Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 179 of 318
Found at i:56213712 original size:40 final size:40
Alignment explanation
Indices: 56213610--56213813 Score: 263
Period size: 40 Copynumber: 5.2 Consensus size: 40
56213600 GATGATAACT
** * * *
56213610 GGCTAAGTTTCGAAGGCATTTGTGCTAGTGACTA-ATTTCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCCG
56213650 GGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
56213689 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
* * * *
56213729 GGCTAAGTCTCGTAGTCATTTGTGCGAGTTACTATAACCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
* *
56213769 GGCTAAGTCCCGAAGGCATTTGAGCAAG-TAGCTATATCC-
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCG
56213808 GGCTAA
1 GGCTAA
56213814 ATTCCAAAGG
Statistics
Matches: 146, Mismatches: 15, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
39 40 0.27
40 106 0.73
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
Found at i:56215884 original size:27 final size:29
Alignment explanation
Indices: 56215807--56215893 Score: 92
Period size: 27 Copynumber: 3.1 Consensus size: 29
56215797 AGCATGGCTG
* * * *
56215807 CCAGATACAGA-A-AATGTGACAGAGTCA
1 CCAGATACAGATATTATGTGGCAGGGCCA
* *
56215834 CCAGATACAGATATTTTGTGGCAGTGCCA
1 CCAGATACAGATATTATGTGGCAGGGCCA
56215863 CCAGA-ACAGATA-TATGTGGCAGGGCCA
1 CCAGATACAGATATTATGTGGCAGGGCCA
56215890 CCAG
1 CCAG
56215894 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
27 28 0.55
28 8 0.16
29 15 0.29
ACGTcount: A:0.34, C:0.22, G:0.25, T:0.18
Consensus pattern (29 bp):
CCAGATACAGATATTATGTGGCAGGGCCA
Found at i:56216046 original size:28 final size:28
Alignment explanation
Indices: 56215999--56216063 Score: 85
Period size: 28 Copynumber: 2.3 Consensus size: 28
56215989 AAATTAACCC
* * *
56215999 TAGGGGTATAGAGGTCATTTTACATACA
1 TAGGGGTATACAGGTAATTTGACATACA
* *
56216027 TAGGGGTATACTGGTAATTTGGCATACA
1 TAGGGGTATACAGGTAATTTGACATACA
56216055 TAGGGGTAT
1 TAGGGGTAT
56216064 TCTAGTAAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.29, C:0.09, G:0.29, T:0.32
Consensus pattern (28 bp):
TAGGGGTATACAGGTAATTTGACATACA
Found at i:56221731 original size:28 final size:28
Alignment explanation
Indices: 56221666--56221816 Score: 214
Period size: 28 Copynumber: 5.4 Consensus size: 28
56221656 GAGATTGGCG
* * * *
56221666 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
*
56221695 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
56221723 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
56221751 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
56221779 CTAAGTGTGCAAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
56221806 CTGAGTGTGCG
1 CTAAGTGTGCG
56221817 GACTTAATAT
Statistics
Matches: 113, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 23 0.20
28 75 0.66
29 15 0.13
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.34
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:56233510 original size:55 final size:56
Alignment explanation
Indices: 56233445--56233559 Score: 139
Period size: 55 Copynumber: 2.1 Consensus size: 56
56233435 AGCATGGCTG
* *
56233445 CCAGATACAGA-AAATGTGAC-AGAGTCACCAGATACAGATATTTTGTGGCAGT-GCCA
1 CCAGATACAGATAAATGTGACAAG-GCCACCAGA-ACAGATAATTTGTGGCA-TAGCCA
* *
56233501 CCAGA-ACAGATATATGTGGCAAGGCCACCAGAACAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAAATGTGACAAGGCCACCAGAACAGATAATTTGTGGCATAGCCA
56233556 CCAG
1 CCAG
56233560 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
54 1 0.02
55 29 0.56
56 20 0.38
57 2 0.04
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.19
Consensus pattern (56 bp):
CCAGATACAGATAAATGTGACAAGGCCACCAGAACAGATAATTTGTGGCATAGCCA
Found at i:56233527 original size:27 final size:27
Alignment explanation
Indices: 56233470--56233559 Score: 112
Period size: 28 Copynumber: 3.2 Consensus size: 27
56233460 GTGACAGAGT
56233470 CACCAGATACAGATATTTTGTGGC-AGTGC
1 CACCAGA-ACAGATA-TTTGTGGCAAG-GC
*
56233499 CACCAGAACAGATATATGTGGCAAGGC
1 CACCAGAACAGATATTTGTGGCAAGGC
56233526 CACCAGAACAGATAATTTGTGGCATA-GC
1 CACCAGAACAGAT-ATTTGTGGCA-AGGC
56233554 CACCAG
1 CACCAG
56233560 GACGCTTCCT
Statistics
Matches: 56, Mismatches: 2, Indels: 7
0.86 0.03 0.11
Matches are distributed among these distances:
27 22 0.39
28 26 0.46
29 8 0.14
ACGTcount: A:0.33, C:0.23, G:0.23, T:0.20
Consensus pattern (27 bp):
CACCAGAACAGATATTTGTGGCAAGGC
Found at i:56233555 original size:28 final size:28
Alignment explanation
Indices: 56233470--56233559 Score: 114
Period size: 27 Copynumber: 3.2 Consensus size: 28
56233460 GTGACAGAGT
*
56233470 CACCAGATACAGATATTTTGTGGCAGT-GC
1 CACCAGA-ACAGATAATTTGTGGCA-TAGC
*
56233499 CACCAGAACAGAT-ATATGTGGCA-AGGC
1 CACCAGAACAGATAATTTGTGGCATA-GC
56233526 CACCAGAACAGATAATTTGTGGCATAGC
1 CACCAGAACAGATAATTTGTGGCATAGC
56233554 CACCAG
1 CACCAG
56233560 GACGCTTCCT
Statistics
Matches: 54, Mismatches: 3, Indels: 9
0.82 0.05 0.14
Matches are distributed among these distances:
27 23 0.43
28 23 0.43
29 8 0.15
ACGTcount: A:0.33, C:0.23, G:0.23, T:0.20
Consensus pattern (28 bp):
CACCAGAACAGATAATTTGTGGCATAGC
Found at i:56233712 original size:28 final size:28
Alignment explanation
Indices: 56233665--56233729 Score: 96
Period size: 28 Copynumber: 2.3 Consensus size: 28
56233655 AAATTAACCC
* *
56233665 TAGGGGTATAGAGGTCATTTTGCATACA
1 TAGGGGTATAGAGGTAATTTGGCATACA
56233693 TAGGGGTATA-ATGGTAATTTGGCATACA
1 TAGGGGTATAGA-GGTAATTTGGCATACA
56233721 TAGGGGTAT
1 TAGGGGTAT
56233730 TCTAGTAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
27 1 0.03
28 33 0.97
ACGTcount: A:0.29, C:0.08, G:0.31, T:0.32
Consensus pattern (28 bp):
TAGGGGTATAGAGGTAATTTGGCATACA
Found at i:56236406 original size:43 final size:43
Alignment explanation
Indices: 56236358--56236533 Score: 226
Period size: 43 Copynumber: 4.1 Consensus size: 43
56236348 TGAAACTCGA
56236358 TGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCATGCCGG
1 TGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCATGCCGG
* * * *
56236401 TGATGTGTATTTGGGCCTTCGTGCCTAGAATGCTTCGTGCCGG
1 TGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCATGCCGG
* * **
56236444 TGATGTGTATTCAGGCCTTCGTGCTTAGCAGGCTTTGTGCCGG
1 TGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCATGCCGG
* * * * * *
56236487 TGATCTGTATTCGGGTCTTCTTGTCTAGCAGGCTTAATGCTGG
1 TGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCATGCCGG
56236530 TGAT
1 TGAT
56236534 TCGAGCAAGG
Statistics
Matches: 114, Mismatches: 19, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 114 1.00
ACGTcount: A:0.12, C:0.21, G:0.31, T:0.35
Consensus pattern (43 bp):
TGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCATGCCGG
Found at i:56236788 original size:57 final size:58
Alignment explanation
Indices: 56236687--56236795 Score: 166
Period size: 57 Copynumber: 1.9 Consensus size: 58
56236677 CGAATGATTA
* *
56236687 GAGGCACTATGTGTGCAAATTCCTTTAACCGAGCACTATGTGTGCGAGATCGGTAATT
1 GAGGCACTATGTGTGCAAATTCCTTCAACCGAGCACTATATGTGCGAGATCGGTAATT
* * *
56236745 GAGGCACTGTGTGTGCGAGTT-CTTCAACCGAGCACTATATGTGCGAGATCG
1 GAGGCACTATGTGTGCAAATTCCTTCAACCGAGCACTATATGTGCGAGATCG
56236796 ATCAGTGGGC
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
57 28 0.61
58 18 0.39
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (58 bp):
GAGGCACTATGTGTGCAAATTCCTTCAACCGAGCACTATATGTGCGAGATCGGTAATT
Found at i:56248086 original size:28 final size:28
Alignment explanation
Indices: 56248053--56248144 Score: 103
Period size: 28 Copynumber: 3.2 Consensus size: 28
56248043 ATTCCATGAC
* * *
56248053 TATGAATTTGATTGGGCTTGACGGGCCA
1 TATGAATGTGATTGGGCCTAACGGGCCA
* *
56248081 TATGAATGTGATTGAGCCTAATGGGCCA
1 TATGAATGTGATTGGGCCTAACGGGCCA
* *
56248109 TATGAATGAGATTGGGCCTAAAGGGGCCA
1 TATGAATGTGATTGGGCCT-AACGGGCCA
*
56248138 AATGAAT
1 TATGAAT
56248145 AAGTGTGGAT
Statistics
Matches: 54, Mismatches: 9, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
28 40 0.74
29 14 0.26
ACGTcount: A:0.29, C:0.13, G:0.30, T:0.27
Consensus pattern (28 bp):
TATGAATGTGATTGGGCCTAACGGGCCA
Found at i:56258278 original size:42 final size:40
Alignment explanation
Indices: 56258190--56258312 Score: 219
Period size: 40 Copynumber: 3.0 Consensus size: 40
