Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 149 of 290
Found at i:50637319 original size:28 final size:28
Alignment explanation
Indices: 50637267--50637333 Score: 75
Period size: 28 Copynumber: 2.4 Consensus size: 28
50637257 TCGATCTTTC
**
50637267 GCACACTAAGTGCAATTCTCAATATTTT
1 GCACACTAAGTGCAATTCTCAATATCCT
*
50637295 GCACACTAAGTGCCATATT-T-GATATCCT
1 GCACACTAAGTG-CA-ATTCTCAATATCCT
50637323 GCACACTAAGT
1 GCACACTAAGT
50637334 ACTGCACATA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
28 28 0.82
29 3 0.09
30 3 0.09
ACGTcount: A:0.31, C:0.24, G:0.13, T:0.31
Consensus pattern (28 bp):
GCACACTAAGTGCAATTCTCAATATCCT
Found at i:50638267 original size:18 final size:18
Alignment explanation
Indices: 50638237--50638271 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
50638227 TCTGACCATG
50638237 TCTCATAAAAATTCAAATA
1 TCTCATAAAAATT-AAATA
50638256 TCTCAT-AAAATTAAAT
1 TCTCATAAAAATTAAAT
50638272 TCTTTTGCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 6 0.38
19 6 0.38
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.34
Consensus pattern (18 bp):
TCTCATAAAAATTAAATA
Found at i:50641770 original size:15 final size:17
Alignment explanation
Indices: 50641750--50641781 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
50641740 AATCTAGCTA
50641750 CAATT-AGATC-ATCGT
1 CAATTAAGATCAATCGT
50641765 CAATTAAGATCAATCGT
1 CAATTAAGATCAATCGT
50641782 GTAACTCGCT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 5 0.33
16 5 0.33
17 5 0.33
ACGTcount: A:0.38, C:0.19, G:0.12, T:0.31
Consensus pattern (17 bp):
CAATTAAGATCAATCGT
Found at i:50642832 original size:29 final size:29
Alignment explanation
Indices: 50642790--50642846 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
50642780 TTCTATGATT
*
50642790 GAACCAGAAGCATAATTATAATAGACATC
1 GAACCAAAAGCATAATTATAATAGACATC
50642819 GAACCAAAAGCATAATTATAATAGACAT
1 GAACCAAAAGCATAATTATAATAGACAT
50642847 AGTTCTAAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.51, C:0.16, G:0.12, T:0.21
Consensus pattern (29 bp):
GAACCAAAAGCATAATTATAATAGACATC
Found at i:50645855 original size:132 final size:132
Alignment explanation
Indices: 50645618--50645879 Score: 443
Period size: 132 Copynumber: 2.0 Consensus size: 132
50645608 TAAGTCCCTA
* *
50645618 TACATGTCATAGACTTAACATACTTACATTCACTTATACCCCAAATGATAGCTTGATAGTGTGAT
1 TACATGCCATAGACTTAACATACTTACATTCACTTATACCCCAAATGATAGCTTGATAGTGTAAT
* *
50645683 AGAATCTCCGACGATCTCCAACCTGAGCCAGATGAATAAACCTATGAGAGGTGGAAAAGAAAAGG
66 AGAATCTCCAACGATCTCCAACCCGAGCCAGATGAATAAACCTATGAGAGGTGGAAAAGAAAAGG
50645748 AC
131 AC
*
50645750 TACATGCCATAGACTTAACATACTTACATTCACTTATACCCCAAATGATAGCTTGGTAGTGTAAT
1 TACATGCCATAGACTTAACATACTTACATTCACTTATACCCCAAATGATAGCTTGATAGTGTAAT
* * * *
50645815 AGAATCTCCAATGATCTCCAACCCGAGCTAGCTGAATAAACCTATGAGAGGTGGGAAAGAAAAGG
66 AGAATCTCCAACGATCTCCAACCCGAGCCAGATGAATAAACCTATGAGAGGTGGAAAAGAAAAGG
50645880 GAAATAAGCT
Statistics
Matches: 121, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
132 121 1.00
ACGTcount: A:0.37, C:0.21, G:0.18, T:0.24
Consensus pattern (132 bp):
TACATGCCATAGACTTAACATACTTACATTCACTTATACCCCAAATGATAGCTTGATAGTGTAAT
AGAATCTCCAACGATCTCCAACCCGAGCCAGATGAATAAACCTATGAGAGGTGGAAAAGAAAAGG
AC
Found at i:50646024 original size:26 final size:26
Alignment explanation
Indices: 50645994--50646045 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
50645984 AAATCCCATG
50645994 CTTACCACTTACTCATTCATAATGCT
1 CTTACCACTTACTCATTCATAATGCT
*
50646020 CTTACCACTTATTCATTCATAATGCT
1 CTTACCACTTACTCATTCATAATGCT
50646046 TACTCTTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.27, C:0.29, G:0.04, T:0.40
Consensus pattern (26 bp):
CTTACCACTTACTCATTCATAATGCT
Found at i:50658353 original size:106 final size:106
Alignment explanation
Indices: 50658163--50658362 Score: 235
Period size: 106 Copynumber: 1.9 Consensus size: 106
50658153 TAATATAAAC
* * * ** * *
50658163 TACATGCTTTAACATTTCACGCAATTATAATATAGAAAATGATGAATAACGACATAAATTATATA
1 TACATGCATTAACATTTCACGCAAATATAACATAGAAAACAATGAATAACAACATAAATTACATA
* *
50658228 GTATACATTAACCTTTCATGCAGATATAAATGACATAAATA
66 GTATACATTAACATTTCATGCAAATATAAATGACATAAATA
* * *
50658269 TACATGCATTAATATTTCATGCAAAATATAACATAGAAAACAATGAATATAACAACATGAATTAC
1 TACATGCATTAACATTTCACGC-AAATATAACATAGAAAACAATG-A-ATAACAACATAAATTAC
*
50658334 ATA-TATA-A-TAATATTTCATGCAAATATAA
63 ATAGTATACATTAACATTTCATGCAAATATAA
50658363 CTTAAAATAA
Statistics
Matches: 78, Mismatches: 13, Indels: 6
0.80 0.13 0.06
Matches are distributed among these distances:
106 37 0.47
107 19 0.24
108 5 0.06
109 17 0.22
ACGTcount: A:0.48, C:0.12, G:0.08, T:0.32
Consensus pattern (106 bp):
TACATGCATTAACATTTCACGCAAATATAACATAGAAAACAATGAATAACAACATAAATTACATA
GTATACATTAACATTTCATGCAAATATAAATGACATAAATA
Found at i:50658523 original size:19 final size:20
Alignment explanation
Indices: 50658468--50658525 Score: 61
Period size: 19 Copynumber: 3.0 Consensus size: 20
50658458 TATTTAAACA
50658468 ATACTAAATAAATGAA-AAATG
1 ATACT-AATAAAT-AATAAATG
50658489 ATAC-AA-AAATATATAAATG
1 ATACTAATAAATA-ATAAATG
50658508 -TACTAATAAATAATAAAT
1 ATACTAATAAATAATAAAT
50658526 AATAGAATAA
Statistics
Matches: 33, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
17 1 0.03
18 8 0.24
19 15 0.45
20 5 0.15
21 4 0.12
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.28
Consensus pattern (20 bp):
ATACTAATAAATAATAAATG
Found at i:50658585 original size:12 final size:12
Alignment explanation
Indices: 50658570--50658596 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
50658560 TGGGAGTAAT
50658570 ATATATAATAAA
1 ATATATAATAAA
50658582 ATATATAATAAA
1 ATATATAATAAA
50658594 ATA
1 ATA
50658597 CAAATAACCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
ATATATAATAAA
Found at i:50658659 original size:19 final size:19
Alignment explanation
Indices: 50658637--50658674 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
50658627 TTTTACATGT
* *
50658637 ATAAATAATGTTTATAAAA
1 ATAAATAATATATATAAAA
50658656 ATAAATAATATATATAAAA
1 ATAAATAATATATATAAAA
50658675 TATTTAAAAT
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:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (19 bp):
ATAAATAATATATATAAAA
Found at i:50672197 original size:19 final size:19
Alignment explanation
Indices: 50672175--50672212 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
50672165 TTTTACATGT
* *
50672175 ATAAATAATGTTTATAAAA
1 ATAAATAATATATATAAAA
50672194 ATAAATAATATATATAAAA
1 ATAAATAATATATATAAAA
50672213 TATTTAAAAT
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:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (19 bp):
ATAAATAATATATATAAAA
Found at i:50683590 original size:20 final size:20
Alignment explanation
Indices: 50683565--50683602 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
50683555 GTCACATATA
50683565 TCATGAACTCAGACCACAAC
1 TCATGAACTCAGACCACAAC
* *
50683585 TCATGAGCTCAGATCACA
1 TCATGAACTCAGACCACA
50683603 TAATTCCTAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.32, G:0.13, T:0.18
Consensus pattern (20 bp):
TCATGAACTCAGACCACAAC
Found at i:50683729 original size:25 final size:25
Alignment explanation
Indices: 50683701--50683749 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
50683691 CCAGAGGACC
*
50683701 AATCACATAACTCATGATAATGATT
1 AATCACATAACTCATCATAATGATT
* * *
50683726 AATCGCATAATTCTTCATAATGAT
1 AATCACATAACTCATCATAATGAT
50683750 AATAATAAAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.41, C:0.16, G:0.08, T:0.35
Consensus pattern (25 bp):
AATCACATAACTCATCATAATGATT
Found at i:50685583 original size:6 final size:6
Alignment explanation
Indices: 50685567--50685608 Score: 57
Period size: 6 Copynumber: 6.8 Consensus size: 6
50685557 CAAATGAATT
* *
50685567 ATTTCTC ATTTTC ATTTTC ATTTTC ATTTCC ATTTCC ATTTT
1 ATTT-TC ATTTTC ATTTTC ATTTTC ATTTTC ATTTTC ATTTT
50685609 GAGAAAACCA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
6 29 0.88
7 4 0.12
ACGTcount: A:0.17, C:0.21, G:0.00, T:0.62
Consensus pattern (6 bp):
ATTTTC
Found at i:50687519 original size:21 final size:21
Alignment explanation
Indices: 50687490--50687530 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
50687480 CCTATTAGGT
* *
50687490 TTCCGTTCAGCTCTTATGAGC
1 TTCCGTTCAACCCTTATGAGC
*
50687511 TTCCTTTCAACCCTTATGAG
1 TTCCGTTCAACCCTTATGAG
50687531 TTTTCATTTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.17, C:0.29, G:0.15, T:0.39
Consensus pattern (21 bp):
TTCCGTTCAACCCTTATGAGC
Found at i:50697132 original size:18 final size:19
Alignment explanation
Indices: 50697109--50697146 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
50697099 GAAATGAAAA
50697109 AGATGAAAAAAGA-ATATG
1 AGATGAAAAAAGAGATATG
* *
50697127 AGATGAGAAATGAGATATG
1 AGATGAAAAAAGAGATATG
50697146 A
1 A
50697147 AAAGATGAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.55, C:0.00, G:0.26, T:0.18
Consensus pattern (19 bp):
AGATGAAAAAAGAGATATG
Found at i:50699536 original size:68 final size:66
Alignment explanation
Indices: 50699323--50699574 Score: 198
Period size: 68 Copynumber: 3.8 Consensus size: 66
50699313 ATAATTTTGT
* * * *
50699323 CTCTCTTGTAC-ACATGGTGAACACTTAGTACCACCCATGTGACCTAGC--CAGTTTA-TCTCGT
1 CTCTCTTGTACTACATGGTGTACACATAGTACCACCCATGCGACCTAGCTACA-TATATTCTCGT
50699384 AG
65 AG
* * * * ** *
50699386 CTCTCTTGT-CTACATGGTGTCCTTCACCTGGAACCATGCATGCGACCTAGCTACATATA-TCCC
1 CTCTCTTGTACTACATGGTG---TACACATAGTACCACCCATGCGACCTAGCTACATATATTCTC
50699449 GTAG
63 GTAG
* *
50699453 CTCTCTTG-CCTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACATCATAATGTCTC
1 CTCTCTTGTACTACATGGTGTACACATAGTACCACCCATGCGACCTAGCTACAT-AT-AT-TCTC
50699517 GTAG
63 GTAG
* * * ** *
50699521 CTCTCTTGTAC-ACATGATGTGCAC-TCAGCACCATACATGTGACCTAGCTACATA
1 CTCTCTTGTACTACATGGTGTACACAT-AGTACCACCCATGCGACCTAGCTACATA
50699575 CCATCTGTAT
Statistics
Matches: 150, Mismatches: 26, Indels: 22
0.76 0.13 0.11
Matches are distributed among these distances:
62 1 0.01
63 17 0.11
64 27 0.18
65 2 0.01
66 22 0.15
67 30 0.20
68 50 0.33
69 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.17, T:0.29
Consensus pattern (66 bp):
CTCTCTTGTACTACATGGTGTACACATAGTACCACCCATGCGACCTAGCTACATATATTCTCGTA
G
Found at i:50701760 original size:49 final size:49
Alignment explanation
Indices: 50701655--50701763 Score: 130
Period size: 49 Copynumber: 2.2 Consensus size: 49
50701645 TCTAGCATTC
* *
50701655 TAGAAATG-ATAAATAGTGATAAAAGTGTAGAAAATGGAAAACTAAGTT
1 TAGAAATGTATAAATAGTGATAAAAGTGTAGAAAATGGAAAACCAAGTA
* ** * * * *
50701703 TAGCAATGTATAAATAGTGATAAGCGTGTAGACAGTGTAAGACCAAGTA
1 TAGAAATGTATAAATAGTGATAAAAGTGTAGAAAATGGAAAACCAAGTA
50701752 TAGAAATGTATA
