCTTAC-CCTAATTAAAAGTTTCGAGAGAA
4011541 AGATTTAGGGCAATTTTATTATTAAGTGCAACTGTATTATAAAGCGTATCCTTATTCTTTATATC
707 AGATTTAGGGCAATTTTATTATTAAGTGCAACTGTATTATAAAGCGTATCCTTATTCTTTATATC
*
4011606 ATGTTCATCTTGTTGCAACGTGG-TCTGGATGCGAATCTTGACCAAGCCCGACTTAAATGGTCCT
772 ATGTTCATCTTGTTGCAACGTGGTTC-GGATGCGAATCTTGACCAAGCCCGACTTAAATGGCCCT
** * * *
4011670 CAATTTTGTATTCATTGATATATTACTATTTTTTTGGATTTTTCTATTTTGTATGG
836 CAATTTCATATTCATTGATAAATTACTATGTTTTTGAATTTTTCTATTTTGTATGG
4011726 GCCATATCGT
Statistics
Matches: 830, Mismatches: 52, Indels: 23
0.92 0.06 0.03
Matches are distributed among these distances:
895 113 0.14
896 114 0.14
897 505 0.61
898 98 0.12
ACGTcount: A:0.29, C:0.16, G:0.14, T:0.41
Consensus pattern (894 bp):
CAAAATAATATAATTGATGCTTTTTGGAATTTCATTTTCCAAAAAACACAATGCATCCATTGCAT
TTGAAATTAAATACGGGGAATGAGAAAAAACAATTTCATTCATTGACCTTCTTTGACTAGTCATG
CTTTACACAACTTCTCAATTTGAGTAGTCAATGTTTTTCCTATTAATCTCTTAGTTGAAGTTGGT
TTTTTGCCTTTATCTACTACAACTCCCAAAACTTGCTTGCACCAATTAAAAGTTTCGAGAGAAAC
AATTAGGGCTATTTTATTATTAAGTGCAACTTTATTATAAAGTGTATCATTATTCCTTATATCAT
GTTCATCATGTTGCAACGTGGTCGGGATGCGAATCTTAACCAAGCTCGACTTAAATGGCCCTCAA
TTTTGTATTCATTAATATATCACTATTTTTTTGAATTTTTCTATTTTGTATGGCCTCAAAATAAT
ATAATTGATGCTTTTTTGGAATTTCATTTTCCAAAGAACATAATGCATCCATTGCATTTGAAATT
AAATATGGGGAATGAGAAAAAGACAATTTCATTCATTGACCTTCTTTGACTAGTCATGCTTCACA
CAACTTCTCAATTTGAGTAATCAATATTTTTCCTATTGATCTCTTAGTTGAAGTTGGTTTTTTGC
CTTTATCTTTTACAACTCCCAAAACTTGCTTACCCTAATTAAAAGTTTCGAGAGAAAGATTTAGG
GCAATTTTATTATTAAGTGCAACTGTATTATAAAGCGTATCCTTATTCTTTATATCATGTTCATC
TTGTTGCAACGTGGTTCGGATGCGAATCTTGACCAAGCCCGACTTAAATGGCCCTCAATTTCATA
TTCATTGATAAATTACTATGTTTTTGAATTTTTCTATTTTGTATGGCCT
Found at i:4011993 original size:18 final size:18
Alignment explanation
Indices: 4011970--4012004 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
4011960 AATAAGGATC
4011970 AACCCTTTCATGATGCTT
1 AACCCTTTCATGATGCTT
*
4011988 AACCCTTTTATGATGCT
1 AACCCTTTCATGATGCT
4012005 CAAATATTGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.23, C:0.26, G:0.11, T:0.40
Consensus pattern (18 bp):
AACCCTTTCATGATGCTT
Found at i:4012800 original size:16 final size:16
Alignment explanation
Indices: 4012779--4012861 Score: 69
Period size: 16 Copynumber: 5.1 Consensus size: 16
4012769 ATTTTTTGAA
*
4012779 TTTATTTTTCCTTTTT
1 TTTATTTTTCATTTTT
*
4012795 TTTATTTTTGATTTTT
1 TTTATTTTTCATTTTT
* *
4012811 TTGATTTTTGATTTTT
1 TTTATTTTTCATTTTT
* *
4012827 GATT-TTTTTCTTTTTTT
1 -TTTATTTTTC-ATTTTT
* *
4012844 TTTCTTTTTAATTTTT
1 TTTATTTTTCATTTTT
4012860 TT
1 TT
4012862 AGGCATAATA
Statistics
Matches: 54, Mismatches: 10, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
16 43 0.80
17 11 0.20
ACGTcount: A:0.10, C:0.05, G:0.05, T:0.81
Consensus pattern (16 bp):
TTTATTTTTCATTTTT
Found at i:4012802 original size:7 final size:7
Alignment explanation
Indices: 4012792--4012860 Score: 52
Period size: 7 Copynumber: 9.9 Consensus size: 7
4012782 ATTTTTCCTT
4012792 TTTTTTA
1 TTTTTTA
*
4012799 TTTTTGA
1 TTTTTTA
4012806 TTTTTTTGA
1 -TTTTTT-A
*
4012815 TTTTTGA
1 TTTTTTA
*
4012822 TTTTTGA
1 TTTTTTA
4012829 TTTTTT-
1 TTTTTTA
*
4012835 TCTTTT-
1 TTTTTTA
*
4012841 TTTTTTC
1 TTTTTTA
*
4012848 TTTTTAA
1 TTTTTTA
4012855 TTTTTT
1 TTTTTT
4012861 TAGGCATAAT
Statistics
Matches: 50, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
6 10 0.20
7 29 0.58
8 10 0.20
9 1 0.02
ACGTcount: A:0.10, C:0.03, G:0.06, T:0.81
Consensus pattern (7 bp):
TTTTTTA
Found at i:4012808 original size:23 final size:22
Alignment explanation
Indices: 4012782--4012844 Score: 65
Period size: 23 Copynumber: 2.7 Consensus size: 22
4012772 TTTTGAATTT
4012782 ATTTTTCCTTTTTTTTATTTTTG
1 ATTTTT-CTTTTTTTTATTTTTG
*
4012805 ATTTTT-TTGATTTTTGATTTTTG
1 ATTTTTCTT--TTTTTTATTTTTG
4012828 ATTTTTTTCTTTTTTTT
1 A--TTTTTCTTTTTTTT
4012845 TTCTTTTTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
21 2 0.06
23 19 0.58
24 5 0.15
25 5 0.15
26 2 0.06
ACGTcount: A:0.10, C:0.05, G:0.06, T:0.79
Consensus pattern (22 bp):
ATTTTTCTTTTTTTTATTTTTG
Found at i:4015315 original size:19 final size:18
Alignment explanation
Indices: 4015264--4015353 Score: 75
Period size: 19 Copynumber: 5.1 Consensus size: 18
4015254 TTGAATTCCA
4015264 ATAA-TTTGTATCGATAC
1 ATAAGTTTGTATCGATAC
* *
4015281 ATTCAGTAAATGTATCGATAC
1 A-TAAGT--TTGTATCGATAC
4015302 ATAAGTGTTGTATCGATAC
1 ATAAGT-TTGTATCGATAC
4015321 --AA---TGTATCGATAC
1 ATAAGTTTGTATCGATAC
4015334 ATAAGTTTTGTATCGATAC
1 ATAAG-TTTGTATCGATAC
4015353 A
1 A
4015354 ATGTATCGCT
Statistics
Matches: 58, Mismatches: 5, Indels: 18
0.72 0.06 0.22
Matches are distributed among these distances:
13 11 0.19
15 2 0.03
17 3 0.05
18 2 0.03
19 24 0.41
20 4 0.07
21 12 0.21
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.37
Consensus pattern (18 bp):
ATAAGTTTGTATCGATAC
Found at i:4015328 original size:13 final size:13
Alignment explanation
Indices: 4015310--4015334 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4015300 ACATAAGTGT
4015310 TGTATCGATACAA
1 TGTATCGATACAA
4015323 TGTATCGATACA
1 TGTATCGATACA
4015335 TAAGTTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:4015330 original size:32 final size:32
Alignment explanation
Indices: 4015289--4015361 Score: 137
Period size: 32 Copynumber: 2.3 Consensus size: 32
4015279 ACATTCAGTA
4015289 AATGTATCGATACATAAGTGTTGTATCGATAC
1 AATGTATCGATACATAAGTGTTGTATCGATAC
*
4015321 AATGTATCGATACATAAGTTTTGTATCGATAC
1 AATGTATCGATACATAAGTGTTGTATCGATAC
4015353 AATGTATCG
1 AATGTATCG
4015362 CTAGGAAGCT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 40 1.00
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.36
Consensus pattern (32 bp):
AATGTATCGATACATAAGTGTTGTATCGATAC
Found at i:4015423 original size:13 final size:13
Alignment explanation
Indices: 4015405--4015430 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4015395 CATTTTTCTG
4015405 TGTATCGATACAT
1 TGTATCGATACAT
4015418 TGTATCGATACAT
1 TGTATCGATACAT
4015431 CTATTCTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4015448 original size:34 final size:33
Alignment explanation
Indices: 4015385--4015451 Score: 107
Period size: 34 Copynumber: 2.0 Consensus size: 33
4015375 GCCAAGGAAA
*
4015385 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATTATTCTGTGTATCGATACAT
*
4015418 TGTATCGATACATCTATTCTTTGTATCGATACAT
1 TGTATCGATACAT-TATTCTGTGTATCGATACAT
4015452 CTAGGAAGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 13 0.42
34 18 0.58
ACGTcount: A:0.25, C:0.16, G:0.13, T:0.45
Consensus pattern (33 bp):
TGTATCGATACATTATTCTGTGTATCGATACAT
Found at i:4018045 original size:52 final size:51
Alignment explanation
Indices: 4017829--4018152 Score: 332
Period size: 51 Copynumber: 6.3 Consensus size: 51
4017819 TATTTCCGAA
* * * * **
4017829 GGGATACTCCAATCCCGGTTTCATTTCCAAAACA-TCAA-TTTCTCTTAATCG
1 GGGATACTCCAACCCCGATTTTATTTCTAAAACACT-AATTTTC-CACAATCG
* * *
4017880 GGGATACTCCAACTCCGATTTTATTTCTAAAACA-TCCATTTTCCATAATCG
1 GGGATACTCCAACCCCGATTTTATTTCTAAAACACT-AATTTTCCACAATCG
* * *
4017931 GGGATACTCCAACTCTGATTTTATTTCTAAAATACTAATTTTCCACAATCG
1 GGGATACTCCAACCCCGATTTTATTTCTAAAACACTAATTTTCCACAATCG
* *
4017982 GGGATACTCCAACCCCGGTTTTATTGCTAAAACACTAATTTTTCCACAATCG
1 GGGATACTCCAACCCCGATTTTATTTCTAAAACACTAA-TTTTCCACAATCG
* * **
4018034 GGGATACTCCAACCCCGGTTTTATTT-TCAAAACACCAATTTTCCTTTAATCG
1 GGGATACTCCAACCCCGATTTTATTTCT-AAAACACTAATTTTCC-ACAATCG
* * * * *
4018086 GGCATACTCCAACTCCGATTTTATTTCCAAACACACCAATTTTTTCACAATCG
1 GGGATACTCCAACCCCGATTTTATTTCTAAA-ACACTAA-TTTTCCACAATCG
*
4018139 AGGATACTCCAACC
1 GGGATACTCCAACC
4018153 TCGTTATTTC
Statistics
Matches: 235, Mismatches: 30, Indels: 14
0.84 0.11 0.05
Matches are distributed among these distances:
51 124 0.53
52 83 0.35
53 23 0.10
54 5 0.02
ACGTcount: A:0.29, C:0.27, G:0.11, T:0.33
Consensus pattern (51 bp):
GGGATACTCCAACCCCGATTTTATTTCTAAAACACTAATTTTCCACAATCG
Found at i:4018237 original size:79 final size:78
Alignment explanation
Indices: 4018140--4018372 Score: 227
Period size: 80 Copynumber: 2.9 Consensus size: 78
4018130 TCACAATCGA
* * **
4018140 GGATACTCCAACCTCGTTATTTCATTGGGGATACTCCAACCCCGTTACCATTCCCAAAATATTGA
1 GGATACTCCAACCCCGTTATTTCA-AGGGGATACTCCAACCCCGTTATTATTCCCAAAATATTGA
*
4018205 TTTCTCATAATTGG
65 TTTCTCATAACTGG
* * * * ** * *
4018219 GGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAATCCCGATTTTTTTTTTC-TAATCATC
1 GGATACTCCAACCCCGTTATTT-CAAGGGGATACTCCAACCCCG-TTATTATTCCCAAAAT-ATT
*
4018283 GATTTCTCACAACTGG
63 GATTTCTCATAACTGG
* * *
4018299 GGATACTCCAGCCCCGTCATTTTCAAGGGGACACTCCAACCCCGTTATTA-TCTCCAAAATATTA
1 GGATACTCCAACCCCGTTA-TTTCAAGGGGATACTCCAACCCCGTTATTATTC-CCAAAATATT-
*
4018363 AATTTCTCAT
63 GATTTCTCAT
4018373 CGAGAAATAT
Statistics
Matches: 120, Mismatches: 27, Indels: 13
0.75 0.17 0.08
Matches are distributed among these distances:
78 1 0.01
79 48 0.40
80 68 0.57
81 3 0.03
ACGTcount: A:0.26, C:0.28, G:0.14, T:0.33
Consensus pattern (78 bp):
GGATACTCCAACCCCGTTATTTCAAGGGGATACTCCAACCCCGTTATTATTCCCAAAATATTGAT
TTCTCATAACTGG
Found at i:4021709 original size:17 final size:17
Alignment explanation
Indices: 4021687--4021723 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
4021677 GAATGCACAT
4021687 AATAATCATAATGAAAA
1 AATAATCATAATGAAAA
4021704 AATAATCATAATGAAAA
1 AATAATCATAATGAAAA
4021721 AAT
1 AAT
4021724 GTTAGTATAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.65, C:0.05, G:0.05, T:0.24
Consensus pattern (17 bp):
AATAATCATAATGAAAA
Found at i:4023400 original size:23 final size:24
Alignment explanation
Indices: 4023353--4023406 Score: 101
Period size: 24 Copynumber: 2.3 Consensus size: 24
4023343 CATGTTAAAG
4023353 ATGCATGAAACATAATAAAAAAAA
1 ATGCATGAAACATAATAAAAAAAA
4023377 ATGCATGAAACATAAT-AAAAAAA
1 ATGCATGAAACATAATAAAAAAAA
4023400 ATGCATG
1 ATGCATG
4023407 GTCAAAGGCT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
23 14 0.47
24 16 0.53
ACGTcount: A:0.61, C:0.09, G:0.11, T:0.19
Consensus pattern (24 bp):
ATGCATGAAACATAATAAAAAAAA
Found at i:4024326 original size:20 final size:19
Alignment explanation
Indices: 4024297--4024371 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 19
4024287 AAAAAGACAT
4024297 AATGTATCGATACATTGAA
1 AATGTATCGATACATTGAA
* *
4024316 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTGA-A
* *
4024337 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTG-AA
4024357 AATGTATCGATACAT
1 AATGTATCGATACAT
4024372 CTGGGTAAAA
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.41, C:0.12, G:0.13, T:0.33
Consensus pattern (19 bp):
AATGTATCGATACATTGAA
Found at i:4024354 original size:40 final size:39
Alignment explanation
Indices: 4024294--4024371 Score: 120
Period size: 40 Copynumber: 2.0 Consensus size: 39
4024284 GGTAAAAAGA
*
4024294 CATAATGTATCGATACATTGAAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
4024333 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
4024372 CTGGGTAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
39 4 0.11
40 31 0.89
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.33
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:4025120 original size:86 final size:85
Alignment explanation
Indices: 4024983--4027084 Score: 2875
Period size: 86 Copynumber: 24.5 Consensus size: 85
4024973 CAATGACACG
* ** * * *
4024983 TGTGGGCTTTGAATAAAGTGTTACTAACTTGCGTGGGCTTTAAAAGGGTGCCACTGACTTGCGTG
1 TGTGGGCTTTGAA-AGAGTGCCACTGACTT--GTGGGCTTTGAAAGAGTGCCACTGACTT--GTG
4025048 GGCTTTGAAAGGA-TGCCACTGACT
61 GGCTTTGAAAGGAGTGCCACTGACT
* *
4025072 TGTGGGCTTTGAAAGAGTGCCACTGACTCGTGGGCTTTGAAAGAGTGCCACTGACTCGTGGGCTT
1 TGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTT
*
4025137 TGAGAAAG-GTGCCACTGACT
66 TGA-AAGGAGTGCCACTGACT
* * * * *
4025157 CGTGGGCTTTGAAA-AGGTGCCACTAACTTGCGTGGGCTTTAAAAGGGTGCCACTAACTTGCGTG
1 TGTGGGCTTTGAAAGA-GTGCCACTGACTT--GTGGGCTTTGAAAGAGTGCCACTGACTT--GTG
*
4025221 GGCTTTGAAAAGA-TGCCACTGACT
61 GGCTTTGAAAGGAGTGCCACTGACT
* *
4025245 TGT-GGCTTTTGAAAGAGTGCCACTGACTCGTGGGCTTTGAAA-AGGTGCCACTGACTCGTGGGC
1 TGTGGGC-TTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGA-GTGCCACTGACTTGTGGGC
4025308 -TTGAAAGG-GTGCCACTGACT
64 TTTGAAAGGAGTGCCACTGACT
* * * *
4025328 CGTGGGCTTTAAAAGGAGTGCCATTGACTTGTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGG
1 TGTGGGCTTTGAAA-GAGTGCCACTGAC-T-TGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGG
* * *
4025393 CTTT-AAAAGAGTGCCACTAAAT
63 CTTTGAAAGGAGTGCCACTGACT
* * * *
4025415 TGTGGGCTTTGCAAGGGTGCCACTGACTTATGGGCTTTGAAAGAGTGCCACTGAATTGTGGGCTT
1 TGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTT
* *
4025480 CGCAAGG-GTGCCACTGACT
66 TGAAAGGAGTGCCACTGACT
* * * * * *
4025499 TGTGGGCTTCGAAAGGGTGCCACTAACTTGTGGGCTTTGAAAGAATGCCACTGAATTATGGGCTT
1 TGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTT
* *
4025564 CGCAAGG-GTGCCACTGACT
66 TGAAAGGAGTGCCACTGACT
* * *