56258180 GCTCTCGATA
56258190 TAATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGG
1 TAATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGG
56258230 TAATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGG
1 TAATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGG
*
56258270 TAATATATATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGG
1 T-A-ATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGG
56258312 T
1 T
56258313 TGTATATCCA
Statistics
Matches: 80, Mismatches: 1, Indels: 2
0.96 0.01 0.02
Matches are distributed among these distances:
40 41 0.51
41 1 0.01
42 38 0.47
ACGTcount: A:0.24, C:0.21, G:0.24, T:0.31
Consensus pattern (40 bp):
TAATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGG
Found at i:56258319 original size:42 final size:41
Alignment explanation
Indices: 56258192--56258319 Score: 204
Period size: 42 Copynumber: 3.1 Consensus size: 41
56258182 TCTCGATATA
*
56258192 ATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGG-TA
1 ATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTTT
*
56258232 ATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAT
1 ATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGT-TT
*
56258274 ATATATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTTGT
1 ATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTT-T
56258316 ATAT
1 ATAT
56258320 CCAGACTTAA
Statistics
Matches: 81, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
40 38 0.47
42 43 0.53
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.32
Consensus pattern (41 bp):
ATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTTT
Found at i:56258338 original size:82 final size:81
Alignment explanation
Indices: 56258192--56258343 Score: 225
Period size: 82 Copynumber: 1.9 Consensus size: 81
56258182 TCTCGATATA
* **
56258192 ATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATATATCCGGGTTAAATCCCGCA
1 ATATATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGT-ATATATATCCGACTTAAATCCCGCA
56258257 GGCTTCGTGCTGGTAAT
65 GGCTTCGTGCTGGTAAT
* *
56258274 ATATATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGT-TGTATATCCAGACTTAAAGTTCCGC
1 ATATATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTATATATATCC-GACTTAAA-TCCCGC
56258338 AGGCTT
64 AGGCTT
56258344 TGAGCTAGTA
Statistics
Matches: 63, Mismatches: 5, Indels: 4
0.88 0.07 0.06
Matches are distributed among these distances:
80 8 0.13
81 6 0.10
82 49 0.78
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.31
Consensus pattern (81 bp):
ATATATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTATATATATCCGACTTAAATCCCGCAG
GCTTCGTGCTGGTAAT
Found at i:56259503 original size:18 final size:18
Alignment explanation
Indices: 56259480--56259517 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
56259470 TGTATTACCC
56259480 TTGTCTAAATTAAATAGA
1 TTGTCTAAATTAAATAGA
**
56259498 TTGTCTGCATTAAATAGA
1 TTGTCTAAATTAAATAGA
56259516 TT
1 TT
56259518 ACTTGTGCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.37, C:0.08, G:0.13, T:0.42
Consensus pattern (18 bp):
TTGTCTAAATTAAATAGA
Found at i:56263646 original size:65 final size:65
Alignment explanation
Indices: 56263539--56263669 Score: 253
Period size: 65 Copynumber: 2.0 Consensus size: 65
56263529 AGTCCCATGC
56263539 ATCAGATAATAATAACATGGCATGCAGTAAATAGTAACAGTCAAACATGCATTCAGGTCAACCTT
1 ATCAGATAATAATAACATGGCATGCAGTAAATAGTAACAGTCAAACATGCATTCAGGTCAACCTT
*
56263604 ATCAGATAATAATAACATGGCATGCAGTAAATAGTAATAGTCAAACATGCATTCAGGTCAACCTT
1 ATCAGATAATAATAACATGGCATGCAGTAAATAGTAACAGTCAAACATGCATTCAGGTCAACCTT
56263669 A
1 A
56263670 ACCCTAGGGG
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
65 65 1.00
ACGTcount: A:0.42, C:0.18, G:0.15, T:0.25
Consensus pattern (65 bp):
ATCAGATAATAATAACATGGCATGCAGTAAATAGTAACAGTCAAACATGCATTCAGGTCAACCTT
Found at i:56263651 original size:30 final size:30
Alignment explanation
Indices: 56263552--56263652 Score: 82
Period size: 30 Copynumber: 3.2 Consensus size: 30
56263542 AGATAATAAT
*
56263552 AACATGGCATGCAGTAAATAGTAACAGTCA
1 AACATGGCATGCAGTAAATAGTAATAGTCA
* *
56263582 AACAT-GCATTCAGGTCAACCTTATCAGATAATAAT--
1 AACATGGCATGCA-GT-AA----AT-AG-TAATAGTCA
56263617 AACATGGCATGCAGTAAATAGTAATAGTCA
1 AACATGGCATGCAGTAAATAGTAATAGTCA
56263647 AACATG
1 AACATG
56263653 CATTCAGGTC
Statistics
Matches: 55, Mismatches: 5, Indels: 22
0.67 0.06 0.27
Matches are distributed among these distances:
28 6 0.11
29 8 0.15
30 15 0.27
31 2 0.04
34 2 0.04
35 9 0.16
36 8 0.15
37 5 0.09
ACGTcount: A:0.43, C:0.17, G:0.17, T:0.24
Consensus pattern (30 bp):
AACATGGCATGCAGTAAATAGTAATAGTCA
Found at i:56263728 original size:27 final size:26
Alignment explanation
Indices: 56263672--56263728 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
56263662 CAACCTTAAC
* * *
56263672 CCTAGGGGTATATCAGTAATTTTGCT
1 CCTAGGGGTAAATCAGTAATTTTCCA
*
56263698 CCTAGGGGTAAATCTGTAAATTTTCCA
1 CCTAGGGGTAAATCAGT-AATTTTCCA
56263725 CCTA
1 CCTA
56263729 TAAAGGAATT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 15 0.58
27 11 0.42
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.35
Consensus pattern (26 bp):
CCTAGGGGTAAATCAGTAATTTTCCA
Found at i:56265869 original size:43 final size:43
Alignment explanation
Indices: 56265808--56266238 Score: 508
Period size: 43 Copynumber: 10.0 Consensus size: 43
56265798 GATATGTGAT
56265808 ATCGATATGTGATTACGTGTAAGACCACGTCTGGGACATTGGC
1 ATCGATATGTGATTACGTGTAAGACCACGTCTGGGACATTGGC
** * * *
56265851 ATCGATATGTGATTACGTGTAAGACCTTGTCTAGGATAGTGGC
1 ATCGATATGTGATTACGTGTAAGACCACGTCTGGGACATTGGC
* * **
56265894 ATCGATATATGATTATGTGTAAGACCACGTCTGGGATGTTGGC
1 ATCGATATGTGATTACGTGTAAGACCACGTCTGGGACATTGGC
* * * * *
56265937 ATCAACATGTGATTACGTGTAAGACC-CTATCTAGGACAGTGGC
1 ATCGATATGTGATTACGTGTAAGACCAC-GTCTGGGACATTGGC
* * **
56265980 ATCGATATGTGATTACATGTAAGACCACGTCTCGGATGTTGGC
1 ATCGATATGTGATTACGTGTAAGACCACGTCTGGGACATTGGC
* * *
56266023 ATCAATATGTGATTACGTGTAAGACCATGTCTGGGACATTGAC
1 ATCGATATGTGATTACGTGTAAGACCACGTCTGGGACATTGGC
** * *
56266066 ATCGATATGTGATTACGTGTAAGACCTTGTC-GGGATAGTGGC
1 ATCGATATGTGATTACGTGTAAGACCACGTCTGGGACATTGGC
*
56266108 ATCGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGC
1 ATCGATATGTGATTACGTGTAAGACCACGTCTGGGACATTGGC
* *
56266151 ATCGATATGTGATTACGTGTAAGACC-CTGTCTGAGACAATGGC
1 ATCGATATGTGATTACGTGTAAGACCAC-GTCTGGGACATTGGC
* * * ** * *
56266194 ATCAATATGTGATTACATGTATGACCATATCTAGGATATTGGC
1 ATCGATATGTGATTACGTGTAAGACCACGTCTGGGACATTGGC
56266237 AT
1 AT
56266239 TGTAGATATG
Statistics
Matches: 325, Mismatches: 58, Indels: 10
0.83 0.15 0.03
Matches are distributed among these distances:
42 39 0.12
43 285 0.88
44 1 0.00
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (43 bp):
ATCGATATGTGATTACGTGTAAGACCACGTCTGGGACATTGGC
Found at i:56267545 original size:13 final size:14
Alignment explanation
Indices: 56267517--56267549 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
56267507 CATTTCGACC
*
56267517 ATGTTTGTATTTAT
1 ATGTTTGTATTGAT
56267531 ATGTTT-TATTGAT
1 ATGTTTGTATTGAT
56267544 ATGTTT
1 ATGTTT
56267550 ATTTTTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.21, C:0.00, G:0.15, T:0.64
Consensus pattern (14 bp):
ATGTTTGTATTGAT
Found at i:56270166 original size:47 final size:47
Alignment explanation
Indices: 56270088--56270976 Score: 1400
Period size: 47 Copynumber: 18.6 Consensus size: 47
56270078 CCCTTCGGGA
* * * * * *
56270088 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
56270135 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
56270182 CTCATCACATATATACACTTTCGCATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
56270229 CTCATCACATATATACACTTTCGCATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
56270276 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
56270323 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56270370 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56270417 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
56270466 CTTATCACATACATATACACATTCACACTCATCACATTGGCCATTCGGC
1 CTTATCACAT--ATATACACTTTCACATTCATCACATCGGCCATTAGGC
56270515 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56270562 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