1 TAGAAATGTATA
50701764 GCATAATTTA
Statistics
Matches: 50, Mismatches: 10, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
48 7 0.14
49 43 0.86
ACGTcount: A:0.47, C:0.06, G:0.22, T:0.26
Consensus pattern (49 bp):
TAGAAATGTATAAATAGTGATAAAAGTGTAGAAAATGGAAAACCAAGTA
Found at i:50702425 original size:25 final size:25
Alignment explanation
Indices: 50702392--50702451 Score: 120
Period size: 25 Copynumber: 2.4 Consensus size: 25
50702382 AGTTTAAAGG
50702392 AAAGAAAACTAAAAACTAAAATTAC
1 AAAGAAAACTAAAAACTAAAATTAC
50702417 AAAGAAAACTAAAAACTAAAATTAC
1 AAAGAAAACTAAAAACTAAAATTAC
50702442 AAAGAAAACT
1 AAAGAAAACT
50702452 TAAACTTAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.68, C:0.12, G:0.05, T:0.15
Consensus pattern (25 bp):
AAAGAAAACTAAAAACTAAAATTAC
Found at i:50715162 original size:14 final size:13
Alignment explanation
Indices: 50715143--50715178 Score: 54
Period size: 14 Copynumber: 2.7 Consensus size: 13
50715133 AAAGACATGC
50715143 AAAAGAAAGAAAGA
1 AAAAGAAAGAAA-A
50715157 AAAAGAAAGAAAA
1 AAAAGAAAGAAAA
*
50715170 AAGAGAAAG
1 AAAAGAAAG
50715179 TCACGCACCG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
13 9 0.43
14 12 0.57
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (13 bp):
AAAAGAAAGAAAA
Found at i:50722857 original size:20 final size:20
Alignment explanation
Indices: 50722804--50722858 Score: 53
Period size: 20 Copynumber: 2.8 Consensus size: 20
50722794 TTGTACAAGT
50722804 TTGCATTTCAGTGCCTCTAA
1 TTGCATTTCAGTGCCTCTAA
*
50722824 TTGTACA-TTC-GTGCCTCT-G
1 TTG--CATTTCAGTGCCTCTAA
50722843 TCTGCATTTCAGTGCC
1 T-TGCATTTCAGTGCC
50722859 CCTATTGCGC
Statistics
Matches: 29, Mismatches: 1, Indels: 10
0.73 0.03 0.25
Matches are distributed among these distances:
18 2 0.07
19 4 0.14
20 18 0.62
21 3 0.10
22 2 0.07
ACGTcount: A:0.15, C:0.27, G:0.18, T:0.40
Consensus pattern (20 bp):
TTGCATTTCAGTGCCTCTAA
Found at i:50730441 original size:12 final size:12
Alignment explanation
Indices: 50730408--50730438 Score: 53
Period size: 12 Copynumber: 2.5 Consensus size: 12
50730398 TTTCATTTAA
50730408 AAAAATTAAAAC
1 AAAAATTAAAAC
50730420 AAAAATTAAAAC
1 AAAAATTAAAAC
50730432 AAGAAAT
1 AA-AAAT
50730439 AAATAAACTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 14 0.78
13 4 0.22
ACGTcount: A:0.74, C:0.06, G:0.03, T:0.16
Consensus pattern (12 bp):
AAAAATTAAAAC
Found at i:50734920 original size:46 final size:48
Alignment explanation
Indices: 50734864--50734978 Score: 146
Period size: 46 Copynumber: 2.4 Consensus size: 48
50734854 TTTAAGCCAA
* * * *
50734864 TGTAAAACATGTCTGGGACATGCATCAGCGTTGA-GA-CGAGAA-CTAG
1 TGTAAGACATGTCTGGGACATGCATCAGC-CTCACGATCGACAAGCTAG
*
50734910 TGTAAGACATGTCTGGGACATGCATCAGCCTCACGATGGACAAGCTAG
1 TGTAAGACATGTCTGGGACATGCATCAGCCTCACGATCGACAAGCTAG
*
50734958 TGTAAGACCTGTCTGGGACAT
1 TGTAAGACATGTCTGGGACAT
50734979 AGTGTCAACT
Statistics
Matches: 60, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
45 2 0.03
46 30 0.50
47 4 0.07
48 24 0.40
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.23
Consensus pattern (48 bp):
TGTAAGACATGTCTGGGACATGCATCAGCCTCACGATCGACAAGCTAG
Found at i:50738567 original size:6 final size:6
Alignment explanation
Indices: 50738556--50738584 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
50738546 GCTTACAAAC
50738556 TTCCCA TTCCCA TTCCCA TTCCCA TTCCC
1 TTCCCA TTCCCA TTCCCA TTCCCA TTCCC
50738585 TTATTTGTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.14, C:0.52, G:0.00, T:0.34
Consensus pattern (6 bp):
TTCCCA
Found at i:50739546 original size:16 final size:17
Alignment explanation
Indices: 50739527--50739566 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 17
50739517 AGTTATTCTA
*
50739527 TTAATCGTACT-AATTT
1 TTAATAGTACTAAATTT
50739543 TTAATAGTACTAAAATTT
1 TTAATAGTACT-AAATTT
50739561 TTAATA
1 TTAATA
50739567 AAAAATTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 10 0.48
18 11 0.52
ACGTcount: A:0.40, C:0.07, G:0.05, T:0.47
Consensus pattern (17 bp):
TTAATAGTACTAAATTT
Found at i:50741707 original size:21 final size:21
Alignment explanation
Indices: 50741683--50741722 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
50741673 AGACCTTCCG
50741683 AAGGGTTTAAGTAAAATTTCT
1 AAGGGTTTAAGTAAAATTTCT
50741704 AAGGGTTTAAGTAAAATTT
1 AAGGGTTTAAGTAAAATTT
50741723 GAGAGGATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.40, C:0.03, G:0.20, T:0.38
Consensus pattern (21 bp):
AAGGGTTTAAGTAAAATTTCT
Found at i:50741733 original size:21 final size:21
Alignment explanation
Indices: 50741681--50741740 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 21
50741671 AAAGACCTTC
*
50741681 CGAAGGGTTTAAGTAAAATTT
1 CGAAGGATTTAAGTAAAATTT
* *
50741702 CTAAGGGTTTAAGTAAAATTT
1 CGAAGGATTTAAGTAAAATTT
*
50741723 -GAGAGGATTTAATTAAAA
1 CGA-AGGATTTAAGTAAAA
50741741 ATATTAAGTT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
20 1 0.03
21 33 0.97
ACGTcount: A:0.42, C:0.03, G:0.22, T:0.33
Consensus pattern (21 bp):
CGAAGGATTTAAGTAAAATTT
Found at i:50741838 original size:16 final size:16
Alignment explanation
Indices: 50741809--50741854 Score: 53
Period size: 15 Copynumber: 3.0 Consensus size: 16
50741799 TTTAGATTTG
50741809 AATA-TTTA-ATTTAT
1 AATATTTTATATTTAT
50741823 AATATTTTATATTTAT
1 AATATTTTATATTTAT
*
50741839 TAT-TTTTATATATTAT
1 AATATTTTATAT-TTAT
50741855 TTAATTTAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
14 4 0.14
15 12 0.43
16 12 0.43
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (16 bp):
AATATTTTATATTTAT
Found at i:50742077 original size:18 final size:17
Alignment explanation
Indices: 50742031--50742069 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
50742021 TATAATTTAC
* *
50742031 TTTGTAAGGTAAGTATT
1 TTTGTAAGATAAATATT
50742048 TTTGTAAGATAAATATT
1 TTTGTAAGATAAATATT
50742065 TTTGT
1 TTTGT
50742070 CCAAATAAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.18, T:0.51
Consensus pattern (17 bp):
TTTGTAAGATAAATATT
Found at i:50746006 original size:11 final size:11
Alignment explanation
Indices: 50745990--50746015 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
50745980 CTAGCATGTC
50745990 AATTTTATTAA
1 AATTTTATTAA
50746001 AATTTTATTAA
1 AATTTTATTAA
50746012 AATT
1 AATT
50746016 ATTTGAGTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (11 bp):
AATTTTATTAA
Found at i:50747372 original size:20 final size:18
Alignment explanation
Indices: 50747344--50747385 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 18
50747334 AGATAGTATA
50747344 ATATCAAATTATGTATTTGT
1 ATATCAAA-TATGT-TTTGT
*
50747364 ATATGAAATATGTTTTGT
1 ATATCAAATATGTTTTGT
50747382 ATAT
1 ATAT
50747386 ATATATATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 9 0.43
19 5 0.24
20 7 0.33
ACGTcount: A:0.36, C:0.02, G:0.12, T:0.50
Consensus pattern (18 bp):
ATATCAAATATGTTTTGT
Found at i:50747398 original size:18 final size:19
Alignment explanation
Indices: 50747357--50747398 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
50747347 TCAAATTATG
*
50747357 TATTTGTATATGAAATATG
1 TATTTGTATATGAAATATA
*
50747376 T-TTTGTATAT-ATATATA
1 TATTTGTATATGAAATATA
50747393 TATTTG
1 TATTTG
50747399 AGTCATTATG
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 6 0.30
18 13 0.65
19 1 0.05
ACGTcount: A:0.33, C:0.00, G:0.12, T:0.55
Consensus pattern (19 bp):
TATTTGTATATGAAATATA
Found at i:50748559 original size:20 final size:20
Alignment explanation
Indices: 50748534--50748571 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
50748524 GGGAACAATT
*
50748534 TTTCAATTGATTTAAAAATG
1 TTTCAATTGAGTTAAAAATG
50748554 TTTCAATTGAGTTAAAAA
1 TTTCAATTGAGTTAAAAA
50748572 AAAGTTTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.42, C:0.05, G:0.11, T:0.42
Consensus pattern (20 bp):
TTTCAATTGAGTTAAAAATG
Found at i:50748629 original size:21 final size:20
Alignment explanation
Indices: 50748601--50748640 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
50748591 AACTTTGTCC
50748601 AAACTTTTTATAA-ATGTTTA
1 AAACTTTTT-TAAGATGTTTA
50748621 AAACATTTTTTAAGATGTTT
1 AAAC-TTTTTTAAGATGTTT
50748641 GGAAGTCTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.38, C:0.05, G:0.07, T:0.50
Consensus pattern (20 bp):
AAACTTTTTTAAGATGTTTA
Found at i:50749053 original size:3 final size:3
Alignment explanation
Indices: 50749045--50749080 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
50749035 TTGGTGTGAG
50749045 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
50749081 GCATGTTTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:50758394 original size:42 final size:42
Alignment explanation
Indices: 50758281--50758442 Score: 121
Period size: 43 Copynumber: 3.8 Consensus size: 42
50758271 CATAAAGTTC
* * * ***
50758281 ATACAATGTCAATGTCCCAGACATGGTCTTACAGGTAATCAA
1 ATACGATGCCAATGTCCCAGACGTGGTCTTACACAAAATCAA
* * * *
50758323 ATATCGATGCCATTGTCCTAAATAG-GGTCTTACACAAAATCAA
1 ATA-CGATGCCAATGTCCCAGA-CGTGGTCTTACACAAAATCAA
* *
50758366 ATACGATGCCAATGCCCCAGACGTGGTCTTACACGTAAATACCAA
1 ATACGATGCCAATGTCCCAGACGTGGTCTTACAC--AAA-ATCAA
* * * *
50758411 AT-TGATGCCAACGTACCAGACATGGTCTTACA
1 ATACGATGCCAATGTCCCAGACGTGGTCTTACA
50758443 TGATATCACA
Statistics
Matches: 93, Mismatches: 21, Indels: 10
0.75 0.17 0.08
Matches are distributed among these distances:
41 1 0.01
42 27 0.29
43 31 0.33
44 28 0.30
45 6 0.06
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.25
Consensus pattern (42 bp):
ATACGATGCCAATGTCCCAGACGTGGTCTTACACAAAATCAA
Found at i:50771770 original size:13 final size:13
Alignment explanation
Indices: 50771752--50771776 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
50771742 CGACCGTGTG
50771752 ACACACACGAGCA
1 ACACACACGAGCA
50771765 ACACACACGAGC
1 ACACACACGAGC
50771777 GTGTGCCCTG
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:0.44, C:0.40, G:0.16, T:0.00
Consensus pattern (13 bp):
ACACACACGAGCA
Found at i:50776526 original size:29 final size:28
Alignment explanation
Indices: 50776463--50776577 Score: 88
Period size: 29 Copynumber: 4.0 Consensus size: 28
50776453 TTCACATACC
* * * *
50776463 TGTATCTGGCCCATTAAGCCCAATCATA
1 TGTATATGGCCCATTAGGCCAAATCACA
*
50776491 T-TCATATGGCCCATTAGGACCAAATCACC
1 TGT-ATATGGCCCATTAGG-CCAAATCACA
* *
50776520 TGTATATGACCCATTAGGCCCAAACCACA
1 TGTATATGGCCCATTAGG-CCAAATCACA
* * * * *
50776549 TTTATATGGTCCGTTAGGCCCAGTCACA
1 TGTATATGGCCCATTAGGCCAAATCACA
50776577 T
1 T
50776578 TCATATTCAT
Statistics
Matches: 68, Mismatches: 16, Indels: 6
0.76 0.18 0.07
Matches are distributed among these distances:
27 1 0.01
28 22 0.32
29 44 0.65
30 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.27
Consensus pattern (28 bp):