4025583 TGTGGGCTTTGAAAAAGAGTGCCACTGACTCGTGGGCTTTGAAA-AGGTGCAACTGACTCGTGGG
1 TGTGGGCTTTG--AAAGAGTGCCACTGACTTGTGGGCTTTGAAAGA-GTGCCACTGACTTGTGGG
*
4025647 CTTTGAAAAG-GTGCCACTGACT
63 CTTTGAAAGGAGTGCCACTGACT
* *
4025669 TGCGTGGGCTTTAAAAGGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTCCGTG
1 T--GTGGGCTTTGAAA-GAGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTT--GTG
4025734 GGCTTTGAAAGGAGTGCCACTGACT
61 GGCTTTGAAAGGAGTGCCACTGACT
*
4025759 TGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCT
1 TGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTG-AAAGAGTGCCACTGACTTGTGGGCT
4025824 TTGAAAGGAGTGCCACTGACT
65 TTGAAAGGAGTGCCACTGACT
* *
4025845 TGTGGGCTTTGAAA-AGGTGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTGATTTGTGGGC
1 TGTGGGCTTTGAAAGA-GTGCCACTGACTTGTGGGCTTTG-AAAGAGTGCCACTGACTTGTGGGC
4025909 TTTGAAAGGAGTGCCACTGACT
64 TTTGAAAGGAGTGCCACTGACT
*
4025931 TGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCT
1 TGTGGGCTTTG-AAAGAGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCT
* *
4025996 CTGAAAGG-GTGCCACTAACT
65 TTGAAAGGAGTGCCACTGACT
*
4026016 TGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCT
1 TGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTG-AAAGAGTGCCACTGACTTGTGGGCT
* *
4026081 TTGAAAAGAGTGCCACTGCCT
65 TTGAAAGGAGTGCCACTGACT
* *
4026102 TGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGATTTGTGGGCT
1 TGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTG-AAAGAGTGCCACTGACTTGTGGGCT
4026167 TTGAAAGGAGTGCCACTGACT
65 TTGAAAGGAGTGCCACTGACT
*
4026188 TGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCT
1 TGTGGGCTTTG-AAAGAGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCT
* *
4026253 CTGAAAGG-GTGCCACTAACT
65 TTGAAAGGAGTGCCACTGACT
*
4026273 TGTGGGCTTTGAAAGGGTGCCACTGACTTGT-GGC-TTGAAAGAGTG-CACTGACTTGT-GGC-T
1 TGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTT
* *
4026333 TGAAAAGAGTGCCACTGATT
66 TGAAAGGAGTGCCACTGACT
* * * *
4026353 TGTGGGCTTTGAAAAGAGTGCAACTGATTTGTGGGCTTTGAAAATAGTGCCACTAACTTGTGGGC
1 TGTGGGCTTTG-AAAGAGTGCCACTGACTTGTGGGCTTTG-AAAGAGTGCCACTGACTTGTGGGC
4026418 TTTGAAAGGAGTGCCACTGACT
64 TTTGAAAGGAGTGCCACTGACT
* *
4026440 TGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGATTTGTGGGCT
1 TGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTG-AAAGAGTGCCACTGACTTGTGGGCT
*
4026505 TTGAAAAGAGTGCCACTGACT
65 TTGAAAGGAGTGCCACTGACT
* *
4026526 TGTGGGCTTGGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCT
1 TGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAA-GAGTGCCACTGACTTGTGGGCT
4026591 TTGAAAGG-GTGCCACTGACT
65 TTGAAAGGAGTGCCACTGACT
* *
4026611 TGTGGGCTTTGAAAAGAGTGCCACTGATTTGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGT
1 TGTGGGCTTTG-AAAGAGTGCCACTGACTTGTGGGCTTTGAAA-GAGTGCCACTGACTTGTGGGC
4026676 TTTGAAAGGAGTGCCACTGACT
64 TTTGAAAGGAGTGCCACTGACT
* * * *
4026698 TGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTCTGAAAGGGTGCCACTAACTTGTGGGCTT
1 TGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTT
4026763 TGAAAGG-GTGCCACTGACT
66 TGAAAGGAGTGCCACTGACT
* *
4026782 TGTGGGCTTTGAAAAGAGTGCCACTGATTTGTGGGCTTTGAAAAGAGTGCCACTGATTTGTGGGC
1 TGTGGGCTTTG-AAAGAGTGCCACTGACTTGTGGGCTTTG-AAAGAGTGCCACTGACTTGTGGGC
**
4026847 TTTGAAAATAGTGCCACTGACT
64 TTTGAAAGGAGTGCCACTGACT
*
4026869 TGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCT
1 TGTGGGCTTTGAAA-GAGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCT
* *
4026934 TTGAAAAGAGTGCCACTGATT
65 TTGAAAGGAGTGCCACTGACT
4026955 TGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGC
1 TGTGGGCTTTG-AAAGAGTGCCACTGACTTGTGGGCTTTGAAA-GAGTGCCACTGACTTGTGGGC
*
4027020 TTTGAAAGG-GTGTCACTGACT
64 TTTGAAAGGAGTGCCACTGACT
* *
4027041 TGTGGGCTATGAAAGGAGTGCCACTGATTTGTGGGCTTTGAAAG
1 TGTGGGCTTTGAAA-GAGTGCCACTGACTTGTGGGCTTTGAAAG
4027085 GGATGAACAT
Statistics
Matches: 1811, Mismatches: 147, Indels: 114
0.87 0.07 0.06
Matches are distributed among these distances:
79 6 0.00
80 24 0.01
81 28 0.02
82 13 0.01
83 32 0.02
84 241 0.13
85 209 0.12
86 826 0.46
87 295 0.16
88 85 0.05
89 39 0.02
90 13 0.01
ACGTcount: A:0.22, C:0.18, G:0.33, T:0.28
Consensus pattern (85 bp):
TGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTT
TGAAAGGAGTGCCACTGACT
Found at i:4027084 original size:29 final size:29
Alignment explanation
Indices: 4025015--4027085 Score: 2931
Period size: 29 Copynumber: 72.5 Consensus size: 29
4025005 ACTAACTTGC
*
4025015 GTGGGCTTTAAAAGG-GTGCCACTGACTT
1 GTGGGCTTTGAAAGGAGTGCCACTGACTT
4025043 GCGTGGGCTTTGAAAGGA-TGCCACTGACTT
1 --GTGGGCTTTGAAAGGAGTGCCACTGACTT
*
4025073 GTGGGCTTTGAAA-GAGTGCCACTGACTC
1 GTGGGCTTTGAAAGGAGTGCCACTGACTT
*
4025101 GTGGGCTTTGAAA-GAGTGCCACTGACTC
1 GTGGGCTTTGAAAGGAGTGCCACTGACTT
* *
4025129 GTGGGCTTTGAGAAAG-GTGCCACTGACTC
1 GTGGGCTTTGA-AAGGAGTGCCACTGACTT
* *
4025158 GTGGGCTTTGAAAAG-GTGCCACTAACTT
1 GTGGGCTTTGAAAGGAGTGCCACTGACTT
* *
4025186 GCGTGGGCTTTAAAAGG-GTGCCACTAACTT
1 --GTGGGCTTTGAAAGGAGTGCCACTGACTT
*
4025216 GCGTGGGCTTTGAAAAGA-TGCCACTGACTT
1 --GTGGGCTTTGAAAGGAGTGCCACTGACTT
*
4025246 GT-GGCTTTTGAAA-GAGTGCCACTGACTC
1 GTGGGC-TTTGAAAGGAGTGCCACTGACTT
* *
4025274 GTGGGCTTTGAAAAG-GTGCCACTGACTC
1 GTGGGCTTTGAAAGGAGTGCCACTGACTT
*
4025302 GTGGGC-TTGAAAGG-GTGCCACTGACTC
1 GTGGGCTTTGAAAGGAGTGCCACTGACTT
* *
4025329 GTGGGCTTTAAAAGGAGTGCCATTGACTTGT
1 GTGGGCTTTGAAAGGAGTGCCACTGAC-T-T
4025360 GTGGGCTTTGAAAGG-GTGCCACTGACTT
1 GTGGGCTTTGAAAGGAGTGCCACTGACTT
* * *
4025388 GTGGGCTTT-AAAAGAGTGCCACTAAATT
1 GTGGGCTTTGAAAGGAGTGCCACTGACTT
*
4025416 GTGGGCTTTGCAAGG-GTGCCACTGACTT
1 GTGGGCTTTGAAAGGAGTGCCACTGACTT
* *
4025444 ATGGGCTTTGAAA-GAGTGCCACTGAATT
1 GTGGGCTTTGAAAGGAGTGCCACTGACTT
* *
4025472 GTGGGCTTCGCAAGG-GTGCCACTGACTT
1 GTGGGCTTTGAAAGGAGTGCCACTGACTT
* *
4025500 GTGGGCTTCGAAAGG-GTGCCACTAACTT
1 GTGGGCTTTGAAAGGAGTGCCACTGACTT
* *
4025528 GTGGGCTTTGAAA-GAATGCCACTGAATT
1 GTGGGCTTTGAAAGGAGTGCCACTGACTT
* * *
4025556 ATGGGCTTCGCAAGG-GTGCCACTGACTT
1 GTGGGCTTTGAAAGGAGTGCCACTGACTT
* *
4025584 GTGGGCTTTGAAAAAGAGTGCCACTGACTC
1 GTGGGCTTTG-AAAGGAGTGCCACTGACTT
* * *
4025614 GTGGGCTTTGAAAAG-GTGCAACTGACTC
1 GTGGGCTTTGAAAGGAGTGCCACTGACTT
*
4025642 GTGGGCTTTGAAAAG-GTGCCACTGACTT
1 GTGGGCTTTGAAAGGAGTGCCACTGACTT
*
4025670 GCGTGGGCTTTAAAAGGAGTGCCACTGACTT
1 --GTGGGCTTTGAAAGGAGTGCCACTGACTT
4025701 GTGGGCTTTGAAAGG-GTGCCACTGACTT
1 GTGGGCTTTGAAAGGAGTGCCACTGACTT
4025729 CCGTGGGCTTTGAAAGGAGTGCCACTGACTT
1 --GTGGGCTTTGAAAGGAGTGCCACTGACTT
4025760 GTGGGCTTTGAAAGG-GTGCCACTGACTT
1 GTGGGCTTTGAAAGGAGTGCCACTGACTT
*
4025788 GTGGGCTTTGAAAAGAGTGCCACTGACTT
1 GTGGGCTTTGAAAGGAGTGCCACTGACTT
4025817 GTGGGCTTTGAAAGGAGTGCCACTGACTT
1 GTGGGCTTTGAAAGGAGTGCCACTGACTT
* *
4025846 GTGGGCTTTGAAAAG-GTGCCACTAACTT
1 GTGGGCTTTGAAAGGAGTGCCACTGACTT
* *
4025874 GTGGGCTTTGAAAAGAGTGCCACTGATTT
1 GTGGGCTTTGAAAGGAGTGCCACTGACTT
4025903 GTGGGCTTTGAAAGGAGTGCCACTGACTT
1 GTGGGCTTTGAAAGGAGTGCCACTGACTT
*
4025932 GTGGGCTTTGAAAAGAGTGCCACTGACTT
1 GTGGGCTTTGAAAGGAGTGCCACTGACTT
4025961 GTGGGCTTTGAAAGG-GTGCCACTGACTT
1 GTGGGCTTTGAAAGGAGTGCCACTGACTT
* *
4025989 GTGGGCTCTGAAAGG-GTGCCACTAACTT
1 GTGGGCTTTGAAAGGAGTGCCACTGACTT
4026017 GTGGGCTTTGAAAGG-GTGCCACTGACTT
1 GTGGGCTTTGAAAGGAGTGCCACTGACTT
*
4026045 GTGGGCTTTGAAAAGAGTGCCACTGACTT
1 GTGGGCTTTGAAAGGAGTGCCACTGACTT
* *
4026074 GTGGGCTTTGAAAAGAGTGCCACTGCCTT
1 GTGGGCTTTGAAAGGAGTGCCACTGACTT
4026103 GTGGGCTTTGAAAGG-GTGCCACTGACTT
1 GTGGGCTTTGAAAGGAGTGCCACTGACTT
* *
4026131 GTGGGCTTTGAAAAGAGTGCCACTGATTT
1 GTGGGCTTTGAAAGGAGTGCCACTGACTT
4026160 GTGGGCTTTGAAAGGAGTGCCACTGACTT
1 GTGGGCTTTGAAAGGAGTGCCACTGACTT
*
4026189 GTGGGCTTTGAAAAGAGTGCCACTGACTT
1 GTGGGCTTTGAAAGGAGTGCCACTGACTT
4026218 GTGGGCTTTGAAAGG-GTGCCACTGACTT
1 GTGGGCTTTGAAAGGAGTGCCACTGACTT
* *
4026246 GTGGGCTCTGAAAGG-GTGCCACTAACTT
1 GTGGGCTTTGAAAGGAGTGCCACTGACTT
4026274 GTGGGCTTTGAAAGG-GTGCCACTGACTT
1 GTGGGCTTTGAAAGGAGTGCCACTGACTT
4026302 GT-GGC-TTGAAA-GAGTG-CACTGACTT
1 GTGGGCTTTGAAAGGAGTGCCACTGACTT
* *
4026327 GT-GGC-TTGAAAAGAGTGCCACTGATTT
1 GTGGGCTTTGAAAGGAGTGCCACTGACTT
* * *
4026354 GTGGGCTTTGAAAAGAGTGCAACTGATTT
1 GTGGGCTTTGAAAGGAGTGCCACTGACTT
** *
4026383 GTGGGCTTTGAAAATAGTGCCACTAACTT
1 GTGGGCTTTGAAAGGAGTGCCACTGACTT
4026412 GTGGGCTTTGAAAGGAGTGCCACTGACTT
1 GTGGGCTTTGAAAGGAGTGCCACTGACTT
4026441 GTGGGCTTTGAAAGG-GTGCCACTGACTT
1 GTGGGCTTTGAAAGGAGTGCCACTGACTT
* *
4026469 GTGGGCTTTGAAAAGAGTGCCACTGATTT
1 GTGGGCTTTGAAAGGAGTGCCACTGACTT
*
4026498 GTGGGCTTTGAAAAGAGTGCCACTGACTT
1 GTGGGCTTTGAAAGGAGTGCCACTGACTT
*
4026527 GTGGGCTTGGAAAGG-GTGCCACTGACTT
1 GTGGGCTTTGAAAGGAGTGCCACTGACTT
4026555 GTGGGCTTTGAAAGGAGTGCCACTGACTT
1 GTGGGCTTTGAAAGGAGTGCCACTGACTT
4026584 GTGGGCTTTGAAAGG-GTGCCACTGACTT
1 GTGGGCTTTGAAAGGAGTGCCACTGACTT
* *
4026612 GTGGGCTTTGAAAAGAGTGCCACTGATTT
1 GTGGGCTTTGAAAGGAGTGCCACTGACTT
4026641 GTGGGCTTTGAAAGGAGTGCCACTGACTT
1 GTGGGCTTTGAAAGGAGTGCCACTGACTT
*
4026670 GTGGGTTTTGAAAGGAGTGCCACTGACTT
1 GTGGGCTTTGAAAGGAGTGCCACTGACTT
4026699 GTGGGCTTTGAAAGG-GTGCCACTGACTT
1 GTGGGCTTTGAAAGGAGTGCCACTGACTT
* *
4026727 GTGGGCTCTGAAAGG-GTGCCACTAACTT
1 GTGGGCTTTGAAAGGAGTGCCACTGACTT
4026755 GTGGGCTTTGAAAGG-GTGCCACTGACTT
1 GTGGGCTTTGAAAGGAGTGCCACTGACTT
* *
4026783 GTGGGCTTTGAAAAGAGTGCCACTGATTT
1 GTGGGCTTTGAAAGGAGTGCCACTGACTT
* *
4026812 GTGGGCTTTGAAAAGAGTGCCACTGATTT
1 GTGGGCTTTGAAAGGAGTGCCACTGACTT
**
4026841 GTGGGCTTTGAAAATAGTGCCACTGACTT
1 GTGGGCTTTGAAAGGAGTGCCACTGACTT
4026870 GTGGGCTTTGAAAGGAGTGCCACTGACTT
1 GTGGGCTTTGAAAGGAGTGCCACTGACTT
4026899 GTGGGCTTTGAAAGG-GTGCCACTGACTT
1 GTGGGCTTTGAAAGGAGTGCCACTGACTT
* *
4026927 GTGGGCTTTGAAAAGAGTGCCACTGATTT
1 GTGGGCTTTGAAAGGAGTGCCACTGACTT
*
4026956 GTGGGCTTTGAAAAGAGTGCCACTGACTT
1 GTGGGCTTTGAAAGGAGTGCCACTGACTT
4026985 GTGGGCTTTGAAAGGAGTGCCACTGACTT
1 GTGGGCTTTGAAAGGAGTGCCACTGACTT
*
4027014 GTGGGCTTTGAAAGG-GTGTCACTGACTT
1 GTGGGCTTTGAAAGGAGTGCCACTGACTT
* *
4027042 GTGGGCTATGAAAGGAGTGCCACTGATTT
1 GTGGGCTTTGAAAGGAGTGCCACTGACTT
4027071 GTGGGCTTTGAAAGG
1 GTGGGCTTTGAAAGG
4027086 GATGAACATT
Statistics
Matches: 1877, Mismatches: 120, Indels: 89
0.90 0.06 0.04
Matches are distributed among these distances:
25 21 0.01
26 14 0.01
27 52 0.03
28 789 0.42
29 821 0.44
30 140 0.07
31 40 0.02
ACGTcount: A:0.22, C:0.18, G:0.33, T:0.28
Consensus pattern (29 bp):
GTGGGCTTTGAAAGGAGTGCCACTGACTT
Found at i:4028336 original size:8 final size:8
Alignment explanation
Indices: 4028325--4028363 Score: 53
Period size: 8 Copynumber: 5.0 Consensus size: 8
4028315 TTTTTTCTTG
4028325 GTTTTTTT
1 GTTTTTTT
4028333 GTTTTTTT
1 GTTTTTTT
*
4028341 -TTGTTTT
1 GTTTTTTT
*
4028348 GTTCTTTT
1 GTTTTTTT
4028356 GTTTTTTT
1 GTTTTTTT
4028364 TTGGTGTAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
7 6 0.22
8 21 0.78
ACGTcount: A:0.00, C:0.03, G:0.13, T:0.85
Consensus pattern (8 bp):
GTTTTTTT
Found at i:4028341 original size:23 final size:23
Alignment explanation
Indices: 4028322--4028366 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
4028312 CTATTTTTTC
*
4028322 TTGGTTTTTTTGTTTTTTTTTGT
1 TTGGTTCTTTTGTTTTTTTTTGT
*
4028345 TTTGTTCTTTTGTTTTTTTTTG
1 TTGGTTCTTTTGTTTTTTTTTG
4028367 GTGTAAAGGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.00, C:0.02, G:0.16, T:0.82
Consensus pattern (23 bp):
TTGGTTCTTTTGTTTTTTTTTGT
Found at i:4034085 original size:78 final size:78
Alignment explanation
Indices: 4033919--4034119 Score: 215
Period size: 78 Copynumber: 2.6 Consensus size: 78
4033909 GAGATAATAA
* * * * ** * *
4033919 CGGGGTTGGAGTGTTCCCTTGAAAATAACGGGGCTCGAGTATCCCCGTTTGTGAGAAATCGATGA
1 CGGGGTTGGAGT-ATCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATGA
*
4033984 TTAGAAAAAAAAAT
65 TTAGAAAAAAAAAC
*
4033998 CGGGATTGGAGTATCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAAT-AT
1 CGGGGTTGGAGTATCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATGA-
* ** * *
4034062 TTTGGGAATAAAGC
65 TTAGAAAAAAAAAC
* *
4034076 CGGGGTTGGAGTATCCCCTCGGAAGTAACGGGGTTGGAGTATCC
1 CGGGGTTGGAGTAT-CCCTCGAAAATAACGGGGTTGGAGTATCC
4034120 TCGATGAAAT
Statistics
Matches: 102, Mismatches: 18, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
77 1 0.01
78 63 0.62
79 38 0.37
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.25
Consensus pattern (78 bp):
CGGGGTTGGAGTATCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATGAT
TAGAAAAAAAAAC
Found at i:4034148 original size:28 final size:28
Alignment explanation
Indices: 4034079--4034152 Score: 98
Period size: 28 Copynumber: 2.6 Consensus size: 28
4034069 ATAAAGCCGG
* *
4034079 GGTTGGAGTATCCCCTCG--GAAGTAACGG
1 GGTTGGAGTAT--CCTCGATGAAATAACGA
4034107 GGTTGGAGTATCCTCGATGAAATAACGA
1 GGTTGGAGTATCCTCGATGAAATAACGA
4034135 GGTTGGAGTATCCTCGAT
1 GGTTGGAGTATCCTCGAT
4034153 TGTGAAAAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
26 5 0.12
28 37 0.88
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.26
Consensus pattern (28 bp):
GGTTGGAGTATCCTCGATGAAATAACGA
Found at i:4034205 original size:52 final size:51
Alignment explanation
Indices: 4034136--4034472 Score: 236