56270609 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56270656 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
56270703 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56270752 CTTATCACATATATACACTTTCACATTCATCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATAT--A----CAC-TT--TCACATTCATCACATCGGCCATTAGGC
56270808 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
56270855 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56270904 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
56270951 CTTATCACATATATATACATTCACAT
1 CTTATCACATATATACACTTTCACAT
56270977 CACAATTATC
Statistics
Matches: 791, Mismatches: 34, Indels: 34
0.92 0.04 0.04
Matches are distributed among these distances:
47 558 0.71
49 184 0.23
50 3 0.00
53 3 0.00
54 3 0.00
56 40 0.05
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:56270188 original size:22 final size:22
Alignment explanation
Indices: 56270161--56270238 Score: 66
Period size: 22 Copynumber: 3.4 Consensus size: 22
56270151 ACTTTCACAT
56270161 TCATCACATCGGCCATTAGGCC
1 TCATCACATCGGCCATTAGGCC
**** ** *
56270183 TCATCACATATATACACTTTCGCAT
1 TCATCACAT-CGGCCA-TTAGGC-C
56270208 TCATCACATCGGCCATTAGGCC
1 TCATCACATCGGCCATTAGGCC
56270230 TCATCACAT
1 TCATCACAT
56270239 ATATACACTT
Statistics
Matches: 39, Mismatches: 14, Indels: 6
0.66 0.24 0.10
Matches are distributed among these distances:
22 18 0.46
23 6 0.15
24 6 0.15
25 9 0.23
ACGTcount: A:0.27, C:0.33, G:0.12, T:0.28
Consensus pattern (22 bp):
TCATCACATCGGCCATTAGGCC
Found at i:56270596 original size:286 final size:285
Alignment explanation
Indices: 56270088--56270976 Score: 1433
Period size: 286 Copynumber: 3.1 Consensus size: 285
56270078 CCCTTCGGGA
* * * * * * * *
56270088 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCAC--ATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
* * * *
56270151 ACTTTCACATTCATCACATCGGCCATTAGGCCTCATCACAT-ATATACACTTTCGCATTCATCAC
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAATATACACATTCACACTCATCAC
* * *
56270215 ATCGGCCATTAGGCCTCATCACATATATACACTTTCGCATTCATCACATCGGCTATTAGGCCTTA
131 ATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
*
56270280 TCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTC
196 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTC
56270345 ACATTCATCACATCGGCTATTAGGC
261 ACATTCATCACATCGGCTATTAGGC
56270370 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
56270435 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATACATATACACATTCACACTCATCA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA-ATATACACATTCACACTCATCA
* *
56270500 CATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
130 CATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
56270565 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTT
195 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTT
56270630 CACATTCATCACATCGGCTATTAGGC
260 CACATTCATCACATCGGCTATTAGGC
56270656 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
* *
56270721 ACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA-AT--A--TACACATTCA-CAC-
56270786 TTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATT
124 -TCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATT
* *
56270851 AGGCCTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAT
188 AGGCCTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
*
56270916 ATACACTTTCACATTCATCACATCGGCCATTAGGC
251 ATACACTTTCACATTCATCACATCGGCTATTAGGC
* *
56270951 CTTATCACATATATATACATTCACAT
1 CTTATCACATATATACACTTTCACAT
56270977 CACAATTATC
Statistics
Matches: 566, Mismatches: 28, Indels: 13
0.93 0.05 0.02
Matches are distributed among these distances:
282 47 0.08
284 48 0.08
286 277 0.49
288 1 0.00
290 9 0.02
291 3 0.01
293 74 0.13
295 107 0.19
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (285 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAATATACACATTCACACTCATCAC
ATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTC
ACATTCATCACATCGGCTATTAGGC
Found at i:56270858 original size:152 final size:152
Alignment explanation
Indices: 56270629--56270938 Score: 602
Period size: 152 Copynumber: 2.0 Consensus size: 152
56270619 ATATACACTT
*
56270629 TCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGG
1 TCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGG
56270694 CCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCA
66 CCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCA
56270759 CATATATACACTTTCACATTCA
131 CATATATACACTTTCACATTCA
56270781 TCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGG
1 TCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGG
*
56270846 CCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCA
66 CCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCA
56270911 CATATATACACTTTCACATTCA
131 CATATATACACTTTCACATTCA
56270933 TCACAT
1 TCACAT
56270939 CGGCCATTAG
Statistics
Matches: 156, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
152 156 1.00
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (152 bp):
TCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGG
CCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCA
CATATATACACTTTCACATTCA
Found at i:56274431 original size:40 final size:40
Alignment explanation
Indices: 56274399--56274706 Score: 431
Period size: 40 Copynumber: 7.7 Consensus size: 40
56274389 CCAGCATGAT
* * * * *
56274399 TGCTCTTTGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* * * *
56274439 TGCTCTTCGAGG-TTTAGCACGGATATATTACTAGCACGAA
1 TGCTCTTCG-GGACTTAGCCCGGATACATCACTAGCACGAA
* * *
56274479 TGCTCTTCGGAACTTAGCTCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
56274519 TGCTCTTCGGGACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
56274559 TGCTCTTCGGGACTTAGCCCGGGTACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
56274599 TGCTCTTCGGGACTTAGCCCGAATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
56274639 TGCTCTTCGGGACTTAGTCCGGGTACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
56274679 TGCTCTTCGGGACTTAGCCCGGAT-CATC
1 TGCTCTTCGGGACTTAGCCCGGATACATC
56274707 GTCGAGACCT
Statistics
Matches: 238, Mismatches: 28, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
39 5 0.02
40 231 0.97
41 2 0.01
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:56277009 original size:47 final size:47
Alignment explanation
Indices: 56276933--56277656 Score: 574
Period size: 47 Copynumber: 15.5 Consensus size: 47
56276923 CTTTGGGACT
* * * * * *
56276933 TATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCC
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
*
56276980 TGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGG-CC
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
* *
56277026 TCATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCT
1 T-ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
* *
56277074 TATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCT
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
** *
56277121 TATCACATATATACACTTTCACATTCATCACATCGGCCACATATATACAC
1 TATCACATATATACACTTTCACATTCATCACATCGG-C-CAT-TAGGCCC
* ** * * *
56277171 TTTCAC--AT-T-CA---TCACA-TCGGC-CATTAGGCC-TTA-TCACATATA
1 TATCACATATATACACTTTCACATTCATCACA-TCGGCCATTAGGC-C----C
** * ** * *
56277213 TAT-ACACT-TTCACACTCATCACATT-GGC-CATTCGGCC-TTA-TCACA
1 TATCACA-TATATACACT-TTCACATTCATCACA-TCGGCCATTAGGC-CC
* * * *
56277258 TATATACACT-T-T-CACATTCATCA--CATCGGCCATTAGGCC--T------
1 TAT-CACA-TATATACACTTTCA-CATTCATC--ACA-TCGGCCATTAGGCCC
*
56277298 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
*
56277345 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
* * * *
56277394 TATCACATATATATACACTTTCACACTCATCACATTGGCCATTCGGCCT
1 TATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
* *
56277443 TAACACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
*
56277490 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
* * *
56277537 TATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCT
1 TATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
* *
56277586 TATCACTTATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
* *
56277633 TATCACATATATATACATTCACAT
