Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 334 of 356
Found at i:107440855 original size:35 final size:35
Alignment explanation
Indices: 107440801--107440870 Score: 88
Period size: 35 Copynumber: 2.0 Consensus size: 35
107440791 ATAATAATAT
**
107440801 GATAGTAATAGTAACAATATA-ACAATAATAGTAAC
1 GATAGTAATAAAAACAATATATA-AATAATAGTAAC
*
107440836 GATAGTAATAAAAATAATATATTAAATAATAGTAA
1 GATAGTAATAAAAACAATATA-TAAATAATAGTAA
107440871 TAAAAATAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
35 18 0.60
36 11 0.37
37 1 0.03
ACGTcount: A:0.57, C:0.04, G:0.10, T:0.29
Consensus pattern (35 bp):
GATAGTAATAAAAACAATATATAAATAATAGTAAC
Found at i:107441019 original size:57 final size:58
Alignment explanation
Indices: 107440908--107441036 Score: 136
Period size: 57 Copynumber: 2.2 Consensus size: 58
107440898 GGATGATAAT
** * *
107440908 AATAATAATAATAATAATAATAATAAATAAGAATACTAATCTATTAAGTTACAATGAA
1 AATAATAATAATAATAATAATAATAAATAAGAATACTAAAATAATAAGTAACAATGAA
* * * * * *
107440966 AATAATAATAATGATGAT-ATATTAAATAATAATAGTAAAATAATAAGTAACAATAATA
1 AATAATAATAATAATAATAATAATAAATAAGAATACTAAAATAATAAGTAACAATGA-A
107441024 AAGT-ATAATAATA
1 AA-TAATAATAATA
107441037 GTGATGAGAA
Statistics
Matches: 58, Mismatches: 11, Indels: 4
0.79 0.15 0.05
Matches are distributed among these distances:
57 30 0.52
58 27 0.47
59 1 0.02
ACGTcount: A:0.60, C:0.03, G:0.06, T:0.31
Consensus pattern (58 bp):
AATAATAATAATAATAATAATAATAAATAAGAATACTAAAATAATAAGTAACAATGAA
Found at i:107441033 original size:13 final size:13
Alignment explanation
Indices: 107440989--107441036 Score: 62
Period size: 13 Copynumber: 3.6 Consensus size: 13
107440979 ATGATATATT
107440989 AAATAATAATAGTA
1 AAATAATAA-AGTA
107441003 AAATAAT-AAGTA
1 AAATAATAAAGTA
107441015 ACAATAATAAAGTA
1 A-AATAATAAAGTA
*
107441029 TAATAATA
1 AAATAATA
107441037 GTGATGAGAA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
12 5 0.16
13 14 0.45
14 12 0.39
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (13 bp):
AAATAATAAAGTA
Found at i:107441060 original size:19 final size:19
Alignment explanation
Indices: 107441036--107441073 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
107441026 GTATAATAAT
*
107441036 AGTGATGAGAATAATAACA
1 AGTGATAAGAATAATAACA
*
107441055 AGTGATAATAATAATAACA
1 AGTGATAAGAATAATAACA
107441074 GTAACAATGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.55, C:0.05, G:0.16, T:0.24
Consensus pattern (19 bp):
AGTGATAAGAATAATAACA
Found at i:107441250 original size:22 final size:22
Alignment explanation
Indices: 107441225--107441282 Score: 57
Period size: 25 Copynumber: 2.5 Consensus size: 22
107441215 ATAGAAGTGG
107441225 TAATAAATAAAAAATAC-AATAA
1 TAATAAATAAAAAA-ACAAATAA
*
107441247 TAATAATATATTAAACAACAAATAA
1 TAATAA-ATA--AAAAAACAAATAA
107441272 TAAT-AATAAAA
1 TAATAAATAAAA
107441283 TGATGATAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 9
0.76 0.02 0.22
Matches are distributed among these distances:
21 3 0.10
22 6 0.19
23 6 0.19
24 3 0.10
25 13 0.42
ACGTcount: A:0.69, C:0.05, G:0.00, T:0.26
Consensus pattern (22 bp):
TAATAAATAAAAAAACAAATAA
Found at i:107442023 original size:13 final size:13
Alignment explanation
Indices: 107442005--107442046 Score: 50
Period size: 14 Copynumber: 3.2 Consensus size: 13
107441995 AAAAGGTACG
107442005 TTTTTTATATATA
1 TTTTTTATATATA
*
107442018 TTTTTTAAAATATA
1 TTTTTT-ATATATA
*
107442032 TTTTTGATATA-A
1 TTTTTTATATATA
107442044 TTT
1 TTT
107442047 AATATATTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
12 4 0.16
13 10 0.40
14 11 0.44
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (13 bp):
TTTTTTATATATA
Found at i:107443640 original size:36 final size:34
Alignment explanation
Indices: 107443591--107443668 Score: 95
Period size: 34 Copynumber: 2.2 Consensus size: 34
107443581 GGTTGTAATG
**
107443591 GAATAGAGTTGTAATAAGTAATTC-AACTGTTTGGTT
1 GAATAGAACTGTAATAA-T-ATTCTAA-TGTTTGGTT
*
107443627 GAATAGAACTGTAATAATATTCTTATGTTTGGTT
1 GAATAGAACTGTAATAATATTCTAATGTTTGGTT
107443661 GAATAGAA
1 GAATAGAA
107443669 TGATGTTGTA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
34 21 0.55
35 2 0.05
36 15 0.39
ACGTcount: A:0.36, C:0.05, G:0.21, T:0.38
Consensus pattern (34 bp):
GAATAGAACTGTAATAATATTCTAATGTTTGGTT
Found at i:107443795 original size:26 final size:26
Alignment explanation
Indices: 107443765--107443858 Score: 71
Period size: 26 Copynumber: 3.4 Consensus size: 26
107443755 GTTATTAAAT
107443765 TTTAATAAAATTATTATTAAAAATAA
1 TTTAATAAAATTATTATTAAAAATAA
* ** *
107443791 TTTAATGAAAATAATAAATAGTTTAACCATAT
1 TTTAAT-AAAAT--T-ATTA--TTAAAAATAA
* * *
107443823 TTTAACATAATTATTATTAAATATAA
1 TTTAATAAAATTATTATTAAAAATAA
107443849 TTTAATAAAA
1 TTTAATAAAA
107443859 AAATATAATT
Statistics
Matches: 50, Mismatches: 12, Indels: 12
0.68 0.16 0.16
Matches are distributed among these distances:
26 21 0.42
27 5 0.10
28 3 0.06
29 2 0.04
30 3 0.06
31 4 0.08
32 12 0.24
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.41
Consensus pattern (26 bp):
TTTAATAAAATTATTATTAAAAATAA
Found at i:107443836 original size:58 final size:55
Alignment explanation
Indices: 107443763--107443897 Score: 171
Period size: 58 Copynumber: 2.4 Consensus size: 55
107443753 TTGTTATTAA
* * *
107443763 ATTTTAATAAAATTATTATTAAAAATAATTTAATGAAAATAATAAATAGTTTAACCAT
1 ATTTTAATATAATTATTATTAAAAATAATTTAAT-AAAA-AA-AAATAATTTAACAAT
* * * *
107443821 ATTTTAACATAATTATTATTAAATATAATTTAATAAAAAAATATAATTTAATAAT
1 ATTTTAATATAATTATTATTAAAAATAATTTAATAAAAAAAAATAATTTAACAAT
107443876 ATTCTTAATATAATTATTATTA
1 ATT-TTAATATAATTATTATTA
107443898 TATGAATTAA
Statistics
Matches: 68, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
55 14 0.21
56 19 0.28
57 4 0.06
58 31 0.46
ACGTcount: A:0.52, C:0.03, G:0.01, T:0.44
Consensus pattern (55 bp):
ATTTTAATATAATTATTATTAAAAATAATTTAATAAAAAAAAATAATTTAACAAT
Found at i:107447845 original size:2 final size:2
Alignment explanation
Indices: 107447840--107447872 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
107447830 GTATTTCTAT
*
107447840 TA TA TA CA TA TA TA TA TA TA TA TA TA T- TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
107447873 GTATTATTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:107447877 original size:10 final size:9
Alignment explanation
Indices: 107447837--107447879 Score: 52
Period size: 10 Copynumber: 4.7 Consensus size: 9
107447827 TGTGTATTTC
107447837 TATTATATA
1 TATTATATA
*
107447846 CA-TATATA
1 TATTATATA
107447854 TATATATATA
1 TAT-TATATA
107447864 TATTATATA
1 TATTATATA
107447873 GTATTAT
1 -TATTAT
107447880 TATTCACTCT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
8 7 0.24
9 7 0.24
10 15 0.52
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (9 bp):
TATTATATA
Found at i:107459384 original size:85 final size:86
Alignment explanation
Indices: 107459291--107459470 Score: 204
Period size: 85 Copynumber: 2.1 Consensus size: 86
107459281 CACTTCAGTG
* * * * *
107459291 CTTGAACTTTCACAATTTATCAAAAAGATCC-TCAAACTTCTTAAAAAAAAGCAATTAAG-CACT
1 CTTGAACTTTCAAAATGTATAAAAAAG-GCCATCAAA-TTCTTAAAAAAAACCAATTAAGACACT
107459354 -TTTTTTTGCACTCAATTAGGCA
64 CTTTTTTTGCACTCAATTAGGCA
* ** *
107459376 CTTGAACTTTCAAAATGTATAAAAAAGGCCATCAAATTTTTTCAAAAAACCAATTAAGACCCTGC
1 CTTGAACTTTCAAAATGTATAAAAAAGGCCATCAAATTCTTAAAAAAAACCAATTAAGACACT--
* *
107459441 CTTTTTTTGCACTCAATTGGGTA
64 CTTTTTTTGCACTCAATTAGGCA
107459464 CTTGAAC
1 CTTGAAC
107459471 CGCCCTTAAT
Statistics
Matches: 79, Mismatches: 11, Indels: 7
0.81 0.11 0.07
Matches are distributed among these distances:
84 20 0.25
85 32 0.41
88 27 0.34
ACGTcount: A:0.37, C:0.20, G:0.10, T:0.33
Consensus pattern (86 bp):
CTTGAACTTTCAAAATGTATAAAAAAGGCCATCAAATTCTTAAAAAAAACCAATTAAGACACTCT
TTTTTTGCACTCAATTAGGCA
Found at i:107459614 original size:21 final size:20
Alignment explanation
Indices: 107459569--107459614 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 20
107459559 ATGAAAGTTA
107459569 TAAAAATATTAAATTTTAAT
1 TAAAAATATTAAATTTTAAT
* *
107459589 AAAAAATATCTAAATTTTATT
1 TAAAAATAT-TAAATTTTAAT
107459610 TAAAA
1 TAAAA
107459615 TTAAAAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 8 0.36
21 14 0.64
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (20 bp):
TAAAAATATTAAATTTTAAT
Found at i:107459651 original size:20 final size:20
Alignment explanation
Indices: 107459628--107459680 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 20
107459618 AAAAAAATAC
* *
107459628 AAAAATCATAAAAATTTTAT
1 AAAAATCGTAAAAATTTCAT
*
107459648 AAAAATTGT-AAAATTTCAT
1 AAAAATCGTAAAAATTTCAT
*
107459667 GAAAATCGTAAAAA
1 AAAAATCGTAAAAA
107459681 ATATTAAATT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
19 16 0.59
20 11 0.41
ACGTcount: A:0.58, C:0.06, G:0.06, T:0.30
Consensus pattern (20 bp):
AAAAATCGTAAAAATTTCAT
Found at i:107459781 original size:20 final size:20
Alignment explanation
Indices: 107459756--107459810 Score: 56
Period size: 21 Copynumber: 2.7 Consensus size: 20
107459746 TAAAAGAAGC
*
107459756 ATTTTATAATTTTTCCATAA
1 ATTTTATAATTTTTACATAA
* * *
107459776 ATTTTATTGATTTTTATATAT
1 ATTTTA-TAATTTTTACATAA
*
107459797 ATTTTTTAATTTTT
1 ATTTTATAATTTTT
107459811 GCTACATGTC
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
20 13 0.46
21 15 0.54
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.65
Consensus pattern (20 bp):
ATTTTATAATTTTTACATAA
Found at i:107459996 original size:10 final size:9
Alignment explanation
Indices: 107459958--107459999 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
107459948 AATTTTACAA
107459958 TTTTTAATT
1 TTTTTAATT
*
107459967 TTTTCTATTT
1 TTTT-TAATT
107459977 TTTTTAA-T
1 TTTTTAATT
*
107459985 TTTTTAATA
1 TTTTTAATT
107459994 TTTTTA
1 TTTTTA
107460000 TTATAATATA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
8 8 0.29
9 12 0.43
10 8 0.29
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.76
Consensus pattern (9 bp):
TTTTTAATT
Found at i:107459997 original size:19 final size:19
Alignment explanation
Indices: 107459958--107459998 Score: 64
Period size: 19 Copynumber: 2.1 Consensus size: 19
107459948 AATTTTACAA
*
107459958 TTTTTAATTTTTTCTATTT
1 TTTTTAATTTTTTATATTT
107459977 TTTTTAATTTTTTAATATTT
1 TTTTTAATTTTTT-ATATTT
107459997 TT
1 TT
107459999 ATTATAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (19 bp):
TTTTTAATTTTTTATATTT
Found at i:107466444 original size:11 final size:11
Alignment explanation
Indices: 107466428--107466485 Score: 55
Period size: 11 Copynumber: 5.2 Consensus size: 11
107466418 CTTTATATAC
107466428 TAATAAAATAA
1 TAATAAAATAA
107466439 TAATAAAATAA
1 TAATAAAATAA
**
107466450 TAA-AATATATCT
1 TAATAA-A-ATAA
* *
107466462 TATTAAAATAT
1 TAATAAAATAA
107466473 TAATAAAATAA
1 TAATAAAATAA
107466484 TA
1 TA
107466486 TTTATCTAAT
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
10 2 0.05
11 29 0.76
12 5 0.13
13 2 0.05
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:107466492 original size:31 final size:32
Alignment explanation
Indices: 107466421--107466512 Score: 93
Period size: 34 Copynumber: 2.9 Consensus size: 32
107466411 TTTCTTTCTT
*
107466421 TATATACTAA-TAAAATAATAATAAAATAATAAAA
1 TATAT-CTAATTAAAATATTAATAAAATAAT--AA
*
107466455 TATATCTTATTAAAATATTAATAAAATAAT-A
1 TATATCTAATTAAAATATTAATAAAATAATAA
*
107466486 TTTATCTAATT-AAATAATT-ATAAAATA
1 TATATCTAATTAAAAT-ATTAATAAAATA
107466513 TCAAAATATC
Statistics
Matches: 52, Mismatches: 4, Indels: 8
0.81 0.06 0.12
Matches are distributed among these distances:
30 12 0.23
31 13 0.25
33 3 0.06
34 24 0.46
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (32 bp):
TATATCTAATTAAAATATTAATAAAATAATAA
Found at i:107476928 original size:20 final size:20
Alignment explanation
Indices: 107476899--107476939 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
107476889 CGGGTCTATA
107476899 ATCGACACGAAGT-CCACAAT
1 ATCGACACGAA-TCCCACAAT
*
107476919 ATCGATACGAATCCCACAAT
1 ATCGACACGAATCCCACAAT
107476939 A
1 A
107476940 ATAGCACACA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 1 0.05
20 18 0.95
ACGTcount: A:0.41, C:0.29, G:0.12, T:0.17
Consensus pattern (20 bp):
ATCGACACGAATCCCACAAT
Found at i:107477029 original size:27 final size:26
Alignment explanation
Indices: 107476990--107477072 Score: 103