Period size: 52 Copynumber: 6.4 Consensus size: 51
4034126 AAATAACGAG
* *
4034136 GTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGAAAAATTGGT-GTTTTGGAAATAAAATCGGA
** * * * * *
4034188 GTTGGAGTATCCCCGATTAAAGGAAAATTGGCGTTTTGAAAATAAAACCGGG
1 GTTGGAGTATCCCCGATT-GTGAAAAATTGGTGTTTTGGAAATAAAATCGGA
* * * * * *
4034240 GTTGGAGTATCCCCGATTGTGGAGAAATTAGTGTTTTAGCAATAAAACCGGG
1 GTTGGAGTATCCCCGATTGT-GAAAAATTGGTGTTTTGGAAATAAAATCGGA
* * * *** * * *
4034292 GTTGGAGCATCCCC--TCG-GAAATAACGGGGTTGGAGTATCCCCGATGAT-TAA-CGGG
1 GTTGGAGTATCCCCGATTGTGAAA-AA-----TTGGTGT-T-TTGGA-AATAAAATCGGA
4034347 GTTGGAGTATCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGAA-AAATTGGTG--TTTTGGAAATAAAATCGGA
* * *
4034401 GTTGGAGTATCCCCGATTAT-AGAAAATTAGTGTTTTGAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGA-AAAATTGGTGTTTTGGAAATAAAATCGGA
*
4034452 GTTGGAATATCCCCGATTGTG
1 GTTGGAGTATCCCCGATTGTG
4034473 GAGAATTGAG
Statistics
Matches: 221, Mismatches: 43, Indels: 42
0.72 0.14 0.14
Matches are distributed among these distances:
48 3 0.01
49 2 0.01
50 2 0.01
51 36 0.16
52 90 0.41
53 27 0.12
54 29 0.13
55 19 0.09
56 3 0.01
57 4 0.02
58 5 0.02
59 1 0.00
ACGTcount: A:0.30, C:0.13, G:0.27, T:0.29
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGGAAATAAAATCGGA
Found at i:4034306 original size:212 final size:212
Alignment explanation
Indices: 4034025--4034477 Score: 678
Period size: 212 Copynumber: 2.1 Consensus size: 212
4034015 TCGAAAATAA
* * * * * *
4034025 CGGGGTTGGAGTATCCCCAATTAT-GAGAAATCAATATTTTGGGAATAAAGCCGGGGTTGGAGTA
1 CGGGGTTGGAGTATCCCCGATTGTGGAGAAATCAATATTTTAGCAATAAAACCGGGGTTGGAGCA
* * *
4034089 TCCCCTCGGAAGTAACGGGGTTGGAGTATCCTCGATGAAATAACGAGGTTGGAGTATCCTCGATT
66 TCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATG-AATAACGAGGTTGGAGTATCCCCGATT
4034154 GTGAA-AAATTGGT-ATTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGGAAAATT
130 GTGAAGAAATTGGTGATTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAA-GAAAATT
*
4034217 GGCGTTTTGAAAATAAAAC
194 AGCGTTTTGAAAATAAAAC
* * *
4034236 CGGGGTTGGAGTATCCCCGATTGTGGAGAAATTAGTGTTTTAGCAATAAAACCGGGGTTGGAGCA
1 CGGGGTTGGAGTATCCCCGATTGTGGAGAAATCAATATTTTAGCAATAAAACCGGGGTTGGAGCA
* *
4034301 TCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATGATTAACGGGGTTGGAGTATCCCCGATTG
66 TCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATGAATAACGAGGTTGGAGTATCCCCGATTG
* *
4034366 TGAAGAAATTGGTGTTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTATAGAAAATTAG
131 TGAAGAAATTGGTGATTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGAAAATTAG
* *
4034431 TGTTTTGAAAATAAAAT
196 CGTTTTGAAAATAAAAC
* *
4034448 CGGAGTTGGAATATCCCCGATTGTGGAGAA
1 CGGGGTTGGAGTATCCCCGATTGTGGAGAA
4034478 TTGAGAAACT
Statistics
Matches: 218, Mismatches: 21, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
211 51 0.23
212 127 0.58
213 40 0.18
ACGTcount: A:0.30, C:0.14, G:0.28, T:0.28
Consensus pattern (212 bp):
CGGGGTTGGAGTATCCCCGATTGTGGAGAAATCAATATTTTAGCAATAAAACCGGGGTTGGAGCA
TCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATGAATAACGAGGTTGGAGTATCCCCGATTG
TGAAGAAATTGGTGATTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGAAAATTAG
CGTTTTGAAAATAAAAC
Found at i:4034323 original size:28 final size:27
Alignment explanation
Indices: 4034288--4034362 Score: 96
Period size: 27 Copynumber: 2.7 Consensus size: 27
4034278 GCAATAAAAC
* **
4034288 CGGGGTTGGAGCATCCCCTCGGAAATAA
1 CGGGGTTGGAGTATCCCCGAGG-AATAA
* *
4034316 CGGGGTTGGAGTATCCCCGATGATTAA
1 CGGGGTTGGAGTATCCCCGAGGAATAA
4034343 CGGGGTTGGAGTATCCCCGA
1 CGGGGTTGGAGTATCCCCGA
4034363 TTGTGAAGAA
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
27 24 0.57
28 18 0.43
ACGTcount: A:0.21, C:0.23, G:0.35, T:0.21
Consensus pattern (27 bp):
CGGGGTTGGAGTATCCCCGAGGAATAA
Found at i:4034364 original size:107 final size:106
Alignment explanation
Indices: 4033998--4034414 Score: 378
Period size: 107 Copynumber: 3.9 Consensus size: 106
4033988 AAAAAAAAAT
* * * * *
4033998 CGGGATTGGAGTATCCCTCGA-AAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATAT
1 CGGGATTGGAGTATCCC-CGATAAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATTAGTGT
* * *
4034062 TTTGGGAATAAAGCCGGGGTTGGAGTATCCCCTCGGAAGTAA
65 TTTGGAAATAAAACCGGGGTTGGAGTATCCCCTCGGAAATAA
* * * * * * *
4034104 CGGGGTTGGAGTATCCTCGATGAAATAACGAGGTTGGAGTATCCTCGATTGTGAAAAATTGGTAT
1 CGGGATTGGAGTATCCCCGAT-AAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATTAGT-G
* * *
4034169 TTTTGGAAATAAAATCGGAGTTGGAGTAT-CCC-C-G-ATTAA
64 TTTTGGAAATAAAACCGGGGTTGGAGTATCCCCTCGGAAATAA
* * * * ***** *
4034208 AGGAAAATTGGCGTTTTGAAAATAAA-ACCGGGGTTGGAGTATCCCCGATTGTGGAGAAATTAGT
1 CGG--GATTGGAGTATCCCCGATAAATAACGGGGTTGGAGTATCCCCGATTGT-GAGAAATTAGT
* * *
4034272 GTTTTAGCAATAAAACCGGGGTTGGAGCATCCCCTCGGAAATAA
63 GTTTTGGAAATAAAACCGGGGTTGGAGTATCCCCTCGGAAATAA
* * * *
4034316 CGGGGTTGGAGTATCCCCGATGATTAACGGGGTTGGAGTATCCCCGATTGTGAAGAAATTGGTGT
1 CGGGATTGGAGTATCCCCGATAAATAACGGGGTTGGAGTATCCCCGATTGTG-AGAAATTAGTG-
* *
4034381 TTTTTGGAAATAAAATCGGAGTTGGAGTATCCCC
64 -TTTTGGAAATAAAACCGGGGTTGGAGTATCCCC
4034415 GATTATAGAA
Statistics
Matches: 240, Mismatches: 57, Indels: 25
0.75 0.18 0.08
Matches are distributed among these distances:
104 53 0.22
105 19 0.08
106 37 0.15
107 72 0.30
108 31 0.13
109 28 0.12
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.27
Consensus pattern (106 bp):
CGGGATTGGAGTATCCCCGATAAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATTAGTGTT
TTGGAAATAAAACCGGGGTTGGAGTATCCCCTCGGAAATAA
Found at i:4037079 original size:20 final size:20
Alignment explanation
Indices: 4037056--4037104 Score: 62
Period size: 23 Copynumber: 2.3 Consensus size: 20
4037046 CTGGACATGT
*
4037056 TAAAGATGCATGAAACATAA
1 TAAAAATGCATGAAACATAA
4037076 TAAAAAAAATGCATGAAACATAA
1 T---AAAAATGCATGAAACATAA
4037099 TAAAAA
1 TAAAAA
4037105 AAATGCATGG
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
20 6 0.24
23 19 0.76
ACGTcount: A:0.63, C:0.08, G:0.10, T:0.18
Consensus pattern (20 bp):
TAAAAATGCATGAAACATAA
Found at i:4037091 original size:23 final size:23
Alignment explanation
Indices: 4037061--4037113 Score: 106
Period size: 23 Copynumber: 2.3 Consensus size: 23
4037051 CATGTTAAAG
4037061 ATGCATGAAACATAATAAAAAAA
1 ATGCATGAAACATAATAAAAAAA
4037084 ATGCATGAAACATAATAAAAAAA
1 ATGCATGAAACATAATAAAAAAA
4037107 ATGCATG
1 ATGCATG
4037114 GTCAAAGGCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.60, C:0.09, G:0.11, T:0.19
Consensus pattern (23 bp):
ATGCATGAAACATAATAAAAAAA
Found at i:4038053 original size:20 final size:19
Alignment explanation
Indices: 4038024--4038098 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 19
4038014 AAAAAGACAT
4038024 AATGTATCGATACATTGAA
1 AATGTATCGATACATTGAA
* *
4038043 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTGA-A
* *
4038064 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTG-AA
4038084 AATGTATCGATACAT
1 AATGTATCGATACAT
4038099 CTGGGTAAAA
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.41, C:0.12, G:0.13, T:0.33
Consensus pattern (19 bp):
AATGTATCGATACATTGAA
Found at i:4038081 original size:40 final size:39
Alignment explanation
Indices: 4038021--4038098 Score: 120
Period size: 40 Copynumber: 2.0 Consensus size: 39
4038011 GGTAAAAAGA
*
4038021 CATAATGTATCGATACATTGAAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
4038060 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
4038099 CTGGGTAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
39 4 0.11
40 31 0.89
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.33
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:4039930 original size:29 final size:29
Alignment explanation
Indices: 4038712--4039931 Score: 1564
Period size: 28 Copynumber: 42.6 Consensus size: 29
4038702 CACTGACACG
** *
4038712 TGTGGGCTTTGAATA-GAGTGTTACTAACT
1 TGTGGGCTTTGAA-AGGAGTGCCACTGACT
*
4038741 TGCGTGGGCTTTAAAAGG-GTGCCACTGACT
1 T--GTGGGCTTTGAAAGGAGTGCCACTGACT
4038771 TGCGTGGGCTTTGAAAGGA-TGCCACTGACT
1 T--GTGGGCTTTGAAAGGAGTGCCACTGACT
4038801 TGTGGGCTTTGAAA-GAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
*
4038829 CGTGGGCTTTGAAA-GAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
* *
4038857 CGTGGGCTTTGAGAAAG-GTGCCACTGACT
1 TGTGGGCTTTGA-AAGGAGTGCCACTGACT
* * *
4038886 CGTGGGCTTTGAAAAG-GTGCCACTAACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
* *
4038914 TGCGTGGGCTTTAAAAGG-GTGCCACTAACT
1 T--GTGGGCTTTGAAAGGAGTGCCACTGACT
* *
4038944 TGCGTGGGCTTTGAAAAGA-TGCCACGGACT
1 T--GTGGGCTTTGAAAGGAGTGCCACTGACT
*
4038974 TGTGGGTTTTGAAA-GAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
* *
4039002 CGTGGGCTTTGAAAAG-GTGCCACTGACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
*
4039030 CGTGGGC-TTGAAAGG-GTGCCACTGACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
* * *
4039057 CGTGGGCTTTAAAAGGAGTGCCATTGACTT
1 TGTGGGCTTTGAAAGGAGTGCCACTGAC-T
4039087 GTGTGGGCTTTGAAAGG-GTGCCACTGACT
1 -TGTGGGCTTTGAAAGGAGTGCCACTGACT
* * *
4039116 TGTGGGCTTT-AAAAGAGTGCCACTAAAT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
* *
4039144 TGTTGGCTTTGCAAGG-GTGCCACTGACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
* *
4039172 TATGGGCTTTGAAA-GAGTGCCACTGAAT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
* *
4039200 TGTGGGCTTCGCAAGG-GTGCCACTGACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
* *
4039228 TGTGGGCTTCGAAAGG-GTGCCACTAACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
*
4039256 TGTGGGCTTTGAAA-GAGTGCCACTGAAT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
* * * *
4039284 TATGGGCTTCGCAAGG-GTACCACTGACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
4039312 TGTGGGCTTTGAAA-GAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
* * *
4039340 CGTGGGATTTGAAAAG-GTGCCACTGACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
* * *
4039368 CGTAGGCTTTGAAAAG-GTGCCACTGACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
*
4039396 TGCGTGGGCTTTAAAAGGAGTGCCACTGACT
1 T--GTGGGCTTTGAAAGGAGTGCCACTGACT
4039427 TGTGGGCTTTGAAAGG-GTGCCACTGACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
4039455 TGCGTGGGCTTTGAAAGGAGTGCCACTGACT
1 T--GTGGGCTTTGAAAGGAGTGCCACTGACT
4039486 TGTGGGCTTTGAAAGG-GTGCCACTGACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
*
4039514 TGTGGGCTTTGAAAAGAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
*
4039543 TGTGGGCTTTGAAAGGAGTGCCACTAACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
* *
4039572 TGTGGGCTTTGAAAAG-GTGCCACTAACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
* *
4039600 TGTGGGCTTTGAAAAGAGTGCCACTGATT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
4039629 TGTGGGCTTTGAAAGGAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
4039658 TGTGGGCTTTGAAAGGAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
*
4039687 TGTAGGCTTTGAAAGG-GTGCCACTGACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
* *
4039715 TGTGGTCTTTGAAAGGAGTGCCACCGACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
4039744 TGTGGGCTTTGAAAGG-GTGCCACTGACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
* *
4039772 TGTGGGCTTTGAAAAGAGTGCCATTGACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
*
4039801 TGTGGGCTTTGAAAGGAGTGCCACTGCCT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
4039830 TGTGGGCTTTGAAAGG-GTGCCACTGACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
* *
4039858 TGTGGGCTTTGAAAAGAGTGCCACTGATT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
4039887 TGTGGGCTTTGAAAGGAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
4039916 TGTGGGCTTTGAAAGG
1 TGTGGGCTTTGAAAGG
4039932 TTTTTTTTAA
Statistics
Matches: 1069, Mismatches: 87, Indels: 70
0.87 0.07 0.06
Matches are distributed among these distances:
27 37 0.03
28 509 0.48
29 342 0.32
30 129 0.12
31 52 0.05
ACGTcount: A:0.22, C:0.18, G:0.32, T:0.28
Consensus pattern (29 bp):
TGTGGGCTTTGAAAGGAGTGCCACTGACT
Found at i:4039931 original size:86 final size:86
Alignment explanation
Indices: 4038712--4039931 Score: 1605
Period size: 86 Copynumber: 14.2 Consensus size: 86
4038702 CACTGACACG
* ** * *
4038712 TGTGGGCTTTGAATAGAGTGTTACTAACTTGCGTGGGCTTT-AAAAGGGTGCCACTGACTTGCGT
1 TGTGGGCTTTGAA-AGGGTGCCACTGACTT--GTGGGCTTTGAAAAGAGTGCCACTGACTT--GT
4038776 GGGCTTTGAAAGGA-TGCCACTGACT
61 GGGCTTTGAAAGGAGTGCCACTGACT
* * *
4038801 TGTGGGCTTTGAAAGAGTGCCACTGACTCGTGGGCTTTG-AAAGAGTGCCACTGACTCGTGGGCT
1 TGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCT
*
4038865 TTGAGAAAG-GTGCCACTGACT
66 TTGA-AAGGAGTGCCACTGACT
* * * * *
4038886 CGTGGGCTTTGAAAAGGTGCCACTAACTTGCGTGGGCTTT-AAAAGGGTGCCACTAACTTGCGTG
1 TGTGGGCTTTGAAAGGGTGCCACTGACTT--GTGGGCTTTGAAAAGAGTGCCACTGACTT--GTG
* *
4038950 GGCTTTGAAAAGA-TGCCACGGACT
62 GGCTTTGAAAGGAGTGCCACTGACT
* * * *
4038974 TGTGGGTTTTGAAAGAGTGCCACTGACTCGTGGGCTTTGAAAAG-GTGCCACTGACTCGTGGGC-