1 TATCACATATATACACTTTCACAT
56277657 CACAATTATC
Statistics
Matches: 581, Mismatches: 51, Indels: 90
0.80 0.07 0.12
Matches are distributed among these distances:
37 1 0.00
38 3 0.01
39 10 0.02
40 9 0.02
41 13 0.02
42 12 0.02
43 6 0.01
44 4 0.01
45 11 0.02
46 6 0.01
47 330 0.57
48 5 0.01
49 162 0.28
50 9 0.02
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
Found at i:56277144 original size:16 final size:16
Alignment explanation
Indices: 56277123--56277178 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
56277113 TTAGGCCTTA
56277123 TCACATATATACACTT
1 TCACATATATACACTT
**
56277139 TCACAT-TCATCACATCGG
1 TCACATAT-AT-ACA-CTT
*
56277157 CCACATATATACACTT
1 TCACATATATACACTT
56277173 TCACAT
1 TCACAT
56277179 TCATCACATC
Statistics
Matches: 30, Mismatches: 6, Indels: 8
0.68 0.14 0.18
Matches are distributed among these distances:
15 1 0.03
16 14 0.47
17 6 0.20
18 8 0.27
19 1 0.03
ACGTcount: A:0.34, C:0.30, G:0.04, T:0.32
Consensus pattern (16 bp):
TCACATATATACACTT
Found at i:56277163 original size:34 final size:34
Alignment explanation
Indices: 56277124--56277193 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
56277114 TAGGCCTTAT
56277124 CACATATATACACTTTCACATTCATCACATCGGC
1 CACATATATACACTTTCACATTCATCACATCGGC
56277158 CACATATATACACTTTCACATTCATCACATCGGC
1 CACATATATACACTTTCACATTCATCACATCGGC
56277192 CA
1 CA
56277194 TTAGGCCTTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.33, C:0.33, G:0.06, T:0.29
Consensus pattern (34 bp):
CACATATATACACTTTCACATTCATCACATCGGC
Found at i:56277169 original size:81 final size:82
Alignment explanation
Indices: 56277077--56277242 Score: 289
Period size: 81 Copynumber: 2.0 Consensus size: 82
56277067 TAGGCCTTAT
*
56277077 CACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCAC-ATATATACACTTTC
1 CACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATACACTTTC
*
56277141 ACATTCATCACATCGGC
66 ACACTCATCACATCGGC
56277158 CACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTT
1 CACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA-ATATATACACTTT
*
56277223 CACACTCATCACATTGGC
65 CACACTCATCACATCGGC
56277241 CA
1 CA
56277243 TTCGGCCTTA
Statistics
Matches: 80, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
81 49 0.61
83 31 0.39
ACGTcount: A:0.31, C:0.30, G:0.07, T:0.31
Consensus pattern (82 bp):
CACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATACACTTTC
ACACTCATCACATCGGC
Found at i:56277265 original size:96 final size:95
Alignment explanation
Indices: 56277158--56277656 Score: 824
Period size: 96 Copynumber: 5.2 Consensus size: 95
56277148 TCACATCGGC
56277158 CACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTT
1 CACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC-TATATATACACTTT
* * *
56277223 CACACTCATCACATTGGCCATTCGGCCTTAT
65 CACATTCATCACATCGGCCATTAGGCCTTAT
56277254 CACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC-ATATATACACTTTC
1 CACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACTATATATACACTTTC
56277318 ACATTCATCACATCGGCCATTAGGCCTTAT
66 ACATTCATCACATCGGCCATTAGGCCTTAT
56277348 CACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACT
1 CAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC-TATATATACACT
* * * *
56277413 TTCACACTCATCACATTGGCCATTCGGCCTTAA
63 TTCACATTCATCACATCGGCCATTAGGCCTTAT
56277446 CACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC-ATATATACACTTTC
1 CACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACTATATATACACTTTC
56277510 ACATTCATCACATCGGCCATTAGGCCTTAT
66 ACATTCATCACATCGGCCATTAGGCCTTAT
* *
56277540 CACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACT-TATATACACTT
1 CAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACTATATATACACTT
56277604 TCACATTCATCACATCGGCCATTAGGCCTTAT
64 TCACATTCATCACATCGGCCATTAGGCCTTAT
* *
56277636 CACATATATATACATTCACAT
1 CACATATATACACTTTCACAT
56277657 CACAATTATC
Statistics
Matches: 381, Mismatches: 15, Indels: 16
0.92 0.04 0.04
Matches are distributed among these distances:
94 103 0.27
96 235 0.62
98 43 0.11
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.32
Consensus pattern (95 bp):
CACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACTATATATACACTTTC
ACATTCATCACATCGGCCATTAGGCCTTAT
Found at i:56277316 original size:143 final size:144
Alignment explanation
Indices: 56277158--56277656 Score: 873
Period size: 143 Copynumber: 3.5 Consensus size: 144
56277148 TCACATCGGC
56277158 CACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTT
1 CACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTT
* * * *
56277223 CACACTCATCACATTGGCCATTCGGCCTTATCAC-ATATATACACTTTCACATTCATCACATCGG
66 CACATTCATCACATCGGCCATTAGGCCTTATCACAATATATACACTTTCACATTCATCACATTGG
*
56277287 CCATTAGGCCTTAT
131 CCATTCGGCCTTAT
56277301 CACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTT
1 CACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTT
*
56277366 CACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACACTCATCACATTG
66 CACATTCATCACATCGGCCATTAGGCCTTATCACA-ATATATACACTTTCACATTCATCACATTG
*
56277431 GCCATTCGGCCTTAA
130 GCCATTCGGCCTTAT
56277446 CACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTT
1 CACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTT
56277509 CACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATTG
66 CACATTCATCACATCGGCCATTAGGCCTTATCACA-ATATATACACTTTCACATTCATCACATTG
56277574 GCCATTCGGCCTTAT
130 GCCATTCGGCCTTAT
*
56277589 CACTTATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACA--TT
1 CACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTT
56277652 CACAT
66 CACAT
56277657 CACAATTATC
Statistics
Matches: 342, Mismatches: 10, Indels: 8
0.95 0.03 0.02
Matches are distributed among these distances:
143 243 0.71
145 99 0.29
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.32
Consensus pattern (144 bp):
CACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTT
CACATTCATCACATCGGCCATTAGGCCTTATCACAATATATACACTTTCACATTCATCACATTGG
CCATTCGGCCTTAT
Found at i:56280470 original size:25 final size:26
Alignment explanation
Indices: 56280432--56280733 Score: 141
Period size: 27 Copynumber: 11.3 Consensus size: 26
56280422 ATAATAAAGA
*
56280432 GAAATTACTGAAATACCCTCGATTGT
1 GAAATTACTAAAATACCCTCGATTGT
*
56280458 GAAA-TACTAAAATACCTTCGATTTGT
1 GAAATTACTAAAATACCCTCGA-TTGT
* * *
56280484 AAAATTA-TCGAAATACCC-CTAATTTGT
1 GAAATTACT-AAAATACCCTC-GA-TTGT
** * * *
56280511 GAAATTACCGAAACACCC-CTAATTTTT
1 GAAATTACTAAAATACCCTC-GA-TTGT
* *
56280538 AAAATTACTAAAATACCC-CTAATTTGT
1 GAAATTACTAAAATACCCTC-GA-TTGT
*
56280565 GAAATTACTAAAACACCCTCGACTTGT
1 GAAATTACTAAAATACCCTCGA-TTGT
* ** * **
56280592 AAAATTACCGAAACACCCTTAATTTGT
1 GAAATTACTAAAATACCCTCGA-TTGT
*
56280619 AAAATTA-TCAAAATACCCTCGATTTGT
1 GAAATTACT-AAAATACCCTCGA-TTGT
* *
56280646 AAAATTA-TCGAAATACCCTCGATTTGT
1 GAAATTACT-AAAATACCCTCGA-TTGT
* * *
56280673 AAAATTACCAAAATACCCTCAATTTGT
1 GAAATTACTAAAATACCCTCGA-TTGT
* ** *
56280700 AAAATTACCGAAACACCCTCGATTTGT
1 GAAATTACTAAAATACCCTCGA-TTGT
*
56280727 AAAATTA
1 GAAATTA
56280734 TCGAAATACC
Statistics
Matches: 231, Mismatches: 37, Indels: 15
0.82 0.13 0.05
Matches are distributed among these distances:
25 15 0.06
26 13 0.06
27 202 0.87
28 1 0.00
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.31
Consensus pattern (26 bp):
GAAATTACTAAAATACCCTCGATTGT
Found at i:56280508 original size:27 final size:28
Alignment explanation
Indices: 56280478--56280770 Score: 275
Period size: 27 Copynumber: 10.8 Consensus size: 28
56280468 AATACCTTCG
*
56280478 ATTTGTAAAATTATCGAAATACCCCT-A
1 ATTTGTAAAATTACCGAAATACCCCTCA
* *
56280505 ATTTGTGAAATTACCGAAACACCCCT-A
1 ATTTGTAAAATTACCGAAATACCCCTCA
* **
56280532 ATTTTTAAAATTACTAAAATACCCCT-A
1 ATTTGTAAAATTACCGAAATACCCCTCA
* * *
56280559 ATTTGTGAAATTA-CTAAA-ACACCCTCG
1 ATTTGTAAAATTACCGAAATAC-CCCTCA
* * *
56280586 ACTTGTAAAATTACCGAAACA-CCCTTA
1 ATTTGTAAAATTACCGAAATACCCCTCA
* * *
56280613 ATTTGTAAAATTATCAAAATA-CCCTCG
1 ATTTGTAAAATTACCGAAATACCCCTCA
* *
56280640 ATTTGTAAAATTATCGAAATA-CCCTCG
1 ATTTGTAAAATTACCGAAATACCCCTCA
*
56280667 ATTTGTAAAATTACCAAAATA-CCCTCA
1 ATTTGTAAAATTACCGAAATACCCCTCA
* *
56280694 ATTTGTAAAATTACCGAAACA-CCCTCG