Period size: 27 Copynumber: 3.1 Consensus size: 26
107476980 TCGATCGGTC
* *
107476990 AACAGATATTGTGACAGAGTCACCAT
1 AACAGATATTGTGACAGAGCCACCAG
*
107477016 ATACAGATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGACAGAGCCACCAG
* *
107477043 AACAGATATTTGTGGCATAGCCACCAG
1 AACAGATA-TTGTGACAGAGCCACCAG
107477070 AAC
1 AAC
107477073 GCTTCATCCA
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 8 0.16
27 43 0.84
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.20
Consensus pattern (26 bp):
AACAGATATTGTGACAGAGCCACCAG
Found at i:107477329 original size:27 final size:27
Alignment explanation
Indices: 107477299--107477437 Score: 188
Period size: 27 Copynumber: 5.1 Consensus size: 27
107477289 GCAAAATGGA
* * *
107477299 AATTTTACCCCACAAGGGTATCTCGGT
1 AATTCTACCCTACAAGGGTATTTCGGT
*
107477326 AATTCTACCCTACAGGGGTATTTCGGT
1 AATTCTACCCTACAAGGGTATTTCGGT
*
107477353 AATTCTACCCTACAGGGGTATTTCGGT
1 AATTCTACCCTACAAGGGTATTTCGGT
* *
107477380 AATTCTACCCTACAAGGGTATTTTGAT
1 AATTCTACCCTACAAGGGTATTTCGGT
* * *
107477407 AATTCTACCCTATAGGGGTATTTCAGT
1 AATTCTACCCTACAAGGGTATTTCGGT
107477434 AATT
1 AATT
107477438 TCACAATCGA
Statistics
Matches: 100, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 100 1.00
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.35
Consensus pattern (27 bp):
AATTCTACCCTACAAGGGTATTTCGGT
Found at i:107477472 original size:27 final size:27
Alignment explanation
Indices: 107477442--107477633 Score: 222
Period size: 27 Copynumber: 7.1 Consensus size: 27
107477432 GTAATTTCAC
*
107477442 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAATGGTAATTCTGTA
*
107477469 AATCGAGGGTAAAATGATAATTCTGTA
1 AATCGAGGGTAAAATGGTAATTCTGTA
* * * **
107477496 ACTCAAAGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAATGGTAATTCTGTA
** *
107477523 AATAAAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTGTA
* * *
107477550 AATCGAGGGTAAAATAGTAAATCTATA
1 AATCGAGGGTAAAATGGTAATTCTGTA
**
107477577 AATCGAGGGTAAAATAATAATTCTGTA
1 AATCGAGGGTAAAATGGTAATTCTGTA
* * *
107477604 AATCAAGAGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAATGGTAATTCTGTA
107477631 AAT
1 AAT
107477634 TAGGGGTATT
Statistics
Matches: 139, Mismatches: 26, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 139 1.00
ACGTcount: A:0.44, C:0.09, G:0.19, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAATGGTAATTCTGTA
Found at i:107477553 original size:81 final size:81
Alignment explanation
Indices: 107477447--107477633 Score: 259
Period size: 81 Copynumber: 2.3 Consensus size: 81
107477437 TTCACAATCG
* * *
107477447 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAAT-GATAATTCTGTAACTCAAAGGTAAAAC
1 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAG-TAAATCTATAAATCAAAGGTAAAAC
*
107477511 AGTAATTCTGTAAATAA
65 AATAATTCTGTAAATAA
* * * * *
107477528 AGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAATAGTAAATCTATAAATCGAGGGTAAAATA
1 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAGTAAATCTATAAATCAAAGGTAAAACA
*
107477593 ATAATTCTGTAAATCA
66 ATAATTCTGTAAATAA
*
107477609 AGAGTAAAACGGTAATTCTGTAAAT
1 AGGGTAAAACGGTAATTCTGTAAAT
107477634 TAGGGGTATT
Statistics
Matches: 92, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
81 91 0.99
82 1 0.01
ACGTcount: A:0.44, C:0.09, G:0.19, T:0.28
Consensus pattern (81 bp):
AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAGTAAATCTATAAATCAAAGGTAAAACA
ATAATTCTGTAAATAA
Found at i:107477649 original size:27 final size:27
Alignment explanation
Indices: 107477619--107477833 Score: 209
Period size: 27 Copynumber: 8.0 Consensus size: 27
107477609 AGAGTAAAAC
* *
107477619 GGTAATTCTGTAAATTAGGGGTATTTT
1 GGTAATTTTGTAAACTAGGGGTATTTT
* *
107477646 GGTAA-TTT-TACAAGTCAAGGGTATTTT
1 GGTAATTTTGTA-AACT-AGGGGTATTTT
* *** *
107477673 AGTAATTTCAAAAATTAGGGGTATTTT
1 GGTAATTTTGTAAACTAGGGGTATTTT
* **
107477700 GGCAATTTTACAAACTAGGGGTATTTT
1 GGTAATTTTGTAAACTAGGGGTATTTT
* *
107477727 GATAATTTTGCAAACTAGGGGTATTTT
1 GGTAATTTTGTAAACTAGGGGTATTTT
* *
107477754 GGTAATGTTGTAAACTAAGGGTATTTT
1 GGTAATTTTGTAAACTAGGGGTATTTT
** *
107477781 GGTAATTTTACAAACCAGGGGTATTTT
1 GGTAATTTTGTAAACTAGGGGTATTTT
* *
107477808 GGTAATTTTGTAAACCAAGGGTATTT
1 GGTAATTTTGTAAACTAGGGGTATTT
107477834 CAGTAACTTT
Statistics
Matches: 156, Mismatches: 28, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
25 2 0.01
26 5 0.03
27 143 0.92
28 5 0.03
29 1 0.01
ACGTcount: A:0.30, C:0.07, G:0.23, T:0.40
Consensus pattern (27 bp):
GGTAATTTTGTAAACTAGGGGTATTTT
Found at i:107477848 original size:27 final size:27
Alignment explanation
Indices: 107477637--107477857 Score: 181
Period size: 27 Copynumber: 8.2 Consensus size: 27
107477627 TGTAAATTAG
* **
107477637 GGGTATTTTGGTAATTTTACAAGTCAA
1 GGGTATTTTGGTAATTTTATAAACCAA
* * * ** *
107477664 GGGTATTTTAGTAATTTCAAAAATTAG
1 GGGTATTTTGGTAATTTTATAAACCAA
* * * *
107477691 GGGTATTTTGGCAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTATAAACCAA
* ** * *
107477718 GGGTATTTTGATAATTTTGCAAACTAG
1 GGGTATTTTGGTAATTTTATAAACCAA
* * *
107477745 GGGTATTTTGGTAATGTTGTAAACTAA
1 GGGTATTTTGGTAATTTTATAAACCAA
* *
107477772 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAA
*
107477799 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTATAAACCAA
** * * *
107477826 GGGTATTTCAGTAACTTTATAAATCGA
1 GGGTATTTTGGTAATTTTATAAACCAA
107477853 GGGTA
1 GGGTA
107477858 AAACTATAAT
Statistics
Matches: 162, Mismatches: 32, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 162 1.00
ACGTcount: A:0.31, C:0.08, G:0.23, T:0.39
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTATAAACCAA
Found at i:107477856 original size:81 final size:80
Alignment explanation
Indices: 107477635--107477857 Score: 259
Period size: 81 Copynumber: 2.8 Consensus size: 80
107477625 TCTGTAAATT
* ** * * *
107477635 AGGGGTATTTTGGTAATTTTACAAGTCAAGGGTATTTTAGTAATTTCAAAAATTAGGGGTATTTT
1 AGGGGTATTTTGGTAATTTTGCAAACCAAGGGTATTTTAGTAATTT-ATAAATCAAGGGTATTTT
*
107477700 GGCAATTTTACAAACT
65 GGCAATTTTACAAACC
* * * * *
107477716 AGGGGTATTTTGATAATTTTGCAAACTAGGGGTATTTTGGTAATGTTGTAAA-CTAAGGGTATTT
1 AGGGGTATTTTGGTAATTTTGCAAACCAAGGGTATTTTAGTAAT-TTATAAATC-AAGGGTATTT
*
107477780 TGGTAATTTTACAAACC
64 TGGCAATTTTACAAACC
* * *
107477797 AGGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTCAGTAACTTTATAAATCGAGGGTA
1 AGGGGTATTTTGGTAATTTTGCAAACCAAGGGTATTTTAGTAA-TTTATAAATCAAGGGTA
107477858 AAACTATAAT
Statistics
Matches: 117, Mismatches: 21, Indels: 8
0.80 0.14 0.05
Matches are distributed among these distances:
81 113 0.97
82 4 0.03
ACGTcount: A:0.31, C:0.08, G:0.23, T:0.39
Consensus pattern (80 bp):
AGGGGTATTTTGGTAATTTTGCAAACCAAGGGTATTTTAGTAATTTATAAATCAAGGGTATTTTG
GCAATTTTACAAACC
Found at i:107482451 original size:21 final size:21
Alignment explanation
Indices: 107482427--107482474 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
107482417 CACATAGGTG
* *
107482427 TGTGCCTCAGTCACACGGGCA
1 TGTGCCGCAGGCACACGGGCA
*
107482448 TGTGCCGCAGGCACACGGTCA
1 TGTGCCGCAGGCACACGGGCA
107482469 TGTGCC
1 TGTGCC
107482475 CTTTTTTACA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.17, C:0.33, G:0.31, T:0.19
Consensus pattern (21 bp):
TGTGCCGCAGGCACACGGGCA
Found at i:107483288 original size:10 final size:10
Alignment explanation
Indices: 107483273--107483297 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
107483263 AAAACAGCAT
107483273 ATATATATAG
1 ATATATATAG
107483283 ATATATATAG
1 ATATATATAG
107483293 ATATA
1 ATATA
107483298 GATAAAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.08, T:0.40
Consensus pattern (10 bp):
ATATATATAG
Found at i:107484186 original size:24 final size:24
Alignment explanation
Indices: 107484134--107484197 Score: 60
Period size: 22 Copynumber: 2.7 Consensus size: 24
107484124 ATATATAGTA
* *
107484134 TTGTTTTTTTATTA-CTTTAATTT
1 TTGTATTTTTATTATATTTAATTT
* *
107484157 AT-TATTTTTATTATATTTTATTT
1 TTGTATTTTTATTATATTTAATTT
107484180 TTGTATTTCTATATTATA
1 TTGTATTT-T-TATTATA
107484198 ATAATAATAA
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
22 10 0.31
23 9 0.28
24 5 0.16
25 1 0.03
26 7 0.22
ACGTcount: A:0.23, C:0.03, G:0.03, T:0.70
Consensus pattern (24 bp):
TTGTATTTTTATTATATTTAATTT
Found at i:107484203 original size:3 final size:3
Alignment explanation
Indices: 107484195--107484227 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
107484185 TTTCTATATT
107484195 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
107484228 TAGTAGTGTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:107484707 original size:49 final size:48
Alignment explanation
Indices: 107484615--107484707 Score: 109
Period size: 49 Copynumber: 1.9 Consensus size: 48
107484605 TTTTAAACGC
* * *
107484615 TATATTATATACATATTTTTAATATTGTGTATATACTTTTTATTCCTA
1 TATATTATATACATATTTGTAATATTGTATATATACTTATTATTCCTA
*
107484663 TATATTTTAATACATATTTGTATATATT-TATATAT-CGTTATTATT
1 TATATTAT-ATACATATTTGTA-ATATTGTATATATAC-TTATTATT
107484708 AGTTATTTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
48 8 0.21
49 25 0.66
50 5 0.13
ACGTcount: A:0.32, C:0.06, G:0.04, T:0.57
Consensus pattern (48 bp):
TATATTATATACATATTTGTAATATTGTATATATACTTATTATTCCTA
Found at i:107484874 original size:25 final size:23
Alignment explanation
Indices: 107484819--107484873 Score: 60
Period size: 24 Copynumber: 2.4 Consensus size: 23
107484809 ACATTTTTAC
107484819 TATTATTATAATGTTTAATACCA
1 TATTATTATAATGTTTAATACCA
* *
107484842 TATATATTATTATCGTTTTATA-C-
1 TAT-TATTATAAT-GTTTAATACCA
107484865 TATTATTAT
1 TATTATTAT
107484874 TTATATTATT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
22 6 0.21
23 6 0.21
24 9 0.32
25 7 0.25
ACGTcount: A:0.35, C:0.07, G:0.04, T:0.55
Consensus pattern (23 bp):
TATTATTATAATGTTTAATACCA
Found at i:107484878 original size:15 final size:15
Alignment explanation
Indices: 107484858--107484888 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
107484848 TTATTATCGT
107484858 TTTATACTATTATTA
1 TTTATACTATTATTA
*
107484873 TTTATATTATTATTA
1 TTTATACTATTATTA
107484888 T
1 T
107484889 CGTTTTCGTT
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:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (15 bp):
TTTATACTATTATTA
Found at i:107486170 original size:71 final size:70
Alignment explanation
Indices: 107486087--107486228 Score: 194
Period size: 70 Copynumber: 2.0 Consensus size: 70
107486077 GCTTTGTTGC
*
107486087 GTACTATTATCTGGTCTGGCAGTTTAACTGCAACCCCATCTATATGGCAGACTACCGCATTACAC
1 GTACTATTATCTGGTCTGGCAGTTTAACTGCAA-CCCATCTATACGGCAGACTACCGCATTACAC
107486152 AATACA
65 AATACA
* * ** * ** *
107486158 GTACTATTATCTGTTCTGGCAGTTTAACTGTAACCTGTCTATACGGCGGACTATTGTATTACACA
1 GTACTATTATCTGGTCTGGCAGTTTAACTGCAACCCATCTATACGGCAGACTACCGCATTACACA
107486223 ATACA
66 ATACA
107486228 G
1 G
107486229 CATATACGCT
Statistics
Matches: 62, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
70 31 0.50
71 31 0.50
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.32
Consensus pattern (70 bp):
GTACTATTATCTGGTCTGGCAGTTTAACTGCAACCCATCTATACGGCAGACTACCGCATTACACA
ATACA
Found at i:107493676 original size:47 final size:47
Alignment explanation
Indices: 107493607--107493702 Score: 174
Period size: 47 Copynumber: 2.0 Consensus size: 47
107493597 ACCTAAGGGG
*
107493607 AATGAAACCTAAGACGGATCTTGTTATTATTATCTGAATTGTATGAT
1 AATGAAACCCAAGACGGATCTTGTTATTATTATCTGAATTGTATGAT
*
107493654 AATGAAACCCAAGACGGATCTTGTTATTATTATTTGAATTGTATGAT
1 AATGAAACCCAAGACGGATCTTGTTATTATTATCTGAATTGTATGAT
107493701 AA
1 AA
107493703 ATATTTAACT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.35, C:0.10, G:0.17, T:0.38
Consensus pattern (47 bp):
AATGAAACCCAAGACGGATCTTGTTATTATTATCTGAATTGTATGAT
Found at i:107501841 original size:80 final size:80
Alignment explanation
Indices: 107501692--107502021 Score: 421
Period size: 80 Copynumber: 4.1 Consensus size: 80
107501682 ATAGTGATCA
* *
107501692 AAATACCCCCATAGGGTAAAATGACTGTAATACCCCCATAGGGTAAAATGACCAAAATACCCCCA
1 AAATACCCCCATAGGGTAAAATGACTGAAATA-CCCCATAGGGTAAAATGACCGAAATACCCCCA
107501757 TAGGGTAAAATGACTG
65 TAGGGTAAAATGACTG
** * *
107501773 AAATACCCCCATACAGTAAAATGACTGTAATACCCCATAGGGTAAAATGATCGAAATACCCCCAT
1 AAATACCCCCATAGGGTAAAATGACTGAAATACCCCATAGGGTAAAATGACCGAAATACCCCCAT
107501838 AGGGTAAAATGACTG
66 AGGGTAAAATGACTG
* * * **