TGTATATGGCCCATTAGGCCAAATCACA
Found at i:50776827 original size:24 final size:24
Alignment explanation
Indices: 50776794--50776844 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
50776784 GTAGCCAAAC
*
50776794 TTTCAGCTTTTCGGCATTTCGACT
1 TTTCAACTTTTCGGCATTTCGACT
*
50776818 TTTCAACTTTTCGGCATTTCGGCT
1 TTTCAACTTTTCGGCATTTCGACT
50776842 TTT
1 TTT
50776845 GCCGATACAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.12, C:0.24, G:0.16, T:0.49
Consensus pattern (24 bp):
TTTCAACTTTTCGGCATTTCGACT
Found at i:50780756 original size:36 final size:37
Alignment explanation
Indices: 50780693--50780765 Score: 112
Period size: 36 Copynumber: 2.0 Consensus size: 37
50780683 ACCCTAATCC
**
50780693 GACAACAGAGATGGGTTAGGGTTGTTACAATTTTTTT
1 GACAACAGAGATGGGTTAGGGGCGTTACAATTTTTTT
*
50780730 GACAACGGAGAT-GGTTAGGGGCGTTACAATTTTTTT
1 GACAACAGAGATGGGTTAGGGGCGTTACAATTTTTTT
50780766 CTTTCATATT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
36 22 0.67
37 11 0.33
ACGTcount: A:0.26, C:0.10, G:0.29, T:0.36
Consensus pattern (37 bp):
GACAACAGAGATGGGTTAGGGGCGTTACAATTTTTTT
Found at i:50792118 original size:40 final size:40
Alignment explanation
Indices: 50792060--50792285 Score: 271
Period size: 40 Copynumber: 5.7 Consensus size: 40
50792050 TGGATATAAC
* * *
50792060 CACTCGCAC-AAGGCCTTCGGGTCTTAGCCCGG-ATATGGT
1 CACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT
* * * *
50792099 CACTAGCATAAATGCCTTCGGGTCTTAGCCCAG-ATATAG-
1 CACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT
*
50792138 CAACTCGCACAAATGCCTTCGGGACTTAGCCCAGAATTAGT
1 C-ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGT
* *
50792179 AACTCGCACCAATGCCTTCGGGACTTAGCCCGGAATTAGT
1 CACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGT
* *
50792219 AACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAAT
1 CACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGT
* *
50792259 CACTAGCACAAATGTCTTCGGGACTTA
1 CACTCGCACAAATGCCTTCGGGACTTA
50792286 ACCCCGTTAG
Statistics
Matches: 167, Mismatches: 16, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
39 8 0.05
40 157 0.94
41 2 0.01
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGT
Found at i:50806219 original size:16 final size:16
Alignment explanation
Indices: 50806200--50806251 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
50806190 ATAAAACTTA
*
50806200 TTTTGTAAAAAAATAT
1 TTTTATAAAAAAATAT
* * *
50806216 TTTTTTAAAAAAAAAA
1 TTTTATAAAAAAATAT
* *
50806232 TTTTATTAAGAAATAT
1 TTTTATAAAAAAATAT
50806248 TTTT
1 TTTT
50806252 TTTTATTTCT
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (16 bp):
TTTTATAAAAAAATAT
Found at i:50806229 original size:17 final size:17
Alignment explanation
Indices: 50806206--50806256 Score: 57
Period size: 17 Copynumber: 3.0 Consensus size: 17
50806196 CTTATTTTGT
50806206 AAAAAAATATTTTTTTA
1 AAAAAAATATTTTTTTA
* *
50806223 AAAAAAAAATTTTATTA
1 AAAAAAATATTTTTTTA
* * *
50806240 AGAAATATTTTTTTTTA
1 AAAAAAATATTTTTTTA
50806257 TTTCTTTCTC
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (17 bp):
AAAAAAATATTTTTTTA
Found at i:50807719 original size:9 final size:9
Alignment explanation
Indices: 50807705--50807754 Score: 55
Period size: 9 Copynumber: 5.2 Consensus size: 9
50807695 ACCATTTGCT
50807705 GATAAATAA
1 GATAAATAA
50807714 GATAAATAA
1 GATAAATAA
50807723 GATAAATATA
1 GATAAATA-A
* *
50807733 GTTCAGAATAT
1 GAT-A-AATAA
50807744 GATAAATAA
1 GATAAATAA
50807753 GA
1 GA
50807755 GATGTCTGTG
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
9 23 0.68
10 4 0.12
11 3 0.09
12 4 0.12
ACGTcount: A:0.58, C:0.02, G:0.14, T:0.26
Consensus pattern (9 bp):
GATAAATAA
Found at i:50812612 original size:121 final size:120
Alignment explanation
Indices: 50812485--50812706 Score: 315
Period size: 121 Copynumber: 1.8 Consensus size: 120
50812475 TGGAATCCCT
* * * *
50812485 AAATCCCCAAATC-AGCCACACGGTCGTGTGGCCAGGCCGTGTGACT-TCAAATCTCTGAAACCC
1 AAATCCCCAAATCGA-CCACACAGTCATGTAGCCAGGCCGTGTAACTCT-AAATCTCTGAAACCC
*
50812548 TAATTCCCAAACCC-ACACGTCCGTGTGCCAAATGGACACAGTCGTGTGAATTCTAACA
64 TAATTCCCAAACCCAACAC-T-CGTGTGCCAAAGGGACACAGTCGTGTGAATTCTAACA
*
50812606 AAATCCCCAAATCGACCACACAGTCATGTAGCCAGGCTGTGTAACTCTAAATCTCTGAAACCCTA
1 AAATCCCCAAATCGACCACACAGTCATGTAGCCAGGCCGTGTAACTCTAAATCTCTGAAACCCTA
* *
50812671 ATTCCTAAACCCAACACTCGTGTGCCCAAGGGACAC
66 ATTCCCAAACCCAACACTCGTGTGCCAAAGGGACAC
50812707 GACCATGTGG
Statistics
Matches: 90, Mismatches: 8, Indels: 7
0.86 0.08 0.07
Matches are distributed among these distances:
120 16 0.18
121 68 0.76
122 6 0.07
ACGTcount: A:0.31, C:0.32, G:0.17, T:0.20
Consensus pattern (120 bp):
AAATCCCCAAATCGACCACACAGTCATGTAGCCAGGCCGTGTAACTCTAAATCTCTGAAACCCTA
ATTCCCAAACCCAACACTCGTGTGCCAAAGGGACACAGTCGTGTGAATTCTAACA
Found at i:50813693 original size:44 final size:45
Alignment explanation
Indices: 50813627--50813719 Score: 118
Period size: 44 Copynumber: 2.1 Consensus size: 45
50813617 TATAGCGGCA
* *
50813627 TTTTTTAAAAAAGCACCGCTATAGGCCAAGAAC-TTTAGCGGCGCT
1 TTTTTTAAAAAAGCACCACTATAGACC-AGAACTTTTAGCGGCGCT
* * *
50813672 TTTTTTAAAAAA-CGCCACTATAGACCTGTACTTTTAGCGGCGCT
1 TTTTTTAAAAAAGCACCACTATAGACCAGAACTTTTAGCGGCGCT
50813716 TTTT
1 TTTT
50813720 ATAGACCTGT
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
43 3 0.07
44 27 0.64
45 12 0.29
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.33
Consensus pattern (45 bp):
TTTTTTAAAAAAGCACCACTATAGACCAGAACTTTTAGCGGCGCT
Found at i:50813722 original size:29 final size:29
Alignment explanation
Indices: 50813690--50813747 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
50813680 AAAACGCCAC
50813690 TATAGACCTGTACTTTTAGCGGCGCTTTT
1 TATAGACCTGTACTTTTAGCGGCGCTTTT
50813719 TATAGACCTGTACTTTTAGCGGCGCTTTT
1 TATAGACCTGTACTTTTAGCGGCGCTTTT
50813748 GTAAAAAAGC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.17, C:0.21, G:0.21, T:0.41
Consensus pattern (29 bp):
TATAGACCTGTACTTTTAGCGGCGCTTTT
Found at i:50813769 original size:44 final size:43
Alignment explanation
Indices: 50813719--50813895 Score: 250
Period size: 44 Copynumber: 4.0 Consensus size: 43
50813709 CGGCGCTTTT
50813719 TATAGACCTGTACTTTTAGCGGCGCTTTTGTAAAAAAGCGCCGC
1 TATAGACCTGTACTTTTAGCGGCGCTTTTGTAAAAAA-CGCCGC
* * *
50813763 TATAGACCAAG-AGC-TTTAGTGGCGCTTCTGTAAAAAAACGCCGC
1 TATAGACC-TGTA-CTTTTAGCGGCGCTTTTGT-AAAAAACGCCGC
50813807 TATAGACCTGTACTTTTAGCGGCGCTTTTGTAGAAAAACGCCGC
1 TATAGACCTGTACTTTTAGCGGCGCTTTTGTA-AAAAACGCCGC
* *
50813851 TATAGACCTGTACTTTTAGCGGCGCTTTTGCAAAAAATGCCGC
1 TATAGACCTGTACTTTTAGCGGCGCTTTTGTAAAAAACGCCGC
50813894 TA
1 TA
50813896 ATTTTCCCAG
Statistics
Matches: 119, Mismatches: 8, Indels: 13
0.85 0.06 0.09
Matches are distributed among these distances:
43 15 0.13
44 96 0.81
45 8 0.07
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.28
Consensus pattern (43 bp):
TATAGACCTGTACTTTTAGCGGCGCTTTTGTAAAAAACGCCGC
Found at i:50813824 original size:117 final size:116
Alignment explanation
Indices: 50813619--50813835 Score: 335
Period size: 117 Copynumber: 1.9 Consensus size: 116
50813609 CTAGGACCTA
* * * * *
50813619 TAGCGGCATTTTTTAAAAAAGCACCGCTATAGGCCAAGAACTTTAGCGGCGCTTTTTTTAAAAAA
1 TAGCGGCATTTTGTAAAAAAGCACCGCTATAGACCAAGAACTTTAGCGGCGCTTCTGTAAAAAAA
50813684 CGCCACTATAGACCTGTACTTTTAGCGGCGCTTTTTATAGACCTGTACTTT
66 CGCCACTATAGACCTGTACTTTTAGCGGCGCTTTTTATAGACCTGTACTTT
* * * *
50813735 TAGCGGCGCTTTTGTAAAAAAGCGCCGCTATAGACCAAGAGCTTTAGTGGCGCTTCTGTAAAAAA
1 TAGCGGC-ATTTTGTAAAAAAGCACCGCTATAGACCAAGAACTTTAGCGGCGCTTCTGTAAAAAA
*
50813800 ACGCCGCTATAGACCTGTACTTTTAGCGGCGCTTTT
65 ACGCCACTATAGACCTGTACTTTTAGCGGCGCTTTT
50813836 GTAGAAAAAC
Statistics
Matches: 90, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
116 7 0.08
117 83 0.92
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (116 bp):
TAGCGGCATTTTGTAAAAAAGCACCGCTATAGACCAAGAACTTTAGCGGCGCTTCTGTAAAAAAA
CGCCACTATAGACCTGTACTTTTAGCGGCGCTTTTTATAGACCTGTACTTT
Found at i:50814217 original size:21 final size:21
Alignment explanation
Indices: 50814193--50814237 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
50814183 TCCTGTTCTG
50814193 CTCCGCCTCCCTCGCTGCTGC
1 CTCCGCCTCCCTCGCTGCTGC
50814214 CTCCGCCTCCCTCGCTGCTGC
1 CTCCGCCTCCCTCGCTGCTGC
50814235 CTC
1 CTC
50814238 TGCTCTAAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.00, C:0.58, G:0.18, T:0.24
Consensus pattern (21 bp):
CTCCGCCTCCCTCGCTGCTGC
Found at i:50814828 original size:18 final size:18
Alignment explanation
Indices: 50814796--50814833 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
50814786 TACAATATAG
50814796 TAGTAAAAATATTATTTAA
1 TAGTAAAAATATTA-TTAA
*
50814815 TAGTAAAAA-GTTATTAA
1 TAGTAAAAATATTATTAA
50814832 TA
1 TA
50814834 CTTGATAGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 6 0.33
18 3 0.17
19 9 0.50
ACGTcount: A:0.53, C:0.00, G:0.08, T:0.39
Consensus pattern (18 bp):
TAGTAAAAATATTATTAA
Found at i:50820441 original size:21 final size:21
Alignment explanation
Indices: 50820417--50820456 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
50820407 AAATTAATTC
*
50820417 ATACTTAAGTTGAATCAAATA
1 ATACTTAAGTTGAACCAAATA
*
50820438 ATACTTAATTTGAACCAAA
1 ATACTTAAGTTGAACCAAA
50820457 ATATAAAAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.47, C:0.12, G:0.07, T:0.33
Consensus pattern (21 bp):
ATACTTAAGTTGAACCAAATA
Found at i:50825672 original size:15 final size:15
Alignment explanation
Indices: 50825652--50825682 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
50825642 CAAATAATAA
*
50825652 TATATATATTTATCT
1 TATATACATTTATCT
50825667 TATATACATTTATCT
1 TATATACATTTATCT
50825682 T
1 T
50825683 CTAAATTAAA
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:0.10, G:0.00, T:0.58
Consensus pattern (15 bp):
TATATACATTTATCT
Found at i:50825745 original size:22 final size:22
Alignment explanation
Indices: 50825715--50825756 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
50825705 ACTCTAAATT
50825715 TAAAACCCTAAACCTGAGACTC
1 TAAAACCCTAAACCTGAGACTC
* *
50825737 TAAACCCCTAAACCTTAGAC
1 TAAAACCCTAAACCTGAGAC
50825757 CACAAACACA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.40, C:0.33, G:0.07, T:0.19
Consensus pattern (22 bp):
TAAAACCCTAAACCTGAGACTC
Found at i:50826086 original size:25 final size:25
Alignment explanation
Indices: 50826051--50826102 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
50826041 TTTCTAGCTA
50826051 ATAGTTAAACAAATGCTAATTCCAC
1 ATAGTTAAACAAATGCTAATTCCAC
*
50826076 ATAGTTCAACAAATGCTAATTCCAC
1 ATAGTTAAACAAATGCTAATTCCAC
50826101 AT
1 AT
50826103 TCAAAATCAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.29
Consensus pattern (25 bp):
ATAGTTAAACAAATGCTAATTCCAC