1 ATTTGTAAAATTACCGAAATACCCCTCA
* * **
56280721 ATTTGTAAAATTATCGAAATACCCTTGT
1 ATTTGTAAAATTACCGAAATACCCCTCA
*
56280749 A-GTGTAAAATTACCGAAATACC
1 ATTTGTAAAATTACCGAAATACC
56280771 ATTGTAGTGT
Statistics
Matches: 223, Mismatches: 38, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
25 2 0.01
26 7 0.03
27 205 0.92
28 8 0.04
29 1 0.00
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.31
Consensus pattern (28 bp):
ATTTGTAAAATTACCGAAATACCCCTCA
Found at i:56280595 original size:54 final size:54
Alignment explanation
Indices: 56280433--56280770 Score: 284
Period size: 54 Copynumber: 6.3 Consensus size: 54
56280423 TAATAAAGAG
* *
56280433 AAATTACTGAAATA-CCCTCGA-TTGTGAAA-TACTAAAATACCTTCGATTTGTA
1 AAATTACTGAAATACCCCT-AATTTGTGAAATTACTAAAATACCCTCGATTTGTA
** * * *
56280485 AAATTA-TCGAAATACCCCTAATTTGTGAAATTACCGAAACACCC-CTAATTTTTA
1 AAATTACT-GAAATACCCCTAATTTGTGAAATTACTAAAATACCCTC-GATTTGTA
* * *
56280539 AAATTACTAAAATACCCCTAATTTGTGAAATTACTAAAACACCCTCGACTTGTA
1 AAATTACTGAAATACCCCTAATTTGTGAAATTACTAAAATACCCTCGATTTGTA
* * * *
56280593 AAATTACCGAAACACCCTTAATTTGTAAAATTA-TCAAAATACCCTCGATTTGTA
1 AAATTACTGAAATACCCCTAATTTGTGAAATTACT-AAAATACCCTCGATTTGTA
* * * *
56280647 AAATTA-TCGAAATA-CCCTCGATTTGTAAAATTACCAAAATACCCTCAATTTGTA
1 AAATTACT-GAAATACCCCT-AATTTGTGAAATTACTAAAATACCCTCGATTTGTA
* * * * * * *
56280701 AAATTACCGAAACA-CCCTCGATTTGTAAAATTA-TCGAAATACCCTTG-TAGTGTA
1 AAATTACTGAAATACCCCT-AATTTGTGAAATTACT-AAAATACCCTCGAT-TTGTA
*
56280755 AAATTACCGAAATACC
1 AAATTACTGAAATACC
56280771 ATTGTAGTGT
Statistics
Matches: 237, Mismatches: 34, Indels: 27
0.80 0.11 0.09
Matches are distributed among these distances:
51 1 0.00
52 13 0.05
53 18 0.08
54 202 0.85
55 3 0.01
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (54 bp):
AAATTACTGAAATACCCCTAATTTGTGAAATTACTAAAATACCCTCGATTTGTA
Found at i:56280768 original size:81 final size:81
Alignment explanation
Indices: 56280433--56280770 Score: 375
Period size: 81 Copynumber: 4.2 Consensus size: 81
56280423 TAATAAAGAG
* * * * *
56280433 AAATTACTGAAATACCCTCGA-TTGTGAAA-TACTAAAATACCTTCGATTTGTAAAATTATCGAA
1 AAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCTCGATTTGTAAAATTATCGAA
* *
56280496 ATACCC-CTAATTTGTG
66 ATACCCTC-GATTTGTA
* * * * *
56280512 AAATTACCGAAACACCC-CTAATTTTTAAAATTACTAAAATACCC-CTAATTTGTGAAATTA-CT
1 AAATTACCGAAATACCCTC-AATTTGTAAAATTACCAAAATACCCTC-GATTTGTAAAATTATC-
* * *
56280574 AAAACACCCTCGACTTGTA
63 GAAATACCCTCGATTTGTA
* * *
56280593 AAATTACCGAAACACCCTTAATTTGTAAAATTATCAAAATACCCTCGATTTGTAAAATTATCGAA
1 AAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCTCGATTTGTAAAATTATCGAA
56280658 ATACCCTCGATTTGTA
66 ATACCCTCGATTTGTA
* * *
56280674 AAATTACCAAAATACCCTCAATTTGTAAAATTACCGAAACACCCTCGATTTGTAAAATTATCGAA
1 AAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCTCGATTTGTAAAATTATCGAA
* *
56280739 ATACCCTTG-TAGTGTA
66 ATACCCTCGAT-TTGTA
56280755 AAATTACCGAAATACC
1 AAATTACCGAAATACC
56280771 ATTGTAGTGT
Statistics
Matches: 218, Mismatches: 31, Indels: 18
0.82 0.12 0.07
Matches are distributed among these distances:
78 1 0.00
79 16 0.07
80 9 0.04
81 189 0.87
82 3 0.01
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (81 bp):
AAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCTCGATTTGTAAAATTATCGAA
ATACCCTCGATTTGTA
Found at i:56280775 original size:27 final size:27
Alignment explanation
Indices: 56280589--56280812 Score: 152
Period size: 27 Copynumber: 8.3 Consensus size: 27
56280579 ACCCTCGACT
* * *
56280589 TGTAAAATTACCGAAACACCCTT-AATT
1 TGTAAAATTACCGAAATACCCTTGTA-G
* * * *
56280616 TGTAAAATTATCAAAATACCCTCG-ATT
1 TGTAAAATTACCGAAATACCCTTGTA-G
* * *
56280643 TGTAAAATTATCGAAATACCCTCG-ATT
1 TGTAAAATTACCGAAATACCCTTGTA-G
* ** *
56280670 TGTAAAATTACCAAAATACCC-TCAATT
1 TGTAAAATTACCGAAATACCCTTGTA-G
* * *
56280697 TGTAAAATTACCGAAACACCCTCG-ATT
1 TGTAAAATTACCGAAATACCCTTGTA-G
*
56280724 TGTAAAATTATCGAAATACCCTTGTAG
1 TGTAAAATTACCGAAATACCCTTGTAG
*
56280751 TGTAAAATTACCGAAATACCATTGTAG
1 TGTAAAATTACCGAAATACCCTTGTAG
* * * *
56280778 TGTAAAATGATCGACATACCCCTGTAG
1 TGTAAAATTACCGAAATACCCTTGTAG
*
56280805 GGTAAAAT
1 TGTAAAAT
56280813 GACTGTTTTG
Statistics
Matches: 168, Mismatches: 25, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
27 167 0.99
28 1 0.01
ACGTcount: A:0.39, C:0.19, G:0.12, T:0.30
Consensus pattern (27 bp):
TGTAAAATTACCGAAATACCCTTGTAG
Found at i:56285362 original size:26 final size:23
Alignment explanation
Indices: 56285269--56285368 Score: 74
Period size: 25 Copynumber: 4.0 Consensus size: 23
56285259 TGAACTATTA
56285269 TTTATTTTAAATTTTATATATATT
1 TTTATTTTAAATTTTATATATA-T
** *
56285293 GTTTATTTTAAACTACTATACATAT
1 -TTTATTTTAAA-TTTTATATATAT
* *
56285318 TATTATTTTGAAGTTTTTTATATACCT
1 T-TTATTTT-AAATTTTATATATA--T
*
56285345 TTTATTTTAAATTATTTTATATAT
1 TTTATTTTAAATT-TTATATATAT
56285369 AATATGTATT
Statistics
Matches: 60, Mismatches: 9, Indels: 13
0.73 0.11 0.16
Matches are distributed among these distances:
24 2 0.03
25 30 0.50
26 26 0.43
27 2 0.03
ACGTcount: A:0.32, C:0.05, G:0.03, T:0.60
Consensus pattern (23 bp):
TTTATTTTAAATTTTATATATAT
Found at i:56285387 original size:26 final size:26
Alignment explanation
Indices: 56285264--56285402 Score: 113
Period size: 26 Copynumber: 5.3 Consensus size: 26
56285254 ATTTTTGAAC
56285264 TATTATTTATTTT-AAATTTTATATA
1 TATTATTTATTTTAAAATTTTATATA
* * ** *
56285289 TATTGTTTATTTTAAACTACTATACA
1 TATTATTTATTTTAAAATTTTATATA
* * *
56285315 TATTA-TTATTTTGAAGTTTTTTATA
1 TATTATTTATTTTAAAATTTTATATA
*
56285340 TACCT-TTTATTTTAAATTATTTTATATA
1 TA-TTATTTATTTTAAA--ATTTTATATA
* * *
56285368 TAATATGTATTTTAAAATTTTGTATA
1 TATTATTTATTTTAAAATTTTATATA
*
56285394 TGTTATTTA
1 TATTATTTA
56285403 GTTATACTAG
Statistics
Matches: 86, Mismatches: 22, Indels: 11
0.72 0.18 0.09
Matches are distributed among these distances:
25 28 0.33
26 37 0.43
27 1 0.01
28 20 0.23
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.59
Consensus pattern (26 bp):
TATTATTTATTTTAAAATTTTATATA
Found at i:56285531 original size:19 final size:19
Alignment explanation
Indices: 56285507--56285568 Score: 97
Period size: 19 Copynumber: 3.2 Consensus size: 19
56285497 ATATACTCCT
56285507 TATCTTAAACTTATATATA
1 TATCTTAAACTTATATATA
*
56285526 TATCTTAAGCTTATATATA
1 TATCTTAAACTTATATATA
56285545 TATCTTAAACATTTATATATA
1 TATCTTAAAC--TTATATATA
56285566 TAT
1 TAT
56285569 ATGTTACTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
19 27 0.69
21 12 0.31
ACGTcount: A:0.40, C:0.10, G:0.02, T:0.48
Consensus pattern (19 bp):
TATCTTAAACTTATATATA
Found at i:56285672 original size:26 final size:27
Alignment explanation
Indices: 56285623--56285676 Score: 74
Period size: 29 Copynumber: 2.0 Consensus size: 27
56285613 GTTTTTTTGT
56285623 ATATTATTTATGTTAAATTTCTCTTTTAC
1 ATATTATTTATGTTAAA--TCTCTTTTAC
*
56285652 ATATTATTTATTTTAAA-CTCTTTTA
1 ATATTATTTATGTTAAATCTCTTTTA
56285677 TATGTTTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 8 0.33
29 16 0.67
ACGTcount: A:0.30, C:0.09, G:0.02, T:0.59
Consensus pattern (27 bp):
ATATTATTTATGTTAAATCTCTTTTAC
Found at i:56285783 original size:27 final size:26
Alignment explanation
Indices: 56285720--56285837 Score: 130
Period size: 26 Copynumber: 4.5 Consensus size: 26
56285710 TTACTTTGTG
* * * *
56285720 TATTATTTATTTTAATTTATTTTACA
1 TATTATTTATTTGAAATTGTTTTATA
*
56285746 TATTATATATTTGAAATTGTTTTATA
1 TATTATTTATTTGAAATTGTTTTATA
56285772 TATTATTTTATTTGAAATTGTTTTATA
1 TATTA-TTTATTTGAAATTGTTTTATA
* *
56285799 TTTTATTTATTTCAAATAT-TTTTCATA
1 TATTATTTATTTGAAAT-TGTTTT-ATA
*
56285826 TATTGTTTATTT
1 TATTATTTATTT
56285838 TGGATCATTC
Statistics
Matches: 79, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
26 41 0.52
27 38 0.48
ACGTcount: A:0.30, C:0.03, G:0.04, T:0.64
Consensus pattern (26 bp):
TATTATTTATTTGAAATTGTTTTATA
Found at i:56285796 original size:53 final size:53
Alignment explanation
Indices: 56285720--56285837 Score: 132
Period size: 53 Copynumber: 2.2 Consensus size: 53
56285710 TTACTTTGTG
* * *
56285720 TATTATTTATTTTAATTTATTTTACATATTATATATTTGAAAT-TGTTTT-ATA
1 TATTATTTATTTGAAATTATTTTACATATTATATATTTCAAATAT-TTTTCATA
* * * *
56285772 TATTATTTTATTTGAAATTGTTTTATATTTTATTTATTTCAAATATTTTTCATA