1 TGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCT
4039037 TTGAAAGG-GTGCCACTGACT
66 TTGAAAGGAGTGCCACTGACT
* * * *
4039057 CGTGGGCTTTAAAAGGAGTGCCATTGACTTGTGTGGGCTTTG-AAAGGGTGCCACTGACTTGTGG
1 TGTGGGCTTTGAAAGG-GTGCCACTGAC-T-TGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGG
* * *
4039121 GCTTT-AAAAGAGTGCCACTAAAT
63 GCTTTGAAAGGAGTGCCACTGACT
* * * *
4039144 TGTTGGCTTTGCAAGGGTGCCACTGACTTATGGGCTTTG-AAAGAGTGCCACTGAATTGTGGGCT
1 TGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCT
* *
4039208 TCGCAAGG-GTGCCACTGACT
66 TTGAAAGGAGTGCCACTGACT
* * * *
4039228 TGTGGGCTTCGAAAGGGTGCCACTAACTTGTGGGCTTTG-AAAGAGTGCCACTGAATTATGGGCT
1 TGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCT
* * *
4039292 TCGCAAGG-GTACCACTGACT
66 TTGAAAGGAGTGCCACTGACT
* * * * *
4039312 TGTGGGCTTTGAAAGAGTGCCACTGACTCGTGGGATTTGAAAAG-GTGCCACTGACTCGTAGGCT
1 TGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCT
*
4039376 TTGAAAAG-GTGCCACTGACT
66 TTGAAAGGAGTGCCACTGACT
* *
4039396 TGCGTGGGCTTTAAAAGGAGTGCCACTGACTTGTGGGCTTTG-AAAGGGTGCCACTGACTTGCGT
1 T--GTGGGCTTTGAAAGG-GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTT--GT
4039460 GGGCTTTGAAAGGAGTGCCACTGACT
61 GGGCTTTGAAAGGAGTGCCACTGACT
4039486 TGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCT
1 TGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCT
*
4039551 TTGAAAGGAGTGCCACTAACT
66 TTGAAAGGAGTGCCACTGACT
* * *
4039572 TGTGGGCTTTGAAAAGGTGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTGATTTGTGGGCT
1 TGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCT
4039637 TTGAAAGGAGTGCCACTGACT
66 TTGAAAGGAGTGCCACTGACT
* * *
4039658 TGTGGGCTTTGAAAGGAGTGCCACTGACTTGTAGGCTTTG-AAAGGGTGCCACTGACTTGTGGTC
1 TGTGGGCTTTGAAAGG-GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGC
*
4039722 TTTGAAAGGAGTGCCACCGACT
65 TTTGAAAGGAGTGCCACTGACT
*
4039744 TGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCATTGACTTGTGGGCT
1 TGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCT
*
4039809 TTGAAAGGAGTGCCACTGCCT
66 TTGAAAGGAGTGCCACTGACT
*
4039830 TGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGATTTGTGGGCT
1 TGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCT
4039895 TTGAAAGGAGTGCCACTGACT
66 TTGAAAGGAGTGCCACTGACT
4039916 TGTGGGCTTTGAAAGG
1 TGTGGGCTTTGAAAGG
4039932 TTTTTTTTAA
Statistics
Matches: 1003, Mismatches: 99, Indels: 61
0.86 0.09 0.05
Matches are distributed among these distances:
83 29 0.03
84 215 0.21
85 73 0.07
86 426 0.42
87 130 0.13
88 80 0.08
89 37 0.04
90 13 0.01
ACGTcount: A:0.22, C:0.18, G:0.32, T:0.28
Consensus pattern (86 bp):
TGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCT
TTGAAAGGAGTGCCACTGACT
Found at i:4040827 original size:52 final size:51
Alignment explanation
Indices: 4040611--4040932 Score: 337
Period size: 51 Copynumber: 6.2 Consensus size: 51
4040601 TATTTCCGAA
* * * * **
4040611 GGGATACTCCAATCCCGGTTTCATTTCCAAAACA-TCAA-TTTCTCTTAATCG
1 GGGATACTCCAACCCCGATTTTATTTCTAAAACACT-AATTTTC-CACAATCG
* * *
4040662 GGGATACTCCAACTCCGATTTTATTTCTAAAACA-TCCATTTTCCATAATCG
1 GGGATACTCCAACCCCGATTTTATTTCTAAAACACT-AATTTTCCACAATCG
* *
4040713 GGGATACTCCAACTCCGATTTTATTTCTAAAATACTAATTTTCCACAATCG
1 GGGATACTCCAACCCCGATTTTATTTCTAAAACACTAATTTTCCACAATCG
* *
4040764 GGGATACTCCAACCCCGGTTTTATTGCTAAAACACTAATTTTTCCACAATCG
1 GGGATACTCCAACCCCGATTTTATTTCTAAAACACTAA-TTTTCCACAATCG
* * **
4040816 GGGATACTCCAACCCCGGTTTTATTT-TCAAAACACCAATTTTCCTTTAATCG
1 GGGATACTCCAACCCCGATTTTATTTCT-AAAACACTAATTTTCC-ACAATCG
* * * * *
4040868 GGCATACTCCAACTCCGATTTTATTTCCAAACACACCAATTTTTTCACAATCG
1 GGGATACTCCAACCCCGATTTTATTTCTAAA-ACACTAA-TTTTCCACAATCG
*
4040921 AGGATACTCCAA
1 GGGATACTCCAA
4040933 ACTCGTTATT
Statistics
Matches: 236, Mismatches: 27, Indels: 14
0.85 0.10 0.05
Matches are distributed among these distances:
51 126 0.53
52 83 0.35
53 22 0.09
54 5 0.02
ACGTcount: A:0.30, C:0.27, G:0.11, T:0.33
Consensus pattern (51 bp):
GGGATACTCCAACCCCGATTTTATTTCTAAAACACTAATTTTCCACAATCG
Found at i:4044491 original size:17 final size:17
Alignment explanation
Indices: 4044469--4044505 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
4044459 GAATGCACAT
4044469 AATAATCATAATGAAAA
1 AATAATCATAATGAAAA
4044486 AATAATCATAATGAAAA
1 AATAATCATAATGAAAA
4044503 AAT
1 AAT
4044506 GTTAGTATAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.65, C:0.05, G:0.05, T:0.24
Consensus pattern (17 bp):
AATAATCATAATGAAAA
Found at i:4046154 original size:20 final size:20
Alignment explanation
Indices: 4046131--4046179 Score: 62
Period size: 23 Copynumber: 2.3 Consensus size: 20
4046121 CTGGACATGT
*
4046131 TAAAGATGCATGAAACATAA
1 TAAAAATGCATGAAACATAA
4046151 TAAAAAAAATGCATGAAACATAA
1 T---AAAAATGCATGAAACATAA
4046174 TAAAAA
1 TAAAAA
4046180 AAATGCATGG
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
20 6 0.24
23 19 0.76
ACGTcount: A:0.63, C:0.08, G:0.10, T:0.18
Consensus pattern (20 bp):
TAAAAATGCATGAAACATAA
Found at i:4046166 original size:23 final size:23
Alignment explanation
Indices: 4046136--4046188 Score: 106
Period size: 23 Copynumber: 2.3 Consensus size: 23
4046126 CATGTTAAAG
4046136 ATGCATGAAACATAATAAAAAAA
1 ATGCATGAAACATAATAAAAAAA
4046159 ATGCATGAAACATAATAAAAAAA
1 ATGCATGAAACATAATAAAAAAA
4046182 ATGCATG
1 ATGCATG
4046189 GTCAAAGGCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.60, C:0.09, G:0.11, T:0.19
Consensus pattern (23 bp):
ATGCATGAAACATAATAAAAAAA
Found at i:4047128 original size:20 final size:19
Alignment explanation
Indices: 4047099--4047173 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 19
4047089 AAAAAGACAT
4047099 AATGTATCGATACATTGAA
1 AATGTATCGATACATTGAA
* *
4047118 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTGA-A
* *
4047139 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTG-AA
4047159 AATGTATCGATACAT
1 AATGTATCGATACAT
4047174 CTGGGTAAAA
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.41, C:0.12, G:0.13, T:0.33
Consensus pattern (19 bp):
AATGTATCGATACATTGAA
Found at i:4047156 original size:40 final size:39
Alignment explanation
Indices: 4047096--4047173 Score: 120
Period size: 40 Copynumber: 2.0 Consensus size: 39
4047086 GGTAAAAAGA
*
4047096 CATAATGTATCGATACATTGAAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
4047135 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
4047174 CTGGGTAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
39 4 0.11
40 31 0.89
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.33
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:4049003 original size:29 final size:29
Alignment explanation
Indices: 4047785--4049004 Score: 1564
Period size: 28 Copynumber: 42.6 Consensus size: 29
4047775 CACTGACACG
** *
4047785 TGTGGGCTTTGAATA-GAGTGTTACTAACT
1 TGTGGGCTTTGAA-AGGAGTGCCACTGACT
*
4047814 TGCGTGGGCTTTAAAAGG-GTGCCACTGACT
1 T--GTGGGCTTTGAAAGGAGTGCCACTGACT
4047844 TGCGTGGGCTTTGAAAGGA-TGCCACTGACT
1 T--GTGGGCTTTGAAAGGAGTGCCACTGACT
4047874 TGTGGGCTTTGAAA-GAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
*
4047902 CGTGGGCTTTGAAA-GAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
* *
4047930 CGTGGGCTTTGAGAAAG-GTGCCACTGACT
1 TGTGGGCTTTGA-AAGGAGTGCCACTGACT
* * *
4047959 CGTGGGCTTTGAAAAG-GTGCCACTAACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
* *
4047987 TGCGTGGGCTTTAAAAGG-GTGCCACTAACT
1 T--GTGGGCTTTGAAAGGAGTGCCACTGACT
* *
4048017 TGCGTGGGCTTTGAAAAGA-TGCCACGGACT
1 T--GTGGGCTTTGAAAGGAGTGCCACTGACT
*
4048047 TGTGGGTTTTGAAA-GAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
* *
4048075 CGTGGGCTTTGAAAAG-GTGCCACTGACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
*
4048103 CGTGGGC-TTGAAAGG-GTGCCACTGACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
* * *
4048130 CGTGGGCTTTAAAAGGAGTGCCATTGACTT
1 TGTGGGCTTTGAAAGGAGTGCCACTGAC-T
4048160 GTGTGGGCTTTGAAAGG-GTGCCACTGACT
1 -TGTGGGCTTTGAAAGGAGTGCCACTGACT
* * *
4048189 TGTGGGCTTT-AAAAGAGTGCCACTAAAT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
* * *
4048217 TGTTGGCTTTGCAAGG-GTGCCACTAACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
* *
4048245 TATGGGCTTTGAAA-GAGTGCCACTGAAT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
* *
4048273 TGTGGGCTTCGCAAGG-GTGCCACTGACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
* *
4048301 TGTGGGCTTCGAAAGG-GTGCCACTAACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
*
4048329 TGTGGGCTTTGAAA-GAGTGCCACTGAAT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
* * *
4048357 TATGGGCTTCGCAAGG-GTGCCACTGACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
4048385 TGTGGGCTTTGAAA-GAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
* * *
4048413 CGTGGGATTTGAAAAG-GTGCCACTGACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
* *
4048441 CGTGGGCTTTGAAAAG-GTGCCACTGACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
*
4048469 TGCGTGGGCTTTAAAAGGAGTGCCACTGACT
1 T--GTGGGCTTTGAAAGGAGTGCCACTGACT
*
4048500 TGTGGGCTTTGAAAGG-GTGCCACTGTCGT
1 TGTGGGCTTTGAAAGGAGTGCCACTGAC-T
*
4048529 GCGTGGGCTTTGAAAGGAGTGCCACTGACT
1 -TGTGGGCTTTGAAAGGAGTGCCACTGACT
4048559 TGTGGGCTTTGAAAGG-GTGCCACTGACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
*
4048587 TGTGGGCTTTGAAAAGAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
*
4048616 TGTGGGCTTTGAAAGGAGTGCCACTAACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
* *
4048645 TGTGGGCTTTGAAAAG-GTGCCACTAACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
* *
4048673 TGTGGGCTTTGAAAAGAGTGCCACTGATT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
4048702 TGTGGGCTTTGAAAGGAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
*
4048731 TGTGGGCTTTGAAAGGAGTGCCACTAACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
*
4048760 TGTAGGCTTTGAAAGG-GTGCCACTGACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
*
4048788 TGTGGGCTTTGAAAGGAGTGCCACCGACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
4048817 TGTGGGCTTTGAAAGG-GTGCCACTGACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
*
4048845 TGTGGGCTTTGAAAAGAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
*
4048874 TGTGGGCTTTGAAAGGAGTGCCACTGCCT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
4048903 TGTGGGCTTTGAAAGG-GTGCCACTGACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
* *
4048931 TGTGGGCTTTGAAAAGAGTGCCACTGATT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
4048960 TGTGGGCTTTGAAAGGAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACT
4048989 TGTGGGCTTTGAAAGG
1 TGTGGGCTTTGAAAGG
4049005 TTTTTTTTAA
Statistics
Matches: 1071, Mismatches: 85, Indels: 70
0.87 0.07 0.06
Matches are distributed among these distances:
27 37 0.03
28 509 0.48
29 345 0.32
30 131 0.12
31 49 0.05
ACGTcount: A:0.22, C:0.18, G:0.33, T:0.28
Consensus pattern (29 bp):
TGTGGGCTTTGAAAGGAGTGCCACTGACT
Found at i:4049004 original size:86 final size:86
Alignment explanation
Indices: 4047785--4049004 Score: 1605
Period size: 86 Copynumber: 14.2 Consensus size: 86
4047775 CACTGACACG
* ** * *
4047785 TGTGGGCTTTGAATAGAGTGTTACTAACTTGCGTGGGCTTT-AAAAGGGTGCCACTGACTTGCGT
1 TGTGGGCTTTGAA-AGGGTGCCACTGACTT--GTGGGCTTTGAAAAGAGTGCCACTGACTT--GT
4047849 GGGCTTTGAAAGGA-TGCCACTGACT
61 GGGCTTTGAAAGGAGTGCCACTGACT
* * *
4047874 TGTGGGCTTTGAAAGAGTGCCACTGACTCGTGGGCTTTG-AAAGAGTGCCACTGACTCGTGGGCT
1 TGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCT
*
4047938 TTGAGAAAG-GTGCCACTGACT
66 TTGA-AAGGAGTGCCACTGACT
* * * * *
4047959 CGTGGGCTTTGAAAAGGTGCCACTAACTTGCGTGGGCTTT-AAAAGGGTGCCACTAACTTGCGTG
1 TGTGGGCTTTGAAAGGGTGCCACTGACTT--GTGGGCTTTGAAAAGAGTGCCACTGACTT--GTG
* *
4048023 GGCTTTGAAAAGA-TGCCACGGACT
62 GGCTTTGAAAGGAGTGCCACTGACT
* * * *
4048047 TGTGGGTTTTGAAAGAGTGCCACTGACTCGTGGGCTTTGAAAAG-GTGCCACTGACTCGTGGGC-
1 TGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCT
4048110 TTGAAAGG-GTGCCACTGACT
66 TTGAAAGGAGTGCCACTGACT
* * * *
4048130 CGTGGGCTTTAAAAGGAGTGCCATTGACTTGTGTGGGCTTTG-AAAGGGTGCCACTGACTTGTGG
1 TGTGGGCTTTGAAAGG-GTGCCACTGAC-T-TGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGG
* * *
4048194 GCTTT-AAAAGAGTGCCACTAAAT
63 GCTTTGAAAGGAGTGCCACTGACT
* * * * *
4048217 TGTTGGCTTTGCAAGGGTGCCACTAACTTATGGGCTTTG-AAAGAGTGCCACTGAATTGTGGGCT
1 TGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCT
* *
4048281 TCGCAAGG-GTGCCACTGACT
66 TTGAAAGGAGTGCCACTGACT
* * * *
4048301 TGTGGGCTTCGAAAGGGTGCCACTAACTTGTGGGCTTTG-AAAGAGTGCCACTGAATTATGGGCT
1 TGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCT
* *
4048365 TCGCAAGG-GTGCCACTGACT
66 TTGAAAGGAGTGCCACTGACT
* * * *
4048385 TGTGGGCTTTGAAAGAGTGCCACTGACTCGTGGGATTTGAAAAG-GTGCCACTGACTCGTGGGCT
1 TGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCT
*
4048449 TTGAAAAG-GTGCCACTGACT
66 TTGAAAGGAGTGCCACTGACT
* * * *
4048469 TGCGTGGGCTTTAAAAGGAGTGCCACTGACTTGTGGGCTTTG-AAAGGGTGCCACTGTCGTGCGT
1 T--GTGGGCTTTGAAAGG-GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGAC-T-TGT