107501853 TAATATCCTCATTA-GGTAAAATGACTGAAATACCCCATAGGGTAAAATGACC-AAACTACCTTC
1 AAATACCCCCA-TAGGGTAAAATGACTGAAATACCCCATAGGGTAAAATGACCGAAA-TACCCCC
* *
107501916 ATAGGATAAAATGACCG
64 ATAGGGTAAAATGACTG
** ** * **
107501933 AAATACCCTTATAGGGTAAAATGACCAAAATACACCCATAGGGTGAAATGACCGAAATACCCTTA
1 AAATACCCCCATAGGGTAAAATGACTGAAATAC-CCCATAGGGTAAAATGACCGAAATACCCCCA
107501998 TAGGGTAAAATGACTG
65 TAGGGTAAAATGACTG
*
107502014 TAATACCC
1 AAATACCC
107502022 TGTAAGATAA
Statistics
Matches: 219, Mismatches: 25, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
79 5 0.02
80 134 0.61
81 77 0.35
82 3 0.01
ACGTcount: A:0.41, C:0.22, G:0.16, T:0.21
Consensus pattern (80 bp):
AAATACCCCCATAGGGTAAAATGACTGAAATACCCCATAGGGTAAAATGACCGAAATACCCCCAT
AGGGTAAAATGACTG
Found at i:107502022 original size:27 final size:27
Alignment explanation
Indices: 107501692--107502021 Score: 382
Period size: 27 Copynumber: 12.3 Consensus size: 27
107501682 ATAGTGATCA
107501692 AAATACCCCCATAGGGTAAAATGACTG
1 AAATACCCCCATAGGGTAAAATGACTG
* **
107501719 TAATACCCCCATAGGGTAAAATGACCA
1 AAATACCCCCATAGGGTAAAATGACTG
107501746 AAATACCCCCATAGGGTAAAATGACTG
1 AAATACCCCCATAGGGTAAAATGACTG
**
107501773 AAATACCCCCATACAGTAAAATGACTG
1 AAATACCCCCATAGGGTAAAATGACTG
*
107501800 TAATA-CCCCATAGGGTAAAATGA-TCG
1 AAATACCCCCATAGGGTAAAATGACT-G
107501826 AAATACCCCCATAGGGTAAAATGACTG
1 AAATACCCCCATAGGGTAAAATGACTG
* * *
107501853 TAATATCCTCATTA-GGTAAAATGACTG
1 AAATACCCCCA-TAGGGTAAAATGACTG
*
107501880 AAATA-CCCCATAGGGTAAAATGAC-C
1 AAATACCCCCATAGGGTAAAATGACTG
** * *
107501905 AAACTACCTTCATAGGATAAAATGACCG
1 AAA-TACCCCCATAGGGTAAAATGACTG
** **
107501933 AAATACCCTTATAGGGTAAAATGACCA
1 AAATACCCCCATAGGGTAAAATGACTG
* * *
107501960 AAATACACCCATAGGGTGAAATGACCG
1 AAATACCCCCATAGGGTAAAATGACTG
**
107501987 AAATACCCTTATAGGGTAAAATGACTG
1 AAATACCCCCATAGGGTAAAATGACTG
*
107502014 TAATACCC
1 AAATACCC
107502022 TGTAAGATAA
Statistics
Matches: 258, Mismatches: 37, Indels: 16
0.83 0.12 0.05
Matches are distributed among these distances:
25 6 0.02
26 38 0.15
27 208 0.81
28 6 0.02
ACGTcount: A:0.41, C:0.22, G:0.16, T:0.21
Consensus pattern (27 bp):
AAATACCCCCATAGGGTAAAATGACTG
Found at i:107505380 original size:27 final size:27
Alignment explanation
Indices: 107505339--107505583 Score: 247
Period size: 27 Copynumber: 9.1 Consensus size: 27
107505329 AATAGTGATC
* *
107505339 GAAATATCCCTATAGGGTAAAATGACT
1 GAAATACCCCCATAGGGTAAAATGACT
* * *
107505366 GTAATACCCCCATAGGATAAAATGACC
1 GAAATACCCCCATAGGGTAAAATGACT
* * *
107505393 AAAATACCCTCATAGGGTAAAATGACC
1 GAAATACCCCCATAGGGTAAAATGACT
* *
107505420 GAAGTACACCCATAGGGTAAAATGACT
1 GAAATACCCCCATAGGGTAAAATGACT
* * * *
107505447 GAAATATCCTCATAGGGTGAAATGACC
1 GAAATACCCCCATAGGGTAAAATGACT
* * * *
107505474 AAAATACACCCATAGGGTGAAATGACC
1 GAAATACCCCCATAGGGTAAAATGACT
* **
107505501 AAAATACCCTTATAGGGTAAAATGACT
1 GAAATACCCCCATAGGGTAAAATGACT
*
107505528 GTAATACCCCCATAGGGTAAAATGACT
1 GAAATACCCCCATAGGGTAAAATGACT
* ** * *
107505555 GTAATACCCCTGTAAGATAAAATGACT
1 GAAATACCCCCATAGGGTAAAATGACT
107505582 GA
1 GA
107505584 TTTGCCCTAC
Statistics
Matches: 180, Mismatches: 38, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 180 1.00
ACGTcount: A:0.41, C:0.20, G:0.18, T:0.21
Consensus pattern (27 bp):
GAAATACCCCCATAGGGTAAAATGACT
Found at i:107505561 original size:81 final size:80
Alignment explanation
Indices: 107505340--107505553 Score: 304
Period size: 81 Copynumber: 2.6 Consensus size: 80
107505330 ATAGTGATCG
*
107505340 AAATATCCCTATAGGGTAAAATGACTGTAATACCCCCATAGGATAAAATGACCAAAATACCCTCA
1 AAATA-CCCTATAGGGTAAAATGACTGTAATACCCCCATAGGGTAAAATGACCAAAATACCCTCA
*
107505405 TAGGGTAAAATGACCG
65 TAGGGTAAAATGACCA
* * * * * *
107505421 AAGTACACCCATAGGGTAAAATGACTGAAATATCCTCATAGGGTGAAATGACCAAAATACACC-C
1 AAATAC-CCTATAGGGTAAAATGACTGTAATACCCCCATAGGGTAAAATGACCAAAATAC-CCTC
*
107505485 ATAGGGTGAAATGACCA
64 ATAGGGTAAAATGACCA
107505502 AAATACCCTTATAGGGTAAAATGACTGTAATACCCCCATAGGGTAAAATGAC
1 AAATACCC-TATAGGGTAAAATGACTGTAATACCCCCATAGGGTAAAATGAC
107505554 TGTAATACCC
Statistics
Matches: 115, Mismatches: 15, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
80 3 0.03
81 110 0.96
82 2 0.02
ACGTcount: A:0.42, C:0.20, G:0.18, T:0.21
Consensus pattern (80 bp):
AAATACCCTATAGGGTAAAATGACTGTAATACCCCCATAGGGTAAAATGACCAAAATACCCTCAT
AGGGTAAAATGACCA
Found at i:107505578 original size:81 final size:80
Alignment explanation
Indices: 107505340--107505580 Score: 288
Period size: 81 Copynumber: 3.0 Consensus size: 80
107505330 ATAGTGATCG
*
107505340 AAATATCCCTATAGGGTAAAATGACTGTAATACCCCCATAGGATAAAATGACCAAAATA-CCCTC
1 AAATA-CCCTATAGGGTAAAATGACTGTAATACCCCCATAGGGTAAAATGACCAAAATACCCCT-
*
107505404 ATAGGGTAAAATGACCG
64 ATAGGGTAAAATGACCA
* * * * * *
107505421 AAGTACACCCATAGGGTAAAATGACTGAAATATCCTCATAGGGTGAAATGACCAAAATACACCC-
1 AAATAC-CCTATAGGGTAAAATGACTGTAATACCCCCATAGGGTAAAATGACCAAAATAC-CCCT
*
107505485 ATAGGGTGAAATGACCA
64 ATAGGGTAAAATGACCA
*** *
107505502 AAATACCCTTATAGGGTAAAATGACTGTAATACCCCCATAGGGTAAAATGACTGTAATACCCCTG
1 AAATACCC-TATAGGGTAAAATGACTGTAATACCCCCATAGGGTAAAATGACCAAAATACCCCTA
* *
107505567 TAAGATAAAATGAC
65 TAGGGTAAAATGAC
107505581 TGATTTGCCC
Statistics
Matches: 133, Mismatches: 22, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
80 6 0.05
81 124 0.93
83 3 0.02
ACGTcount: A:0.41, C:0.20, G:0.17, T:0.21
Consensus pattern (80 bp):
AAATACCCTATAGGGTAAAATGACTGTAATACCCCCATAGGGTAAAATGACCAAAATACCCCTAT
AGGGTAAAATGACCA
Found at i:107505582 original size:54 final size:54
Alignment explanation
Indices: 107505340--107505553 Score: 279
Period size: 54 Copynumber: 4.0 Consensus size: 54
107505330 ATAGTGATCG
* *
107505340 AAATATCCCT-ATAGGGTAAAATGACTGTAATACCCCCATAGGATAAAATGACCA
1 AAATA-CCCTCATAGGGTAAAATGACTGTAATACACCCATAGGGTAAAATGACCA
* **
107505394 AAATACCCTCATAGGGTAAAATGACCG-AAGTACACCCATAGGGTAAAATGACTG
1 AAATACCCTCATAGGGTAAAATGACTGTAA-TACACCCATAGGGTAAAATGACCA
* * *** *
107505448 AAATATCCTCATAGGGTGAAATGACCAAAATACACCCATAGGGTGAAATGACCA
1 AAATACCCTCATAGGGTAAAATGACTGTAATACACCCATAGGGTAAAATGACCA
* *
107505502 AAATACCCTTATAGGGTAAAATGACTGTAATACCCCCATAGGGTAAAATGAC
1 AAATACCCTCATAGGGTAAAATGACTGTAATACACCCATAGGGTAAAATGAC
107505554 TGTAATACCC
Statistics
Matches: 138, Mismatches: 19, Indels: 6
0.85 0.12 0.04
Matches are distributed among these distances:
53 6 0.04
54 130 0.94
55 2 0.01
ACGTcount: A:0.42, C:0.20, G:0.18, T:0.21
Consensus pattern (54 bp):
AAATACCCTCATAGGGTAAAATGACTGTAATACACCCATAGGGTAAAATGACCA
Found at i:107508869 original size:27 final size:27
Alignment explanation
Indices: 107508827--107509079 Score: 308
Period size: 27 Copynumber: 9.1 Consensus size: 27
107508817 GCTGAAATAG
*
107508827 TGACCGAAATATCCCCATAGGGTAAAA
1 TGACCGAAATACCCCCATAGGGTAAAA
***
107508854 TGACTTTAATACCCCCATAGGGTAAAA
1 TGACCGAAATACCCCCATAGGGTAAAA
* *
107508881 TGACCGAAATACCCTCATAAGGTAAAA
1 TGACCGAAATACCCCCATAGGGTAAAA
* * ** *
107508908 TAAACGAAATACCTTCGTAGGGTAAAA
1 TGACCGAAATACCCCCATAGGGTAAAA
* *
107508935 TGACCGAAATACCCTCGTAGGGTAAAA
1 TGACCGAAATACCCCCATAGGGTAAAA
*
107508962 TGATTTTACCGGAAATACCCCCGTAGGGTAAAA
1 TG-----ACC-GAAATACCCCCATAGGGTAAAA
**
107508995 TGTTCGAAATACCCCCATAGGGTAAAA
1 TGACCGAAATACCCCCATAGGGTAAAA
107509022 TGACCGAAATACCCCCATAGGGTAAAA
1 TGACCGAAATACCCCCATAGGGTAAAA
107509049 TGACCGAAATACCCCCATAGGGTAAAA
1 TGACCGAAATACCCCCATAGGGTAAAA
107509076 TGAC
1 TGAC
107509080 TATTATACCC
Statistics
Matches: 197, Mismatches: 23, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
27 170 0.86
28 1 0.01
32 3 0.02
33 23 0.12
ACGTcount: A:0.39, C:0.22, G:0.19, T:0.20
Consensus pattern (27 bp):
TGACCGAAATACCCCCATAGGGTAAAA
Found at i:107509021 original size:114 final size:114
Alignment explanation
Indices: 107508827--107509078 Score: 336
Period size: 114 Copynumber: 2.3 Consensus size: 114
107508817 GCTGAAATAG
* *
107508827 TGACCGAAATATCCCCATAGGGTAAAATGACTTT------AATACCCCCATAGGGTAAAATGACC
1 TGACCGAAATACCCCCATAGGGTAAAATGATTTTACCGGAAATACCCCCATAGGGTAAAATGACC
* ** *
107508886 GAAATACCCTCATAAGGTAAAATAAACGAAATACCTTCGTAGGGTAAAA
66 GAAATACCCCCATAAGGTAAAATAAACGAAATACCCCCATAGGGTAAAA
* * * **
107508935 TGACCGAAATACCCTCGTAGGGTAAAATGATTTTACCGGAAATACCCCCGTAGGGTAAAATGTTC
1 TGACCGAAATACCCCCATAGGGTAAAATGATTTTACCGGAAATACCCCCATAGGGTAAAATGACC
* * *
107509000 GAAATACCCCCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAA
66 GAAATACCCCCATAAGGTAAAATAAACGAAATACCCCCATAGGGTAAAA
107509049 TGACCGAAATACCCCCATAGGGTAAAATGA
1 TGACCGAAATACCCCCATAGGGTAAAATGA
107509079 CTATTATACC
Statistics
Matches: 122, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
108 30 0.25
114 92 0.75
ACGTcount: A:0.39, C:0.22, G:0.19, T:0.20
Consensus pattern (114 bp):
TGACCGAAATACCCCCATAGGGTAAAATGATTTTACCGGAAATACCCCCATAGGGTAAAATGACC
GAAATACCCCCATAAGGTAAAATAAACGAAATACCCCCATAGGGTAAAA
Found at i:107509087 original size:27 final size:26
Alignment explanation
Indices: 107508973--107509093 Score: 170
Period size: 27 Copynumber: 4.5 Consensus size: 26
107508963 GATTTTACCG
* *
107508973 GAAATACCCCCGTAGGGTAAAATGTTC
1 GAAATACCCCCATAGGGTAAAATG-AC
107509000 GAAATACCCCCATAGGGTAAAATGACC
1 GAAATACCCCCATAGGGTAAAATGA-C
107509027 GAAATACCCCCATAGGGTAAAATGACC
1 GAAATACCCCCATAGGGTAAAATGA-C
107509054 GAAATACCCCCATAGGGTAAAATGAC
1 GAAATACCCCCATAGGGTAAAATGAC
* *
107509080 TATTATACCCCCAT
1 GA-AATACCCCCAT
107509094 CCTGTAAGAT
Statistics
Matches: 88, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
26 2 0.02
27 86 0.98
ACGTcount: A:0.38, C:0.26, G:0.17, T:0.19
Consensus pattern (26 bp):
GAAATACCCCCATAGGGTAAAATGAC
Found at i:107514288 original size:51 final size:51
Alignment explanation
Indices: 107514212--107514351 Score: 192
Period size: 50 Copynumber: 2.8 Consensus size: 51
107514202 TGAGGTCGCA
* * *
107514212 TGTGTAGTACTAAGTGTAGGCTACTATGCGTACCCGATAACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAACTTAGATCACG
* * * ** *
107514263 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGAT-GGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAACTTAGATCACG
107514313 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
107514352 GCTTTGGCTA
Statistics
Matches: 76, Mismatches: 12, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
50 43 0.57
51 33 0.43
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (51 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAACTTAGATCACG
Found at i:107516839 original size:66 final size:67
Alignment explanation
Indices: 107516733--107516866 Score: 261
Period size: 67 Copynumber: 2.0 Consensus size: 67
107516723 AGCAATGAAG
107516733 TTTTCTACTTGTCCGCAACTTGTTTTGC-AAAAAAAAAAAAAAAAGCCATTGAAGAGTTTGCTTC
1 TTTTCTACTTGTCCGCAACTTGTTTTGCAAAAAAAAAAAAAAAAAGCCATTGAAGAGTTTGCTTC
107516797 TC
66 TC
107516799 TTTTCTACTTGTCCGCAACTTGTTTTGCAAAAAAAAAAAAAAAAAGCCATTGAAGAGTTTGCTTC
1 TTTTCTACTTGTCCGCAACTTGTTTTGCAAAAAAAAAAAAAAAAAGCCATTGAAGAGTTTGCTTC
107516864 TC
66 TC
107516866 T
1 T
107516867 ACCTTTTTGC
Statistics
Matches: 67, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
66 28 0.42
67 39 0.58
ACGTcount: A:0.35, C:0.18, G:0.13, T:0.34
Consensus pattern (67 bp):
TTTTCTACTTGTCCGCAACTTGTTTTGCAAAAAAAAAAAAAAAAAGCCATTGAAGAGTTTGCTTC
TC
Found at i:107524680 original size:21 final size:21
Alignment explanation
Indices: 107524654--107524694 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
107524644 AGACAAGCAA
*
107524654 TACTCCACAACAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
107524675 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
107524695 TCGAGCAGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.32, C:0.22, G:0.27, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:107531013 original size:29 final size:28
Alignment explanation
Indices: 107530987--107531065 Score: 95
Period size: 29 Copynumber: 2.7 Consensus size: 28
107530977 TTTGTTATTC
107530987 TAATACTATTATTATTTATCTATTTATAT
1 TAATACTATTATTATTT-TCTATTTATAT
**
107531016 TTCTACTATTATTATATTTCTATTTATATT
1 TAATACTATTATTAT-TTTCTATTTATA-T
*
107531046 TATATACTAATATTATTTTC
1 TA-ATACTATTATTATTTTC
107531066 ATTATTATTT
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
29 23 0.55
30 8 0.19
31 11 0.26
ACGTcount: A:0.32, C:0.09, G:0.00, T:0.59
Consensus pattern (28 bp):
TAATACTATTATTATTTTCTATTTATAT