1 TATTA-TTTATTTGAAATTATTTTACATATTATATATTTCAAATATTTTTCATA
*
56285826 TATTGTTTATTT
1 TATTATTTATTT
56285838 TGGATCATTC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
52 5 0.09
53 42 0.76
54 8 0.15
ACGTcount: A:0.30, C:0.03, G:0.04, T:0.64
Consensus pattern (53 bp):
TATTATTTATTTGAAATTATTTTACATATTATATATTTCAAATATTTTTCATA
Found at i:56285797 original size:15 final size:15
Alignment explanation
Indices: 56285753--56285797 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 15
56285743 ACATATTATA
56285753 TATTTGAAATTGTTT
1 TATTTGAAATTGTTT
* *
56285768 TA--T-ATATTATTT
1 TATTTGAAATTGTTT
56285780 TATTTGAAATTGTTT
1 TATTTGAAATTGTTT
56285795 TAT
1 TAT
56285798 ATTTTATTTA
Statistics
Matches: 23, Mismatches: 4, Indels: 6
0.70 0.12 0.18
Matches are distributed among these distances:
12 9 0.39
13 1 0.04
14 1 0.04
15 12 0.52
ACGTcount: A:0.29, C:0.00, G:0.09, T:0.62
Consensus pattern (15 bp):
TATTTGAAATTGTTT
Found at i:56288400 original size:19 final size:19
Alignment explanation
Indices: 56288376--56288420 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
56288366 CGTCTCTTTT
*
56288376 TGCATT-CATTTCATGCATC
1 TGCATTGCATTTCAT-CATA
*
56288395 TGCATTGCATTTTATCATA
1 TGCATTGCATTTCATCATA
56288414 TGCATTG
1 TGCATTG
56288421 GATGTCACAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.22, C:0.20, G:0.13, T:0.44
Consensus pattern (19 bp):
TGCATTGCATTTCATCATA
Found at i:56288586 original size:12 final size:12
Alignment explanation
Indices: 56288553--56288602 Score: 57
Period size: 12 Copynumber: 4.2 Consensus size: 12
56288543 GGAAAGGTTG
56288553 GAACAAATGC-A
1 GAACAAATGCAA
* *
56288564 GAAGGAGATGCAA
1 GAA-CAAATGCAA
56288577 GAACAAATGCAA
1 GAACAAATGCAA
*
56288589 GCACAAATGCAA
1 GAACAAATGCAA
56288601 GA
1 GA
56288603 GCAACTGGTG
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
11 3 0.10
12 24 0.77
13 4 0.13
ACGTcount: A:0.52, C:0.16, G:0.24, T:0.08
Consensus pattern (12 bp):
GAACAAATGCAA
Found at i:56291754 original size:8 final size:8
Alignment explanation
Indices: 56291741--56291816 Score: 55
Period size: 8 Copynumber: 8.5 Consensus size: 8
56291731 CAAAACAATC
56291741 AAAAATAA
1 AAAAATAA
56291749 AAAAATATGA
1 AAAAATA--A
*
56291759 TAATAAT-A
1 -AAAAATAA
56291767 AAAAATCAA
1 AAAAAT-AA
56291776 TCAAAAATAA
1 --AAAAATAA
56291786 AAAAATCAATA
1 AAAAAT--A-A
56291797 AAAAATAA
1 AAAAATAA
56291805 AAAAATAA
1 AAAAATAA
56291813 AAAA
1 AAAA
56291817 GGAAGAAAGA
Statistics
Matches: 56, Mismatches: 2, Indels: 20
0.72 0.03 0.26
Matches are distributed among these distances:
7 5 0.09
8 27 0.48
9 2 0.04
10 4 0.07
11 18 0.32
ACGTcount: A:0.78, C:0.04, G:0.01, T:0.17
Consensus pattern (8 bp):
AAAAATAA
Found at i:56291788 original size:19 final size:19
Alignment explanation
Indices: 56291732--56291810 Score: 94
Period size: 19 Copynumber: 4.3 Consensus size: 19
56291722 CCTTAAGACC
56291732 AAAA-CAATCAAAAATAAA
1 AAAATCAATCAAAAATAAA
*
56291750 AAAAT-ATGAT-AATAAT-AA
1 AAAATCA--ATCAAAAATAAA
56291768 AAAATCAATCAAAAATAAA
1 AAAATCAATCAAAAATAAA
*
56291787 AAAATCAATAAAAAATAAA
1 AAAATCAATCAAAAATAAA
56291806 AAAAT
1 AAAAT
56291811 AAAAAAGGAA
Statistics
Matches: 52, Mismatches: 3, Indels: 11
0.79 0.05 0.17
Matches are distributed among these distances:
17 2 0.04
18 17 0.33
19 31 0.60
20 2 0.04
ACGTcount: A:0.75, C:0.06, G:0.01, T:0.18
Consensus pattern (19 bp):
AAAATCAATCAAAAATAAA
Found at i:56291801 original size:11 final size:11
Alignment explanation
Indices: 56291763--56291802 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
56291753 ATATGATAAT
56291763 AATAAAAAATC
1 AATAAAAAATC
*
56291774 AATCAAAAAT-
1 AATAAAAAATC
56291784 -A-AAAAAATC
1 AATAAAAAATC
56291793 AATAAAAAAT
1 AATAAAAAAT
56291803 AAAAAAATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
8 6 0.25
9 1 0.04
10 1 0.04
11 16 0.67
ACGTcount: A:0.75, C:0.07, G:0.00, T:0.17
Consensus pattern (11 bp):
AATAAAAAATC
Found at i:56291804 original size:37 final size:36
Alignment explanation
Indices: 56291732--56291808 Score: 104
Period size: 37 Copynumber: 2.1 Consensus size: 36
56291722 CCTTAAGACC
*
56291732 AAAACAATCAAAAATAAAAAAATATGATAATAATAA
1 AAAACAATCAAAAATAAAAAAATATGATAAAAATAA
56291768 AAAATCAATCAAAAATAAAAAAATCA--ATAAAAAATAA
1 AAAA-CAATCAAAAATAAAAAAAT-ATGAT-AAAAATAA
56291805 AAAA
1 AAAA
56291809 ATAAAAAAGG
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
36 6 0.16
37 30 0.81
38 1 0.03
ACGTcount: A:0.75, C:0.06, G:0.01, T:0.17
Consensus pattern (36 bp):
AAAACAATCAAAAATAAAAAAATATGATAAAAATAA
Found at i:56293124 original size:44 final size:45
Alignment explanation
Indices: 56293059--56293205 Score: 185
Period size: 44 Copynumber: 3.3 Consensus size: 45
56293049 ATCTCCCTAT
*
56293059 AGTAGTGGAGTAG-GCTAAAGATTGTAGATCTTGTCTCCCTAAGC
1 AGTAGTGGAGTAGATCTAAAGATTGTAGATCTTGTCTCCCTAAGC
* * ** *
56293103 AGTAGTGGAGCAGATC-GAAGA-TGGCGAATCTTGTGTCCCTAAGC
1 AGTAGTGGAGTAGATCTAAAGATTGTAG-ATCTTGTCTCCCTAAGC
* *
56293147 AGTAGTGAAGTAG-GCTAAAGATTGTAGATCTTGTCTCCCTAAGC
1 AGTAGTGGAGTAGATCTAAAGATTGTAGATCTTGTCTCCCTAAGC
56293191 AGTAGTGGAGTAGAT
1 AGTAGTGGAGTAGAT
56293206 TTAAGCCACC
Statistics
Matches: 83, Mismatches: 15, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
43 4 0.05
44 75 0.90
45 4 0.05
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.27
Consensus pattern (45 bp):
AGTAGTGGAGTAGATCTAAAGATTGTAGATCTTGTCTCCCTAAGC
Found at i:56299030 original size:73 final size:74
Alignment explanation
Indices: 56298930--56299090 Score: 238
Period size: 73 Copynumber: 2.2 Consensus size: 74
56298920 CTCACCACAA
* * * *
56298930 CTCGTATGAGCTTA-CTGATATGTCAGCTCGTGAGAGTTTACTGTTTTCAGCTCATTGGAGCTTA
1 CTCGTATGAGCTTACCTGATATATCAGCTCGTAAGAGCTTACTGTTTTCAGCTCATTAGAGCTTA
56298994 CCAATTCAG
66 CCAATTCAG
*
56299003 CTCG-ATAGAGCTTACCT-ATATATCAGCTCGTAAGAGCTTATTGTTTTCAGCTCATTAGAGCTT
1 CTCGTAT-GAGCTTACCTGATATATCAGCTCGTAAGAGCTTACTGTTTTCAGCTCATTAGAGCTT
*
56299066 ACCGATTCAG
65 ACCAATTCAG
56299076 CTCGTATGAGCTTAC
1 CTCGTATGAGCTTAC
56299091 TGTTCAGCTC
Statistics
Matches: 79, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
72 2 0.03
73 73 0.92
74 4 0.05
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.35
Consensus pattern (74 bp):
CTCGTATGAGCTTACCTGATATATCAGCTCGTAAGAGCTTACTGTTTTCAGCTCATTAGAGCTTA
CCAATTCAG
Found at i:56299038 original size:26 final size:24
Alignment explanation
Indices: 56298930--56299111 Score: 113
Period size: 24 Copynumber: 7.6 Consensus size: 24
56298920 CTCACCACAA
*
56298930 CTCGTATGAGCTTACTGATATGTCAG
1 CTCGTAAGAGCTTACT-ATAT-TCAG
* * * *
56298956 CTCGTGAGAGTTTACTGTTTTCAG
1 CTCGTAAGAGCTTACTATATTCAG
* ** *
56298980 CTCATTGGAGCTTACCA-ATTCAG
1 CTCGTAAGAGCTTACTATATTCAG
56299003 CTCG-ATAGAGCTTACCTATATATCAG
1 CTCGTA-AGAGCTTA-CTATAT-TCAG
* * *
56299029 CTCGTAAGAGCTTATTGTTTTCAG
1 CTCGTAAGAGCTTACTATATTCAG
* * **
56299053 CTCATTAGAGCTTAC-CGATTCAG
1 CTCGTAAGAGCTTACTATATTCAG
* *
56299076 CTCGTATGAGCTTAC--TGTTCAG
1 CTCGTAAGAGCTTACTATATTCAG
*
56299098 CTCGTATGAGCTTA
1 CTCGTAAGAGCTTA
56299112 TCGATCATGA
Statistics
Matches: 121, Mismatches: 30, Indels: 14
0.73 0.18 0.08
Matches are distributed among these distances:
22 19 0.16
23 32 0.26
24 33 0.27
25 7 0.06
26 29 0.24
27 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.20, T:0.35
Consensus pattern (24 bp):
CTCGTAAGAGCTTACTATATTCAG
Found at i:56299063 original size:50 final size:47
Alignment explanation
Indices: 56298998--56299116 Score: 129
Period size: 45 Copynumber: 2.5 Consensus size: 47
56298988 AGCTTACCAA
* *
56298998 TTCAGCTCGATAGAGCTTACCTATATATCAGCTCGTAAGAGCTTATTGTT
1 TTCAGCTCGATAGAGCTTACC--GAT-TCAGCTCGTAAGAGCTTACTGTT
*
56299048 TTCAGCTC-ATTAGAGCTTACCGATTCAGCTCGTATGAGCTTACTG--
1 TTCAGCTCGA-TAGAGCTTACCGATTCAGCTCGTAAGAGCTTACTGTT
*
56299093 TTCAGCTCG-TATGAGCTTATCGAT
1 TTCAGCTCGATA-GAGCTTACCGAT
56299117 CATGACTTGA
Statistics
Matches: 62, Mismatches: 4, Indels: 11
0.81 0.05 0.14
Matches are distributed among these distances:
44 2 0.03
45 19 0.31
47 19 0.31
48 2 0.03
49 1 0.02
50 19 0.31
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.35
Consensus pattern (47 bp):
TTCAGCTCGATAGAGCTTACCGATTCAGCTCGTAAGAGCTTACTGTT
Found at i:56299099 original size:22 final size:23
Alignment explanation