Found at i:50826302 original size:36 final size:38
Alignment explanation
Indices: 50826261--50826336 Score: 102
Period size: 39 Copynumber: 2.0 Consensus size: 38
50826251 CTTCAAATAC
* * *
50826261 TAGTTAACTCCTAAACC-G-TAAATCTTAAACCATATA
1 TAGTTAACTCATAAACCTGCTAAACCCTAAACCATATA
50826297 TAGTTAACTCATAAACCTGCTTAAACCCTAAACCATATA
1 TAGTTAACTCATAAACCTGC-TAAACCCTAAACCATATA
50826336 T
1 T
50826337 CTTAAACTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
36 16 0.47
37 1 0.03
39 17 0.50
ACGTcount: A:0.41, C:0.24, G:0.05, T:0.30
Consensus pattern (38 bp):
TAGTTAACTCATAAACCTGCTAAACCCTAAACCATATA
Found at i:50826570 original size:41 final size:41
Alignment explanation
Indices: 50826513--50826731 Score: 332
Period size: 41 Copynumber: 5.4 Consensus size: 41
50826503 GGTTTATGAC
*
50826513 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGATCTGGT
1 TTTTAGCGGCGTTTTACCCAAAGCGCCGCTAATGATCTGGT
* * *
50826554 TTTTACCGGCATTTTACCTAAAGCGCCGCTAATGATCTGGT
1 TTTTAGCGGCGTTTTACCCAAAGCGCCGCTAATGATCTGGT
*
50826595 TTTTACCGGCGTTTTACCCAAAGCGCCGCTAATGATCTGGT
1 TTTTAGCGGCGTTTTACCCAAAGCGCCGCTAATGATCTGGT
*
50826636 TTTTAGTGGCGTTTTACCCAAAGCGCCGCTAATGATCTGGT
1 TTTTAGCGGCGTTTTACCCAAAGCGCCGCTAATGATCTGGT
* * ** *
50826677 TTTTAGCGGCGTTTTACCTAAAGCGCCACTAATTCTCT-AT
1 TTTTAGCGGCGTTTTACCCAAAGCGCCGCTAATGATCTGGT
50826717 TTTTAGCGGCGTTTT
1 TTTTAGCGGCGTTTT
50826732 TTACTAAAAC
Statistics
Matches: 165, Mismatches: 13, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
40 16 0.10
41 149 0.90
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.35
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTACCCAAAGCGCCGCTAATGATCTGGT
Found at i:50826745 original size:123 final size:122
Alignment explanation
Indices: 50826513--50826772 Score: 337
Period size: 123 Copynumber: 2.1 Consensus size: 122
50826503 GGTTTATGAC
*
50826513 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGATCTGGTTTTTACCGGCATTTTACCTAAAGC
1 TTTTAGTGGCGTTTTACCAAAAGCGCCGCTAATGATCTGGTTTTTACCGGCATTTTACCTAAAGC
* * *
50826578 GCCGCTAATGATCTGGTTTTTACCGGCGTTTTACCCAAAGCGCCGCTAATGA-TCTGGT
66 GCCACTAATGATCTGATTTTTACCGGCGTTTTACCCAAAACGCCG-TAATGACTCT-GT
* * *
50826636 TTTTAGTGGCGTTTTACCCAAAGCGCCGCTAATGATCTGGTTTTTAGCGGCGTTTTACCTAAAGC
1 TTTTAGTGGCGTTTTACCAAAAGCGCCGCTAATGATCTGGTTTTTACCGGCATTTTACCTAAAGC
** * * ** *
50826701 GCCACTAATTCTCT-ATTTTTAGCGGCGTTTTTTA-CTAAAACGCCGTTGTTACTCTGT
66 GCCACTAATGATCTGATTTTTACCGGCG--TTTTACCCAAAACGCCGTAATGACTCTGT
50826758 TTTTAGTGGCGTTTT
1 TTTTAGTGGCGTTTT
50826773 CCTTAAGATG
Statistics
Matches: 120, Mismatches: 14, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
122 31 0.26
123 84 0.70
124 5 0.04
ACGTcount: A:0.20, C:0.22, G:0.21, T:0.37
Consensus pattern (122 bp):
TTTTAGTGGCGTTTTACCAAAAGCGCCGCTAATGATCTGGTTTTTACCGGCATTTTACCTAAAGC
GCCACTAATGATCTGATTTTTACCGGCGTTTTACCCAAAACGCCGTAATGACTCTGT
Found at i:50832846 original size:9 final size:9
Alignment explanation
Indices: 50832832--50833103 Score: 107
Period size: 9 Copynumber: 30.0 Consensus size: 9
50832822 GAAGTATAAT
50832832 TAAGTTATG
1 TAAGTTATG
50832841 TAAGTTATG
1 TAAGTTATG
* * *
50832850 ATATGATATA
1 -TAAGTTATG
* *
50832860 T-ATTTATA
1 TAAGTTATG
50832868 T-A-TTATG
1 TAAGTTATG
50832875 TAAGTTATG
1 TAAGTTATG
50832884 TAAGTTATG
1 TAAGTTATG
50832893 TGAA-TTATG
1 T-AAGTTATG
50832902 TAAGTTATG
1 TAAGTTATG
*
50832911 --A-TATATA
1 TAAGT-TATG
50832918 TAAGTTAT-
1 TAAGTTATG
50832926 TAAGTTATG
1 TAAGTTATG
* *
50832935 TATGTAATG
1 TAAGTTATG
*
50832944 TGAGTTATG
1 TAAGTTATG
50832953 TAAGTTATG
1 TAAGTTATG
* *
50832962 ATATGATATATA
1 -TAAG-T-TATG
50832974 TAAGTTAT-
1 TAAGTTATG
*
50832982 TAAGTTAAG
1 TAAGTTATG
* *
50832991 ATCCAAAGTTTTTT
1 -T---AAG-TTATG
* *
50833005 TAA-TTCTT
1 TAAGTTATG
*
50833013 TAAAGTTATA
1 T-AAGTTATG
* *
50833023 TAAATTATA
1 TAAGTTATG
*
50833032 TAATTTATG
1 TAAGTTATG
*
50833041 TAAGTTTTG
1 TAAGTTATG
* * *
50833050 ATATGATATA
1 -TAAGTTATG
*
50833060 T-ATTTATG
1 TAAGTTATG
50833068 TAAGTTATG
1 TAAGTTATG
*
50833077 TAAATTATG
1 TAAGTTATG
*
50833086 CAAGTTATG
1 TAAGTTATG
50833095 TAAGTTATG
1 TAAGTTATG
50833104 ATATATATTT
Statistics
Matches: 198, Mismatches: 42, Indels: 46
0.69 0.15 0.16
Matches are distributed among these distances:
6 1 0.01
7 9 0.05
8 33 0.17
9 117 0.59
10 25 0.13
11 4 0.02
12 3 0.02
13 4 0.02
14 2 0.01
ACGTcount: A:0.37, C:0.01, G:0.15, T:0.46
Consensus pattern (9 bp):
TAAGTTATG
Found at i:50832922 original size:43 final size:45
Alignment explanation
Indices: 50832832--50832935 Score: 121
Period size: 43 Copynumber: 2.4 Consensus size: 45
50832822 GAAGTATAAT
* *
50832832 TAAGTTATGTAAGTTA--TGATATGATATATATTTATATATTATG
1 TAAGTTATGTAAGTTATGTGATATGATATATAGTTATATATTATA
* *
50832875 TAAGTTATGTAAGTTATGTGA-ATTATGTA-AGTTATGATA-TATA
1 TAAGTTATGTAAGTTATGTGATATGATATATAGTTAT-ATATTATA
50832918 TAAGTTAT-TAAGTTATGT
1 TAAGTTATGTAAGTTATGT
50832936 ATGTAATGTG
Statistics
Matches: 54, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
42 10 0.19
43 32 0.59
44 9 0.17
45 3 0.06
ACGTcount: A:0.37, C:0.00, G:0.16, T:0.47
Consensus pattern (45 bp):
TAAGTTATGTAAGTTATGTGATATGATATATAGTTATATATTATA
Found at i:50832945 original size:51 final size:53
Alignment explanation
Indices: 50832870--50832971 Score: 163
Period size: 51 Copynumber: 2.0 Consensus size: 53
50832860 TATTTATATA
*
50832870 TTATGTAAGTTATGTAAGTTATGTGAATTATGTAAGTTATGATAT-ATATAAG
1 TTATGTAAGTTATGTAAGTAATGTGAATTATGTAAGTTATGATATGATATAAG
* *
50832922 TTAT-TAAGTTATGTATGTAATGTGAGTTATGTAAGTTATGATATGATATA
1 TTATGTAAGTTATGTAAGTAATGTGAATTATGTAAGTTATGATATGATATA
50832972 TATAAGTTAT
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
51 37 0.80
52 9 0.20
ACGTcount: A:0.35, C:0.00, G:0.20, T:0.45
Consensus pattern (53 bp):
TTATGTAAGTTATGTAAGTAATGTGAATTATGTAAGTTATGATATGATATAAG
Found at i:50832967 original size:56 final size:56
Alignment explanation
Indices: 50832834--50832988 Score: 194
Period size: 56 Copynumber: 2.8 Consensus size: 56
50832824 AGTATAATTA
* *
50832834 AGTTATGTAAGTTATGATATGATATATATTTATATATTATGTAAGTTATGTAAGTTATGTG
1 AGTTATGTAAGTTATGATATGATATATA--TA-A-GTTAT-TAAGTTATGTAAGTAATGTG
* *
50832895 AATTATGTAAG---T--TATGATATATATAAGTTATTAAGTTATGTATGTAATGTG
1 AGTTATGTAAGTTATGATATGATATATATAAGTTATTAAGTTATGTAAGTAATGTG
50832946 AGTTATGTAAGTTATGATATGATATATATAAGTTATTAAGTTA
1 AGTTATGTAAGTTATGATATGATATATATAAGTTATTAAGTTA
50832989 AGATCCAAAG
Statistics
Matches: 84, Mismatches: 5, Indels: 15
0.81 0.05 0.14
Matches are distributed among these distances:
51 28 0.33
52 4 0.05
53 1 0.01
54 3 0.04
56 37 0.44
58 1 0.01
61 10 0.12
ACGTcount: A:0.37, C:0.00, G:0.17, T:0.46
Consensus pattern (56 bp):
AGTTATGTAAGTTATGATATGATATATATAAGTTATTAAGTTATGTAAGTAATGTG
Found at i:50833302 original size:16 final size:16
Alignment explanation
Indices: 50833283--50833316 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
50833273 AAATATTAAA
*
50833283 TATTAAAATCAAACAT
1 TATTAAAATCAAAAAT
*
50833299 TATTAATATCAAAAAT
1 TATTAAAATCAAAAAT
50833315 TA
1 TA
50833317 GTTAGTATTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.56, C:0.09, G:0.00, T:0.35
Consensus pattern (16 bp):
TATTAAAATCAAAAAT
Found at i:50835839 original size:48 final size:48
Alignment explanation
Indices: 50835765--50835931 Score: 244
Period size: 48 Copynumber: 3.5 Consensus size: 48
50835755 GCCTCATGTT
* *
50835765 GATGCCATGTCCTAAACATGGTCTTACACTGGCTCACATAACGATGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACGATGCC
* * *
50835813 GAAGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACAATGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACGATGCC
* * *
50835861 GATGCCATGTCCCACACATGGTCTTACACTAGCTCACGTAACGATGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACGATGCC
* *
50835909 GATGTCATGTCCCAGATATGGTC
1 GATGCCATGTCCCAGACATGGTC
50835932 CTATGATACA
Statistics
Matches: 105, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 105 1.00
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.25
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACGATGCC
Found at i:50848037 original size:14 final size:14
Alignment explanation
Indices: 50847981--50848071 Score: 69
Period size: 14 Copynumber: 6.6 Consensus size: 14
50847971 TGTTTTTAAC
50847981 ACCCTAAACCATAA
1 ACCCTAAACCATAA
* * *
50847995 ACGCTAAGCCATTA
1 ACCCTAAACCATAA
* * *
50848009 GCACTAAATCATAA
1 ACCCTAAACCATAA
*
50848023 ACCCTAAACCTTAA
1 ACCCTAAACCATAA
*
50848037 ATTCC-AAACCATAA
1 A-CCCTAAACCATAA
* *
50848051 A-CCTACACCCTAA
1 ACCCTAAACCATAA
50848064 ACCCTAAA
1 ACCCTAAA
50848072 TATGTTCTTA
Statistics
Matches: 57, Mismatches: 17, Indels: 6
0.71 0.21 0.08
Matches are distributed among these distances:
12 2 0.04
13 8 0.14
14 45 0.79
15 2 0.04
ACGTcount: A:0.45, C:0.33, G:0.03, T:0.19
Consensus pattern (14 bp):
ACCCTAAACCATAA
Found at i:50848634 original size:155 final size:155
Alignment explanation
Indices: 50848338--50848671 Score: 367
Period size: 155 Copynumber: 2.2 Consensus size: 155
50848328 TTTAACACCC
* * * *
50848338 CTAATGCCACTAAAGCTCAACAACAAACAACGTCCTTTTGCTCAACTTTTTTGCGACGTTTTTCG
1 CTAATGCCACTAAAGCTCAACAACAAAAAACGTCATTTTGCTCAAATTTTTTACGACGTTTTTCG
** *
50848403 AAAAGCGCTGCTAATGCTCAATCTATAGCGGCGTTTTCAACAAGCGCTACTAATTCTCAAATCCA
66 AAAAGCGCCACTAATGCTCAACCTATAGCGGCGTTTTCAACAAGCGCTA-TAATTCTCAAATCCA
50848468 TTACTGCATTTTTTAAAAAGCGAC-G-
130 TTACTGCATTTTTTAAAAAGCG-CTGA
* ** *
50848493 CTAATGCCACTAAAGCTCAACAA-AAAAAGACGTCATTTTGCTCAAATTTTTTATGGGGTTTTTT
1 CTAATGCCACTAAAGCTCAACAACAAAAA-ACGTCATTTTGCTCAAATTTTTTACGACGTTTTTC
* * * * * * *
50848557 GAATAGTGCCACTAATGCTCGACCTATAGTGGTGTTTTTCAACAAGCATCGT-TAATTCTC-GAT
65 GAAAAGCGCCACTAATGCTCAACCTATAGCGGCG-TTTTCAACAAGC-GC-TATAATTCTCAAAT
* * *
50848620 CTATT-GTAGTATTTTTTAAAAAGCGCTGA
127 CCATTACT-GCATTTTTTAAAAAGCGCTGA
50848649 C-AATGCCACTAAAGCTCAACAAC
1 CTAATGCCACTAAAGCTCAACAAC
50848672 TTTTGCTAAA
Statistics
Matches: 150, Mismatches: 21, Indels: 15
0.81 0.11 0.08
Matches are distributed among these distances:
154 6 0.04
155 121 0.81
156 21 0.14
157 1 0.01
158 1 0.01
ACGTcount: A:0.31, C:0.22, G:0.15, T:0.32
Consensus pattern (155 bp):
CTAATGCCACTAAAGCTCAACAACAAAAAACGTCATTTTGCTCAAATTTTTTACGACGTTTTTCG
AAAAGCGCCACTAATGCTCAACCTATAGCGGCGTTTTCAACAAGCGCTATAATTCTCAAATCCAT
TACTGCATTTTTTAAAAAGCGCTGA
Found at i:50854574 original size:48 final size:48
Alignment explanation
Indices: 50854503--50854608 Score: 176
Period size: 48 Copynumber: 2.2 Consensus size: 48
50854493 CAAGATAAAT
* * *
50854503 ATATATATGTGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
50854551 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
50854599 ATGTGTATAT
1 ATATGTATAT
50854609 ATTGTGGCCG