Found at i:107531039 original size:43 final size:43
Alignment explanation
Indices: 107530950--107531048 Score: 103
Period size: 43 Copynumber: 2.3 Consensus size: 43
107530940 TTATTGCTAT
** * *
107530950 TATTATTATGTT-TCTATTTATATTTATTTTGTTATTCTAATAC
1 TATTATTAT-TTATCTATTTATATTTATACTATTATTATAATAC
* * *
107530993 TATTATTATTTATCTATTTATATTTCTACTATTATTATATTTC
1 TATTATTATTTATCTATTTATATTTATACTATTATTATAATAC
107531036 TATT-TATATTTAT
1 TATTAT-TATTTAT
107531049 ATACTAATAT
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
42 3 0.06
43 44 0.94
ACGTcount: A:0.27, C:0.07, G:0.02, T:0.64
Consensus pattern (43 bp):
TATTATTATTTATCTATTTATATTTATACTATTATTATAATAC
Found at i:107531187 original size:3 final size:3
Alignment explanation
Indices: 107531179--107531318 Score: 70
Period size: 3 Copynumber: 48.3 Consensus size: 3
107531169 TTTAAAACTT
*
107531179 TTA TTA TTA TTA TTA CTA TTA TTA -TA TT- TCTA TGTA TTA -TA TT-
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA T-TA TTA TTA TTA
* *
107531222 TCTA TT- TATA TTTA TGTA TTA CTA TCA TTA TT- TT- TTA TT- TT- TTA
1 T-TA TTA T-TA -TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
** *
107531266 TATA TTA TTA TTA CCA TTA -TA TT- TT- TTA TTA TTA TTA CTA TTA
1 T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
107531309 TTT TTA TTA T
1 TTA TTA TTA T
107531319 CCGTCCTATT
Statistics
Matches: 107, Mismatches: 15, Indels: 30
0.70 0.10 0.20
Matches are distributed among these distances:
2 21 0.20
3 72 0.67
4 13 0.12
5 1 0.01
ACGTcount: A:0.29, C:0.06, G:0.01, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:107531266 original size:36 final size:35
Alignment explanation
Indices: 107531226--107531331 Score: 97
Period size: 36 Copynumber: 2.9 Consensus size: 35
107531216 TATATTTCTA
*
107531226 TTTATAT-TTATGTATTACTATCATTATTTTTTATTT
1 TTTATATATTAT-TATTACCATCA-TATTTTTTATTT
*
107531262 TTTATATATTATTATTACCATTATATTTTTTATTAT
1 TTTATATATTATTATTACCATCATATTTTTTATT-T
* * *
107531298 TATTACTATTATTTTTATTATCCGTCCTATTTTT
1 T-TTA-TA-TATTATTATTA-CCATCATATTTTT
107531332 AAACTGTTTC
Statistics
Matches: 58, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
35 11 0.19
36 18 0.31
37 7 0.12
38 2 0.03
39 10 0.17
40 10 0.17
ACGTcount: A:0.25, C:0.08, G:0.02, T:0.64
Consensus pattern (35 bp):
TTTATATATTATTATTACCATCATATTTTTTATTT
Found at i:107531295 original size:24 final size:24
Alignment explanation
Indices: 107531260--107531318 Score: 84
Period size: 24 Copynumber: 2.4 Consensus size: 24
107531250 TATTTTTTAT
107531260 TTTTTATATATTATTATTACCATTA
1 TTTTTAT-TATTATTATTACCATTA
*
107531285 TATTTT-TTATTATTATTACTATTA
1 T-TTTTATTATTATTATTACCATTA
107531309 TTTTTATTAT
1 TTTTTATTAT
107531319 CCGTCCTATT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
23 4 0.13
24 21 0.68
25 2 0.06
26 4 0.13
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.66
Consensus pattern (24 bp):
TTTTTATTATTATTATTACCATTA
Found at i:107537204 original size:44 final size:44
Alignment explanation
Indices: 107537155--107537889 Score: 496
Period size: 44 Copynumber: 16.9 Consensus size: 44
107537145 GATAAATTCA
*
107537155 CAGATCCTATCTCCCTAAGTAGTAGTGGAGTAGATTGAAGATGG
1 CAGATCCTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGATGG
* * * *
107537199 CAGATCCTGTCTCCCTAAGCAGTGGTGGAGTAGATT-TA-A-GC
1 CAGATCCTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGATGG
* * *
107537240 CACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTAAAGAAT-G
1 CA-GATCCTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAG-ATGG
* * * * *
107537285 CAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATAG
1 CAGATCCTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGATGG
* * * * *
107537329 CAAATCCTATCTCCCTAAGCAATAGTGGAGCAGATT-TA-A-GC
1 CAGATCCTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGATGG
* * ** *
107537370 CACCATCCTATCTCCCTAAGTAGTAGTGGAGTAGGCTGAAGATCG
1 CA-GATCCTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGATGG
* * * * * *
107537415 CAGATCTTGTTTCCCTAAGCAGTAGTGGAGCAGATCGAAGATAG
1 CAGATCCTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGATGG
* * * *
107537459 CAAATCCTGTCTCCCTAAGCAGTAGTGGAGCT-GATT-TA-A-GC
1 CAGATCCTATCTCCCTAAGCAGTAGTGGAG-TAGATTGAAGATGG
* ** *
107537500 CACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTG
1 CA-GATCCTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGATGG
* * * *
107537545 CAGATCTTGTCTCCCTAAGCAGTAGTAGAGTAGATCGAAGATGG
1 CAGATCCTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGATGG
* * * * * * * *
107537589 AAAATCTTGTCTCCTTAAGCAGTAGTGGAGCAGATT-TA-A-GC
1 CAGATCCTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGATGG
* * ** *
107537630 CACCATCCTATCTTCCTAAGCAGTAGTGGAGTAGGCTGAAGATTG
1 CA-GATCCTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGATGG
* * * ** ** *
107537675 CAGATCTTGTCTCCCTAAGTAGTAGTGGAACAGATCAAAGATGA
1 CAGATCCTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGATGG
* * * * *
107537719 CAAATCTTGTCTCCCTAAGCAGTAGTGGAGTAGATT-TA-A-GC
1 CAGATCCTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGATGG
* * * * * * *
107537760 CACTATTCTATCTCCCTAAGTAGTAGTGGAATAGACTAAAGATTG
1 CA-GATCCTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGATGG
* * * * * ** * **
107537805 TAGATCTTATCTCCCTGAGCAGCAGTGGAGCAGGCTAAAGATTA
1 CAGATCCTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGATGG
* * * *
107537849 CAGATCTTATATCCCTAAGCAGTAGTGGAGCAGATCGAAGA
1 CAGATCCTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGA
107537890 CGGTGAATCT
Statistics
Matches: 530, Mismatches: 137, Indels: 48
0.74 0.19 0.07
Matches are distributed among these distances:
41 13 0.02
42 144 0.27
43 12 0.02
44 351 0.66
45 10 0.02
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.26
Consensus pattern (44 bp):
CAGATCCTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGATGG
Found at i:107537388 original size:130 final size:130
Alignment explanation
Indices: 107537155--107537883 Score: 996
Period size: 130 Copynumber: 5.6 Consensus size: 130
107537145 GATAAATTCA
* * * * * * *
107537155 CAGATCCTATCTCCCTAAGTAGTAGTGGAGTAGATTGAAGATGGCAGATCCTGTCTCCCTAAGCA
1 CAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATAGCAAATCCTGTCTCCCTAAGCA
* * * * *
107537220 GTGGTGGAGTAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTAAAGAATG
66 GTAGTGGAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTG
*
107537285 CAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATAGCAAATCCTATCTCCCTAAGCA
1 CAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATAGCAAATCCTGTCTCCCTAAGCA
* * *
107537350 ATAGTGGAGCAGATTTAAGCCACCATCCTATCTCCCTAAGTAGTAGTGGAGTAGGCTGAAGATCG
66 GTAGTGGAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTG
*
107537415 CAGATCTTGTTTCCCTAAGCAGTAGTGGAGCAGATCGAAGATAGCAAATCCTGTCTCCCTAAGCA
1 CAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATAGCAAATCCTGTCTCCCTAAGCA
*
107537480 GTAGTGGAGCTGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTG
66 GTAGTGGAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTG
* * * * * *
107537545 CAGATCTTGTCTCCCTAAGCAGTAGTAGAGTAGATCGAAGATGGAAAATCTTGTCTCCTTAAGCA
1 CAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATAGCAAATCCTGTCTCCCTAAGCA
*
107537610 GTAGTGGAGCAGATTTAAGCCACCATCCTATCTTCCTAAGCAGTAGTGGAGTAGGCTGAAGATTG
66 GTAGTGGAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTG
* * * *
107537675 CAGATCTTGTCTCCCTAAGTAGTAGTGGAACAGATCAAAGAT-GACAAATCTTGTCTCCCTAAGC
1 CAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATAG-CAAATCCTGTCTCCCTAAGC
* * * * * * *
107537739 AGTAGTGGAGTAGATTTAAGCCACTATTCTATCTCCCTAAGTAGTAGTGGAATAGACTAAAGATT
65 AGTAGTGGAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATT
107537804 G
130 G
* * * * * * * * * *
107537805 TAGATCTTATCTCCCTGAGCAGCAGTGGAGCAG-GCTAAAGATTA-CAGATCTTATATCCCTAAG
1 CAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATC-GAAGA-TAGCAAATCCTGTCTCCCTAAG
107537868 CAGTAGTGGAGCAGAT
64 CAGTAGTGGAGCAGAT
107537884 CGAAGACGGT
Statistics
Matches: 538, Mismatches: 57, Indels: 8
0.89 0.09 0.01
Matches are distributed among these distances:
129 2 0.00
130 535 0.99
131 1 0.00
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.26
Consensus pattern (130 bp):
CAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATAGCAAATCCTGTCTCCCTAAGCA
GTAGTGGAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTG
Found at i:107537834 original size:174 final size:175
Alignment explanation
Indices: 107537638--107538012 Score: 461
Period size: 174 Copynumber: 2.1 Consensus size: 175
107537628 GCCACCATCC
* * * * * * *
107537638 TATCTTCCTAAGCAGTAGTGGAGTAGGCTGAAGATTGCAGATCTTGTCTCCCTAAGTAGTAGTGG
1 TATCTCCCTAAGCAGTAGTGGAGCAGGCTAAAGATTACAGATCTTATATCCCTAAGCAGTAGTGG
* *
107537703 AACAGATCAAAGATGACAAATCTTGTC-TCCCTAAGCAGTAGT-GG-AGTAGATTTAAGCCACTA
66 AACAGATCAAAGACGACAAATCTTGTCTTCCC-AAG--GTAGTGGGAAGAAGATTTAAGCCACTA
** * * *
107537765 TTC-TATCTCCCTAAGTAGTAGTGGAATAGACTAAAGATTGTAGATCT
128 GCCTTATCTCCCTAAGTAGCAGTGGAACAGACTAAAGATTGCAGATCT
* *
107537812 TATCTCCCTGAGCAGCAGTGGAGCAGGCTAAAGATTACAGATCTTATATCCCTAAGCAGTAGTGG
1 TATCTCCCTAAGCAGTAGTGGAGCAGGCTAAAGATTACAGATCTTATATCCCTAAGCAGTAGTGG
* * *** *
107537877 AGCAGATCGAAGACGGTGAATCTTGTCTTCCCGAGGTAGTGGGAAGAAGATTTAAGCCACTAGCC
66 AACAGATCAAAGACGACAAATCTTGTCTTCCCAAGGTAGTGGGAAGAAGATTTAAGCCACTAGCC
* * * *
107537942 TTATCTCCCTGAGTAGCAGTGGAGCAGGCTGAAGATTGCAGATCT
131 TTATCTCCCTAAGTAGCAGTGGAACAGACTAAAGATTGCAGATCT
107537987 TATCTCCCTAAGCAGTAGTGGAGCAG
1 TATCTCCCTAAGCAGTAGTGGAGCAG
107538013 ATCAAAGATG
Statistics
Matches: 169, Mismatches: 28, Indels: 7
0.83 0.14 0.03
Matches are distributed among these distances:
172 5 0.03
173 2 0.01
174 97 0.57
175 65 0.38
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.26
Consensus pattern (175 bp):
TATCTCCCTAAGCAGTAGTGGAGCAGGCTAAAGATTACAGATCTTATATCCCTAAGCAGTAGTGG
AACAGATCAAAGACGACAAATCTTGTCTTCCCAAGGTAGTGGGAAGAAGATTTAAGCCACTAGCC
TTATCTCCCTAAGTAGCAGTGGAACAGACTAAAGATTGCAGATCT
Found at i:107538021 original size:44 final size:43
Alignment explanation
Indices: 107537768--107538323 Score: 209
Period size: 44 Copynumber: 12.7 Consensus size: 43
107537758 GCCACTATTC
* ** *
107537768 TATCTCCCTAAGTAGTAGTGGAATAGA-CTAAAGATTGTAGATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATC-GAAGATTG-AGATCT
* * * * *
107537812 TATCTCCCTGAGCAGCAGTGGAGCAG-GCTAAAGATTACAGATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATC-GAAGATT-GAGATCT
* *
107537856 TATATCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGA-ATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGA--TTGAGATCT
* * * ** * *
107537900 TGTCTTCCC-GAG--GTAGTGGGAAGAAGATTTAAGCCACT-AG-CCT
1 TATC-TCCCTAAGCAGTAGT-GG-AGCAGATCGAAG--ATTGAGATCT
* * * *
107537943 TATCTCCCTGAGTAGCAGTGGAGCAG-GCTGAAGATTGCAGATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATC-GAAGATTG-AGATCT
*
107537987 TATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTGA-ATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGAT--TGAGATCT
* * * * * ** * *
107538031 TATTTTCCCGAGGTAGT-GGGGAAGCAGATTTAAGCCACT-AG-CCT
1 TA-TCTCCCTAAGCAGTAGTGG-AGCAGATCGAAG--ATTGAGATCT
* * * * *
107538075 TATCT-CCTCGAGCAGCAGTGGTGCA-AGCTGAAGATTGCAGATCA
1 TATCTCCCT-AAGCAGTAGTGGAGCAGATC-GAAGATTG-AGATCT
** *
107538119 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATTGAG-ATCT
* * * ** * *
107538163 TATCTTCCCGAGGTAGTAG-GGAAGCAGATTTAAGCCACT-AG-CCT
1 TATC-TCCCTAAGCAGTAGTGG-AGCAGATCGAAG--ATTGAGATCT
* *
107538207 TATCTCCCTGAGCAGTAGTGGAGCAG-GCTGAAGATTGCAGATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATC-GAAGATTG-AGATCT
107538251 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGA-ATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGAT--TGAGATCT
* *
107538295 TATCTTCCCGAAGTAGTA-TGGAAGCAGAT
1 TATC-TCCCTAAGCAGTAGTGG-AGCAGAT
107538324 TTAAGCCACT
Statistics
Matches: 377, Mismatches: 86, Indels: 97
0.67 0.15 0.17
Matches are distributed among these distances:
41 6 0.02
42 12 0.03
43 54 0.14
44 216 0.57
45 79 0.21
46 7 0.02
47 3 0.01
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.25
Consensus pattern (43 bp):
TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATTGAGATCT
Found at i:107538123 original size:132 final size:132
Alignment explanation