Indices: 56298930--56299111 Score: 122
Period size: 23 Copynumber: 7.6 Consensus size: 23
56298920 CTCACCACAA
56298930 CTCGTATGAGCTTACTGATATGTCAG
1 CTCGTATGAGCTTACTG-T-T-TCAG
*
56298956 CTCGTGA-GAGTTTACTGTTTTCAG
1 CTCGT-ATGAGCTTACTG-TTTCAG
* ***
56298980 CTCAT-TGGAGCTTACCAATTCAG
1 CTCGTAT-GAGCTTACTGTTTCAG
*
56299003 CTCG-ATAGAGCTTACCTATATATCAG
1 CTCGTAT-GAGCTTA-CTGT-T-TCAG
* *
56299029 CTCGTAAGAGCTTATTGTTTTCAG
1 CTCGTATGAGCTTACTG-TTTCAG
* * *
56299053 CTCAT-TAGAGCTTACCGATTCAG
1 CTCGTAT-GAGCTTACTGTTTCAG
56299076 CTCGTATGAGCTTACTG-TTCAG
1 CTCGTATGAGCTTACTGTTTCAG
56299098 CTCGTATGAGCTTA
1 CTCGTATGAGCTTA
56299112 TCGATCATGA
Statistics
Matches: 124, Mismatches: 21, Indels: 26
0.73 0.12 0.15
Matches are distributed among these distances:
22 19 0.15
23 34 0.27
24 34 0.27
25 4 0.03
26 31 0.25
27 2 0.02
ACGTcount: A:0.23, C:0.21, G:0.20, T:0.35
Consensus pattern (23 bp):
CTCGTATGAGCTTACTGTTTCAG
Found at i:56305346 original size:25 final size:25
Alignment explanation
Indices: 56305318--56305387 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
56305308 CTCTTTTAAT
*
56305318 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
56305343 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
56305368 AACTAGGGCAAAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
56305388 GCACTTCCTC
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.27, C:0.23, G:0.24, T:0.26
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:56305460 original size:20 final size:21
Alignment explanation
Indices: 56305435--56305482 Score: 80
Period size: 20 Copynumber: 2.3 Consensus size: 21
56305425 AAATGAATAC
*
56305435 ATCATGTGCATATCATA-CAT
1 ATCATGTGCATATCATATCAA
56305455 ATCATGTGCATATCATATCAA
1 ATCATGTGCATATCATATCAA
56305476 ATCATGT
1 ATCATGT
56305483 ATATCAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
20 17 0.65
21 9 0.35
ACGTcount: A:0.35, C:0.19, G:0.10, T:0.35
Consensus pattern (21 bp):
ATCATGTGCATATCATATCAA
Found at i:56312071 original size:24 final size:25
Alignment explanation
Indices: 56312044--56312095 Score: 88
Period size: 25 Copynumber: 2.1 Consensus size: 25
56312034 GCCTAGCCTC
56312044 TTTTAATAA-CTGGGGCAAAGCCCT
1 TTTTAATAATCTGGGGCAAAGCCCT
*
56312068 TTTTGATAATCTGGGGCAAAGCCCT
1 TTTTAATAATCTGGGGCAAAGCCCT
56312093 TTT
1 TTT
56312096 GCACTTCCTC
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
24 8 0.31
25 18 0.69
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.35
Consensus pattern (25 bp):
TTTTAATAATCTGGGGCAAAGCCCT
Found at i:56312096 original size:24 final size:23
Alignment explanation
Indices: 56312024--56312096 Score: 83
Period size: 25 Copynumber: 3.0 Consensus size: 23
56312014 GCTTTATCAT
** *
56312024 ATAACTGGAGGCCTAGCCTCTTTTA
1 ATAACTGG-GGCAAAGCC-CTTTTG
56312049 ATAACTGGGGCAAAGCCCTTTTTG
1 ATAACTGGGGCAAAGCCC-TTTTG
56312073 ATAATCTGGGGCAAAGCCCTTTTG
1 ATAA-CTGGGGCAAAGCCCTTTTG
56312097 CACTTCCTCC
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
23 1 0.02
24 20 0.47
25 22 0.51
ACGTcount: A:0.25, C:0.22, G:0.23, T:0.30
Consensus pattern (23 bp):
ATAACTGGGGCAAAGCCCTTTTG
Found at i:56312168 original size:20 final size:21
Alignment explanation
Indices: 56312143--56312190 Score: 80
Period size: 20 Copynumber: 2.3 Consensus size: 21
56312133 AAATGAATAC
*
56312143 ATCATGTGCATATCATA-CAT
1 ATCATGTGCATATCATATCAA
56312163 ATCATGTGCATATCATATCAA
1 ATCATGTGCATATCATATCAA
56312184 ATCATGT
1 ATCATGT
56312191 ATATCAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
20 17 0.65
21 9 0.35
ACGTcount: A:0.35, C:0.19, G:0.10, T:0.35
Consensus pattern (21 bp):
ATCATGTGCATATCATATCAA
Found at i:56315236 original size:27 final size:27
Alignment explanation
Indices: 56315205--56315382 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
56315195 TAAATTGTAC
56315205 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
56315232 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
56315258 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
* *
56315286 GGCACTAAGTGTGCGAGTCTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
56315314 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
56315341 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
56315368 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
56315383 GGCTCAATAT
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 105 0.83
28 22 0.17
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:56315320 original size:82 final size:81
Alignment explanation
Indices: 56315206--56315361 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
56315196 AAATTGTACA
* * *
56315206 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATCTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
56315270 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
56315287 GCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TCTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
56315352 TGCGAGTTGA
65 TGCGAATTGA
56315362 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 15 0.23
82 50 0.76
83 1 0.02
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATCTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:56315373 original size:82 final size:81
Alignment explanation
Indices: 56315202--56315382 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
56315192 GATTAAATTG
* * *
56315202 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATCTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
56315267 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
56315283 TGCGGCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TCTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
56315347 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
56315365 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
56315383 GGCTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 18 0.22
82 65 0.78
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATCTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:56315393 original size:27 final size:27
Alignment explanation
Indices: 56315287--56315393 Score: 79
Period size: 27 Copynumber: 3.9 Consensus size: 27
56315277 TGACCATGCG
* * *
56315287 GCACTAAGTGTGCGAGTCTGACTATGTA
1 GCACTAAGTGTGCGAG-CTCAATATATA
** * * **
56315315 GCACTAAGTGTGCGATTTGATTACGTA
1 GCACTAAGTGTGCGAGCTCAATATATA
* * *
56315342 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAGCTCAATATATA
* *
56315369 GCACTGAGTGTGCGGGCTCAATATA
1 GCACTAAGTGTGCGAGCTCAATATA
56315394 CATTCGTGAA
Statistics
Matches: 67, Mismatches: 12, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
27 52 0.78
28 15 0.22
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTCAATATATA
Found at i:56320432 original size:11 final size:11
Alignment explanation
Indices: 56320416--56320449 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
56320406 CTCCAACATC
56320416 CCATTCAAACT
1 CCATTCAAACT
56320427 CCATTCAAACT
1 CCATTCAAACT
*
56320438 CTATTCAAACT
1 CCATTCAAACT
56320449 C
1 C
56320450 TCATGACCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.35, C:0.35, G:0.00, T:0.29
Consensus pattern (11 bp):
CCATTCAAACT
Found at i:56323250 original size:55 final size:54
Alignment explanation
Indices: 56323163--56323417 Score: 244
Period size: 55 Copynumber: 4.8 Consensus size: 54
56323153 ATTAGGGTTT
* *
56323163 AAGGATACCGTGTAAGACCATGCCAAGGCATGGCAATTGGTAAGATTTCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAG-TTTCTAAGGC
* * * * * *
56323218 AAGGAAATCATTTAAGACCATGTCAAGACATGGC-ATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTT--TCTAAGGC
* *
56323273 AAAGG-T-CTCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGAG-TTCATAAGGC
1 -AAGGATAC-CATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTC-TAAGGC
* *
56323326 AAGGCTACCATGTAAGACCATGTCAAGACATGGCAA-TGGTAAGTTTC-AA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGC
* * *
56323375 AAGGATACCACGTAAGACCATGACAAGTCATGGCAA-TGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAG
56323418 GTACCCGTGT
Statistics
Matches: 168, Mismatches: 23, Indels: 24
0.78 0.11 0.11
Matches are distributed among these distances:
49 39 0.23
52 7 0.04
53 39 0.23
54 14 0.08
55 65 0.39
56 4 0.02