4048533 GGGCTTTGAAAGGAGTGCCACTGACT
61 GGGCTTTGAAAGGAGTGCCACTGACT
4048559 TGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCT
1 TGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCT
*
4048624 TTGAAAGGAGTGCCACTAACT
66 TTGAAAGGAGTGCCACTGACT
* * *
4048645 TGTGGGCTTTGAAAAGGTGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTGATTTGTGGGCT
1 TGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCT
4048710 TTGAAAGGAGTGCCACTGACT
66 TTGAAAGGAGTGCCACTGACT
* * *
4048731 TGTGGGCTTTGAAAGGAGTGCCACTAACTTGTAGGCTTTG-AAAGGGTGCCACTGACTTGTGGGC
1 TGTGGGCTTTGAAAGG-GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGC
*
4048795 TTTGAAAGGAGTGCCACCGACT
65 TTTGAAAGGAGTGCCACTGACT
4048817 TGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCT
1 TGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCT
*
4048882 TTGAAAGGAGTGCCACTGCCT
66 TTGAAAGGAGTGCCACTGACT
*
4048903 TGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGATTTGTGGGCT
1 TGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCT
4048968 TTGAAAGGAGTGCCACTGACT
66 TTGAAAGGAGTGCCACTGACT
4048989 TGTGGGCTTTGAAAGG
1 TGTGGGCTTTGAAAGG
4049005 TTTTTTTTAA
Statistics
Matches: 1009, Mismatches: 93, Indels: 61
0.87 0.08 0.05
Matches are distributed among these distances:
83 29 0.03
84 219 0.22
85 72 0.07
86 429 0.43
87 130 0.13
88 78 0.08
89 39 0.04
90 13 0.01
ACGTcount: A:0.22, C:0.18, G:0.33, T:0.28
Consensus pattern (86 bp):
TGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCT
TTGAAAGGAGTGCCACTGACT
Found at i:4049900 original size:52 final size:51
Alignment explanation
Indices: 4049684--4050007 Score: 341
Period size: 51 Copynumber: 6.3 Consensus size: 51
4049674 TATTTCCGAA
* * * * **
4049684 GGGATACTCCAATCCCGGTTTCATTTCCAAAACA-TCAA-TTTCTCTTAATCG
1 GGGATACTCCAACCCCGATTTTATTTCTAAAACACT-AATTTTC-CACAATCG
* * *
4049735 GGGATACTCCAACTCCGATTTTATTTCTAAAACA-TCCATTTTCCATAATCG
1 GGGATACTCCAACCCCGATTTTATTTCTAAAACACT-AATTTTCCACAATCG
* *
4049786 GGGATACTCCAACTCCGATTTTATTTCTAAAATACTAATTTTCCACAATCG
1 GGGATACTCCAACCCCGATTTTATTTCTAAAACACTAATTTTCCACAATCG
* *
4049837 GGGATACTCCAACCCCGGTTTTATTGCTAAAACACTAATTTTTCCACAATCG
1 GGGATACTCCAACCCCGATTTTATTTCTAAAACACTAA-TTTTCCACAATCG
* * **
4049889 GGGATACTCCAACCCCGGTTTTATTT-TCAAAACACCAATTTTCCTTTAATCG
1 GGGATACTCCAACCCCGATTTTATTTCT-AAAACACTAATTTTCC-ACAATCG
* * * * *
4049941 GGCATACTCCAACTCCGATTTTATTTCCAAACACACCAATTTTTTCACAATCG
1 GGGATACTCCAACCCCGATTTTATTTCTAAA-ACACTAA-TTTTCCACAATCG
*
4049994 AGGATACTCCAACC
1 GGGATACTCCAACC
4050008 TCGTTATTTC
Statistics
Matches: 237, Mismatches: 28, Indels: 14
0.85 0.10 0.05
Matches are distributed among these distances:
51 126 0.53
52 83 0.35
53 23 0.10
54 5 0.02
ACGTcount: A:0.29, C:0.27, G:0.11, T:0.33
Consensus pattern (51 bp):
GGGATACTCCAACCCCGATTTTATTTCTAAAACACTAATTTTCCACAATCG
Found at i:4050095 original size:79 final size:78
Alignment explanation
Indices: 4049995--4050226 Score: 227
Period size: 79 Copynumber: 2.9 Consensus size: 78
4049985 TCACAATCGA
* * **
4049995 GGATACTCCAACCTCGTTATTTCATCGGGGATACTCCAACCCCGTTACCATTCCCAAAATATTGA
1 GGATACTCCAACCCCGTTATTTCA-AGGGGATACTCCAACCCCGTTATTATTCCCAAAATATTGA
*
4050060 TTTCTCATAATTGG
65 TTTCTCATAACTGG
* * * ** * *
4050074 GGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAATCCCGATT-TTTTTTTC-TAATCATC
1 GGATACTCCAACCCCGTTATTT-CAAGGGGATACTCCAACCCCG-TTATTATTCCCAAAAT-ATT
*
4050137 GATTTCTCACAACTGG
63 GATTTCTCATAACTGG
* * *
4050153 GGATACTCCAGCCCCGTCATTTTCAAGGGGACACTCCAACCCCGTTATTA-TCTCCAAAATATTA
1 GGATACTCCAACCCCGTTA-TTTCAAGGGGATACTCCAACCCCGTTATTATTC-CCAAAATATT-
*
4050217 AATTTCTCAT
63 GATTTCTCAT
4050227 CGAGAAATAT
Statistics
Matches: 120, Mismatches: 25, Indels: 15
0.75 0.16 0.09
Matches are distributed among these distances:
78 6 0.05
79 97 0.81
80 17 0.14
ACGTcount: A:0.26, C:0.28, G:0.14, T:0.32
Consensus pattern (78 bp):
GGATACTCCAACCCCGTTATTTCAAGGGGATACTCCAACCCCGTTATTATTCCCAAAATATTGAT
TTCTCATAACTGG
Found at i:4053563 original size:17 final size:17
Alignment explanation
Indices: 4053541--4053577 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
4053531 GAATGCACAT
4053541 AATAATCATAATGAAAA
1 AATAATCATAATGAAAA
4053558 AATAATCATAATGAAAA
1 AATAATCATAATGAAAA
4053575 AAT
1 AAT
4053578 GTTAGTATAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.65, C:0.05, G:0.05, T:0.24
Consensus pattern (17 bp):
AATAATCATAATGAAAA
Found at i:4055223 original size:20 final size:20
Alignment explanation
Indices: 4055200--4055248 Score: 62
Period size: 23 Copynumber: 2.3 Consensus size: 20
4055190 CTGGACATGT
*
4055200 TAAAGATGCATGAAACATAA
1 TAAAAATGCATGAAACATAA
4055220 TAAAAAAAATGCATGAAACATAA
1 T---AAAAATGCATGAAACATAA
4055243 TAAAAA
1 TAAAAA
4055249 AAATGCATGG
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
20 6 0.24
23 19 0.76
ACGTcount: A:0.63, C:0.08, G:0.10, T:0.18
Consensus pattern (20 bp):
TAAAAATGCATGAAACATAA
Found at i:4055235 original size:23 final size:23
Alignment explanation
Indices: 4055205--4055257 Score: 106
Period size: 23 Copynumber: 2.3 Consensus size: 23
4055195 CATGTTAAAG
4055205 ATGCATGAAACATAATAAAAAAA
1 ATGCATGAAACATAATAAAAAAA
4055228 ATGCATGAAACATAATAAAAAAA
1 ATGCATGAAACATAATAAAAAAA
4055251 ATGCATG
1 ATGCATG
4055258 GTCAAAGGCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.60, C:0.09, G:0.11, T:0.19
Consensus pattern (23 bp):
ATGCATGAAACATAATAAAAAAA
Found at i:4056197 original size:20 final size:19
Alignment explanation
Indices: 4056168--4056242 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 19
4056158 AAAAAGACAT
4056168 AATGTATCGATACATTGAA
1 AATGTATCGATACATTGAA
* *
4056187 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTGA-A
* *
4056208 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTG-AA
4056228 AATGTATCGATACAT
1 AATGTATCGATACAT
4056243 CTGGGTAAAA
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.41, C:0.12, G:0.13, T:0.33
Consensus pattern (19 bp):
AATGTATCGATACATTGAA
Found at i:4056225 original size:40 final size:39
Alignment explanation
Indices: 4056165--4056242 Score: 120
Period size: 40 Copynumber: 2.0 Consensus size: 39
4056155 GGTAAAAAGA
*
4056165 CATAATGTATCGATACATTGAAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
4056204 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
4056243 CTGGGTAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
39 4 0.11
40 31 0.89
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.33
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:4060003 original size:55 final size:55
Alignment explanation
Indices: 4059911--4060926 Score: 1122
Period size: 55 Copynumber: 17.9 Consensus size: 55
4059901 CCTTTTTTCT
**
4059911 TTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGATGCC
1 TTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACACC
* * * * *
4059966 TTTCAAAGCCAACACAAGTTGGTGGCA-TTTTCTAGTCCTCAAAGAGCAAGATTCTTTTTCT
1 TTTCAAAGCCCACACAAGTTGGTGGCACCTTTC-AGTCCTCAAAGAGCAGGA--C----ACC
4060027 TTTCAAAGCCCACACAAGTTGGTGGCACC-TTCTAGTCCTCAAAGAGCAGGACACC
1 TTTCAAAGCCCACACAAGTTGGTGGCACCTTTC-AGTCCTCAAAGAGCAGGACACC
*
4060082 TCTT-AAAGCCCACATAAGTTGGTGGCACCTTTCCAGTCCTCAAAGAGCAGGACACC
1 T-TTCAAAGCCCACACAAGTTGGTGGCACCTTT-CAGTCCTCAAAGAGCAGGACACC
* *
4060138 TCTT-AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAAGACACC
1 T-TTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACACC
* * *
4060193 TTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCTAGTCCTCAAAGAGCAGGATGCTTTTTCT
1 TTTCAAAGCCCACACAAGTTGGTGGCACCTTTC-AGTCCTCAAAGAGCAGGA--C----ACC
* **
4060254 TTTCAAAGCCCGCACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGATGCC
1 TTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACACC
* ** * * *
4060309 TTTCAAAGCCCACACAAGTTGGTAG-AATTTTCAGTCCTCAAAGAGGAGGATGCTTTTTCT
1 TTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGA--C----ACC
* *
4060369 TTTCAAAGCCCATACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACACC
1 TTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACACC
*
4060424 TTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGACACC
1 TTTCAAAGCCCACACAAGTTGGTGGCACCTTT-CAGTCCTCAAAGAGCAGGACACC
4060479 TCTT-AAAGCCCACACAAGTTGGTGGCACC-TTCTAGTCCTCAAAGAGCAGGACACC
1 T-TTCAAAGCCCACACAAGTTGGTGGCACCTTTC-AGTCCTCAAAGAGCAGGACACC
* * *
4060534 TCTT-AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCTTCAAAGAGCAGGATGCTTTTTCT
1 T-TTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGA--C----ACC
** * * * *
4060595 TTTCAAAGCCCACACAAGTTGGTGGCATTTTTTAGTCCTCAAAGAGCAGGTTGCTTTTTCT
1 TTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGG--AC----ACC
* *
4060656 TTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGTAGGACACC
1 TTTCAAAGCCCACACAAGTTGGTGGCACCTTT-CAGTCCTCAAAGAGCAGGACACC
* *
4060711 TCTCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGACACC
1 TTTCAAAGCCCACACAAGTTGGTGGCACCTTT-CAGTCCTCAAAGAGCAGGACACC
* *
4060766 TCTT-AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAAAGCAGGACGCC
1 T-TTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACACC
* * * *
4060821 TTTGAAAGCCCACACAAGTTGGTGGCACATTTTAGTCCTCAAAGAGCAGGACGCC
1 TTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACACC
** * *
4060876 TTTCAAAGCCCACATGAGTTGGTGGCACTTTTTAGTCCTCAAAGAGCAGGA
1 TTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGA
4060927 TACACTTTAT
Statistics
Matches: 845, Mismatches: 71, Indels: 90
0.84 0.07 0.09
Matches are distributed among these distances:
54 38 0.04
55 492 0.58
56 66 0.08
57 3 0.00
59 3 0.00
60 30 0.04
61 209 0.25
62 4 0.00
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (55 bp):
TTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACACC
Found at i:4060687 original size:33 final size:33
Alignment explanation
Indices: 4060589--4060687 Score: 84
Period size: 33 Copynumber: 3.2 Consensus size: 33
4060579 GCAGGATGCT
4060589 TTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA
1 TTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA
* * * ** * *
4060622 --TT-TTTT---AGTCCTCAAAGAGCAGGTTGCT
1 TTTTCTTTTCAAAGCCCACACA-AGTTGGTGGCA
4060650 TTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA
1 TTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA
4060683 TTTTC
1 TTTTC
4060688 CAGTCCTCAA
Statistics
Matches: 45, Mismatches: 14, Indels: 14
0.62 0.19 0.19
Matches are distributed among these distances:
27 7 0.16
28 7 0.16
30 6 0.13
31 6 0.13
33 12 0.27
34 7 0.16
ACGTcount: A:0.22, C:0.22, G:0.18, T:0.37
Consensus pattern (33 bp):
TTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA
Found at i:4060736 original size:287 final size:281
Alignment explanation
Indices: 4059915--4060925 Score: 1348
Period size: 287 Copynumber: 3.6 Consensus size: 281
4059905 TTTTCTTTTC
* *
4059915 AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCAACA
1 AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACA
* * *
4059980 CAAGTTGGTGGCA-TTTTCTAGTCCTCAAAGAGCAAGATTCTTTTTCTTTTCAAAGCCCACACAA
66 CAAGTTGGTGGCACCTTTC-AGTCCTCAAAGAGCAGGATGC-----C-TTTCAAAGCCCACACAA
* * * ** * *
4060044 GTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGG-AC---ACCTCTT-AAAGCCCACATAAGTTGG
124 GTTGGTGGCACTTTTTAGTCCTCAAAGAGCAGGTGCTTTTTCTTTTCAAAGCCCACACAAGTTGG
* *
4060104 TGGCACCTTTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTT
189 TGGCACCTTTCCAGTCCTCAAAGAGCAGGACACCTCTCAAAGCCCACACAAGTTGGTGGCA-TTT
* *
4060169 T-CAGTCCCCAAAGAGCAAGACACCT-TT
253 TCCAGTCCTCAAAGAGCAGGACACCTCTT
* *
4060196 CAAAGCCCACACAAGTTGGTGGCA-TTTTCTAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAA
1 -AAAGCCCACACAAGTTGGTGGCACCTTTC-AGTCCTCAAAGAGCAGGACGC-----C-TTTCAA
*
4060260 AGCCCGCACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACA
58 AGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACA
* * * * *
4060325 AGTTGGTAG-AATTTTCAGTCCTCAAAGAGGAGGATGCTTTTTCTTTTCAAAGCCCATACAAGTT
123 AGTTGGTGGCACTTTTTAGTCCTCAAAGAGCAGG-TGCTTTTTCTTTTCAAAGCCCACACAAGTT
* *
4060389 GGTGGCACCTTT-CAGTCCCCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATT
187 GGTGGCACCTTTCCAGTCCTCAAAGAGCAGGACACCTCTCAAAGCCCACACAAGTTGGTGGCATT
4060453 TTCCAGTCCTCAAAGAGCAGGACACCTCTT
252 TTCCAGTCCTCAAAGAGCAGGACACCTCTT
*
4060483 AAAGCCCACACAAGTTGGTGGCACC-TTCTAGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCA
1 AAAGCCCACACAAGTTGGTGGCACCTTTC-AGTCCTCAAAGAGCAGGACGCCT-TTCAAAGCCCA
*
4060546 CACAAGTTGGTGGCACCTTTCAGTCTTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACA
64 CACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGATGC-----C-TTTCAAAGCCCACACA
*
4060611 AGTTGGTGGCATTTTTTAGTCCTCAAAGAGCAGGTTGCTTTTTCTTTTCAAAGCCCACACAAGTT
123 AGTTGGTGGCACTTTTTAGTCCTCAAAGAGCAGG-TGCTTTTTCTTTTCAAAGCCCACACAAGTT
* *
4060676 GGTGGCA-TTTTCCAGTCCTCAAAGAGTAGGACACCTCTCAAAGCCCACACAAGTTGGTGGCATT
187 GGTGGCACCTTTCCAGTCCTCAAAGAGCAGGACACCTCTCAAAGCCCACACAAGTTGGTGGCATT