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 54 1.00
ACGTcount: A:0.34, C:0.06, G:0.27, T:0.33
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:50854792 original size:37 final size:37
Alignment explanation
Indices: 50854742--50854813 Score: 126
Period size: 37 Copynumber: 1.9 Consensus size: 37
50854732 GAAATATATT
*
50854742 CCGGGTAAGACCCGATGGCTACGTGTGGAGATTATGC
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGC
*
50854779 CCGGGTAAGACCCGATGACTACGTGTGGGGATTAT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTAT
50854814 TCGAGCTAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.22, C:0.21, G:0.35, T:0.22
Consensus pattern (37 bp):
CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGC
Found at i:50857850 original size:27 final size:27
Alignment explanation
Indices: 50857809--50857862 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
50857799 TGTCATGTGA
* *
50857809 AATTGAATGGCAAATTATTCTTACATG
1 AATTGAATGGCAAATTACTATTACATG
**
50857836 AATTGAATGTTAAATTACTATTACATG
1 AATTGAATGGCAAATTACTATTACATG
50857863 GGTTGTATGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.09, G:0.13, T:0.39
Consensus pattern (27 bp):
AATTGAATGGCAAATTACTATTACATG
Found at i:50858189 original size:49 final size:48
Alignment explanation
Indices: 50858116--50858348 Score: 268
Period size: 49 Copynumber: 4.7 Consensus size: 48
50858106 TGAAGCCACG
*
50858116 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGAATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCG-ATAATTGGTCACA
* * * *
50858165 TGTGTAGTACTAAGTGCAGTCTACTATGCGTACCTGATAACTTTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACC-GATAA--TTGGTCACA
* * ** *
50858216 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTA-CCGATAATT-GGTCACA
* * * *
50858266 TGTGTAGTACTAAGTGCAGGCTATTACGTGTACTTGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTAC-CGATAATTGGTCACA
*
50858315 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACC
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACC
50858349 AGATGGCCTT
Statistics
Matches: 156, Mismatches: 22, Indels: 13
0.82 0.12 0.07
Matches are distributed among these distances:
49 74 0.47
50 43 0.28
51 38 0.24
52 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (48 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGATAATTGGTCACA
Found at i:50858245 original size:28 final size:28
Alignment explanation
Indices: 50858213--50858296 Score: 74
Period size: 28 Copynumber: 3.2 Consensus size: 28
50858203 AACTTTGATC
50858213 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
* * *
50858241 ACGTGTATCAG-A-T-GGT-TAGG-T-C-
1 ACGTGTGT-AGTACTAAGTGCAGGCTACT
*
50858263 ACGTGTGTAGTACTAAGTGCAGGCTATT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
50858291 ACGTGT
1 ACGTGT
50858297 ACTTGATAAT
Statistics
Matches: 41, Mismatches: 7, Indels: 16
0.64 0.11 0.25
Matches are distributed among these distances:
21 2 0.05
22 8 0.20
23 2 0.05
24 3 0.07
25 6 0.15
26 3 0.07
27 1 0.02
28 14 0.34
29 2 0.05
ACGTcount: A:0.24, C:0.15, G:0.30, T:0.31
Consensus pattern (28 bp):
ACGTGTGTAGTACTAAGTGCAGGCTACT
Found at i:50858352 original size:99 final size:99
Alignment explanation
Indices: 50858116--50858354 Score: 302
Period size: 99 Copynumber: 2.4 Consensus size: 99
50858106 TGAAGCCACG
** *
50858116 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACC-GAATAATTGGTCGCATGTGTAGTACTAAGT
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAG-ATGGTTGGTCACATGTGTAGTACTAAGT
* * *
50858180 GCAGTCTACTATGCGTACCTGATAACTTTGATCACG
65 GCAGGCTACTACGCGTACCTGATAAC-TTGATCACA
* * *
50858216 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAGT
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATGGTT-GGTCACATGTGTAGTACTAAGT
* * * * *
50858281 GCAGGCTATTACGTGTACTTGATAA-TTGGTCGCA
65 GCAGGCTACTACGCGTACCTGATAACTTGATCACA
*
50858315 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATGG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATGG
50858355 CCTTGGCTAC
Statistics
Matches: 120, Mismatches: 17, Indels: 5
0.85 0.12 0.04
Matches are distributed among these distances:
99 43 0.36
100 36 0.30
101 41 0.34
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (99 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATGGTTGGTCACATGTGTAGTACTAAGTG
CAGGCTACTACGCGTACCTGATAACTTGATCACA
Found at i:50861118 original size:46 final size:46
Alignment explanation
Indices: 50861060--50861232 Score: 188
Period size: 46 Copynumber: 3.7 Consensus size: 46
50861050 TTGGGCATCG
*
50861060 GAACTCGATGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCC
*** * * * *
50861106 GAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-ACTAGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGCGA-GCGTCC
* * * *
50861153 GAGCTCATCGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CTC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTC-C
*
50861199 GAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
50861233 GCGGGTTACA
Statistics
Matches: 102, Mismatches: 21, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
45 1 0.01
46 66 0.65
47 35 0.34
ACGTcount: A:0.22, C:0.21, G:0.30, T:0.27
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCC
Found at i:50869729 original size:27 final size:27
Alignment explanation
Indices: 50869688--50869741 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
50869678 TGTCATGTGA
* *
50869688 AATTGAATGGCAAATTATTCTTACATG
1 AATTGAATGGCAAATTACTATTACATG
**
50869715 AATTGAATGTTAAATTACTATTACATG
1 AATTGAATGGCAAATTACTATTACATG
50869742 GGTTGTATGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.09, G:0.13, T:0.39
Consensus pattern (27 bp):
AATTGAATGGCAAATTACTATTACATG
Found at i:50870101 original size:50 final size:50
Alignment explanation
Indices: 50870026--50870240 Score: 324
Period size: 50 Copynumber: 4.3 Consensus size: 50
50870016 CACTACGTGT
50870026 TACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAGTGCAGGCTAC
1 TACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAGTGCAGGCTAC
50870076 TACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAGTGCAGGCTAC
1 TACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAGTGCAGGCTAC
50870126 TACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAGTGCAGGCTAC
1 TACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAGTGCAGGCTAC
* * ** * * * *
50870176 TACGTGTACCGGATAATT-CGTCGCATGTGTAGTACTAAGTGCAAGCTAC
1 TACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAGTGCAGGCTAC
* * *
50870225 TATGCGTACCAGATGG
1 TACGTGTATCAGATGG
50870241 CCTTGTCTAC
Statistics
Matches: 152, Mismatches: 13, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
49 38 0.25
50 114 0.75
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (50 bp):
TACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAGTGCAGGCTAC
Found at i:50870167 original size:100 final size:99
Alignment explanation
Indices: 50869989--50870240 Score: 324
Period size: 100 Copynumber: 2.5 Consensus size: 99
50869979 CTATTGTGAG
*
50869989 GTCACATGTGTAGTACTAAGTGCACGCCACTACGTGTTACGTGTATCAGATGGTTAGGTCACGTG
1 GTCACATGTGTAGTACTAAGTGCAAG---CTAC----TACGTGTATCAGATGGTTAGGTCACGTG
* ** *
50870054 TGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAG
59 TGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-C
* *
50870096 GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTA
1 GTCACATGTGTAGTACTAAGTGCAAGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTA
*
50870161 CTAAGTGCAGGCTACTACGTGTACCGGATAATTC
66 CTAAGTGCAGGCTACTACGTGTACCAGATAATTC
* * * *
50870195 GTCGCATGTGTAGTACTAAGTGCAAGCTACTATGCGTACCAGATGG
1 GTCACATGTGTAGTACTAAGTGCAAGCTACTACGTGTATCAGATGG
50870241 CCTTGTCTAC
Statistics
Matches: 132, Mismatches: 13, Indels: 8
0.86 0.08 0.05
Matches are distributed among these distances:
99 40 0.30
100 64 0.48
104 4 0.03
107 24 0.18
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (99 bp):
GTCACATGTGTAGTACTAAGTGCAAGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTA
CTAAGTGCAGGCTACTACGTGTACCAGATAATTC
Found at i:50875596 original size:12 final size:13
Alignment explanation
Indices: 50875568--50875600 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
50875558 TTATTTCTTT
50875568 TTCTCCATCTACC
1 TTCTCCATCTACC
*
50875581 TTCTCC-TCTTCC
1 TTCTCCATCTACC
50875593 TTCTCCAT
1 TTCTCCAT
50875601 AGCCGAACCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.09, C:0.45, G:0.00, T:0.45
Consensus pattern (13 bp):
TTCTCCATCTACC
Found at i:50876700 original size:28 final size:28
Alignment explanation
Indices: 50876668--50876732 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
50876658 ATTTACTAGA
*
50876668 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
* *
50876696 ATACCCCTATGTGTGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
50876724 ATACCCCTA
1 ATACCCCTA
50876733 GGGTTAATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.32, C:0.28, G:0.09, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:50876897 original size:27 final size:27
Alignment explanation
Indices: 50876838--50876927 Score: 110
Period size: 28 Copynumber: 3.2 Consensus size: 27
50876828 AGGAAGCGTC
50876838 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAA-TATCTGTT
* * *
50876866 TTGGTGGCCCTGCCACATATATCTGTT
1 CTGGTGGCACTGCCACAAATATCTGTT
50876893 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCAC-AAATATCTGT-T
50876922 CTGGTG
1 CTGGTG
50876928 ACTCTGTCAC
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
27 22 0.42
28 24 0.45
29 7 0.13
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.33
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATCTGTT
Found at i:50876938 original size:29 final size:28
Alignment explanation
Indices: 50876848--50876938 Score: 94
Period size: 27 Copynumber: 3.2 Consensus size: 28
50876838 CTGGTGGCTA
* * * *
50876848 TGCCACAAATTATCTGTTTTGGTGGCCC
1 TGCCACAAAATATCTGTTCTGGTGACAC
* *
50876876 TGCCAC-ATATATCTGTTCTGGTGGCAC
1 TGCCACAAAATATCTGTTCTGGTGACAC
*
50876903 TGCCACAAAATATCTGTATCTGGTGACTC
1 TGCCACAAAATATCTGT-TCTGGTGACAC
*
50876932 TGTCACA
1 TGCCACA
50876939 TTTTCTGTAT
Statistics
Matches: 53, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
27 23 0.43
28 15 0.28
29 15 0.28
ACGTcount: A:0.22, C:0.25, G:0.20, T:0.33
Consensus pattern (28 bp):
TGCCACAAAATATCTGTTCTGGTGACAC
Found at i:50876946 original size:55 final size:56
Alignment explanation
Indices: 50876838--50876952 Score: 137
Period size: 55 Copynumber: 2.1 Consensus size: 56
50876828 AGGAAGCGTC
* * *
50876838 CTGGTGGCTATGCCACAAATTATCTGTTTTGGTGGCCCTGCCACATATATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
* * *