Indices: 107537810--107538349 Score: 895
Period size: 132 Copynumber: 4.1 Consensus size: 132
107537800 GATTGTAGAT
* * *
107537810 CTTATCTCCCTGAGCAGCAGTGGAGCAGGCTAAAGATTACAGATCTTATATCCCTAAGCAGTAGT
1 CTTATCTCCCTGAGCAGCAGTGGAGCAGGCTGAAGATTGCAGATCTTATCTCCCTAAGCAGTAGT
* *
107537875 GGAGCAGATCGAAGACGGTGAATCTTGTCTTCCCGAGGTAGT-GGGAAGAAGATTTAAGCCACTA
66 GGAGCAGATCGAAGACGGTGAATCTTATCTTCCCGAGGTAGTAGGGAAGCAGATTTAAGCCACTA
107537939 GC
131 GC
*
107537941 CTTATCTCCCTGAGTAGCAGTGGAGCAGGCTGAAGATTGCAGATCTTATCTCCCTAAGCAGTAGT
1 CTTATCTCCCTGAGCAGCAGTGGAGCAGGCTGAAGATTGCAGATCTTATCTCCCTAAGCAGTAGT
* * * *
107538006 GGAGCAGATCAAAGATGGTGAATCTTATTTTCCCGAGGTAGTGGGGAAGCAGATTTAAGCCACTA
66 GGAGCAGATCGAAGACGGTGAATCTTATCTTCCCGAGGTAGTAGGGAAGCAGATTTAAGCCACTA
107538071 GC
131 GC
* * *
107538073 CTTATCT-CCTCGAGCAGCAGTGGTGCAAGCTGAAGATTGCAGATCATATCTCCCTAAGCAGTAG
1 CTTATCTCCCT-GAGCAGCAGTGGAGCAGGCTGAAGATTGCAGATCTTATCTCCCTAAGCAGTAG
*
107538137 TGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCGAGGTAGTAGGGAAGCAGATTTAAGCCACT
65 TGGAGCAGATCGAAGACGGTGAATCTTATCTTCCCGAGGTAGTAGGGAAGCAGATTTAAGCCACT
107538202 AGC
130 AGC
*
107538205 CTTATCTCCCTGAGCAGTAGTGGAGCAGGCTGAAGATTGCAGATCTTATCTCCCTAAGCAGTAGT
1 CTTATCTCCCTGAGCAGCAGTGGAGCAGGCTGAAGATTGCAGATCTTATCTCCCTAAGCAGTAGT
* * *
107538270 GGAGCAGATCGAAGATGGTGAATCTTATCTTCCCGAAGTAGTATGGAAGCAGATTTAAGCCACTA
66 GGAGCAGATCGAAGACGGTGAATCTTATCTTCCCGAGGTAGTAGGGAAGCAGATTTAAGCCACTA
107538335 GC
131 GC
107538337 CTTATCTCCCTGA
1 CTTATCTCCCTGA
107538350 AGTTGCAGTG
Statistics
Matches: 380, Mismatches: 26, Indels: 5
0.92 0.06 0.01
Matches are distributed among these distances:
131 102 0.27
132 275 0.72
133 3 0.01
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (132 bp):
CTTATCTCCCTGAGCAGCAGTGGAGCAGGCTGAAGATTGCAGATCTTATCTCCCTAAGCAGTAGT
GGAGCAGATCGAAGACGGTGAATCTTATCTTCCCGAGGTAGTAGGGAAGCAGATTTAAGCCACTA
GC
Found at i:107539483 original size:15 final size:14
Alignment explanation
Indices: 107539463--107539540 Score: 54
Period size: 15 Copynumber: 5.4 Consensus size: 14
107539453 ACTATTATTT
*
107539463 TTTATCTAATTTTTA
1 TTTATCT-ATTTATA
107539478 TTTATCTATTTATA
1 TTTATCTATTTATA
*
107539492 TTTCTACTA-TTATTA
1 TTTAT-CTATTTA-TA
107539507 TATT-TCTATTTATTA
1 T-TTATCTATTTA-TA
*
107539522 TATT-TCTATTTCTA
1 T-TTATCTATTTATA
107539536 TTTAT
1 TTTAT
107539541 ATACTAATAT
Statistics
Matches: 55, Mismatches: 3, Indels: 11
0.80 0.04 0.16
Matches are distributed among these distances:
13 2 0.04
14 20 0.36
15 31 0.56
16 2 0.04
ACGTcount: A:0.26, C:0.09, G:0.00, T:0.65
Consensus pattern (14 bp):
TTTATCTATTTATA
Found at i:107539500 original size:44 final size:44
Alignment explanation
Indices: 107539452--107539538 Score: 108
Period size: 44 Copynumber: 2.0 Consensus size: 44
107539442 GTTATTCTAA
*
107539452 TACTATTATT-TTTTATCTAATTT-TTAT-TTATCTATTTATATTTC
1 TACTATTATTATATT-TCT-ATTTATTATATT-TCTATTTATATTTC
*
107539496 TACTATTATTATATTTCTATTTATTATATTTCTATTTCTATTT
1 TACTATTATTATATTTCTATTTATTATATTTCTATTTATATTT
107539539 ATATACTAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
43 4 0.11
44 29 0.76
45 5 0.13
ACGTcount: A:0.25, C:0.09, G:0.00, T:0.66
Consensus pattern (44 bp):
TACTATTATTATATTTCTATTTATTATATTTCTATTTATATTTC
Found at i:107539509 original size:17 final size:15
Alignment explanation
Indices: 107539487--107539532 Score: 74
Period size: 15 Copynumber: 2.9 Consensus size: 15
107539477 ATTTATCTAT
107539487 TTATATTTCTACTATTA
1 TTATATTTCTA-T-TTA
107539504 TTATATTTCTATTTA
1 TTATATTTCTATTTA
107539519 TTATATTTCTATTT
1 TTATATTTCTATTT
107539533 CTATTTATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
15 17 0.59
16 1 0.03
17 11 0.38
ACGTcount: A:0.26, C:0.09, G:0.00, T:0.65
Consensus pattern (15 bp):
TTATATTTCTATTTA
Found at i:107539678 original size:3 final size:3
Alignment explanation
Indices: 107539670--107539800 Score: 84
Period size: 3 Copynumber: 45.3 Consensus size: 3
107539660 TTTAAAAATT
*
107539670 TTA TTA TTA TTA TTA TTA TTA CTA TTA TTA -TA TT- TCTA TT- TATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA T-TA
* *
107539714 TTTA TGTA TTA ATA TCA TTA TT- TT- TTA TT- TT- TTA TATA TTA TTA
1 -TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA
** * *
107539758 TTA CCA TTA -TA TT- TT- TTA TTA TTA TTA CTA TTA TTT TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
107539801 CCGTCCTATT
Statistics
Matches: 102, Mismatches: 14, Indels: 24
0.73 0.10 0.17
Matches are distributed among these distances:
2 18 0.18
3 74 0.73
4 9 0.09
5 1 0.01
ACGTcount: A:0.30, C:0.05, G:0.01, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:107545427 original size:35 final size:35
Alignment explanation
Indices: 107545379--107545452 Score: 96
Period size: 35 Copynumber: 2.1 Consensus size: 35
107545369 TGATCTGCCT
* * *
107545379 ATCTGTATCTGTATCTAG-AATGGGCTTCGGCCCGA
1 ATCTGCATCTGTATCT-GTAATGGGCTTAGGCCCAA
*
107545414 ATCTGCATTTGTATCTGTAATGGGCTTAGGCCCAA
1 ATCTGCATCTGTATCTGTAATGGGCTTAGGCCCAA
107545449 ATCT
1 ATCT
107545453 ATATCTGTCT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
34 1 0.03
35 33 0.97
ACGTcount: A:0.22, C:0.22, G:0.23, T:0.34
Consensus pattern (35 bp):
ATCTGCATCTGTATCTGTAATGGGCTTAGGCCCAA
Found at i:107547110 original size:13 final size:13
Alignment explanation
Indices: 107547094--107547118 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
107547084 TAGATTATAT
107547094 TTGATTATGTAAA
1 TTGATTATGTAAA
107547107 TTGATTATGTAA
1 TTGATTATGTAA
107547119 TCTTGTAAAT
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:0.00, G:0.16, T:0.48
Consensus pattern (13 bp):
TTGATTATGTAAA
Found at i:107560451 original size:24 final size:24
Alignment explanation
Indices: 107560424--107560475 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
107560414 TTAGTAAGTC
*
107560424 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
107560448 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
107560472 AAAT
1 AAAT
107560476 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:107562402 original size:24 final size:24
Alignment explanation
Indices: 107562375--107562426 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
107562365 TTAGTAAGTC
*
107562375 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
107562399 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
107562423 AAAT
1 AAAT
107562427 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:107566251 original size:59 final size:59
Alignment explanation
Indices: 107566176--107566298 Score: 221
Period size: 59 Copynumber: 2.1 Consensus size: 59
107566166 CAGGCCTCTA
*
107566176 CTAATAATTCTTGTGATGTTTGATTGGCAGAATGGTCTATACATCCACTTGCAAAACAG
1 CTAATAATTCTTGTGATGTTTGATTGGCAGAATGGTCCATACATCCACTTGCAAAACAG
*
107566235 CTAATAATTCTTGTGATGTTTGATTGGTAGAATGGTCCATACATCCACTTGCAAAACAG
1 CTAATAATTCTTGTGATGTTTGATTGGCAGAATGGTCCATACATCCACTTGCAAAACAG
107566294 C-AATA
1 CTAATA
107566299 CAGTCGTCAA
Statistics
Matches: 62, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
58 4 0.06
59 58 0.94
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Consensus pattern (59 bp):
CTAATAATTCTTGTGATGTTTGATTGGCAGAATGGTCCATACATCCACTTGCAAAACAG
Found at i:107568276 original size:46 final size:46
Alignment explanation
Indices: 107568223--107568315 Score: 177
Period size: 46 Copynumber: 2.0 Consensus size: 46
107568213 TACAGTAAAA
*
107568223 TCACTTAATCACTTACTTAGTATAGTAGCAGAAGTTTCTAGAGTTT
1 TCACTTAATCACTTACTTAGTATAGTAGCAGAAGTTTCTAGAATTT
107568269 TCACTTAATCACTTACTTAGTATAGTAGCAGAAGTTTCTAGAATTT
1 TCACTTAATCACTTACTTAGTATAGTAGCAGAAGTTTCTAGAATTT
107568315 T
1 T
107568316 AGTTTTGAAA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.31, C:0.15, G:0.14, T:0.40
Consensus pattern (46 bp):
TCACTTAATCACTTACTTAGTATAGTAGCAGAAGTTTCTAGAATTT
Found at i:107574445 original size:3 final size:3
Alignment explanation
Indices: 107574437--107574724 Score: 140
Period size: 3 Copynumber: 93.7 Consensus size: 3
107574427 AGATAGTAAG
* * * * * * *
107574437 TAA TAA TAA CAA TAA TAA TAA CAG TAA TAA -AA AAA TGA TAA TAG TGA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
107574484 TAT TAG TAA TAA TAA TAA TAA TAA TAGGA -AA TAA TAA TAA CAA TATA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA--A TAA TAA TAA TAA TAA TA-A
* * * * * * *
107574531 TAC TAA TAA CAA CAA TAA T-A TGAA AAA TAA GAAA TAA CAA TACA CGAA
1 TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA -TAA TAA TAA TA-A -TAA
* * * *
107574579 TAG TAA TAGA TTAC TAA TAA TAA TAG TAAA TAA TGA TAA TAA TAA TAA
1 TAA TAA TA-A -TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA
*
107574627 TAA TAA T-A TAA TAA TAA T-A TAA TAA TAA TAA TAA TACA TTAA TAG
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A -TAA TAA
* * * * * * *
107574672 TGA TAA TGA TAA T-A TAT TAGA CAA TAA TAG TGA -AA TAA TGAG TAA
1 TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA T-AA TAA
107574717 TAA TAA TA
1 TAA TAA TA
107574725 GATTAAATTA
Statistics
Matches: 210, Mismatches: 54, Indels: 42
0.69 0.18 0.14
Matches are distributed among these distances:
2 12 0.06
3 175 0.83
4 17 0.08
5 6 0.03
ACGTcount: A:0.59, C:0.04, G:0.08, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:107574628 original size:31 final size:33
Alignment explanation
Indices: 107574593--107574724 Score: 132
Period size: 31 Copynumber: 4.1 Consensus size: 33
107574583 AATAGATTAC
107574593 TAATAATAATAGT-A-AATAATGATAATAATAA
1 TAATAATAATAGTAATAATAATGATAATAATAA
107574624 TAATAATAATA-TAATAATAAT-ATAATAATAA
1 TAATAATAATAGTAATAATAATGATAATAATAA
* * * *
107574655 TAATAATACATTAATAGTGATAATGATAAT-ATAT
1 TAATAATA-A-TAGTAATAATAATGATAATAATAA
* *
107574689 TAGACAATAATAGTGA-AATAATGAGTAATAATAA
1 TA-ATAATAATAGTAATAATAATGA-TAATAATAA
107574723 TA
1 TA
107574725 GATTAAATTA
Statistics
Matches: 83, Mismatches: 9, Indels: 15
0.78 0.08 0.14
Matches are distributed among these distances:
30 1 0.01
31 30 0.36
32 14 0.17
33 9 0.11
34 19 0.23
35 10 0.12
ACGTcount: A:0.58, C:0.02, G:0.08, T:0.33
Consensus pattern (33 bp):
TAATAATAATAGTAATAATAATGATAATAATAA
Found at i:107579548 original size:17 final size:17
Alignment explanation
Indices: 107579519--107579553 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
107579509 AATACATGAG
107579519 TATTTGTATATGGACATA
1 TATTTGTATATGG-CATA
107579537 TATTTG-ATATGGCATA
1 TATTTGTATATGGCATA
107579553 T
1 T
107579554 TCACTTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.29
17 6 0.35
18 6 0.35
ACGTcount: A:0.31, C:0.06, G:0.17, T:0.46
Consensus pattern (17 bp):
TATTTGTATATGGCATA
Found at i:107581127 original size:91 final size:91
Alignment explanation
Indices: 107580982--107581149 Score: 264
Period size: 91 Copynumber: 1.8 Consensus size: 91
107580972 TGACATTTTC
* *
107580982 TATTCGTAACATTTTAGTCACTTGTGTGTTGACTCAGTAATAGATTAATAACATGACACATTAAC
1 TATTCGTAACATTTTAATCACTTGTGTGTTGACTCAGTAATAGACTAATAACATGACACATTAAC
107581047 TCATATGCTTAACTAATGACATGACA
66 TCATATGCTTAACTAATGACATGACA
* * * * * *
107581073 TATTTGTAACATTTTAATCATTTTTGTGTTGACTCAGTAATGGACTAATGACATGACATATTAAC
1 TATTCGTAACATTTTAATCACTTGTGTGTTGACTCAGTAATAGACTAATAACATGACACATTAAC
107581138 TCATATGCTTAA
66 TCATATGCTTAA
107581150 TAGCTAATTT
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
91 69 1.00
ACGTcount: A:0.34, C:0.15, G:0.13, T:0.38
Consensus pattern (91 bp):
TATTCGTAACATTTTAATCACTTGTGTGTTGACTCAGTAATAGACTAATAACATGACACATTAAC
TCATATGCTTAACTAATGACATGACA
Found at i:107582265 original size:13 final size:12
Alignment explanation
Indices: 107582223--107582265 Score: 52
Period size: 11 Copynumber: 3.4 Consensus size: 12
107582213 TCAAACTAAA
107582223 CTTTGTTTTTACTT
1 CTTT-TTTTT-CTT
107582237 CTTTTTTTTCTT
1 CTTTTTTTTCTT
107582249 -TTTTTTTTCTCT
1 CTTTTTTTTCT-T
107582261 CTTTT
1 CTTTT
107582266 ATAAGGCTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
11 10 0.37
12 4 0.15
13 9 0.33
14 4 0.15
ACGTcount: A:0.02, C:0.16, G:0.02, T:0.79
Consensus pattern (12 bp):
CTTTTTTTTCTT
Found at i:107591707 original size:43 final size:43
Alignment explanation
Indices: 107591498--107591704 Score: 353
Period size: 43 Copynumber: 4.8 Consensus size: 43
107591488 TTATTGGGAA
* *
107591498 AAAAACGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGG
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGT
*
107591541 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTATGGT
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGT
*
107591584 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGTGGCGTTTGTGAG-
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTG-GT
*
107591627 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGCTTGTGGT
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGT
107591670 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCG
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCG
107591705 CTTTTTTTAC
Statistics
Matches: 155, Mismatches: 7, Indels: 4
0.93 0.04 0.02
Matches are distributed among these distances:
42 1 0.01
43 153 0.99
44 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.32, T:0.23
Consensus pattern (43 bp):
AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGT
Found at i:107591813 original size:31 final size:31
Alignment explanation
Indices: 107591778--107591860 Score: 85
Period size: 31 Copynumber: 2.6 Consensus size: 31
107591768 CTTCCTGCAT
* *
107591778 TAAAATCCAACCAAATACAACAAATATAATA
1 TAAAATCCAACCAAAAACAACAAATATAACA
* * * *
107591809 TAAAATGCAGCCAAAAACAGCAAATTTAACA
1 TAAAATCCAACCAAAAACAACAAATATAACA
*
107591840 TAAAAAATACAACCAAAAACA
1 T--AAAATCCAACCAAAAACA
107591861 TTAATTCTAA
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
31 26 0.62
33 16 0.38
ACGTcount: A:0.61, C:0.19, G:0.04, T:0.16
Consensus pattern (31 bp):
TAAAATCCAACCAAAAACAACAAATATAACA
Found at i:107597776 original size:9 final size:9
Alignment explanation
Indices: 107597762--107597951 Score: 107
Period size: 9 Copynumber: 20.6 Consensus size: 9
107597752 TACTTAAGTA
107597762 TTATGTAAG
1 TTATGTAAG
107597771 TTATGTAAG
1 TTATGTAAG
*
107597780 TTATGATATG
1 TTATG-TAAG
* * *
107597790 ATATAT-AT
1 TTATGTAAG
*
107597798 TTATGTAAA
1 TTATGTAAG
* *
107597807 TTATAT-AT
1 TTATGTAAG
*
107597815 TTATCTAAG
1 TTATGTAAG
*
107597824 TTATATAAG
1 TTATGTAAG
107597833 TTATGTAAG
1 TTATGTAAG
*
107597842 TTATGTAAA
1 TTATGTAAG
*
107597851 TTATGATATAAAA
1 TTATG---T-AAG
*
107597864 TATATTTAAG
1 T-TATGTAAG
107597874 TATTATGTAAG
1 --TTATGTAAG
107597885 TTATGTAAG
1 TTATGTAAG
* *
107597894 TTATAT-AT
1 TTATGTAAG
*
107597902 TTATCTAAG
1 TTATGTAAG
*
107597911 TTATATAAG
1 TTATGTAAG
*
107597920 TTATGTACG
1 TTATGTAAG
*
107597929 TTTTGTAAG
1 TTATGTAAG
* *
107597938 TTATATAAA
1 TTATGTAAG
107597947 TTATG
1 TTATG
107597952 ATATCAAATA
Statistics
Matches: 139, Mismatches: 31, Indels: 22
0.72 0.16 0.11
Matches are distributed among these distances:
8 16 0.12
9 98 0.71
10 8 0.06
11 8 0.06
12 2 0.01
13 4 0.03
14 3 0.02
ACGTcount: A:0.38, C:0.02, G:0.13, T:0.47
Consensus pattern (9 bp):
TTATGTAAG
Found at i:107597844 original size:71 final size:69
Alignment explanation
Indices: 107597762--107597924 Score: 202
Period size: 71 Copynumber: 2.3 Consensus size: 69
107597752 TACTTAAGTA
* * * *
107597762 TTATGTAAGTTATGTAAGTTATGATATGATATATATTTATGTAAATTATAT-ATTTATCTAAGTT
1 TTATGTAAGTTATGTAAGTTATGATATAAAATATATTTAAGT--ATTATATAAGTTATCTAAGTT
107597826 ATATAAG
64 ATAT-AG
* * *
107597833 TTATGTAAGTTATGTAAATTATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTAT
1 TTATGTAAGTTATGTAAGTTATGATATAAAATATATTTAAGTATTATATAAGTTATCTAAGTTAT
*
107597898 ATAT
66 ATAG
* *
107597902 TTATCTAAGTTATATAAGTTATG
1 TTATGTAAGTTATGTAAGTTATG
107597925 TACGTTTTGT
Statistics
Matches: 80, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
69 27 0.34
70 15 0.19
71 38 0.47
ACGTcount: A:0.39, C:0.01, G:0.13, T:0.47
Consensus pattern (69 bp):
TTATGTAAGTTATGTAAGTTATGATATAAAATATATTTAAGTATTATATAAGTTATCTAAGTTAT
ATAG
Found at i:107597900 original size:87 final size:90
Alignment explanation
Indices: 107597798--107597982 Score: 259
Period size: 96 Copynumber: 2.0 Consensus size: 90
107597788 TGATATATAT
*
107597798 TTATGTAAATTATATATTTATCTAAGTTATATAAG-T-TA-TGTAAGTTATGTAAATTATGATAT
1 TTATGTAAATTATATATTTATCTAAGTTATATAAGTTGTATTGTAAGTTATATAAATTATGATAT
107597860 AAAATATATTTAAGTATTATGTAAG
66 AAAATATATTTAAGTATTATGTAAG
*
107597885 TTATGTAAGTTATATATTTATCTAAGTTATATAAGTTATGTACGTTTTGTAAGTTATATAAATTA
1 TTATGTAAATTATATATTTATCTAAGTTATATAAG-T-TGTA----TTGTAAGTTATATAAATTA
* *
107597950 TGATATCAAATATATTTATGTATTATGTAAG
60 TGATATAAAATATATTTAAGTATTATGTAAG
107597981 TT
1 TT
107597983 TTTTATTTCA
Statistics
Matches: 85, Mismatches: 4, Indels: 9
0.87 0.04 0.09
Matches are distributed among these distances:
87 34 0.40
90 1 0.01
91 2 0.02
96 48 0.56
ACGTcount: A:0.38, C:0.02, G:0.12, T:0.48
Consensus pattern (90 bp):
TTATGTAAATTATATATTTATCTAAGTTATATAAGTTGTATTGTAAGTTATATAAATTATGATAT
AAAATATATTTAAGTATTATGTAAG
Found at i:107597990 original size:87 final size:87
Alignment explanation
Indices: 107597798--107597982 Score: 234
Period size: 87 Copynumber: 2.1 Consensus size: 87
107597788 TGATATATAT
*
107597798 TTATGTAAATTATATATTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAATTATGATATAAA
1 TTATGTAAGTTATATATTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAATTATGATATAAA
** *
107597863 ATATATTTAAGTATTATGTAAG
66 ATATATCAAAATATTATGTAAG
* * *
107597885 TTATGTAAGTTATATATTTATCTAAGTTATATAAGTTATGTACGTTTTGTAAGTTAT-ATA-AAT
1 TTATGTAAGTTATATATTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAATTATGATATAA-
*
107597948 TATGATATCAAATATATTTATGT-A-
65 AAT-ATATCAAA-ATA-TTATGTAAG
107597972 TTATGTAAGTT
1 TTATGTAAGTT
107597983 TTTTATTTCA
Statistics
Matches: 86, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
85 2 0.02
86 5 0.06
87 70 0.81
88 3 0.03
89 6 0.07
ACGTcount: A:0.38, C:0.02, G:0.12, T:0.48
Consensus pattern (87 bp):
TTATGTAAGTTATATATTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAATTATGATATAAA
ATATATCAAAATATTATGTAAG
Found at i:107598076 original size:15 final size:15
Alignment explanation
Indices: 107598056--107598085 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
107598046 AAGTAGCAGG
107598056 ATTAAATAATATTTA
1 ATTAAATAATATTTA
107598071 ATTAAATAATATTTA
1 ATTAAATAATATTTA
107598086 TAAAAATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
ATTAAATAATATTTA
Found at i:107598336 original size:71 final size:72
Alignment explanation
Indices: 107598213--107598375 Score: 294
Period size: 71 Copynumber: 2.3 Consensus size: 72
107598203 AAGTACATAT
107598213 TAATATAAAAAAAGAATCGT-AATAAAAAAATCAAACATTATTAATATAAAAAAATAGTAATTTG
1 TAATATAAAAAAAGAATCGTAAATAAAAAAATCAAACATTATTAATATAAAAAAATAGTAATTTG
107598277 AATATAA
66 AATATAA
**
107598284 TAATATAAAAAAAGAATCGTAAATATTAAAATCAAACATTATTAATAT-AAAAAATAGTAATTTG
1 TAATATAAAAAAAGAATCGTAAATAAAAAAATCAAACATTATTAATATAAAAAAATAGTAATTTG
107598348 AATATAA
66 AATATAA
107598355 TAATATAAAAAAAGAATCGTA
1 TAATATAAAAAAAGAATCGTA
107598376 GTTTAATTTT
Statistics
Matches: 89, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
71 64 0.72
72 25 0.28
ACGTcount: A:0.61, C:0.04, G:0.06, T:0.29
Consensus pattern (72 bp):
TAATATAAAAAAAGAATCGTAAATAAAAAAATCAAACATTATTAATATAAAAAAATAGTAATTTG
AATATAA
Found at i:107598793 original size:275 final size:274
Alignment explanation
Indices: 107598303--107598855 Score: 1097
Period size: 275 Copynumber: 2.0 Consensus size: 274
107598293 AAAAGAATCG
107598303 TAAATATTAAAATCAAACATTATTAATATAAAAAATAGTAATTTGAATATAATAATATAAAAAAA
1 TAAATATTAAAATCAAACATTATTAATATAAAAAATAGTAATTTGAATATAATAATATAAAAAAA
107598368 GAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATATTCAATAGTAAATGAGCTCGATAG
66 GAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATATTCAATAGTAAATGAGCTCGATAG
107598433 AACTATTTTCAAGTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGA
131 AACTATTTTCAAGTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGA
107598498 GGATCCATTATATCTTGCAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGA
196 GGATCCATTATATCTTGCAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGA
107598563 ATCTTTAAAATATT
261 ATCTTTAAAATATT
107598577 TAAATATTAAAATCAAACATTATTAATATAAAAAAATAGTAATTTGAATATAATAATATAAAAAA
1 TAAATATTAAAATCAAACATTATTAATAT-AAAAAATAGTAATTTGAATATAATAATATAAAAAA
107598642 AGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATATTCAATAGTAAATGAGCTCGATA
65 AGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATATTCAATAGTAAATGAGCTCGATA
107598707 GAACTATTTTCAAGTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGG
130 GAACTATTTTCAAGTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGG
107598772 AGGATCCATTATATCTTGCAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTG
195 AGGATCCATTATATCTTGCAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTG
107598837 AATCTTTAAAATATT
260 AATCTTTAAAATATT
107598852 TAAA
1 TAAA
107598856 ATAAGGTTGG
Statistics
Matches: 278, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
274 29 0.10
275 249 0.90
ACGTcount: A:0.39, C:0.12, G:0.13, T:0.36
Consensus pattern (274 bp):
TAAATATTAAAATCAAACATTATTAATATAAAAAATAGTAATTTGAATATAATAATATAAAAAAA
GAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATATTCAATAGTAAATGAGCTCGATAG
AACTATTTTCAAGTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGA
GGATCCATTATATCTTGCAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGA
ATCTTTAAAATATT
Found at i:107599137 original size:15 final size:15
Alignment explanation
Indices: 107599117--107599145 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
107599107 AGAATTTTGA
107599117 AATAAAACGTACCTT
1 AATAAAACGTACCTT
107599132 AATAAAACGTACCT
1 AATAAAACGTACCT
107599146 GGTCTACTCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.21, G:0.07, T:0.24
Consensus pattern (15 bp):
AATAAAACGTACCTT
Found at i:107599654 original size:183 final size:183
Alignment explanation
Indices: 107599346--107599897 Score: 1023
Period size: 183 Copynumber: 3.0 Consensus size: 183
107599336 CCTAGAACAG
107599346 ATGTAAGATTATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATAAAAACTTTATCTAT
1 ATGTAAGATTATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATAAAAACTTTATCTAT
107599411 ATCAGTACCAAATATTAATTCGAAGATTAAATGGCAGCTTCAGTTGAACCAATAGTTGCAGGAGG
66 ATCAGTACCAAATATTAATTCGAAGATTAAATGGCAGCTTCAGTTGAACCAATAGTTGCAGGAGG
107599476 AGCAGGAATCAGTAACTGAAATACATACAACATTAATTCACTAATACAGACAC
131 AGCAGGAATCAGTAACTGAAATACATACAACATTAATTCACTAATACAGACAC
* *
107599529 ATGTAAGATTATAAGAGTAGCACCAAATATATTTCAGTTCAAGAAAATATAAAAACTTTATCTAT
1 ATGTAAGATTATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATAAAAACTTTATCTAT
* *
107599594 ATCAGTACCAAATATTAATCCGAAGATTAAATGGCAGCTTCAGTTGAACAAATAGTTGCAGGAGG
66 ATCAGTACCAAATATTAATTCGAAGATTAAATGGCAGCTTCAGTTGAACCAATAGTTGCAGGAGG
107599659 AGCAGGAATCAGTAACTGAAATACATACAACATTAATTCACTAATACAGACAC
131 AGCAGGAATCAGTAACTGAAATACATACAACATTAATTCACTAATACAGACAC
*
107599712 ATGTAAGATTATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATGAAAACTTTATCTAT
1 ATGTAAGATTATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATAAAAACTTTATCTAT
107599777 ATCAGTACCAAATATTAATTCGAAGATTAAATGGCAGCTTCAGTTGAACCAATAGTTGCAGGAGG
66 ATCAGTACCAAATATTAATTCGAAGATTAAATGGCAGCTTCAGTTGAACCAATAGTTGCAGGAGG
* * * *
107599842 AGCAGGAAGCAGTAACTGAAACATATACAACATTAATTCACTAATATAGACAC
131 AGCAGGAATCAGTAACTGAAATACATACAACATTAATTCACTAATACAGACAC
107599895 ATG
1 ATG
107599898 GAACTATATC
Statistics
Matches: 356, Mismatches: 13, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
183 356 1.00
ACGTcount: A:0.43, C:0.15, G:0.15, T:0.27
Consensus pattern (183 bp):
ATGTAAGATTATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATAAAAACTTTATCTAT
ATCAGTACCAAATATTAATTCGAAGATTAAATGGCAGCTTCAGTTGAACCAATAGTTGCAGGAGG
AGCAGGAATCAGTAACTGAAATACATACAACATTAATTCACTAATACAGACAC
Found at i:107602829 original size:15 final size:15
Alignment explanation
Indices: 107602809--107602857 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
107602799 GGTAAAAATT
107602809 TTGGGGGAGAAGAAG
1 TTGGGGGAGAAGAAG
*
107602824 TT--GGG-GAA-AAT
1 TTGGGGGAGAAGAAG
*
107602835 TTGAGGGAGAAGAAG
1 TTGGGGGAGAAGAAG
107602850 TTGGGGGA
1 TTGGGGGA
107602858 AATCGGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 8
0.71 0.08 0.21
Matches are distributed among these distances:
11 4 0.15
12 3 0.11
13 6 0.22
14 3 0.11
15 11 0.41
ACGTcount: A:0.33, C:0.00, G:0.49, T:0.18
Consensus pattern (15 bp):
TTGGGGGAGAAGAAG
Found at i:107602833 original size:27 final size:27