4060740 TTCCAGTCCTCAAAGAGCAGGACACCTCTT
252 TTCCAGTCCTCAAAGAGCAGGACACCTCTT
* *
4060770 AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAAAGCAGGACGCCTTTGAAAGCCCACA
1 AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACA
* * * **
4060835 CAAGTTGGTGGCACATTTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACATGAGTTGGTG
66 CAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTG
4060900 GCACTTTTTAGTCCTCAAAGAGCAGG
131 GCACTTTTTAGTCCTCAAAGAGCAGG
4060926 ATACACTTTA
Statistics
Matches: 653, Mismatches: 48, Indels: 57
0.86 0.06 0.08
Matches are distributed among these distances:
280 49 0.08
281 73 0.11
282 69 0.11
283 2 0.00
285 4 0.01
286 148 0.23
287 257 0.39
288 47 0.07
289 4 0.01
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (281 bp):
AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACA
CAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTG
GCACTTTTTAGTCCTCAAAGAGCAGGTGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACC
TTTCCAGTCCTCAAAGAGCAGGACACCTCTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCC
TCAAAGAGCAGGACACCTCTT
Found at i:4060859 original size:342 final size:339
Alignment explanation
Indices: 4059875--4060927 Score: 1514
Period size: 342 Copynumber: 3.1 Consensus size: 339
4059865 CTCTTTTAGC
*
4059875 CCTTCCAGTCCTCAAAGAGCAGGATGCCTTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACC
1 CCTTTCAGTCCTCAAAGAGCAGGATG-C-TTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACC
* *
4059940 TTTCAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCAACACAAGTTGGTGGCATTTTCTAGTCCT
64 TTTCAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCT
* * *
4060005 CAAAGAGCAAGATTCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAA
129 CAAAGAGCAGGA-TC---TTCTTTTCAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAA
*
4060070 GAGCAGGACACCTCTTAAAGCCCACATAAGTTGGTGGCACCTTTCCAGTCCTCAAAGAGCAGGAC
190 GAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTCCAGTCCTCAAAGAGCAGGAC
* * *
4060135 ACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAAGACACCTTTCAAA
255 ACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACACCTTTCAAA
4060200 GCCCACACAAGTTGGTGGCA
320 GCCCACACAAGTTGGTGGCA
* *
4060220 -TTTTCTAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCGCACAAGTTGGTGGCACCT
1 CCTTTC-AGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCT
* *
4060284 TTCAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTAGAATTTT-CAGTCCTC
65 TTCAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTC
* * *
4060348 AAAGAGGAGGATGCTTTTTCTTTTCAAAGCCCATACAAGTTGGTGGCACCTTT-CAGTCCCCAAA
130 AAAGAGCAGGAT-C---TTCTTTTCAAAGCCCACACAAGTTGGTGGCA-CTTTCCAGTCCTCAAA
*
4060412 GAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGA
190 GAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTTCCAGTCCTCAAAGAGCAGGA
*
4060475 CACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACACCTCTT-A
254 CACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACACCT-TTCA
4060539 AAGCCCACACAAGTTGGTGGCA
318 AAGCCCACACAAGTTGGTGGCA
* **
4060561 CCTTTCAGTCTTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCATTTT
1 CCTTTCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTT
* *
4060626 TTAGTCCTCAAAGAGCAGGTTGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAG
66 TCAGTCCTCAAAGAGCAGGATGC-----C-TTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAG
* * * * *
4060691 TCCTCAAAGAGTAGGA-C-ACCTCTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAA
125 TCCTCAAAGAGCAGGATCTTCTTTTCAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAA
*
4060754 GAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTT-CAGTCCTCAAAAAGCAGGAC
190 GAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTCCAGTCCTCAAAGAGCAGGAC
* * *
4060818 GCCT-TTGAAAGCCCACACAAGTTGGTGGCACATTTTAGTCCTCAAAGAGCAGGACGCCTTTCAA
255 ACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACACCTTTCAA
**
4060882 AGCCCACATGAGTTGGTGGCA
319 AGCCCACACAAGTTGGTGGCA
* *
4060903 CTTTTTAGTCCTCAAAGAGCAGGAT
1 CCTTTCAGTCCTCAAAGAGCAGGAT
4060928 ACACTTTATT
Statistics
Matches: 644, Mismatches: 46, Indels: 39
0.88 0.06 0.05
Matches are distributed among these distances:
341 188 0.29
342 286 0.44
343 97 0.15
344 4 0.01
345 20 0.03
346 2 0.00
347 29 0.05
348 18 0.03
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.25
Consensus pattern (339 bp):
CCTTTCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTT
TCAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCA
AAGAGCAGGATCTTCTTTTCAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAG
GACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTCCAGTCCTCAAAGAGCAGGACACCTCT
TAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCAC
ACAAGTTGGTGGCA
Found at i:4061921 original size:21 final size:21
Alignment explanation
Indices: 4061895--4061971 Score: 102
Period size: 21 Copynumber: 3.7 Consensus size: 21
4061885 TTTTTATCCA
4061895 AATGTATCGATACATTTATGG
1 AATGTATCGATACATTTATGG
*
4061916 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTATGG
* **
4061937 AATGTATTGATACATTCTA-CA
1 AATGTATCGATACATT-TATGG
4061958 AATGTATCGATACA
1 AATGTATCGATACA
4061972 AGGTCCCAAC
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
21 48 0.98
22 1 0.02
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.36
Consensus pattern (21 bp):
AATGTATCGATACATTTATGG
Found at i:4062046 original size:13 final size:13
Alignment explanation
Indices: 4062028--4062054 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
4062018 ACATTCAGTA
4062028 AATGTATCGATAC
1 AATGTATCGATAC
4062041 AATGTATCGATAC
1 AATGTATCGATAC
4062054 A
1 A
4062055 TAAGTTTTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:4062168 original size:34 final size:33
Alignment explanation
Indices: 4062105--4062171 Score: 98
Period size: 34 Copynumber: 2.0 Consensus size: 33
4062095 GCCAAGGAAA
*
4062105 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATTATTCTGTGTATCGATACAT
* *
4062138 TGTATTGATACATCTATTCTTTGTATCGATACAT
1 TGTATCGATACAT-TATTCTGTGTATCGATACAT
4062172 CTACAAAGTT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 12 0.40
34 18 0.60
ACGTcount: A:0.25, C:0.15, G:0.13, T:0.46
Consensus pattern (33 bp):
TGTATCGATACATTATTCTGTGTATCGATACAT
Found at i:4064771 original size:52 final size:51
Alignment explanation
Indices: 4064555--4064878 Score: 310
Period size: 51 Copynumber: 6.3 Consensus size: 51
4064545 TATTTTCGAA
* * * * * * **
4064555 GGGATACTCCAATCCCGGTTTCATTTCCAAAACATCAATTTCTCTTAATCG
1 GGGATACTCCAACCCCGATTTTATTTCTAAAACACCAATTTTTCACAATCG
* * * *
4064606 GGGATACTCCAACTCCGATTTTATTTCTAAAACACCCATTTTCCATAATCG
1 GGGATACTCCAACCCCGATTTTATTTCTAAAACACCAATTTTTCACAATCG
* * *
4064657 GGGATACTCCAACTCTGATTTTATTTCTAAAACACTAATTTTTCACAATCG
1 GGGATACTCCAACCCCGATTTTATTTCTAAAACACCAATTTTTCACAATCG
* * * *
4064708 AGGATACTCCAACCCCGGTTTTATTGCTAAAACACTAATTTTTTCACAATCG
1 GGGATACTCCAACCCCGATTTTATTTCTAAAACACCAA-TTTTTCACAATCG
* ** *
4064760 GGGATACTCCAACCCC-AGTTTTATTT-TCAAAACACCAATTTTCCTTTAATCA
1 GGGATACTCCAACCCCGA-TTTTATTTCT-AAAACACCAATTTTTC-ACAATCG
* * * * * *
4064812 GGGAAACTCCAACTCTGATTTTATTTCCAAAAAAACCAATTTTTTCACAATTG
1 GGGATACTCCAACCCCGATTTTATTT-CTAAAACACCAA-TTTTTCACAATCG
*
4064865 AGGATACTCCAACC
1 GGGATACTCCAACC
4064879 TCGTTATTTC
Statistics
Matches: 224, Mismatches: 41, Indels: 14
0.80 0.15 0.05
Matches are distributed among these distances:
51 126 0.56
52 69 0.31
53 24 0.11
54 5 0.02
ACGTcount: A:0.31, C:0.25, G:0.10, T:0.33
Consensus pattern (51 bp):
GGGATACTCCAACCCCGATTTTATTTCTAAAACACCAATTTTTCACAATCG
Found at i:4068027 original size:13 final size:13
Alignment explanation
Indices: 4068009--4068034 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4067999 CAATTTTTTG
4068009 TGTATCGATACAT
1 TGTATCGATACAT
4068022 TGTATCGATACAT
1 TGTATCGATACAT
4068035 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4070457 original size:21 final size:20
Alignment explanation
Indices: 4070411--4070457 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 20
4070401 TTTGATGCTG
4070411 ATTTTGATGAAAAACGAAGT
1 ATTTTGATGAAAAACGAAGT
4070431 -TGTTTGAAGTGAAAAAC-AAGT
1 AT-TTTG-A-TGAAAAACGAAGT
4070452 ATTTTG
1 ATTTTG
4070458 CAAAAGATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
19 1 0.04
20 4 0.17
21 9 0.39
22 9 0.39
ACGTcount: A:0.40, C:0.04, G:0.21, T:0.34
Consensus pattern (20 bp):
ATTTTGATGAAAAACGAAGT
Found at i:4070603 original size:20 final size:20
Alignment explanation
Indices: 4070578--4070654 Score: 73
Period size: 20 Copynumber: 3.6 Consensus size: 20
4070568 ATAATCACCC
4070578 TGTATCGATACAAAGAAAAA
1 TGTATCGATACAAAGAAAAA
* *
4070598 TGTATCGATACATAGAATTTCCAGA
1 TGTATCGATACAAAGAA-----AAA
* *
4070623 TGTATCGATACACAGAAACA
1 TGTATCGATACAAAGAAAAA
4070643 TGTATCGATACA
1 TGTATCGATACA
4070655 TTTTGGACAT
Statistics
Matches: 48, Mismatches: 4, Indels: 10
0.77 0.06 0.16
Matches are distributed among these distances:
20 30 0.62
25 18 0.38
ACGTcount: A:0.43, C:0.16, G:0.16, T:0.26
Consensus pattern (20 bp):
TGTATCGATACAAAGAAAAA
Found at i:4072690 original size:15 final size:15
Alignment explanation
Indices: 4072670--4072700 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
4072660 ATTTCGTTTG
*
4072670 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
4072685 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
4072700 G
1 G
4072701 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:4074533 original size:21 final size:21
Alignment explanation
Indices: 4074504--4074548 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
4074494 AAGTTTTCAT
*
4074504 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
4074524 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
4074546 TTT
1 TTT
4074549 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:4076786 original size:13 final size:13
Alignment explanation
Indices: 4076768--4076793 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4076758 CAATTTTTTG
4076768 TGTATCGATACAT
1 TGTATCGATACAT
4076781 TGTATCGATACAT
1 TGTATCGATACAT
4076794 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4086502 original size:22 final size:23
Alignment explanation
Indices: 4086475--4086528 Score: 101
Period size: 22 Copynumber: 2.4 Consensus size: 23
4086465 TTTCTTCTTT
4086475 CTTTGCTTGTTGTTTTGGTTTTG
1 CTTTGCTTGTTGTTTTGGTTTTG
4086498 C-TTGCTTGTTGTTTTGGTTTTG
1 CTTTGCTTGTTGTTTTGGTTTTG
4086520 CTTTGCTTG
1 CTTTGCTTG
4086529 CTGGAGTGTT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
22 22 0.73
23 8 0.27
ACGTcount: A:0.00, C:0.11, G:0.26, T:0.63
Consensus pattern (23 bp):
CTTTGCTTGTTGTTTTGGTTTTG
Found at i:4087747 original size:3 final size:3
Alignment explanation
Indices: 4087725--4087775 Score: 63
Period size: 3 Copynumber: 18.0 Consensus size: 3
4087715 TAATTAATTA
* *
4087725 ATT ATT ACT ATT -TT ACT ATT ATT ATT A-T ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
4087771 -TT ATT
1 ATT ATT
4087776 TTTTTGTTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
2 6 0.15
3 35 0.85
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:4087774 original size:14 final size:14
Alignment explanation
Indices: 4087725--4087779 Score: 60
Period size: 14 Copynumber: 4.0 Consensus size: 14
4087715 TAATTAATTA
*
4087725 ATTATTACTATTTT
1 ATTATTATTATTTT
* *
4087739 ACTATTATTATTAT
1 ATTATTATTATTTT
4087753 ATTATTATTATTATT
1 ATTATTATTATT-TT
4087768 ATT-TTATT-TTTT
1 ATTATTATTATTTT
4087780 TGTTTTTCAT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
12 2 0.06
13 2 0.06
14 27 0.77
15 4 0.11
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (14 bp):
ATTATTATTATTTT
Found at i:4087774 original size:17 final size:17
Alignment explanation
Indices: 4087725--4087775 Score: 75
Period size: 17 Copynumber: 3.0 Consensus size: 17
4087715 TAATTAATTA
* *
4087725 ATTATTACTATTTTACT
1 ATTATTATTATTTTATT
*
4087742 ATTATTATTATATTATT
1 ATTATTATTATTTTATT
4087759 ATTATTATTATTTTATT
1 ATTATTATTATTTTATT
4087776 TTTTTGTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 30 1.00
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (17 bp):
ATTATTATTATTTTATT
Found at i:4088646 original size:84 final size:84
Alignment explanation
Indices: 4088317--4089368 Score: 644
Period size: 84 Copynumber: 12.5 Consensus size: 84
4088307 AAGGTTAAAA
* * * * ** *
4088317 AGTCTCTAGGGTCAAAGCCGACAGGCAGACTTAAGGGTAAGGAAGTCTTTAGGGTCAAAGCCGAC
1 AGTCTCTAAGGTCAAAGCTGACAGGCAGACTGAA-GGTAAGAAAGTCTCCAGGGTCAAAGTCGAC
* * *
4088382 AAGCAGACTTAAGGGTAAGGA
65 AGGCAGACTTGA-GGTAAGGC
* * * * * * ** * *
4088403 AGTCTCCAAGGTCAAAGCCGATAGGTAGACTTG-TGATAAGGTAGTCTCTAGGGTCAAAGTTGAC
1 AGTCTCTAAGGTCAAAGCTGACAGGCAGAC-TGAAGGTAAGAAAGTCTCCAGGGTCAAAGTCGAC
* * *
4088467 AGACAAAC-TGAAGGT-AGGAA
65 AGGCAGACTTG-AGGTAAGG-C
* * * *
4088487 AGTCTCCT-GGGTCAAAGCCGACATGCAGACTTGAGGGTAAGAAAGTCTCCAGGGTCAAAGTCGA