50876893 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTGTCACAT-TTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGACCCTGCCACATATATCTGTAT
50876949 CTGG
1 CTGG
50876953 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
54 1 0.02
55 30 0.59
56 20 0.39
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.36
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
Found at i:50877413 original size:19 final size:19
Alignment explanation
Indices: 50877391--50877429 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
50877381 TTTAATTATT
* *
50877391 TTTTATCGTTTTGTTTTAC
1 TTTTATCATTTTATTTTAC
*
50877410 TTTTATTATTTTATTTTAC
1 TTTTATCATTTTATTTTAC
50877429 T
1 T
50877430 ATGATGAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.15, C:0.08, G:0.05, T:0.72
Consensus pattern (19 bp):
TTTTATCATTTTATTTTAC
Found at i:50880945 original size:101 final size:99
Alignment explanation
Indices: 50880746--50880946 Score: 258
Period size: 99 Copynumber: 2.0 Consensus size: 99
50880736 TATGTAGCCA
* * * * * *
50880746 AACTATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTGCACG
1 AACTATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCAGGTACACA
*
50880811 TAGTAGCCTGCACTTAGTACTACACACGTGACCT
66 TAGTAGCCTGCACTTAGTACTACACACGCGACCT
* * * * *
50880845 AACTATCTGATACACTTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCATGTACG
1 AACTATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-TTATCAGGTACA
* *
50880910 CATAGTAGCCTGGACTTAGTACTACACATGCGACCT
64 CATAGTAGCCTGCACTTAGTACTACACACGCGACCT
50880946 A
1 A
50880947 GCTACATATA
Statistics
Matches: 86, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
99 42 0.49
100 3 0.03
101 41 0.48
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.26
Consensus pattern (99 bp):
AACTATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCAGGTACACA
TAGTAGCCTGCACTTAGTACTACACACGCGACCT
Found at i:50881047 original size:67 final size:64
Alignment explanation
Indices: 50880933--50881090 Score: 167
Period size: 67 Copynumber: 2.4 Consensus size: 64
50880923 ACTTAGTACT
* *
50880933 ACACATGCGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATGGTGTACACATAG-ATC
1 ACACATGCGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATGATGTACACATAGCACC
* ** * *
50880996 ACCCATGCGACCTAGCTACATCATAATGTCTTGTAGCTCTCTTGTAC-ACATGATGTGCACTTAG
1 ACACATGCGACCTAGCTACAT-AT-A--TCCCGTAGCTCTCTTGT-CTACATGATGTACACATAG
50881060 CACC
61 CACC
* *
50881064 ATACATGTGACCTAGCTACATACTATC
1 ACACATGCGACCTAGCTACATA-TATC
50881091 TGAATCATCC
Statistics
Matches: 78, Mismatches: 10, Indels: 12
0.78 0.10 0.12
Matches are distributed among these distances:
63 20 0.26
64 2 0.03
65 3 0.04
67 31 0.40
68 22 0.28
ACGTcount: A:0.27, C:0.28, G:0.15, T:0.29
Consensus pattern (64 bp):
ACACATGCGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATGATGTACACATAGCACC
Found at i:50881786 original size:30 final size:30
Alignment explanation
Indices: 50881750--50881810 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
50881740 TCCTTAACTC
50881750 AAACTTTGGAAAT-TTTACAATTTTGCCCCT
1 AAACTTT-GAAATATTTACAATTTTGCCCCT
* * *
50881780 AAACTTTTACATATTTACACTTTTGCCCCT
1 AAACTTTGAAATATTTACAATTTTGCCCCT
50881810 A
1 A
50881811 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
29 3 0.11
30 24 0.89
ACGTcount: A:0.30, C:0.23, G:0.07, T:0.41
Consensus pattern (30 bp):
AAACTTTGAAATATTTACAATTTTGCCCCT
Found at i:50884991 original size:46 final size:48
Alignment explanation
Indices: 50884760--50885121 Score: 283
Period size: 46 Copynumber: 7.7 Consensus size: 48
50884750 GGGTATAATA
* * **
50884760 CCGATGCCATGTCCTAGACATGGTCTTACACTGGC-T-CATCCATCAAG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTACAT-CTTGTAG
* * * *
50884807 TCGATGCAATGTCCCAGACATGGTCTTACACTGACTATCAAAT-TTG-AGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCT-T-ACATCTTGTA-G
* *
50884856 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTTTCACATATTCGT-G
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGC-TT-ACATCTT-GTAG
*
50884906 CCGATGCCATGTCCCAGACATGGTCTTACACTGAC--ACATCTTGTAG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATCTTGTAG
* *
50884952 CCGATG-CATGTCCCAGACAT-GTCTTACATTGGCTTACATCTCG-AGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATCTTGTA-G
* * **
50884998 CCGAAG-CATGTCCCAGACAT-GTCTTACACTAGC--AC-TCGTCTCAATG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATC-T-TGTA-G
* * ** *
50885044 CAGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-CCTAATGTGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCT-TACATCTTGTAG
*
50885092 CTGATG-CATGTCCCAGACAT-GTCTTACACT
1 CCGATGCCATGTCCCAGACATGGTCTTACACT
50885122 AGCTCACACA
Statistics
Matches: 260, Mismatches: 33, Indels: 45
0.77 0.10 0.13
Matches are distributed among these distances:
43 2 0.01
44 14 0.05
45 17 0.07
46 67 0.26
47 59 0.23
48 19 0.07
49 40 0.15
50 38 0.15
51 4 0.02
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (48 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATCTTGTAG
Found at i:50885072 original size:94 final size:92
Alignment explanation
Indices: 50884762--50885124 Score: 307
Period size: 94 Copynumber: 3.9 Consensus size: 92
50884752 GTATAATACC
* * ** *
50884762 GATGCCATGTCCTAGACATGGTCTTACACTGGC-T-CATCCATCAAGTCGATGCAATGTCCCAGA
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTTACAT-AATCGGGCCGATGC-ATGTCCCAGA
* * *
50884825 CATGGTCTTACACT-G-ACTATCAAATTTGAGGCC
64 CAT-GTCTTACACTAGCAC-ATC----TTCAAGCA
* * *
50884858 GATGCCATGTCCCAGACATGGTCTTACACTAGCTTTCACATATTCGTGCCGATGCCATGTCCCAG
1 GATGCCATGTCCCAGACATGGTCTTACACTGGC-TT-ACATAATCGGGCCGATG-CATGTCCCAG
** *
50884923 ACATGGTCTTACACT-GACACATCTTGTAGCC
63 ACAT-GTCTTACACTAG-CACATCTTCAAGCA
* * *
50884954 GATG-CATGTCCCAGACAT-GTCTTACATTGGCTTACAT-CTCGAGGCCGAAGCATGTCCCAGAC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATAATCG-GGCCGATGCATGTCCCAGAC
50885016 ATGTCTTACACTAGCAC-TCGTCTCAATGCA
65 ATGTCTTACACTAGCACATC-T-TCAA-GCA
* *
50885046 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-CCTAAT-GTGGCTGATGCATGTCCCAGA
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCT-TACATAATCG-GGCCGATGCATGTCCCAGA
50885109 CATGTCTTACACTAGC
64 CATGTCTTACACTAGC
50885125 TCACACAAAT
Statistics
Matches: 228, Mismatches: 23, Indels: 34
0.80 0.08 0.12
Matches are distributed among these distances:
89 2 0.01
90 14 0.06
91 20 0.09
92 16 0.07
93 16 0.07
94 60 0.26
95 16 0.07
96 41 0.18
98 1 0.00
99 33 0.14
100 7 0.03
101 2 0.01
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (92 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATAATCGGGCCGATGCATGTCCCAGACA
TGTCTTACACTAGCACATCTTCAAGCA
Found at i:50892460 original size:26 final size:26
Alignment explanation
Indices: 50892424--50892532 Score: 191
Period size: 26 Copynumber: 4.2 Consensus size: 26
50892414 ATGAAATGCC
*
50892424 TATCATGGAACATTTACCTAAACCAT
1 TATCATGGAACATTTACCTAACCCAT
50892450 TATCATGGAACATTTACCTAACCCAT
1 TATCATGGAACATTTACCTAACCCAT
* *
50892476 TATCATGGAATATTTACCTAATCCAT
1 TATCATGGAACATTTACCTAACCCAT
50892502 TATCATGGAACATTTACCTAACCCAT
1 TATCATGGAACATTTACCTAACCCAT
50892528 TATCA
1 TATCA
50892533 ATTTGTACCA
Statistics
Matches: 78, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.33
Consensus pattern (26 bp):
TATCATGGAACATTTACCTAACCCAT
Found at i:50899481 original size:26 final size:26
Alignment explanation
Indices: 50899450--50899505 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
50899440 TGAAATGTCC
50899450 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
*
50899476 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
50899502 ATCA
1 ATCA
50899506 ATTTGTACCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.38, C:0.25, G:0.07, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:50901688 original size:34 final size:34
Alignment explanation
Indices: 50901650--50901716 Score: 116
Period size: 34 Copynumber: 2.0 Consensus size: 34
50901640 AAATTCCAGT
**
50901650 GAAAAAAGTGAGCAAAGAATATGGTTTTAGTAAG
1 GAAAAAAGCAAGCAAAGAATATGGTTTTAGTAAG
50901684 GAAAAAAGCAAGCAAAGAATATGGTTTTAGTAA
1 GAAAAAAGCAAGCAAAGAATATGGTTTTAGTAA
50901717 CCGCCCATGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.49, C:0.04, G:0.24, T:0.22
Consensus pattern (34 bp):
GAAAAAAGCAAGCAAAGAATATGGTTTTAGTAAG
Found at i:50904993 original size:29 final size:30
Alignment explanation
Indices: 50904924--50904996 Score: 103
Period size: 30 Copynumber: 2.5 Consensus size: 30
50904914 AATTCAAAAT
*
50904924 GTACAGGGACTAAAATTGACCAATTTGAAA
1 GTACAGGGACTAAAATTGACCAAATTGAAA
* *
50904954 GTATAGGGACTAAAATTGATCAAATT-AAA
1 GTACAGGGACTAAAATTGACCAAATTGAAA
*
50904983 GTACAAGGACTAAA
1 GTACAGGGACTAAA
50904997 TTCACAACTT
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
29 15 0.39
30 23 0.61
ACGTcount: A:0.47, C:0.11, G:0.19, T:0.23
Consensus pattern (30 bp):
GTACAGGGACTAAAATTGACCAAATTGAAA
Found at i:50912569 original size:93 final size:92
Alignment explanation
Indices: 50912394--50912614 Score: 234
Period size: 93 Copynumber: 2.3 Consensus size: 92
50912384 ATTGGGTGAT
* * * * *
50912394 ATGTGTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATACAAGCTAGTGTAAG
1 ATGTGTGC-AGTGTAAGACCTGTCTGGGACATGCATCGACCTCGAGAGATACAAGCCAGCGTAAG
*
50912459 ACCTGTCTAGGACATGGCGTC-AGC-TTG
65 ACCTGTCTAGGACATGGCATCGA-CTTTG
* * *
50912486 TTGTGTGTCAGTGTAAGACCTGTCTGGGACATGGCATCGACAC-CGATAGATGA-GAGCCAGCGT
1 ATGTGTG-CAGTGTAAGACCTGTCTGGGACAT-GCATCGAC-CTCGAGAGAT-ACAAGCCAGCGT
50912549 AAGACCTGTCTAGGACATGGCATCGACTTTG
62 AAGACCTGTCTAGGACATGGCATCGACTTTG
*
50912580 ATGTGTTAGCCAGTGTAAGACCATATCTGGGACAT
1 ATGTG-T-G-CAGTGTAAGACC-TGTCTGGGACAT
50912615 AGCGTCGGCA
Statistics
Matches: 108, Mismatches: 12, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
92 28 0.26
93 45 0.42
94 10 0.09
95 1 0.01
96 13 0.12
97 11 0.10
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.26
Consensus pattern (92 bp):
ATGTGTGCAGTGTAAGACCTGTCTGGGACATGCATCGACCTCGAGAGATACAAGCCAGCGTAAGA
CCTGTCTAGGACATGGCATCGACTTTG
Found at i:50926459 original size:30 final size:30
Alignment explanation
Indices: 50926414--50926471 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
50926404 TTACGAGCCC
* *
50926414 AAGGGCCAAAGTGCAAATATGTGAAAGTTT
1 AAGGGCCAAAATGCAAATATGTAAAAGTTT
* *
50926444 AAGGGTCAAAATGCAAATTTGTAAAAGT
1 AAGGGCCAAAATGCAAATATGTAAAAGT
50926472 ATGATTTTTG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.43, C:0.09, G:0.24, T:0.24
Consensus pattern (30 bp):
AAGGGCCAAAATGCAAATATGTAAAAGTTT
Found at i:50926711 original size:18 final size:20
Alignment explanation
Indices: 50926675--50926721 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