Alignment explanation
Indices: 107602803--107602860 Score: 91
Period size: 26 Copynumber: 2.2 Consensus size: 27
107602793 AACTAGGGTA
*
107602803 AAAATTTTGGGGGAGAAGAAGTTGGGG
1 AAAATTTTGAGGGAGAAGAAGTTGGGG
107602830 AAAA-TTTGAGGGAGAAGAAGTTGGGG
1 AAAATTTTGAGGGAGAAGAAGTTGGGG
*
107602856 GAAAT
1 AAAAT
107602861 CGGGGAAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 24 0.86
27 4 0.14
ACGTcount: A:0.38, C:0.00, G:0.41, T:0.21
Consensus pattern (27 bp):
AAAATTTTGAGGGAGAAGAAGTTGGGG
Found at i:107603170 original size:28 final size:28
Alignment explanation
Indices: 107603138--107603195 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
107603128 AATCAAAACT
*
107603138 CTAT-ACCTTAAACCATTAAACTATATCC
1 CTATAACCTTAAACC-CTAAACTATATCC
* *
107603166 CTATAACCTTAATCCCTAAAGTATATCC
1 CTATAACCTTAAACCCTAAACTATATCC
107603194 CT
1 CT
107603196 TAAACCCTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 17 0.65
29 9 0.35
ACGTcount: A:0.36, C:0.29, G:0.02, T:0.33
Consensus pattern (28 bp):
CTATAACCTTAAACCCTAAACTATATCC
Found at i:107603196 original size:21 final size:21
Alignment explanation
Indices: 107603172--107603215 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
107603162 ATCCCTATAA
* *
107603172 CCTTAATCCCTAAAGTATATC
1 CCTTAAACCCTAAACTATATC
107603193 CCTTAAACCCTAAACTATATC
1 CCTTAAACCCTAAACTATATC
107603214 CC
1 CC
107603216 CTAACCATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.34, C:0.34, G:0.02, T:0.30
Consensus pattern (21 bp):
CCTTAAACCCTAAACTATATC
Found at i:107603449 original size:7 final size:7
Alignment explanation
Indices: 107603437--107603463 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
107603427 CCCTAAGTAT
107603437 TAACCCC
1 TAACCCC
107603444 TAACCCC
1 TAACCCC
107603451 TAACCCC
1 TAACCCC
107603458 TAACCC
1 TAACCC
107603464 TTAAATCATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.30, C:0.56, G:0.00, T:0.15
Consensus pattern (7 bp):
TAACCCC
Found at i:107603626 original size:41 final size:41
Alignment explanation
Indices: 107603569--107603764 Score: 320
Period size: 41 Copynumber: 4.8 Consensus size: 41
107603559 AACCCTAAAC
*
107603569 TTTTTAGCGACGTTTTACCAAAAGCGCCGCTAATGCTCTTA
1 TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTTA
* * * **
107603610 TTTTTAGCGGCGTTTTACCAAAAGCGCCCCAAATACTCCGA
1 TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTTA
107603651 TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTTA
1 TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTTA
107603692 TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTTA
1 TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTTA
* *
107603733 TTTTTAGCGGCATTTTACCAAAAGCACCGCTA
1 TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTA
107603765 TTGCGCTGCT
Statistics
Matches: 142, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 142 1.00
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (41 bp):
TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTTA
Found at i:107608752 original size:24 final size:23
Alignment explanation
Indices: 107608714--107608768 Score: 67
Period size: 24 Copynumber: 2.4 Consensus size: 23
107608704 AATACATGTT
*
107608714 CATAATAT-ATATAAAACGTATA
1 CATAATATAATATAAAACATATA
* *
107608736 TATAATATAATATTAAAACATTTA
1 CATAATATAATA-TAAAACATATA
107608760 CATAATATA
1 CATAATATA
107608769 TACACATATA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 7 0.26
23 3 0.11
24 17 0.63
ACGTcount: A:0.55, C:0.07, G:0.02, T:0.36
Consensus pattern (23 bp):
CATAATATAATATAAAACATATA
Found at i:107608823 original size:18 final size:19
Alignment explanation
Indices: 107608788--107608846 Score: 57
Period size: 18 Copynumber: 3.1 Consensus size: 19
107608778 AATTACAATG
* *
107608788 TTAAAAAAACATATTAATA
1 TTAAAAATACATACTAATA
107608807 TTAAAAATA-ATACTAATA
1 TTAAAAATACATACTAATA
* *
107608825 TTACATAAATATATACTTATA
1 TTA-A-AAATACATACTAATA
107608846 T
1 T
107608847 ATATTAAAGA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
18 11 0.32
19 9 0.26
20 5 0.15
21 9 0.26
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (19 bp):
TTAAAAATACATACTAATA
Found at i:107608854 original size:21 final size:21
Alignment explanation
Indices: 107608804--107608870 Score: 55
Period size: 23 Copynumber: 3.0 Consensus size: 21
107608794 AAACATATTA
* *
107608804 ATATTAAAAATAATACTAATAT
1 ATATTAAATAT-ATACTTATAT
*
107608826 -TACATAAATATATACTTATAT
1 ATA-TTAAATATATACTTATAT
*
107608847 ATATTAAAGATATATACATATAT
1 ATATT-AA-ATATATACTTATAT
107608870 A
1 A
107608871 ATAAACGAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
21 12 0.33
22 10 0.28
23 14 0.39
ACGTcount: A:0.54, C:0.06, G:0.01, T:0.39
Consensus pattern (21 bp):
ATATTAAATATATACTTATAT
Found at i:107608875 original size:21 final size:22
Alignment explanation
Indices: 107608833--107608939 Score: 76
Period size: 21 Copynumber: 4.9 Consensus size: 22
107608823 TATTACATAA
*
107608833 ATATATACTTATATATATTAAAG
1 ATATATAC-TATATATAATAAAG
107608856 ATATATAC-ATATATAATAAACG
1 ATATATACTATATATAATAAA-G
* * *
107608878 A-ATAATACTATATTTAATATAT
1 ATAT-ATACTATATATAATAAAG
** * *
107608900 ATACGTAATATGTATAATAAAG
1 ATATATACTATATATAATAAAG
* *
107608922 ATA-ATAATATACATAATA
1 ATATATACTATATATAATA
107608940 TATATAAAAT
Statistics
Matches: 66, Mismatches: 14, Indels: 10
0.73 0.16 0.11
Matches are distributed among these distances:
21 25 0.38
22 22 0.33
23 19 0.29
ACGTcount: A:0.52, C:0.06, G:0.05, T:0.37
Consensus pattern (22 bp):
ATATATACTATATATAATAAAG
Found at i:107608955 original size:20 final size:21
Alignment explanation
Indices: 107608922--107608963 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
107608912 TATAATAAAG
* *
107608922 ATAATAATATACATAATATAT
1 ATAATAATACACATAACATAT
107608943 ATAA-AATACACATAACATAT
1 ATAATAATACACATAACATAT
107608963 A
1 A
107608964 CGTATGTAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.60, C:0.10, G:0.00, T:0.31
Consensus pattern (21 bp):
ATAATAATACACATAACATAT
Found at i:107609295 original size:3 final size:3
Alignment explanation
Indices: 107609287--107609361 Score: 80
Period size: 3 Copynumber: 25.3 Consensus size: 3
107609277 TATATATATG
* * * *
107609287 ATA ATA ATA ATA ATA ATA GTA ATA ATA ATA ATA ATA ATA GTA GTA GTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
107609335 GTA ATA ATA CTA ATA AT- ATA AAA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
107609362 CAAGAATATT
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
2 2 0.03
3 61 0.97
ACGTcount: A:0.60, C:0.01, G:0.07, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:107609805 original size:14 final size:13
Alignment explanation
Indices: 107609777--107609801 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
107609767 ATAAGTCAAA
107609777 TTTTTTTGAAAAT
1 TTTTTTTGAAAAT
107609790 TTTTTTTGAAAA
1 TTTTTTTGAAAA
107609802 ATTTCATTTG
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:0.00, G:0.08, T:0.60
Consensus pattern (13 bp):
TTTTTTTGAAAAT
Found at i:107610000 original size:16 final size:17
Alignment explanation
Indices: 107609971--107610004 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
107609961 AATTCTTTCC
*
107609971 TTTTTTGTATTTTTTAT
1 TTTTTTGTAGTTTTTAT
107609988 TTTTTTGT-GTTTTTAT
1 TTTTTTGTAGTTTTTAT
107610004 T
1 T
107610005 ATAAATTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.09, C:0.00, G:0.09, T:0.82
Consensus pattern (17 bp):
TTTTTTGTAGTTTTTAT
Found at i:107611659 original size:40 final size:40
Alignment explanation
Indices: 107611614--107611844 Score: 295
Period size: 40 Copynumber: 5.8 Consensus size: 40
107611604 GGATATAGCT
* * * *
107611614 ACTCGCTCAAATGCCTTCGGGACATAGCCCAG-TTAGAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATT-TAGTA
* *
107611654 ACTCGCACAATTGCCTTCAGGACTTAGCCCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
*
107611694 ACTCACACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
*
107611734 ACTCGCACAAATGCCTTCAGGACTTAGCCCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* ** *
107611774 ACTCACACAAATGCCTTCGGGACTT-GCCCGGAACTAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* ** *
107611813 ACTAGTGCAGATGCCTTCGGGACTTAGCCCGG
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG
107611845 TTATCATCCA
Statistics
Matches: 168, Mismatches: 21, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
39 31 0.18
40 135 0.80
41 2 0.01
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
Found at i:107619174 original size:3 final size:3
Alignment explanation
Indices: 107619166--107619197 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
107619156 ATATTTTATA
107619166 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
107619198 AGAAAAGAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:107622417 original size:18 final size:18
Alignment explanation
Indices: 107622394--107622429 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
107622384 ATTCAAGTTG
*
107622394 ACTCGAACAACTCGATTA
1 ACTCGAACAACTCAATTA
*
107622412 ACTCGAATAACTCAATTA
1 ACTCGAACAACTCAATTA
107622430 GTTTTACTCG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.42, C:0.25, G:0.08, T:0.25
Consensus pattern (18 bp):
ACTCGAACAACTCAATTA
Found at i:107622515 original size:7 final size:7
Alignment explanation
Indices: 107622503--107622531 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
107622493 ATATATTTTA
107622503 ATTTAAT
1 ATTTAAT
107622510 ATTTAAT
1 ATTTAAT
107622517 ATTTAAT
1 ATTTAAT
107622524 ATTTAAT
1 ATTTAAT
107622531 A
1 A
107622532 ATTTTATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (7 bp):
ATTTAAT
Found at i:107622550 original size:24 final size:26
Alignment explanation
Indices: 107622523--107622579 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 26
107622513 TAATATTTAA
107622523 TATTTAATA-ATTT-TATATAAATTT
1 TATTTAATATATTTCTATATAAATTT
* * *
107622547 TATTTATTATATTTCTATCTTAATTT
1 TATTTAATATATTTCTATATAAATTT
107622573 T-TTTAAT
1 TATTTAAT
107622580 GTTTACATTA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
24 8 0.30
25 9 0.33
26 10 0.37
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (26 bp):
TATTTAATATATTTCTATATAAATTT
Found at i:107624470 original size:24 final size:24
Alignment explanation
Indices: 107624443--107624501 Score: 59
Period size: 24 Copynumber: 2.4 Consensus size: 24
107624433 GTAATTGAAG
* *
107624443 AAGAGAATAATAGGTAAA-AATAAT
1 AAGAGAATAA-AAGTAAATAAGAAT
107624467 AAGATG-ATAAAAGTAAATAAGAAT
1 AAGA-GAATAAAAGTAAATAAGAAT
107624491 AAGAAGAATAA
1 AAG-AGAATAA
107624502 GTTAAAAGGA
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
23 6 0.21
24 17 0.59
25 6 0.21
ACGTcount: A:0.64, C:0.00, G:0.17, T:0.19
Consensus pattern (24 bp):
AAGAGAATAAAAGTAAATAAGAAT
Found at i:107625312 original size:20 final size:20
Alignment explanation
Indices: 107625287--107625324 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
107625277 GAGGAAAAGT
107625287 AAAAAAAGGATGAAATTGTA
1 AAAAAAAGGATGAAATTGTA
107625307 AAAAAAAGGATGAAATTG
1 AAAAAAAGGATGAAATTG
107625325 AATTAACAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.61, C:0.00, G:0.21, T:0.18
Consensus pattern (20 bp):
AAAAAAAGGATGAAATTGTA
Found at i:107626736 original size:44 final size:44
Alignment explanation
Indices: 107626673--107626880 Score: 178
Period size: 44 Copynumber: 4.8 Consensus size: 44
107626663 GATTTTCAAC
107626673 CTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGTCATCATTGCT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGTCATCATTGCT
* * * * *
107626717 CTGTTTCCCTACCGCTTAGGGGTTTAAGATCTTGTAAAATCA--GCT
1 CTGTTACCCTACTGCTTAGGGGGTTAAG-GCTTGT--CATCATTGCT
* * ** * *
107626762 -TGTTACCCTACTGCTTAGGGGTTTAAGGCTTATCGCCTTTGAT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGTCATCATTGCT
* * *
107626805 CTGTTTCCCTACTGCTTAGGGGGTTAA-GATCTGT-A-AATTTAG-T
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGCT-TGTCATCA-TT-GCT
*
107626848 CTGTTACCCTACTGCTTAGGGGGTTAAAGCTTG
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGCTTG
107626881 GTGGTTTGAA
Statistics
Matches: 131, Mismatches: 23, Indels: 21
0.75 0.13 0.12
Matches are distributed among these distances:
41 1 0.01
43 39 0.30
44 79 0.60
45 8 0.06
47 4 0.03