1 AGTCT-CTAAGGTCAAAGCTGACAGGCAGAC-TGAAGGTAAGAAAGTCTCCAGGGTCAAAGTCGA
*
4088551 CAGACAGACTTGAGGTAAGGC
64 CAGGCAGACTTGAGGTAAGGC
** *
4088572 AGTCTCTAAGGTCAAAGCTGACAGAAAGACTGAAGGTAGGAAAGTCTCCAGGGTCAAAGTCGACA
1 AGTCTCTAAGGTCAAAGCTGACAGGCAGACTGAAGGTAAGAAAGTCTCCAGGGTCAAAGTCGACA
* * * * *
4088637 GGTAAACTTGAGCTGAGAC
66 GGCAGACTTGAGGTAAGGC
* * * * * * *
4088656 AGTCTCTAGGGTCAAAG-TCAATAGGTAGATTGAGGGTAAGAAAGTCTCCAAGGTCAAAG-CAGA
1 AGTCTCTAAGGTCAAAGCT-GACAGGCAGACTGAAGGTAAGAAAGTCTCCAGGGTCAAAGTC-GA
* * * * *
4088719 CATGCAAACTGGAAGTAAGAC
64 CAGGCAGACTTGAGGTAAGGC
* * * * * *
4088740 AGTCTCCAAGGTCAAAGCTGACAGGCAGACTGAGGGTAAGAAAATCTCCAAGGTCAAAGCCGATA
1 AGTCTCTAAGGTCAAAGCTGACAGGCAGACTGAAGGTAAGAAAGTCTCCAGGGTCAAAGTCGACA
** *
4088805 AACAGACTTGAGGTGAGGC
66 GGCAGACTTGAGGTAAGGC
* * * * * **
4088824 AGTCTCCAATGTCAAAGTTGACTGGCAGACTGAAAGTAAGAAAGTCTCCAACGTCAAAG-CTGAC
1 AGTCTCTAAGGTCAAAGCTGACAGGCAGACTGAAGGTAAGAAAGTCTCCAGGGTCAAAGTC-GAC
* *
4088888 AGGCAGACTTGAGGTGAGGT
65 AGGCAGACTTGAGGTAAGGC
* ** * * * * * *
4088908 AGTCTCTAGGGTCAAAGCCAATAGGCAAACT-AAGAGTAAAAAAGTCTCCAAGGTCAAAGCCGAT
1 AGTCTCTAAGGTCAAAGCTGACAGGCAGACTGAAG-GTAAGAAAGTCTCCAGGGTCAAAGTCGAC
* * *
4088972 AGGCAGACTTGAGATGAGAC
65 AGGCAGACTTGAGGTAAGGC
* * * * * * ** * *
4088992 GGTCTTTAAGGTCAAAGCTGAGAAGCAGATTGAGGGTAAGAAAGTCTTTAGGGTTAAAG-CTGAT
1 AGTCTCTAAGGTCAAAGCTGACAGGCAGACTGAAGGTAAGAAAGTCTCCAGGGTCAAAGTC-GAC
* *
4089056 TGTCAGACTTGAGGTAAGGC
65 AGGCAGACTTGAGGTAAGGC
* * * * * * * * ** *
4089076 AATCTC-CAGAGTCAAA-CCGATAGGCATATTGAAGGTAGGAAA-ACTTTTAGGGTCAAAGGCGA
1 AGTCTCTAAG-GTCAAAGCTGACAGGCAGACTGAAGGTAAGAAAGTC-TCCAGGGTCAAAGTCGA
* * ** *
4089138 CAAGCAGACTTAAGGGGAGGT
64 CAGGCAGACTTGAGGTAAGGC
* * * * * *
4089159 AGTCTCCAAGGTCAAAGCT-AGCAGGTAGA-TTAAGGGTAAAAAAGTCTCCAAGGTCAAAGCCGA
1 AGTCTCTAAGGTCAAAGCTGA-CAGGCAGACTGAA-GGTAAGAAAGTCTCCAGGGTCAAAGTCGA
* * * * *
4089222 CATGCAAACTTCAGGTGAGGT
64 CAGGCAGACTTGAGGTAAGGC
* * * * *
4089243 AGTCTCTATGGTCAAAG-TCGATAGGCAGACTGAGGGTAAGAAAGTCTCTAGAGTCAAAG-CTGA
1 AGTCTCTAAGGTCAAAGCT-GACAGGCAGACTGAAGGTAAGAAAGTCTCCAGGGTCAAAGTC-GA
* * *
4089306 CAGGCTGATTTAAGGTAAGGC
64 CAGGCAGACTTGAGGTAAGGC
* * * * * *
4089327 AATCTCTAGGGTCAAAACCGACATGCAAACTGAAGGT-AGAAA
1 AGTCTCTAAGGTCAAAGCTGACAGGCAGACTGAAGGTAAGAAA
4089369 AATTCAAATG
Statistics
Matches: 755, Mismatches: 181, Indels: 63
0.76 0.18 0.06
Matches are distributed among these distances:
82 1 0.00
83 80 0.11
84 543 0.72
85 99 0.13
86 31 0.04
87 1 0.00
ACGTcount: A:0.35, C:0.17, G:0.28, T:0.19
Consensus pattern (84 bp):
AGTCTCTAAGGTCAAAGCTGACAGGCAGACTGAAGGTAAGAAAGTCTCCAGGGTCAAAGTCGACA
GGCAGACTTGAGGTAAGGC
Found at i:4088702 original size:42 final size:43
Alignment explanation
Indices: 4088315--4089349 Score: 567
Period size: 42 Copynumber: 24.6 Consensus size: 43
4088305 AAAAGGTTAA
*
4088315 AAAGTCTCTAGGGTCAAAGCCGACAGGCAGACTTAAGGGTAAG
1 AAAGTCTCTAGGGTCAAAGCCGACAGGCAGACTTGAGGGTAAG
* * * *
4088358 GAAGTCTTTAGGGTCAAAGCCGACAAGCAGACTTAAGGGTAAG
1 AAAGTCTCTAGGGTCAAAGCCGACAGGCAGACTTGAGGGTAAG
* * * * * * *
4088401 GAAGTCTCCAAGGTCAAAGCCGATAGGTAGACTTG-TGATAAG
1 AAAGTCTCTAGGGTCAAAGCCGACAGGCAGACTTGAGGGTAAG
** ** * * * *
4088443 GTAGTCTCTAGGGTCAAAGTTGACAGACAAAC-TGAAGGTAGG
1 AAAGTCTCTAGGGTCAAAGCCGACAGGCAGACTTGAGGGTAAG
*
4088485 AAAGTCTCCT-GGGTCAAAGCCGACATGCAGACTTGAGGGTAAG
1 AAAGTCT-CTAGGGTCAAAGCCGACAGGCAGACTTGAGGGTAAG
* * *
4088528 AAAGTCTCCAGGGTCAAAGTCGACAGACAGACTTGA-GGTAAG
1 AAAGTCTCTAGGGTCAAAGCCGACAGGCAGACTTGAGGGTAAG
** * * ** * *
4088570 GCAGTCTCTAAGGTCAAAGCTGACAGAAAGAC-TGAAGGTAGG
1 AAAGTCTCTAGGGTCAAAGCCGACAGGCAGACTTGAGGGTAAG
* * * * * *
4088612 AAAGTCTCCAGGGTCAAAGTCGACAGGTAAACTTGA-GCTGAG
1 AAAGTCTCTAGGGTCAAAGCCGACAGGCAGACTTGAGGGTAAG
* * * * *
4088654 ACAGTCTCTAGGGTCAAAGTCAATAGGTAGA-TTGAGGGTAAG
1 AAAGTCTCTAGGGTCAAAGCCGACAGGCAGACTTGAGGGTAAG
* * * * * * *
4088696 AAAGTCTCCAAGGTCAAAGCAGACATGCAAACTGGA-AGTAAG
1 AAAGTCTCTAGGGTCAAAGCCGACAGGCAGACTTGAGGGTAAG
* * * *
4088738 ACAGTCTCCAAGGTCAAAGCTGACAGGCAGAC-TGAGGGTAAG
1 AAAGTCTCTAGGGTCAAAGCCGACAGGCAGACTTGAGGGTAAG
* * * * ** *
4088780 AAAATCTCCAAGGTCAAAGCCGATAAACAGACTTGA-GGTGAG
1 AAAGTCTCTAGGGTCAAAGCCGACAGGCAGACTTGAGGGTAAG
** * ** ** * **
4088822 GCAGTCTCCAATGTCAAAGTTGACTGGCAGAC-TGAAAGTAAG
1 AAAGTCTCTAGGGTCAAAGCCGACAGGCAGACTTGAGGGTAAG
* ** * *
4088864 AAAGTCTCCAACGTCAAAGCTGACAGGCAGACTTGA-GGTGAG
1 AAAGTCTCTAGGGTCAAAGCCGACAGGCAGACTTGAGGGTAAG
** * * * * * *
4088906 GTAGTCTCTAGGGTCAAAGCCAATAGGCAAAC-TAAGAGTAAA
1 AAAGTCTCTAGGGTCAAAGCCGACAGGCAGACTTGAGGGTAAG
* * * * *
4088948 AAAGTCTCCAAGGTCAAAGCCGATAGGCAGACTTGA-GATGAG
1 AAAGTCTCTAGGGTCAAAGCCGACAGGCAGACTTGAGGGTAAG
** * * * * *
4088990 ACGGTCTTTAAGGTCAAAGCTGAGAAGCAGA-TTGAGGGTAAG
1 AAAGTCTCTAGGGTCAAAGCCGACAGGCAGACTTGAGGGTAAG
* * * ** *
4089032 AAAGTCTTTAGGGTTAAAGCTGATTGTCAGACTTGA-GGTAAGG
1 AAAGTCTCTAGGGTCAAAGCCGACAGGCAGACTTGAGGGTAA-G
* * * * * * *
4089075 CAA-TCTCCAGAGTCAAA-CCGATAGGCATA-TTGAAGGTAGG
1 AAAGTCTCTAGGGTCAAAGCCGACAGGCAGACTTGAGGGTAAG
* * * * * *
4089115 AAA-ACTTTTAGGGTCAAAGGCGACAAGCAGACTTAAGGG-GAG
1 AAAGTC-TCTAGGGTCAAAGCCGACAGGCAGACTTGAGGGTAAG
** * * * * * *
4089157 GTAGTCTCCAAGGTCAAAG-CTAGCAGGTAGA-TTAAGGGTAAA
1 AAAGTCTCTAGGGTCAAAGCCGA-CAGGCAGACTTGAGGGTAAG
* * * * * *
4089199 AAAGTCTCCAAGGTCAAAGCCGACATGCAAACTTCA-GGTGAG
1 AAAGTCTCTAGGGTCAAAGCCGACAGGCAGACTTGAGGGTAAG
** * * *
4089241 GTAGTCTCTATGGTCAAAGTCGATAGGCAGAC-TGAGGGTAAG
1 AAAGTCTCTAGGGTCAAAGCCGACAGGCAGACTTGAGGGTAAG
* * * * *
4089283 AAAGTCTCTAGAGTCAAAGCTGACAGGCTGA-TTTAAGGTAAGG
1 AAAGTCTCTAGGGTCAAAGCCGACAGGCAGACTTGAGGGTAA-G
* *
4089326 CAA-TCTCTAGGGTCAAAACCGACA
1 AAAGTCTCTAGGGTCAAAGCCGACA
4089350 TGCAAACTGA
Statistics
Matches: 747, Mismatches: 216, Indels: 59
0.73 0.21 0.06
Matches are distributed among these distances:
40 8 0.01
41 52 0.07
42 544 0.73
43 143 0.19
ACGTcount: A:0.35, C:0.17, G:0.28, T:0.19
Consensus pattern (43 bp):
AAAGTCTCTAGGGTCAAAGCCGACAGGCAGACTTGAGGGTAAG
Found at i:4089577 original size:38 final size:40
Alignment explanation
Indices: 4089520--4089616 Score: 110
Period size: 44 Copynumber: 2.4 Consensus size: 40
4089510 AGATTTGACC
*
4089520 AGGGTGGTAACTAGT-TG-TCA-AATGAGAAAAATCTAACT
1 AGGGTGGTAACCA-TATGATCAGAATGAGAAAAATCTAACT
*
4089558 AGGGTGGTAACCATATGTCAAATCAGAATGAGAAAAATCTGACT
1 AGGGTGGTAACCATATG----ATCAGAATGAGAAAAATCTAACT
4089602 AGGGTGGTAACCATA
1 AGGGTGGTAACCATA
4089617 CGTTAGGCTA
Statistics
Matches: 50, Mismatches: 2, Indels: 8
0.83 0.03 0.13
Matches are distributed among these distances:
37 1 0.02
38 14 0.28
43 3 0.06
44 32 0.64
ACGTcount: A:0.39, C:0.12, G:0.25, T:0.24
Consensus pattern (40 bp):
AGGGTGGTAACCATATGATCAGAATGAGAAAAATCTAACT
Found at i:4093155 original size:82 final size:80
Alignment explanation
Indices: 4092998--4093249 Score: 254
Period size: 82 Copynumber: 3.2 Consensus size: 80
4092988 GTAGCCTCAG
* * * * *
4092998 GCAGCAGTAGCATCCATCAATACCAACAGTAGCT-CAAGCCTCTTCGAGCCCACGAACATGATAG
1 GCAGCAGCAGCATCCATCAATACCGACAGTAG-TGCGAGCCTCTTCCAGCCCACGAACATGGTAG
4093062 CAGC-TCTAGCAGCTTCA
65 CAGCTTC-AGCAG-TTCA
* *
4093079 GGCAGCAGCAGCATCCATCAATACCGACAGTAGTGCGAGCCTCTTCCAACCCACAAACAT-G--G
1 -GCAGCAGCAGCATCCATCAATACCGACAGTAGTGCGAGCCTCTTCCAGCCCACGAACATGGTAG
4093141 CAG--T-AGC--TTCA
65 CAGCTTCAGCAGTTCA
* * * * *
4093152 GCAGCAACAGTATCCATCAATACCGGCAGCAGTGCGAGCCTTTTCCAGCCCACGAACATGGTAGC
1 GCAGCAGCAGCATCCATCAATACCGACAGTAGTGCGAGCCTCTTCCAGCCCACGAACATGGTAGC
*
4093217 AGCTCCAGCAGTTTCTA
66 AGCTTCAGCAG-TTC-A
*
4093234 GCAGCACCAGCATCCA
1 GCAGCAGCAGCATCCA
4093250 CCAACACCAA
Statistics
Matches: 142, Mismatches: 17, Indels: 22
0.78 0.09 0.12
Matches are distributed among these distances:
72 52 0.37
73 5 0.04
75 4 0.03
76 3 0.02
78 4 0.03
79 4 0.03
81 4 0.03
82 66 0.46
ACGTcount: A:0.29, C:0.33, G:0.20, T:0.17
Consensus pattern (80 bp):
GCAGCAGCAGCATCCATCAATACCGACAGTAGTGCGAGCCTCTTCCAGCCCACGAACATGGTAGC
AGCTTCAGCAGTTCA
Found at i:4093167 original size:72 final size:72
Alignment explanation
Indices: 4093069--4093227 Score: 219
Period size: 72 Copynumber: 2.2 Consensus size: 72
4093059 TAGCAGCTCT
* *
4093069 AGCAGCTTCAGGCAGCAGCAGCATCCATCAATACCGACAGTAGTGCGAGCCTCTTCCAACCCACA
1 AGCAGCTTCA-GCAGCAACAGCATCCATCAATACCGACAGCAGTGCGAGCCTCTTCCAACCCACA
4093134 AACATGGC
65 AACATGGC
* * * * * *
4093142 AGTAGCTTCAGCAGCAACAGTATCCATCAATACCGGCAGCAGTGCGAGCCTTTTCCAGCCCACGA
1 AGCAGCTTCAGCAGCAACAGCATCCATCAATACCGACAGCAGTGCGAGCCTCTTCCAACCCACAA
*
4093207 ACATGGT
66 ACATGGC
*
4093214 AGCAGCTCCAGCAG
1 AGCAGCTTCAGCAG
4093228 TTTCTAGCAG
Statistics
Matches: 75, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
72 66 0.88
73 9 0.12
ACGTcount: A:0.29, C:0.33, G:0.22, T:0.16
Consensus pattern (72 bp):
AGCAGCTTCAGCAGCAACAGCATCCATCAATACCGACAGCAGTGCGAGCCTCTTCCAACCCACAA
ACATGGC
Found at i:4103561 original size:82 final size:82
Alignment explanation
Indices: 4103419--4103616 Score: 245
Period size: 82 Copynumber: 2.4 Consensus size: 82
4103409 GTTGATCCCT
* ** * * *
4103419 ACAGTAGCTCGAGCCTCTTCAAGCCCATGAACCCGGCAATAGCTCCAGCAGCTTCAGGCAGTAGC
1 ACAGCAGCTCGAGCCTCTTCAAGCCCACAAACACGACAATAGCTCCAGCAGCTTCAGGCAGCAGC
4103484 AGCATCCATCAATACC-
66 AGCATCCATCAATACCG
* * *
4103500 AGCAGCAGCTCGAGCCTTTTCCAGCCCACAAACACGACAGTAGCTCCAGCAGCTTCAGGCAGCAG
1 A-CAGCAGCTCGAGCCTCTTCAAGCCCACAAACACGACAATAGCTCCAGCAGCTTCAGGCAGCAG
*
4103565 CAGCATCCATCAATATCG
65 CAGCATCCATCAATACCG
* * * * *
4103583 ACAGCAGCGCGAGCCGCTTCTAGCCTACGAACAC
1 ACAGCAGCTCGAGCCTCTTCAAGCCCACAAACAC
4103617 AGCAGCAGCT
Statistics
Matches: 99, Mismatches: 16, Indels: 3
0.84 0.14 0.03
Matches are distributed among these distances:
81 1 0.01
82 97 0.98
83 1 0.01
ACGTcount: A:0.28, C:0.35, G:0.21, T:0.16
Consensus pattern (82 bp):
ACAGCAGCTCGAGCCTCTTCAAGCCCACAAACACGACAATAGCTCCAGCAGCTTCAGGCAGCAGC
AGCATCCATCAATACCG
Found at i:4103627 original size:82 final size:82
Alignment explanation
Indices: 4103459--4103666 Score: 233
Period size: 82 Copynumber: 2.5 Consensus size: 82
4103449 ACCCGGCAAT
* * **
4103459 AGCTCCAGCAGCTTCAGGCAGTAGCAGCATCCATCAATACCAGCAGCAGCTCGAGCCTTTTCCAG
1 AGCTCCAGCAGCTTCAGGCAGCAGCAGCATCCATCAATACCAGCAGCAGCGCGAGCCGCTTCCAG
*
4103524 CCCACAAACACGACAGT
66 CCCACAAACACGACAGC
* *
4103541 AGCTCCAGCAGCTTCAGGCAGCAGCAGCATCCATCAATATC-GACAGCAGCGCGAGCCGCTTCTA
1 AGCTCCAGCAGCTTCAGGCAGCAGCAGCATCCATCAATACCAG-CAGCAGCGCGAGCCGCTTCCA
* *
4103605 GCCTACGAACAC-AGCAGC
65 GCCCACAAACACGA-CAGC
** * * * *
4103623 AGCTCCATAAGTTTCTA-GCAGCACCAGCATCCACCAACACCAGC
1 AGCTCCAGCAGCTTC-AGGCAGCAGCAGCATCCATCAATACCAGC
4103667 TGTAAGCTAT
Statistics
Matches: 106, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
81 2 0.02
82 102 0.96
83 2 0.02
ACGTcount: A:0.29, C:0.36, G:0.20, T:0.15
Consensus pattern (82 bp):
AGCTCCAGCAGCTTCAGGCAGCAGCAGCATCCATCAATACCAGCAGCAGCGCGAGCCGCTTCCAG
CCCACAAACACGACAGC
Found at i:4109133 original size:13 final size:13
Alignment explanation
Indices: 4109115--4109141 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
4109105 TGTAATAAAC
4109115 ATGTATCGATACA
1 ATGTATCGATACA
4109128 ATGTATCGATACA
1 ATGTATCGATACA
4109141 A
1 A
4109142 AGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:4111518 original size:20 final size:19
Alignment explanation
Indices: 4111477--4111516 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 19
4111467 TTTTGTTGAT
4111477 GATTTTGATGAAAAATGAAA
1 GATTTTGATGAAAAAT-AAA
4111497 GATTTTGAAGTGAAAAATAA
1 GATTTTG-A-TGAAAAATAA
4111517 GAAATTTGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.39
21 3 0.17
22 8 0.44
ACGTcount: A:0.50, C:0.00, G:0.20, T:0.30
Consensus pattern (19 bp):
GATTTTGATGAAAAATAAA
Found at i:4111664 original size:13 final size:13
Alignment explanation
Indices: 4111646--4111670 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4111636 TAATACCCTA
4111646 TGTATCGATACAT
1 TGTATCGATACAT
4111659 TGTATCGATACA
1 TGTATCGATACA
4111671 AGGAATATTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4115775 original size:13 final size:13
Alignment explanation
Indices: 4115757--4115784 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
4115747 ATACAAAGAT
4115757 CAATGTATCGATA
1 CAATGTATCGATA
4115770 CAATGTATCGATA
1 CAATGTATCGATA
4115783 CA
1 CA
4115785 TTGAATAACG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:4115798 original size:33 final size:33
Alignment explanation
Indices: 4115738--4115804 Score: 91
Period size: 33 Copynumber: 2.0 Consensus size: 33
4115728 AAAATTCCCA
*
4115738 AATGTATCGATACAAAGATCAATGTATCGATAC
1 AATGTATCGATACAAAGATCAACGTATCGATAC
**
4115771 AATGTATCGATACATTGAAT-AACGTATCGATAC
1 AATGTATCGATACAAAG-ATCAACGTATCGATAC
4115804 A
1 A
4115805 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
33 28 0.93
34 2 0.07
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.28
Consensus pattern (33 bp):
AATGTATCGATACAAAGATCAACGTATCGATAC
Found at i:4116742 original size:52 final size:49
Alignment explanation
Indices: 4116605--4117168 Score: 439