50926665 AGTTGTAAGT
50926675 ATATATATGTGAATAATTTG
1 ATATATATGTGAATAATTTG
* *
50926695 ATAT-TATGTGATTATTTTG
1 ATATATATGTGAATAATTTG
50926714 ATGATATA
1 AT-ATATA
50926722 ACATGTTCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 15 0.65
20 6 0.26
21 2 0.09
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.49
Consensus pattern (20 bp):
ATATATATGTGAATAATTTG
Found at i:50927153 original size:50 final size:50
Alignment explanation
Indices: 50927072--50927295 Score: 261
Period size: 50 Copynumber: 4.5 Consensus size: 50
50927062 GAGTCACGTA
* *
50927072 TGTAGTACTGAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATG
1 TGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCACATG
* * * * * * *
50927122 TGTAGTACTAAGTGCAGGCCACTATGCGTACCCG-TTAACTTCGATCACATG
1 TGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGA--TAGGTCACATG
* * * * * *
50927173 TGTAGTACTAAGTGTAGGCTACTACGTGTATCAGATGGTTAAGTCACGTG
1 TGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCACATG
* * *
50927223 TGTAGTACTAAGTACAGGCTACTACGTGTACCAGACTGATAGGTCGCATG
1 TGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCACATG
50927273 TGTAGTACTAAGTGCAGGCTACT
1 TGTAGTACTAAGTGCAGGCTACT
50927296 GTGCGTACCA
Statistics
Matches: 139, Mismatches: 32, Indels: 6
0.79 0.18 0.03
Matches are distributed among these distances:
49 3 0.02
50 99 0.71
51 36 0.26
52 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (50 bp):
TGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCACATG
Found at i:50927254 original size:101 final size:101
Alignment explanation
Indices: 50927072--50927295 Score: 265
Period size: 101 Copynumber: 2.2 Consensus size: 101
50927062 GAGTCACGTA
* * * * *
50927072 TGTAGTACTGAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGTACTAAGTGC
1 TGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGATAAGTCACATGTGTAGTACTAAGTAC
*
50927137 AGGCCACTATGCGTACCCGTTAACTTCGATCACATG
66 AGGCCACTACGCGTACCCGTTAACTTCGATCACATG
* * * *
50927173 TGTAGTACTAAGTGTAGGCTACTACGTGTATCAGATGGTTAAGTCACGTGTGTAGTACTAAGTAC
1 TGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGATAAGTCACATGTGTAGTACTAAGTAC
* * * * * *
50927238 AGGCTACTACGTGTACCAG---ACTGATAGGTCGCATG
66 AGGCCACTACGCGTACCCGTTAACT--TCGATCACATG
50927273 TGTAGTACTAAGTGCAGGCTACT
1 TGTAGTACTAAGTGCAGGCTACT
50927296 GTGCGTACCA
Statistics
Matches: 104, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
98 3 0.03
100 30 0.29
101 71 0.68
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (101 bp):
TGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGATAAGTCACATGTGTAGTACTAAGTAC
AGGCCACTACGCGTACCCGTTAACTTCGATCACATG
Found at i:50933577 original size:27 final size:26
Alignment explanation
Indices: 50933537--50933648 Score: 134
Period size: 27 Copynumber: 4.2 Consensus size: 26
50933527 AGGAAGCATC
*
50933537 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
*
50933564 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
*
50933591 CTGGTGGTTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTG-AT
* * *
50933619 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGAT
50933645 CTGG
1 CTGG
50933649 CAGCCATGCT
Statistics
Matches: 74, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
26 7 0.09
27 51 0.69
28 16 0.22
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.38
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:50933641 original size:54 final size:54
Alignment explanation
Indices: 50933537--50933648 Score: 163
Period size: 54 Copynumber: 2.1 Consensus size: 54
50933527 AGGAAGCATC
*
50933537 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
* * * *
50933591 CTGGTGGTTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTGCCACATATATCTGTT
50933645 CTGG
1 CTGG
50933649 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
54 34 0.65
55 18 0.35
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.38
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
Found at i:50934732 original size:11 final size:10
Alignment explanation
Indices: 50934704--50934737 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
50934694 AGCCTGTAAG
50934704 TATTCTGAAT
1 TATTCTGAAT
*
50934714 TTTTCTGAAT
1 TATTCTGAAT
50934724 ATATTCTGAAT
1 -TATTCTGAAT
50934735 TAT
1 TAT
50934738 CTGTCTGTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.53
Consensus pattern (10 bp):
TATTCTGAAT
Found at i:50936031 original size:6 final size:6
Alignment explanation
Indices: 50936020--50936045 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
50936010 AGGTAGGGGC
50936020 GGAAAT GGAAAT GGAAAT GGAAAT GG
1 GGAAAT GGAAAT GGAAAT GGAAAT GG
50936046 TCGAGGTCGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.46, C:0.00, G:0.38, T:0.15
Consensus pattern (6 bp):
GGAAAT
Found at i:50938777 original size:46 final size:46
Alignment explanation
Indices: 50938710--50938930 Score: 279
Period size: 46 Copynumber: 4.8 Consensus size: 46
50938700 TGTAACCCGC
* * * *
50938710 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* * **
50938756 CCATAGGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA--CAT-TCGCAT
* * *
50938805 CTC-T---CGAAATCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
50938848 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
50938894 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
50938931 TGCTCAACCA
Statistics
Matches: 153, Mismatches: 14, Indels: 16
0.84 0.08 0.09
Matches are distributed among these distances:
42 1 0.01
43 7 0.05
44 2 0.01
46 134 0.88
48 2 0.01
49 6 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:50944291 original size:27 final size:26
Alignment explanation
Indices: 50944251--50944362 Score: 134
Period size: 27 Copynumber: 4.2 Consensus size: 26
50944241 AGGAAGCGTC
*
50944251 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
*
50944278 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
*
50944305 CTGGTGGTTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTG-AT
* * *
50944333 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGAT
50944359 CTGG
1 CTGG
50944363 CAGCCATGCT
Statistics
Matches: 74, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
26 7 0.09
27 51 0.69
28 16 0.22
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.38
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:50944355 original size:54 final size:54
Alignment explanation
Indices: 50944251--50944362 Score: 163
Period size: 54 Copynumber: 2.1 Consensus size: 54
50944241 AGGAAGCGTC
*
50944251 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
* * * *
50944305 CTGGTGGTTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTGCCACATATATCTGTT
50944359 CTGG
1 CTGG
50944363 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
54 34 0.65
55 18 0.35
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.38
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
Found at i:50947049 original size:17 final size:17
Alignment explanation
Indices: 50947027--50947062 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
50947017 GTCATTTAGG
50947027 GGTAAAATGAACTAAAA
1 GGTAAAATGAACTAAAA
50947044 GGTAAAATGAACTAAAA
1 GGTAAAATGAACTAAAA
50947061 GG
1 GG
50947063 CAAATTAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.56, C:0.06, G:0.22, T:0.17
Consensus pattern (17 bp):
GGTAAAATGAACTAAAA
Found at i:50948200 original size:33 final size:33
Alignment explanation
Indices: 50948158--50948315 Score: 208
Period size: 33 Copynumber: 4.8 Consensus size: 33
50948148 GTGTACGGTG
*
50948158 TACTTTATGTATACCAATTGAAAAGGAAAGATA
1 TACTTTATGTATACCAATTGAAAAGGAAAGGTA
**
50948191 TACTTTATGTATACCGCTTGAAAAGGAAAGGTA
1 TACTTTATGTATACCAATTGAAAAGGAAAGGTA
* *
50948224 TACTTTGTGTATACTAATTGAAAAGGAAAGGTA
1 TACTTTATGTATACCAATTGAAAAGGAAAGGTA
* *
50948257 TACTTTATGTATACCATTTGAAAAAGAAAGGTA
1 TACTTTATGTATACCAATTGAAAAGGAAAGGTA
* ** * *
50948290 TGCTTCGTGTATACTACTTGAAAAGG
1 TACTTTATGTATACCAATTGAAAAGG
50948316 TTATGTATGT
Statistics
Matches: 108, Mismatches: 17, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 108 1.00
ACGTcount: A:0.39, C:0.10, G:0.19, T:0.32
Consensus pattern (33 bp):
TACTTTATGTATACCAATTGAAAAGGAAAGGTA
Found at i:50948264 original size:66 final size:66
Alignment explanation
Indices: 50948158--50948315 Score: 235
Period size: 66 Copynumber: 2.4 Consensus size: 66
50948148 GTGTACGGTG
* * * *
50948158 TACTTTATGTATACCAATTGAAAAGGAAAGATATACTTTATGTATACCGCTTGAAAAGGAAAGGT
1 TACTTTGTGTATACTAATTGAAAAGGAAAGATATACTTTATGTATACCACTTGAAAAAGAAAGGT
50948223 A
66 A
* *
50948224 TACTTTGTGTATACTAATTGAAAAGGAAAGGTATACTTTATGTATACCATTTGAAAAAGAAAGGT
1 TACTTTGTGTATACTAATTGAAAAGGAAAGATATACTTTATGTATACCACTTGAAAAAGAAAGGT
50948289 A
66 A
* * *
50948290 TGCTTCGTGTATACTACTTGAAAAGG
1 TACTTTGTGTATACTAATTGAAAAGG
50948316 TTATGTATGT
Statistics
Matches: 83, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
66 83 1.00
ACGTcount: A:0.39, C:0.10, G:0.19, T:0.32
Consensus pattern (66 bp):
TACTTTGTGTATACTAATTGAAAAGGAAAGATATACTTTATGTATACCACTTGAAAAAGAAAGGT
A
Found at i:50958821 original size:49 final size:50
Alignment explanation
Indices: 50958763--50958858 Score: 131
Period size: 50 Copynumber: 1.9 Consensus size: 50
50958753 AAAAGTTTGT
* * *
50958763 GTTCATCC-TTTCTCACCTCCATTCTAGCCTAAATTAGAAAGAAAAAGAA
1 GTTCATCCTTTTCTCACCTCCATGCTAGCCGAAACTAGAAAGAAAAAGAA
* * *
50958812 GTTCATCCTTTTCTCATCTTCATGCTTGCCGAAACTAGAAAGAAAAA
1 GTTCATCCTTTTCTCACCTCCATGCTAGCCGAAACTAGAAAGAAAAA
50958859 CAAAGAAAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
49 8 0.20
50 32 0.80
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.30
Consensus pattern (50 bp):
GTTCATCCTTTTCTCACCTCCATGCTAGCCGAAACTAGAAAGAAAAAGAA
Found at i:50960070 original size:39 final size:39
Alignment explanation
Indices: 50959913--50960082 Score: 198
Period size: 40 Copynumber: 4.3 Consensus size: 39
50959903 GGACTAAGAT
* * *
50959913 CCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGTTAAGCC
1 CCGAAGGCA-TTGTGCGAGTTACTAAA-TCCGGGTTATGTC
* * *
50959953 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGG-CATTGTGCGAGTTACTAAATCCGGGTTATGTC
*
50959993 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTC
1 CCGAAGGCATT-GTGCGAGTTACTAAATCCGGGTTATGTC
* * * *
50960033 CCGAAGGCATTGTGTGAGTTACTAAAACTGGGCTATGTC
1 CCGAAGGCATTGTGCGAGTTACTAAATCCGGGTTATGTC
50960072 CCGAAGGCATT
1 CCGAAGGCATT
50960083 TGAACGAGGA
Statistics
Matches: 116, Mismatches: 11, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
39 37 0.32
40 75 0.65
41 4 0.03
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTGTGCGAGTTACTAAATCCGGGTTATGTC
Found at i:50961925 original size:15 final size:15