ACGTcount: A:0.19, C:0.21, G:0.24, T:0.37
Consensus pattern (44 bp):
CTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGTCATCATTGCT
Found at i:107626868 original size:87 final size:87
Alignment explanation
Indices: 107626673--107626879 Score: 290
Period size: 88 Copynumber: 2.4 Consensus size: 87
107626663 GATTTTCAAC
* * *
107626673 CTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGTCATCATTGCTCTGTTTCCCTACCGCTTAGGG
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGCTTATCACCATTGATCTGTTTCCCTACCGCTTAGGG
*
107626738 GTTTAAGATCTTGTAAAATCAG
66 GGTTAAGATCTTGTAAAATCAG
* * * *
107626760 CTTGTTACCCTACTGCTTAGGGGTTTAAGGCTTATCGCCTTTGATCTGTTTCCCTACTGCTTAGG
1 C-TGTTACCCTACTGCTTAGGGGGTTAAGGCTTATCACCATTGATCTGTTTCCCTACCGCTTAGG
* *
107626825 GGGTTAAGATC-TGTAAATTTAG
65 GGGTTAAGATCTTGTAAAATCAG
*
107626847 TCTGTTACCCTACTGCTTAGGGGGTTAAAGCTT
1 -CTGTTACCCTACTGCTTAGGGGGTTAAGGCTT
107626880 GGTGGTTTGA
Statistics
Matches: 106, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
87 39 0.37
88 67 0.63
ACGTcount: A:0.19, C:0.21, G:0.23, T:0.37
Consensus pattern (87 bp):
CTGTTACCCTACTGCTTAGGGGGTTAAGGCTTATCACCATTGATCTGTTTCCCTACCGCTTAGGG
GGTTAAGATCTTGTAAAATCAG
Found at i:107627159 original size:45 final size:45
Alignment explanation
Indices: 107627016--107627159 Score: 134
Period size: 45 Copynumber: 3.2 Consensus size: 45
107627006 AGGCCCATCT
* * *
107627016 TCTTTGATCTGTTTCCCTACTGCTTAGGGTGATAAGATCTGCAAA
1 TCTTCGATCTGTTTCCCTACTGCTTAGGGGGATAAGATCTGTAAA
* * * * * *
107627061 T-TTGGCT-TGTTACCCTACTGCTTAGGAGGGTTAA-AGCTTGT-TA
1 TCTTCGATCTGTTTCCCTACTGCTTAGG-GGGATAAGATC-TGTAAA
* *
107627104 CCTTCGATCTGTTTCCCTACTGCTTAGGGGGGTAAGATCTGTAAA
1 TCTTCGATCTGTTTCCCTACTGCTTAGGGGGATAAGATCTGTAAA
*
107627149 TCTTCAATCTG
1 TCTTCGATCTG
107627160 CTTCACTGCA
Statistics
Matches: 76, Mismatches: 17, Indels: 12
0.72 0.16 0.11
Matches are distributed among these distances:
43 21 0.28
44 24 0.32
45 31 0.41
ACGTcount: A:0.20, C:0.20, G:0.22, T:0.38
Consensus pattern (45 bp):
TCTTCGATCTGTTTCCCTACTGCTTAGGGGGATAAGATCTGTAAA
Found at i:107627714 original size:44 final size:43
Alignment explanation
Indices: 107627664--107627748 Score: 116
Period size: 43 Copynumber: 2.0 Consensus size: 43
107627654 GGAGACAAGA
* *
107627664 TCTGTAATTTTCAGCCTATTACCCTACTTCTTAGGGGGTTAAGG
1 TCTGTAAATTT-AGCCTATTACCCTACTGCTTAGGGGGTTAAGG
* * *
107627708 TCTGTAAATTTGGCTTGTTACCCTACTGCTTAGGGGGTTAA
1 TCTGTAAATTTAGCCTATTACCCTACTGCTTAGGGGGTTAA
107627749 AGCTCATTAT
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
43 26 0.72
44 10 0.28
ACGTcount: A:0.20, C:0.19, G:0.22, T:0.39
Consensus pattern (43 bp):
TCTGTAAATTTAGCCTATTACCCTACTGCTTAGGGGGTTAAGG
Found at i:107630687 original size:8 final size:9
Alignment explanation
Indices: 107630671--107630718 Score: 69
Period size: 9 Copynumber: 5.1 Consensus size: 9
107630661 AAGGTAAAAA
107630671 TTTATTTTT
1 TTTATTTTT
107630680 TTTATTTTT
1 TTTATTTTT
107630689 TTTATTTTT
1 TTTATTTTT
107630698 TTGTATTTTCT
1 TT-TATTTT-T
*
107630709 TTTATGTTT
1 TTTATTTTT
107630718 T
1 T
107630719 AATATATGTA
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
9 22 0.61
10 11 0.31
11 3 0.08
ACGTcount: A:0.10, C:0.02, G:0.04, T:0.83
Consensus pattern (9 bp):
TTTATTTTT
Found at i:107630690 original size:10 final size:10
Alignment explanation
Indices: 107630671--107630718 Score: 55
Period size: 10 Copynumber: 4.9 Consensus size: 10
107630661 AAGGTAAAAA
107630671 TTTA-TTTTT
1 TTTATTTTTT
107630680 TTTA-TTTTT
1 TTTATTTTTT
107630689 TTTATTTTTT
1 TTTATTTTTT
* *
107630699 TGTATTTTCT
1 TTTATTTTTT
107630709 TTTATGTTTT
1 TTTAT-TTTT
107630719 AATATATGTA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
9 13 0.39
10 17 0.52
11 3 0.09
ACGTcount: A:0.10, C:0.02, G:0.04, T:0.83
Consensus pattern (10 bp):
TTTATTTTTT
Found at i:107632056 original size:72 final size:72
Alignment explanation
Indices: 107631818--107632070 Score: 400
Period size: 73 Copynumber: 3.5 Consensus size: 72
107631808 ACATGTGAAC
* *
107631818 TGAGGCTCAACTCACTTT-TCGCAATATGAGTTGATTTTTTTGACAACAGAAATTGAAATTACCT
1 TGAGGCTCAACTCA-TTTCTCGCAATATGAGTTGA--ATTTTGAAAACAGAAATTGAAATTACCT
* *
107631882 CAGCGTGTCC
63 CAACGTGTCT
* *
107631892 TGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCGGAAATTGAAAATACCTCA
1 TGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAA-CAGAAATTGAAATTACCTCA
107631957 ACGTGTCT
65 ACGTGTCT
107631965 TGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAA
1 TGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAA
*
107632030 TGTGTCT
66 CGTGTCT
107632037 TGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
1 TGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
107632071 TTCTTTCAAA
Statistics
Matches: 168, Mismatches: 9, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
72 67 0.40
73 71 0.42
74 30 0.18
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.32
Consensus pattern (72 bp):
TGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAA
CGTGTCT
Found at i:107632152 original size:88 final size:87
Alignment explanation
Indices: 107632003--107632252 Score: 270
Period size: 88 Copynumber: 2.8 Consensus size: 87
107631993 AGTTGAATTT
* ** * **
107632003 TGAAAACAGAAATTGAAATTACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGT
1 TGAAAACAGAAATTGAAAATACCTCGGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
107632068 TGA-TTCTTTCAAAAACATAATAA
66 TGATTTCTTTCAAAAACA-AA-AA
* *
107632091 TGAAAACAGAAATGGAAAATACCTCGGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGT
1 TGAAAACAGAAATTGAAAATACCTCGGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
* * *
107632156 TGATTTTTTTTTTTGAAAAACAGAAA
66 TGA----TTTCTTTCAAAAACAAAAA
* **
107632182 TCAAAAGGC-TTAATTGAAAATACCTCGGCGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATAT
1 TGAAAA--CAGAAATTGAAAATACCTC-G-GTGTGTCCTGAGGCTCAACTCACCTCTCGCAATAT
107632246 GAGTTGA
62 GAGTTGA
107632253 AATTAAAACA
Statistics
Matches: 137, Mismatches: 16, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
88 60 0.44
91 7 0.05
92 15 0.11
93 14 0.10
94 41 0.30
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.29
Consensus pattern (87 bp):
TGAAAACAGAAATTGAAAATACCTCGGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
TGATTTCTTTCAAAAACAAAAA
Found at i:107632474 original size:72 final size:72
Alignment explanation
Indices: 107632385--107632626 Score: 299
Period size: 72 Copynumber: 3.3 Consensus size: 72
107632375 TTGATTTTTT
* * *
107632385 TTTTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATA
1 TTTTGAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATG
107632450 AGTTGAA
66 AGTTGAA
* * *
107632457 TTTTGAAAACAGAAATTGAAATTACCTCAGCATATCCTGAGGCTCAACTCATTTCTCGCAATATG
1 TTTTGAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATG
*
107632522 AGTTGATTTTT
66 AGTTGA----A
* * ** *
107632533 TTTTTAACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATAT
1 TTTTGAA-AACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATAT
107632598 GAGTTG-A
65 GAGTTGAA
*
107632605 TTTTGAAAAACAAAAATT-AAAA
1 TTTTG-AAAACAGAAATTGAAAA
107632627 GGCTTAACTC
Statistics
Matches: 147, Mismatches: 17, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
71 3 0.02
72 78 0.53
73 2 0.01
76 6 0.04
77 58 0.39
ACGTcount: A:0.36, C:0.18, G:0.14, T:0.31
Consensus pattern (72 bp):
TTTTGAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATG
AGTTGAA
Found at i:107632576 original size:77 final size:76
Alignment explanation
Indices: 107632365--107632608 Score: 343
Period size: 77 Copynumber: 3.2 Consensus size: 76
107632355 CCCACCTCTT
* * *
107632365 GCAATATGAGTTGATTTTTTTTTTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTC
1 GCAATATGAGTTGATTTTTTTTTT-AAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTC
107632430 AACTCATTTCTC
65 AACTCATTTCTC
* * * * *
107632442 GCAATATAAGTTGA----ATTTTGAAAACAGAAATTGAAATTACCTCAGCATATCCTGAGGCTCA
1 GCAATATGAGTTGATTTTTTTTTTAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCA
107632503 ACTCATTTCTC
66 ACTCATTTCTC
107632514 GCAATATGAGTTGATTTTTTTTTTAACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTC
1 GCAATATGAGTTGATTTTTTTTTTAA-AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTC
** *
107632579 AACTCACCTCTA
65 AACTCATTTCTC
107632591 GCAATATGAGTTGATTTT
1 GCAATATGAGTTGATTTT
107632609 GAAAAACAAA
Statistics
Matches: 146, Mismatches: 16, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
72 60 0.41
73 4 0.03
76 6 0.04
77 76 0.52
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (76 bp):
GCAATATGAGTTGATTTTTTTTTTAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCA
ACTCATTTCTC
Found at i:107632769 original size:71 final size:71
Alignment explanation
Indices: 107632626--107632802 Score: 207
Period size: 71 Copynumber: 2.5 Consensus size: 71
107632616 AAAAATTAAA
* * * * * * **
107632626 AGGCTTAACTCACCTCTCGCAATATGAG-TCA-ATTTAAAACATAAACTAAAAATACCTCGGCGT
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTAAAAAAAAAACTAAAAATACCTCAACGT
107632689 GCCCCG
66 GCCCCG
* *
107632695 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTAAAAAAAAAATTAAAAATACCTCAATGT
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTAAAAAAAAAACTAAAAATACCTCAACGT
* **
107632760 GTCTTG
66 GCCCCG
107632766 AGGCTCAACTCA-TCTCTCGCAATATGAGTTGATTTTT
1 AGGCTCAACTCACT-TCTCGCAATATGAGTTGATTTTT
107632803 TTGACAACAT
Statistics
Matches: 92, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
69 26 0.28
70 3 0.03
71 63 0.68
ACGTcount: A:0.34, C:0.22, G:0.14, T:0.30
Consensus pattern (71 bp):
AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTAAAAAAAAAACTAAAAATACCTCAACGT
GCCCCG
Found at i:107646576 original size:3 final size:3
Alignment explanation
Indices: 107646568--107646595 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
107646558 ACTAATGTAC
107646568 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
107646596 TTGAAATACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:107646590 original size:125 final size:126
Alignment explanation
Indices: 107646360--107646608 Score: 299
Period size: 128 Copynumber: 2.0 Consensus size: 126
107646350 AAAAAGTAAA
** * * * *
107646360 TATAATAAAATGATATTAAAATAAAGTCATTAAAAATAGTAATATATGTATATATACATCTAATA
1 TATAATAAAAAAATATTAAAATAAAGTCAATAAAAACAGTAATACATATATATATACATC-AATA
* * * *
107646425 AGAATATATAGTAATGT-TAATGATAATAATAAAAATAATAATATTGAAATACAAAAGCTAT
65 AGAATATACACTAATGTCAAATAATAATAATAAAAATAATAATATTGAAATACAAAAGCTAT
* *
107646486 TATAATAAAAAAATATTAAAATAAAGT-AATAAAAACATTACTACATATATATATACAT-ACATG
1 TATAATAAAAAAATATTAAAATAAAGTCAATAAAAACAGTAATACATATATATATACATCA-AT-
*
107646549 AAG-ATATACACTAATGTACAATAATAATAATAATAATAATAATAATATTGAAATACAAAA
64 AAGAATATACACTAATGT-C-A-AATAATAATAATAAAAATAATAATATTGAAATACAAAA
107646609 AATGTAATAT
Statistics
Matches: 104, Mismatches: 13, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
123 1 0.01
124 14 0.13
125 28 0.27
126 25 0.24
128 36 0.35
ACGTcount: A:0.57, C:0.06, G:0.06, T:0.31
Consensus pattern (126 bp):
TATAATAAAAAAATATTAAAATAAAGTCAATAAAAACAGTAATACATATATATATACATCAATAA
GAATATACACTAATGTCAAATAATAATAATAAAAATAATAATATTGAAATACAAAAGCTAT
Found at i:107647086 original size:22 final size:22
Alignment explanation
Indices: 107647054--107647102 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
107647044 ATCATTTGGG
107647054 GAGAG-GGAAAGAAAAAAGGAA
1 GAGAGAGGAAAGAAAAAAGGAA
* * *
107647075 GAGAGAGGAAAGAGAGAAGGGA
1 GAGAGAGGAAAGAAAAAAGGAA
107647097 GAGAGA
1 GAGAGA
107647103 AGGGAGGGGG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 5 0.21
22 19 0.79
ACGTcount: A:0.55, C:0.00, G:0.45, T:0.00
Consensus pattern (22 bp):
GAGAGAGGAAAGAAAAAAGGAA
Found at i:107647221 original size:10 final size:9
Alignment explanation
Indices: 107647206--107647254 Score: 53
Period size: 10 Copynumber: 5.0 Consensus size: 9
107647196 AAGGTAAAAA
107647206 TTTATATTTT
1 TTTAT-TTTT
*
107647216 TTTATATTT
1 TTTATTTTT
107647225 TTTATTTTT
1 TTTATTTTT
107647234 TTGTATTTTCT
1 TT-TATTTT-T
107647245 TTTATGTTTT
1 TTTAT-TTTT
107647255 AATATATGTA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
9 13 0.38
10 15 0.44
11 6 0.18
ACGTcount: A:0.14, C:0.02, G:0.04, T:0.80
Consensus pattern (9 bp):
TTTATTTTT
Done.