Period size: 52 Copynumber: 11.4 Consensus size: 49
4116595 ACATGTGGGT
* * * * * * *
4116605 AGCGATATTGGGCTCAAAGATACGAAGAATGACAATGTGCTGATTCATGTCC
1 AGCGACATTGGACTTAAAGATA--AAG-ATGCCAATATGCTGATTCAAGGCC
* * * **
4116657 AGCGACATTAGACTTGAAGA-AGA-ATGCCAATATGCTGAGACAAGGCC
1 AGCGACATTGGACTTAAAGATAAAGATGCCAATATGCTGATTCAAGGCC
* *
4116704 AGCGACATTGGGCTTAGGAATGTTAAAGATGCCAATATGCTGATTCAAGGCC
1 AGCGACATTGGACTTA--AA-GATAAAGATGCCAATATGCTGATTCAAGGCC
* * * * *
4116756 AACGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCC
1 AGCGACATTGGACTTAAAGATAAAGATGCCAATATGCTGATTCAAGGCC
* * * * *
4116805 AGCGACATTAGATTTAAAGATGACGATGCCAATATGTTGATTCAAGGCC
1 AGCGACATTGGACTTAAAGATAAAGATGCCAATATGCTGATTCAAGGCC
* * * * * *
4116854 ATCGATATCGGACTTATAGATGAAGATGCCAATATGCTGATTCAAGGCT
1 AGCGACATTGGACTTAAAGATAAAGATGCCAATATGCTGATTCAAGGCC
* * * *
4116903 GGCGACATTGGACTTAAAGATGGTTAAGGTGCCAATGTGCTGATTCAAGGCC
1 AGCGACATTGGACTTAAAGA---TAAAGATGCCAATATGCTGATTCAAGGCC
* * * * *
4116955 GGCGACATTGGACTTAAAGATGGTTAAGGTGCTAATGTGCTGATTCAAGGCC
1 AGCGACATTGGACTTAAAGA---TAAAGATGCCAATATGCTGATTCAAGGCC
* * * * *
4117007 AACGACATTGGTCTTAAAGA-CAAGGTGCCAATATGTTGATTCAAGGCC
1 AGCGACATTGGACTTAAAGATAAAGATGCCAATATGCTGATTCAAGGCC
* * * * *
4117055 AGC-ATATTGG-GTTCAAGATGGTAAAGGTGCCAATATCCTGATTCAAGGCC
1 AGCGACATTGGACTT-AA-A-GATAAAGATGCCAATATGCTGATTCAAGGCC
* *
4117105 AGCGATATTGGACTTAAAG-----G-TGCCAATGTGCTGATTCAAGGCC
1 AGCGACATTGGACTTAAAGATAAAGATGCCAATATGCTGATTCAAGGCC
*
4117148 AGCGATATTGGACTTAGAAGA
1 AGCGACATTGGACTTA-AAGA
4117169 AGATGCCACC
Statistics
Matches: 426, Mismatches: 70, Indels: 39
0.80 0.13 0.07
Matches are distributed among these distances:
43 37 0.09
44 4 0.01
46 2 0.00
47 39 0.09
48 27 0.06
49 128 0.30
50 32 0.08
51 12 0.03
52 145 0.34
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.25
Consensus pattern (49 bp):
AGCGACATTGGACTTAAAGATAAAGATGCCAATATGCTGATTCAAGGCC
Found at i:4116860 original size:98 final size:99
Alignment explanation
Indices: 4116681--4117168 Score: 496
Period size: 98 Copynumber: 4.9 Consensus size: 99
4116671 TGAAGAAGAA
** *
4116681 TGCCAATATGCTGAGACAAGGCCAGCGACATTGGGCTTAGGAATGTTA-AAGATGCCAATATGCT
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTA--AA-G--AGAAGATGCCAATATGCT
*
4116745 GATTCAAGGCCAACGATATTGGACTTAAAGAT-G-AAGG
61 GATTCAAGGCCAGCGATATTGGACTTAAAGATGGTAAGG
* * * * *
4116782 TGCCAATGTGCTGATTCAAGGCCAGCGACATTAGATTTAAAGATGACGATGCCAATATGTTGATT
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGA-GAAGATGCCAATATGCTGATT
* * * *
4116847 CAAGGCCATCGATATCGGACTTATAGAT-G-AAGA
65 CAAGGCCAGCGATATTGGACTTAAAGATGGTAAGG
** * *
4116880 TGCCAATATGCTGATTCAAGGCTGGCGACATTGGACTTAAAGATGGTTAAGGTGCCAATGTGCTG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGA--G--AAGATGCCAATATGCTG
* *
4116945 ATTCAAGGCCGGCGACATTGGACTTAAAGATGGTTAAGG
62 ATTCAAGGCCAGCGATATTGGACTTAAAGATGG-TAAGG
* * * * * * *
4116984 TGCTAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGACAAGGTGCCAATATGTTGATTC
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGAGAAGATGCCAATATGCTGATTC
* *
4117049 AAGGCCAGC-ATATTGG-GTTCAAGATGGTAAAGG
66 AAGGCCAGCGATATTGGACTTAAAGATGGT-AAGG
* * *
4117082 TGCCAATATCCTGATTCAAGGCCAGCGATATTGGACTT-AA-AG--G-TGCCAATGTGCTGATTC
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGAGAAGATGCCAATATGCTGATTC
4117142 AAGGCCAGCGATATTGGACTTAGAAGA
66 AAGGCCAGCGATATTGGACTTA-AAGA
4117169 AGATGCCACC
Statistics
Matches: 323, Mismatches: 52, Indels: 29
0.80 0.13 0.07
Matches are distributed among these distances:
93 24 0.07
94 8 0.02
95 2 0.01
96 6 0.02
97 3 0.01
98 131 0.41
99 9 0.03
100 27 0.08
101 72 0.22
102 1 0.00
104 40 0.12
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.25
Consensus pattern (99 bp):
TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGAGAAGATGCCAATATGCTGATTC
AAGGCCAGCGATATTGGACTTAAAGATGGTAAGG
Found at i:4116950 original size:150 final size:148
Alignment explanation
Indices: 4116637--4117176 Score: 550
Period size: 150 Copynumber: 3.7 Consensus size: 148
4116627 CGAAGAATGA
* * * * **
4116637 CAATGTGCTGATTCATGTCCAGCGACATTAGACTTGAAGAAGA-ATGCCAATATGCTGAGACAAG
1 CAATGTGCTGATTCAAGGCCAGCGACATTAGACTTAAAGATGAGATGCCAATATGCTGATTCAAG
* * *
4116701 GCCAGCGACATTGGGCTTA-GGAATGTTAAAGATGCCAATATGCTGATTCAAGGCCAACGATATT
66 GCCAGCGACATTGGACTTATAG-ATG---AAGATGCCAATATGCTGATTCAAGGCCAGCGATATT
4116765 GGACTTAAAGAT-G-AAGGTGC
127 GGACTTAAAGATGGTAAGGTGC
* *
4116785 CAATGTGCTGATTCAAGGCCAGCGACATTAGATTTAAAGATGACGATGCCAATATGTTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCGACATTAGACTTAAAGATGA-GATGCCAATATGCTGATTCAA
* * * ** *
4116850 GGCCATCGATATCGGACTTATAGATGAAGATGCCAATATGCTGATTCAAGGCTGGCGACATTGGA
65 GGCCAGCGACATTGGACTTATAGATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGA
4116915 CTTAAAGATGGTTAAGGTGC
130 CTTAAAGATGG-TAAGGTGC
* * * * *
4116935 CAATGTGCTGATTCAAGGCCGGCGACATTGGACTTAAAGATGGTTAAGGTGCTAATGTGCTGATT
1 CAATGTGCTGATTCAAGGCCAGCGACATTAGACTTAAAGAT-G---AGATGCCAATATGCTGATT
* * * * * *
4117000 CAAGGCCAACGACATTGGTCTTAAAGA-CAAGGTGCCAATATGTTGATTCAAGGCCAGC-ATATT
62 CAAGGCCAGCGACATTGGACTTATAGATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATT
* *
4117063 GG-GTTCAAGATGGTAAAGGTGC
127 GGACTTAAAGATGGT-AAGGTGC
* * * * *
4117085 CAATATCCTGATTCAAGGCCAGCGATATTGGACTT-AA-A-G-G-TGCCAATGTGCTGATTCAAG
1 CAATGTGCTGATTCAAGGCCAGCGACATTAGACTTAAAGATGAGATGCCAATATGCTGATTCAAG
* *
4117145 GCCAGCGATATTGGAC-T-TAGAAGAAGATGCCA
66 GCCAGCGACATTGGACTTATAGATGAAGATGCCA
4117177 CCAACTCGTG
Statistics
Matches: 332, Mismatches: 48, Indels: 32
0.81 0.12 0.08
Matches are distributed among these distances:
139 3 0.01
140 9 0.03
141 32 0.10
142 1 0.00
146 1 0.00
147 44 0.13
148 40 0.12
149 3 0.01
150 128 0.39
151 8 0.02
152 26 0.08
153 36 0.11
154 1 0.00
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.25
Consensus pattern (148 bp):
CAATGTGCTGATTCAAGGCCAGCGACATTAGACTTAAAGATGAGATGCCAATATGCTGATTCAAG
GCCAGCGACATTGGACTTATAGATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
TTAAAGATGGTAAGGTGC
Found at i:4117139 original size:43 final size:43
Alignment explanation
Indices: 4117076--4117163 Score: 158
Period size: 43 Copynumber: 2.0 Consensus size: 43
4117066 TTCAAGATGG
4117076 TAAAGGTGCCAATATCCTGATTCAAGGCCAGCGATATTGGACT
1 TAAAGGTGCCAATATCCTGATTCAAGGCCAGCGATATTGGACT
* *
4117119 TAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACT
1 TAAAGGTGCCAATATCCTGATTCAAGGCCAGCGATATTGGACT
4117162 TA
1 TA
4117164 GAAGAAGATG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (43 bp):
TAAAGGTGCCAATATCCTGATTCAAGGCCAGCGATATTGGACT
Found at i:4117251 original size:28 final size:28
Alignment explanation
Indices: 4117185--4117334 Score: 173
Period size: 28 Copynumber: 5.4 Consensus size: 28
4117175 CACCAACTCG
**
4117185 TGTGGGCTTTTGAAAGGGTTG-CACCAACT
1 TGTGGGCTTTTG-AA-GGTTGCCACTGACT
* *
4117214 TGTGTGCTTTTGAAGGTTGCCACTGCCT
1 TGTGGGCTTTTGAAGGTTGCCACTGACT
*
4117242 TATGGGC-TTTGAAGGTTGCCACTGACT
1 TGTGGGCTTTTGAAGGTTGCCACTGACT
*
4117269 TGTGGGCTTTTGAGGGTTGCCACTGACT
1 TGTGGGCTTTTGAAGGTTGCCACTGACT
*
4117297 TGTGGGC-TTTGAAAAGG-CGCCACTGACT
1 TGTGGGCTTTTG--AAGGTTGCCACTGACT
4117325 TGTGGGCTTT
1 TGTGGGCTTT
4117335 GAAAGATGAG
Statistics
Matches: 105, Mismatches: 11, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
27 34 0.32
28 55 0.52
29 16 0.15
ACGTcount: A:0.15, C:0.19, G:0.32, T:0.34
Consensus pattern (28 bp):
TGTGGGCTTTTGAAGGTTGCCACTGACT
Found at i:4117336 original size:55 final size:55
Alignment explanation
Indices: 4117211--4117334 Score: 178
Period size: 55 Copynumber: 2.2 Consensus size: 55
4117201 GGTTGCACCA
* * *
4117211 ACTTGTGTGCTTTTGAAGGTTGCCACTGCCTTATGGGCTTTGAAGGTTGCCACTG
1 ACTTGTGGGCTTTTGAAGGTTGCCACTGACTTATGGGCTTTGAAGGTCGCCACTG
* *
4117266 ACTTGTGGGCTTTTGAGGGTTGCCACTGACTTGTGGGCTTTGAAAAGG-CGCCACTG
1 ACTTGTGGGCTTTTGAAGGTTGCCACTGACTTATGGGCTTTG--AAGGTCGCCACTG
4117322 ACTTGTGGGCTTT
1 ACTTGTGGGCTTT
4117335 GAAAGATGAG
Statistics
Matches: 62, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
55 38 0.61
56 20 0.32
57 4 0.06
ACGTcount: A:0.15, C:0.19, G:0.31, T:0.35
Consensus pattern (55 bp):
ACTTGTGGGCTTTTGAAGGTTGCCACTGACTTATGGGCTTTGAAGGTCGCCACTG
Found at i:4118821 original size:10 final size:9
Alignment explanation
Indices: 4118797--4118875 Score: 63
Period size: 9 Copynumber: 8.4 Consensus size: 9
4118787 ATCCTAACCC
*
4118797 TTTTTGTTG
1 TTTTTTTTG
4118806 TTTTTTTT-
1 TTTTTTTTG
*
4118814 TTGCTTTTTG
1 TT-TTTTTTG
4118824 TTTTTTTTTG
1 -TTTTTTTTG
*
4118834 TTTTTTTCCTC
1 TTTTTTT--TG
*
4118845 TTTTTCTTG
1 TTTTTTTTG
4118854 TTTTGTTTTG
1 TTTT-TTTTG
4118864 TTTTTTTT-
1 TTTTTTTTG
4118872 TTTT
1 TTTT
4118876 GCGGAGGATG
Statistics
Matches: 57, Mismatches: 7, Indels: 13
0.74 0.09 0.17
Matches are distributed among these distances:
8 6 0.11
9 28 0.49
10 14 0.25
11 9 0.16
ACGTcount: A:0.00, C:0.06, G:0.10, T:0.84
Consensus pattern (9 bp):
TTTTTTTTG
Found at i:4118829 original size:17 final size:16
Alignment explanation
Indices: 4118807--4118875 Score: 63
Period size: 15 Copynumber: 4.4 Consensus size: 16
4118797 TTTTTGTTGT
4118807 TTTTTTTTTGCTTTTTG
1 TTTTTTTTTG-TTTTTG
4118824 TTTTTTTTTGTTTTT-
1 TTTTTTTTTGTTTTTG
** * *
4118839 TTCCTCTTT-TTCTTG
1 TTTTTTTTTGTTTTTG
*
4118854 TTTTGTTTTGTTTTT-
1 TTTTTTTTTGTTTTTG
4118869 TTTTTTT
1 TTTTTTT
4118876 GCGGAGGATG
Statistics
Matches: 40, Mismatches: 10, Indels: 6
0.71 0.18 0.11
Matches are distributed among these distances:
14 4 0.10
15 17 0.43
16 9 0.22
17 10 0.25
ACGTcount: A:0.00, C:0.07, G:0.09, T:0.84
Consensus pattern (16 bp):
TTTTTTTTTGTTTTTG
Found at i:4124852 original size:19 final size:18
Alignment explanation
Indices: 4124828--4124878 Score: 57
Period size: 21 Copynumber: 2.6 Consensus size: 18
4124818 AGCGATACAT
4124828 TATCGATACAACACTTATG
1 TATCGATACAACACTT-TG
*
4124847 TATCGATACATTTACTCTTTG
1 TATCGATACA---ACACTTTG
4124868 TATCGATACAA
1 TATCGATACAA
4124879 ATTGTTAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
18 1 0.04
19 10 0.36
21 12 0.43
22 5 0.18
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.37
Consensus pattern (18 bp):
TATCGATACAACACTTTG
Found at i:4130481 original size:19 final size:19
Alignment explanation
Indices: 4130457--4130554 Score: 103
Period size: 19 Copynumber: 5.8 Consensus size: 19
4130447 GTTACAAGCA
4130457 ATGTATCGATACAATAAAC
1 ATGTATCGATACAATAAAC
4130476 ATGTATCGATAC-----A-
1 ATGTATCGATACAATAAAC
*
4130489 ATGTATCTATACAATAAAC
1 ATGTATCGATACAATAAAC
4130508 ATGTATCGATAC-----A-
1 ATGTATCGATACAATAAAC
4130521 ATGTATCGATACAATAAAC
1 ATGTATCGATACAATAAAC
4130540 ATGTATCGATACAAT
1 ATGTATCGATACAAT
4130555 GTATCGATAC
Statistics
Matches: 65, Mismatches: 2, Indels: 24
0.71 0.02 0.26
Matches are distributed among these distances:
13 23 0.35
14 2 0.03
18 2 0.03
19 38 0.58
ACGTcount: A:0.44, C:0.15, G:0.11, T:0.30
Consensus pattern (19 bp):
ATGTATCGATACAATAAAC
Found at i:4130494 original size:13 final size:13
Alignment explanation
Indices: 4130476--4130568 Score: 79
Period size: 13 Copynumber: 8.2 Consensus size: 13
4130466 TACAATAAAC
4130476 ATGTATCGATACA
1 ATGTATCGATACA
*
4130489 ATGTATCTATACA
1 ATGTATCGATACA
4130502 A--TA---A-AC-
1 ATGTATCGATACA
4130508 ATGTATCGATACA
1 ATGTATCGATACA
4130521 ATGTATCGATACA
1 ATGTATCGATACA
4130534 A--TA---A-AC-
1 ATGTATCGATACA
4130540 ATGTATCGATACA
1 ATGTATCGATACA
4130553 ATGTATCGATACA
1 ATGTATCGATACA
4130566 ATG
1 ATG
4130569 CATAATGTAT
Statistics
Matches: 65, Mismatches: 1, Indels: 28
0.69 0.01 0.30
Matches are distributed among these distances:
6 2 0.03
7 4 0.06
8 6 0.09
11 6 0.09
12 4 0.06
13 43 0.66
ACGTcount: A:0.42, C:0.15, G:0.13, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:4130494 original size:32 final size:32
Alignment explanation
Indices: 4130455--4130567 Score: 217
Period size: 32 Copynumber: 3.5 Consensus size: 32
4130445 CCGTTACAAG
4130455 CAATGTATCGATACAATAAACATGTATCGATA
1 CAATGTATCGATACAATAAACATGTATCGATA
*
4130487 CAATGTATCTATACAATAAACATGTATCGATA
1 CAATGTATCGATACAATAAACATGTATCGATA
4130519 CAATGTATCGATACAATAAACATGTATCGATA
1 CAATGTATCGATACAATAAACATGTATCGATA
4130551 CAATGTATCGATACAAT
1 CAATGTATCGATACAAT
4130568 GCATAATGTA
Statistics
Matches: 79, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 79 1.00
ACGTcount: A:0.43, C:0.16, G:0.12, T:0.29
Consensus pattern (32 bp):
CAATGTATCGATACAATAAACATGTATCGATA
Found at i:4135126 original size:20 final size:19
Alignment explanation
Indices: 4135071--4135126 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 19
4135061 AAAACCCTTA
*
4135071 AAAGTATCGATACATAATTC
1 AAAGTATCGATACAT-GTTC
4135091 AAAGTATCGATACATGTTGC
1 AAAGTATCGATACATGTT-C
*
4135111 AATGTATCGATACATG
1 AAAGTATCGATACATG
4135127 AAAAAGATGT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 2 0.06
20 31 0.94
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.30
Consensus pattern (19 bp):
AAAGTATCGATACATGTTC
Done.