Alignment explanation
Indices: 50961897--50961940 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
50961887 TTCATTATGA
*
50961897 TATTGTATCATGGATT
1 TATT-TATCTTGGATT
50961913 TATTTATCTTGGATT
1 TATTTATCTTGGATT
* *
50961928 TCTCTATCTTGGA
1 TATTTATCTTGGA
50961941 CTTCTTAATC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
15 21 0.84
16 4 0.16
ACGTcount: A:0.20, C:0.11, G:0.16, T:0.52
Consensus pattern (15 bp):
TATTTATCTTGGATT
Found at i:50964325 original size:30 final size:30
Alignment explanation
Indices: 50964289--50964348 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
50964279 TTTTACGAGC
* * *
50964289 TTAGGGGCCAAAGTGCAAATATGTGAAAGT
1 TTAGGGGCCAAAATGAAAATATGTAAAAGT
* *
50964319 TTAGGGGTCAAAATGAAAATTTGTAAAAGT
1 TTAGGGGCCAAAATGAAAATATGTAAAAGT
50964349 ATGATTTTTG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.40, C:0.07, G:0.27, T:0.27
Consensus pattern (30 bp):
TTAGGGGCCAAAATGAAAATATGTAAAAGT
Found at i:50964605 original size:18 final size:20
Alignment explanation
Indices: 50964569--50964615 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
50964559 AGTTGTAAGT
50964569 ATATATATGTGAATAATTTG
1 ATATATATGTGAATAATTTG
* *
50964589 ATAT-TATGTGATTATTTTG
1 ATATATATGTGAATAATTTG
50964608 ATGATATA
1 AT-ATATA
50964616 ACATGTTCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 15 0.65
20 6 0.26
21 2 0.09
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.49
Consensus pattern (20 bp):
ATATATATGTGAATAATTTG
Found at i:50965039 original size:50 final size:50
Alignment explanation
Indices: 50964964--50965359 Score: 391
Period size: 50 Copynumber: 7.9 Consensus size: 50
50964954 TCCGTTGTGA
* * *
50964964 GTCACGTGTGTAGTACTAAATGCAGGCTACTACATGTACCAGATTGATAG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
* ** * * *
50965014 GTCACATGTGTAGTACTAAGTGCAGGCTACTATGCATACCCG-TTAACTTCG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGA--TAG
* * * * * * * *
50965065 ATCACGTGTGTAGTACTAAGTGCAGACTACTACGTATATCAGATGGTTAA
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
*
50965115 GTCACATGTGTAGTACTAAGTACAGGCTACTACGTGTACCAGATTGATAG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
* * * * * * *
50965165 GTCCCATGTGTAGTACTAAGTGTAGGCTACTATGCGTACCCG-TTAACTTG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGA-TAG
* * * * *
50965215 GATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAA
1 G-TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
* * * ** *
50965266 GTCACGTGTGTAGTACTAAGTGCATGTTACTTTGTGTACCATATTGATAG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
* * *
50965316 GTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGAT
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT
50965360 AGCTTCGATT
Statistics
Matches: 274, Mismatches: 66, Indels: 12
0.78 0.19 0.03
Matches are distributed among these distances:
49 6 0.02
50 193 0.70
51 73 0.27
52 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.30
Consensus pattern (50 bp):
GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
Found at i:50965237 original size:151 final size:151
Alignment explanation
Indices: 50964963--50965355 Score: 642
Period size: 151 Copynumber: 2.6 Consensus size: 151
50964953 ATCCGTTGTG
* *
50964963 AGTCACGTGTGTAGTACTAAATGCAGGCTACTACATGTACCAGATTGATAGGTCACATGTGTAGT
1 AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCACATGTGTAGT
*
50965028 ACTAAGTGCAGGCTACTATGCATACCCGTTAACTTCGATCACGTGTGTAGTACTAAGTGCAGACT
66 ACTAAGTGCAGGCTACTATGCGTACCCGTTAACTTCGATCACGTGTGTAGTACTAAGTGCAGACT
50965093 ACTACGTATATCAGATGGTTA
131 ACTACGTATATCAGATGGTTA
* * *
50965114 AGTCACATGTGTAGTACTAAGTACAGGCTACTACGTGTACCAGATTGATAGGTCCCATGTGTAGT
1 AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCACATGTGTAGT
* * *
50965179 ACTAAGTGTAGGCTACTATGCGTACCCGTTAACTTGGATCACGTGTGTAGTACTAAGTGCAGGCT
66 ACTAAGTGCAGGCTACTATGCGTACCCGTTAACTTCGATCACGTGTGTAGTACTAAGTGCAGACT
*
50965244 ACTACGTGTATCAGATGGTTA
131 ACTACGTATATCAGATGGTTA
* * ** * *
50965265 AGTCACGTGTGTAGTACTAAGTGCATGTTACTTTGTGTACCATATTGATAGGTCGCATGTGTAGT
1 AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCACATGTGTAGT
50965330 ACTAAGTGCAGGCTACTATGCGTACC
66 ACTAAGTGCAGGCTACTATGCGTACC
50965356 AGATAGCTTC
Statistics
Matches: 223, Mismatches: 19, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
151 223 1.00
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (151 bp):
AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCACATGTGTAGT
ACTAAGTGCAGGCTACTATGCGTACCCGTTAACTTCGATCACGTGTGTAGTACTAAGTGCAGACT
ACTACGTATATCAGATGGTTA
Found at i:50965305 original size:101 final size:100
Alignment explanation
Indices: 50964963--50965359 Score: 330
Period size: 101 Copynumber: 4.0 Consensus size: 100
50964953 ATCCGTTGTG
* * *** * *
50964963 AGTCACGTGTGTAGTACTAAATGCAGGCTACTACATGTACCAGATTGATAGGTCACATGTGTAGT
1 AGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCACATTAATAGGTCACATGTGTAGT
* ** * ** *
50965028 ACTAAGTGCAGGCTACTATGCATACCCG-TTAACTT
66 ACTAAGTGCAGGCTACTACGTGTACCAGATGGA-TA
* * * * ** * * *** *
50965063 CGATCACGTGTGTAGTACTAAGTGCAGACTACTACGTATATCAGATGGTTAAGTCACATGTGTAG
1 AG-TCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCACATTAATAGGTCACATGTGTAG
* *
50965128 TACTAAGTACAGGCTACTACGTGTACCAGATTGATA
65 TACTAAGTGCAGGCTACTACGTGTACCAGATGGATA
* * * * * *
50965164 GGTCCCATGTGTAGTACTAAGTGTAGGCTACTATGCGTACC-CGTTAACTTGGATCACGTGTGTA
1 AGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCACATTAA-TAGG-TCACATGTGTA
* *
50965228 GTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTA
64 GTACTAAGTGCAGGCTACTACGTGTACCAGATGGATA
* * * * * * * *
50965265 AGTCACGTGTGTAGTACTAAGTGCATGTTACTTTGTGTACCATATTGATAGGTCGCATGTGTAGT
1 AGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCACATTAATAGGTCACATGTGTAGT
* *
50965330 ACTAAGTGCAGGCTACTATGCGTACCAGAT
66 ACTAAGTGCAGGCTACTACGTGTACCAGAT
50965360 AGCTTCGATT
Statistics
Matches: 238, Mismatches: 54, Indels: 10
0.79 0.18 0.03
Matches are distributed among these distances:
99 1 0.00
100 72 0.30
101 159 0.67
102 6 0.03
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.30
Consensus pattern (100 bp):
AGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCACATTAATAGGTCACATGTGTAGT
ACTAAGTGCAGGCTACTACGTGTACCAGATGGATA
Found at i:50965579 original size:16 final size:16
Alignment explanation
Indices: 50965558--50965589 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
50965548 AGAATGGAGT
50965558 AAGTGAAATTATGTAA
1 AAGTGAAATTATGTAA
*
50965574 AAGTGAAATTTTGTAA
1 AAGTGAAATTATGTAA
50965590 TAAAACAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.19, T:0.34
Consensus pattern (16 bp):
AAGTGAAATTATGTAA
Found at i:50970559 original size:52 final size:52
Alignment explanation
Indices: 50970491--50970596 Score: 212
Period size: 52 Copynumber: 2.0 Consensus size: 52
50970481 CCGAGCAAGC
50970491 TTCGGATACCTTTTACTATAGTAGGTGGTGGCAATTTCTCAATAACCTCAAT
1 TTCGGATACCTTTTACTATAGTAGGTGGTGGCAATTTCTCAATAACCTCAAT
50970543 TTCGGATACCTTTTACTATAGTAGGTGGTGGCAATTTCTCAATAACCTCAAT
1 TTCGGATACCTTTTACTATAGTAGGTGGTGGCAATTTCTCAATAACCTCAAT
50970595 TT
1 TT
50970597 TTTCTTTGTC
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 54 1.00
ACGTcount: A:0.26, C:0.19, G:0.17, T:0.38
Consensus pattern (52 bp):
TTCGGATACCTTTTACTATAGTAGGTGGTGGCAATTTCTCAATAACCTCAAT
Found at i:50977344 original size:42 final size:42
Alignment explanation
Indices: 50977297--50977391 Score: 154
Period size: 42 Copynumber: 2.3 Consensus size: 42
50977287 TATAAGGGTT
*
50977297 TTCACACGGCCTGTCACACACCCGTGTCCCTAGCCCGTGTCC
1 TTCACACGGCCTATCACACACCCGTGTCCCTAGCCCGTGTCC
* * *
50977339 TTCACACGGCCTATCACTCTCCCGTGTCCCTGGCCCGTGTCC
1 TTCACACGGCCTATCACACACCCGTGTCCCTAGCCCGTGTCC
50977381 TTCACACGGCC
1 TTCACACGGCC
50977392 ATGACATGCC
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 49 1.00
ACGTcount: A:0.13, C:0.45, G:0.19, T:0.23
Consensus pattern (42 bp):
TTCACACGGCCTATCACACACCCGTGTCCCTAGCCCGTGTCC
Found at i:50990317 original size:28 final size:28
Alignment explanation
Indices: 50990285--50990342 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
50990275 AATTATACAA
50990285 CAATACTTTGCCATTCATCAACAAGTAT
1 CAATACTTTGCCATTCATCAACAAGTAT
*
50990313 CAATACTTTGCCATTCATCGACAAGTAT
1 CAATACTTTGCCATTCATCAACAAGTAT
50990341 CA
1 CA
50990343 TAATACACAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.34, C:0.26, G:0.09, T:0.31
Consensus pattern (28 bp):
CAATACTTTGCCATTCATCAACAAGTAT
Found at i:50990703 original size:46 final size:47
Alignment explanation
Indices: 50990555--50990771 Score: 185
Period size: 47 Copynumber: 4.6 Consensus size: 47
50990545 GTAAGATGCT
* * *
50990555 GATGCCATGTCCCAGACACGGTCTTACACTGGCTTATATCTCAA-GTC
1 GATGCCATGTCCCAGACA-TGTCTTACACTGGCTTACATCTCAAGGCC
* * *
50990602 GAAGCCATGTCCCAGACATGATCTTACACTGAC-TATCATCTCGTA-GCC
1 GATGCCATGTCCCAGACATG-TCTTACACTGGCTTA-CATCTC-AAGGCC
* * * * * *
50990650 AACG-CATGTCCCAAACATGTCTTACACTGGCTTACGTCTCTAGGCT
1 GATGCCATGTCCCAGACATGTCTTACACTGGCTTACATCTCAAGGCC
* * * * *
50990696 GATG-CATGTCCTAGACATGTCTTACACTAGCACT-CGTCTCAATGCC
1 GATGCCATGTCCCAGACATGTCTTACACTGGC-TTACATCTCAAGGCC
50990742 GATGCCATGTCCCAGACATGGTCTTACACT
1 GATGCCATGTCCCAGACAT-GTCTTACACT
50990772 AGCTCTTACA
Statistics
Matches: 140, Mismatches: 22, Indels: 15
0.79 0.12 0.08
Matches are distributed among these distances:
45 2 0.01
46 60 0.43
47 63 0.45
48 15 0.11
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.27
Consensus pattern (47 bp):
GATGCCATGTCCCAGACATGTCTTACACTGGCTTACATCTCAAGGCC
Found at i:50990751 original size:93 final size:92
Alignment explanation
Indices: 50990550--50990771 Score: 227
Period size: 93 Copynumber: 2.4 Consensus size: 92
50990540 ATGGGGTAAG
* * * *
50990550 ATGCTGATGCCATGTCCCAGACACGGTCTTACACTGGCTTATATCTCAAGTCGAAGCCATGTCCC
1 ATGCCGATGCCATGTCCCAGACA-TGTCTTACACTGGCTTACATCTCAAGGCGAAGCCATGTCCC
50990615 AGACATGATCTTACACTGACTATCATCTC
65 AGACATGATCTTACACTGAC-ATCATCTC
* * * * * * *
50990644 GTAGCCAACG-CATGTCCCAAACATGTCTTACACTGGCTTACGTCTCTAGGCTGATG-CATGTCC
1 AT-GCCGATGCCATGTCCCAGACATGTCTTACACTGGCTTACATCTCAAGGC-GAAGCCATGTCC
* *
50990707 TAGACATG-TCTTACACT-AGCACTCGTCTC
64 CAGACATGATCTTACACTGA-CA-TCATCTC
50990736 AATGCCGATGCCATGTCCCAGACATGGTCTTACACT
1 -ATGCCGATGCCATGTCCCAGACAT-GTCTTACACT
50990772 AGCTCTTACA
Statistics
Matches: 104, Mismatches: 17, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
91 2 0.02
92 21 0.20
93 51 0.49
94 26 0.25
95 4 0.04
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.27
Consensus pattern (92 bp):
ATGCCGATGCCATGTCCCAGACATGTCTTACACTGGCTTACATCTCAAGGCGAAGCCATGTCCCA
GACATGATCTTACACTGACATCATCTC
Done.