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.22
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGC
Found at i:56323369 original size:108 final size:109
Alignment explanation
Indices: 56323173--56323370 Score: 301
Period size: 108 Copynumber: 1.8 Consensus size: 109
56323163 AAGGATACCG
* * *
56323173 TGTAAGACCATGCCAAGGCATGGCAATTGGTAAGATTTCTAAGGCAAGGAAATCATTTAAGACCA
1 TGTAAGACCATGCCAAGGCATGGCAATTGGT-AGAGTTCTAAGGCAAGGAAACCATGTAAGACCA
*
56323238 TGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTCTCA
65 TGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTCTCA
**
56323283 TGTAAGACCATGCCAAGGCATGGC-ATTGGT-GAGTTCATAAGGCAAGGCTACCATGTAAGACCA
1 TGTAAGACCATGCCAAGGCATGGCAATTGGTAGAGTTC-TAAGGCAAGGAAACCATGTAAGACCA
*
56323346 TGTCAAGACATGGCAATGGTAAGTT
65 TGTCAAGACATGGCAATGATAAGTT
56323371 TCAAAAGGAT
Statistics
Matches: 80, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
107 5 0.06
108 45 0.56
109 6 0.08
110 24 0.30
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.24
Consensus pattern (109 bp):
TGTAAGACCATGCCAAGGCATGGCAATTGGTAGAGTTCTAAGGCAAGGAAACCATGTAAGACCAT
GTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTCTCA
Found at i:56323630 original size:16 final size:16
Alignment explanation
Indices: 56323609--56323639 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
56323599 ATAAATTTGA
56323609 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
56323625 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
56323640 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:56330695 original size:15 final size:15
Alignment explanation
Indices: 56330671--56330700 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
56330661 CTAATGTATT
56330671 TTTTGAGGTTTCGGC
1 TTTTGAGGTTTCGGC
*
56330686 TTTTGTGGTTTCGGC
1 TTTTGAGGTTTCGGC
56330701 ACAAATGTTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.03, C:0.13, G:0.33, T:0.50
Consensus pattern (15 bp):
TTTTGAGGTTTCGGC
Found at i:56335615 original size:25 final size:25
Alignment explanation
Indices: 56335550--56335615 Score: 64
Period size: 25 Copynumber: 2.6 Consensus size: 25
56335540 TCTCAAAAAT
* *
56335550 TTAATTAAA-TAAAAATTATTAATGA
1 TTAAATAAATTAAAAATTA-TAATAA
*
56335575 TTCAATAAATTGAAAAATTA-AATAA
1 TTAAATAAATT-AAAAATTATAATAA
56335600 TTAAATAAAATTAAAA
1 TTAAAT-AAATTAAAA
56335616 TTTAGTAGAA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
25 20 0.59
26 6 0.18
27 8 0.24
ACGTcount: A:0.61, C:0.02, G:0.03, T:0.35
Consensus pattern (25 bp):
TTAAATAAATTAAAAATTATAATAA
Found at i:56336188 original size:17 final size:18
Alignment explanation
Indices: 56336161--56336194 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
56336151 AATTAAATAT
56336161 ATGCATATTAAATTATTA
1 ATGCATATTAAATTATTA
*
56336179 ATGC-TATTAATTTATT
1 ATGCATATTAAATTATT
56336195 TATACAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.50
Consensus pattern (18 bp):
ATGCATATTAAATTATTA
Found at i:56338938 original size:46 final size:46
Alignment explanation
Indices: 56338818--56338982 Score: 305
Period size: 46 Copynumber: 3.6 Consensus size: 46
56338808 GTCGAGTTCT
* *
56338818 AGTGTAAGACATGTCTAGGACATGTATCAGCCTCGAGACGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGACGTAAGCC
56338864 AGTGTAA-ACATGTCTGGGACATGCATCAGCCTCGAGACGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGACGTAAGCC
56338909 AGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGACGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGACGTAAGCC
56338955 AGTGTAAGACATGTCTGGGACATGCATC
1 AGTGTAAGACATGTCTGGGACATGCATC
56338983 GGCTAAATGT
Statistics
Matches: 116, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
45 43 0.37
46 73 0.63
ACGTcount: A:0.29, C:0.22, G:0.27, T:0.21
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGACGTAAGCC
Found at i:56341367 original size:27 final size:27
Alignment explanation
Indices: 56341332--56341443 Score: 147
Period size: 27 Copynumber: 4.1 Consensus size: 27
56341322 AGCATGGCTG
* *
56341332 CCAGAACAGATAAT-GTGACAGAGTCA
1 CCAGAACAGATAATCGTGGCAGAGCCA
56341358 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAATCGTGGCAGAGCCA
56341386 CCAGAACAGA-AATACGTGGCAGAGCCA
1 CCAGAACAGATAAT-CGTGGCAGAGCCA
* * *
56341413 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAATCGTGGCAGAGCCA
56341440 CCAG
1 CCAG
56341444 GGCACTTCCT
Statistics
Matches: 77, Mismatches: 5, Indels: 7
0.87 0.06 0.08
Matches are distributed among these distances:
26 8 0.10
27 51 0.66
28 18 0.23
ACGTcount: A:0.38, C:0.24, G:0.24, T:0.14
Consensus pattern (27 bp):
CCAGAACAGATAATCGTGGCAGAGCCA
Found at i:56355506 original size:17 final size:19
Alignment explanation
Indices: 56355464--56355507 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
56355454 ATGAAATTTT
*
56355464 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
56355483 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
56355501 AA-TATTA
1 AATTATTA
56355508 CTGTAAGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:56355592 original size:11 final size:11
Alignment explanation
Indices: 56355576--56355609 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
56355566 TTGATATTTG
56355576 AAATTATTATA
1 AAATTATTATA
56355587 AAATTATTATA
1 AAATTATTATA
*
56355598 ATTATTATTATA
1 A-AATTATTATA
56355610 TGGAAAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 12 0.57
12 9 0.43
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (11 bp):
AAATTATTATA
Found at i:56357941 original size:25 final size:25
Alignment explanation
Indices: 56357912--56357959 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
56357902 TTATAATATG
* *
56357912 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATGCCCCTAGGTA
56357937 AAAATGACCATTATGCCCCTAGG
1 AAAATGACCATTATGCCCCTAGG
56357960 GTTTAAATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATGCCCCTAGGTA
Found at i:56358026 original size:20 final size:20
Alignment explanation
Indices: 56358003--56358060 Score: 107
Period size: 20 Copynumber: 2.9 Consensus size: 20
56357993 TAAACATGGT
56358003 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
*
56358023 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAC
56358043 ATGTATGATATGCACATG
1 ATGTATGATATGCACATG
56358061 GTGTATTCAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:56358043 original size:11 final size:11
Alignment explanation
Indices: 56358007--56358060 Score: 53
Period size: 11 Copynumber: 5.3 Consensus size: 11
56357997 CATGGTATGT
56358007 ATGATATGCAC
1 ATGATATGCAC
* *
56358018 ATGACATG--T
1 ATGATATGCAC
56358027 ATGATATGCAC
1 ATGATATGCAC
*
56358038 ATGATATG--T
1 ATGATATGCAC
56358047 ATGATATGCAC
1 ATGATATGCAC
56358058 ATG
1 ATG
56358061 GTGTATTCAT
Statistics
Matches: 33, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
9 15 0.45
11 18 0.55
ACGTcount: A:0.35, C:0.13, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:56358141 original size:23 final size:23
Alignment explanation
Indices: 56358111--56358183 Score: 128
Period size: 23 Copynumber: 3.1 Consensus size: 23
56358101 AGGAAGTGCA
56358111 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
56358134 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
56358157 AAAAGGGCTTTTGCCCCAGTTATT
1 -AAAGGGCTTATGCCCCAGTTATT
56358181 AAA
1 AAA
56358184 AGAGGCTAGG
Statistics
Matches: 48, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
23 26 0.54
24 22 0.46
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.30
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:56358200 original size:25 final size:24
Alignment explanation
Indices: 56358110--56358204 Score: 140
Period size: 24 Copynumber: 4.0 Consensus size: 24
56358100 GAGGAAGTGC
56358110 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
56358134 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
56358157 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
56358181 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
56358205 ATGATAAAGC
Statistics
Matches: 65, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
23 23 0.35
24 31 0.48
25 11 0.17
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:56358432 original size:31 final size:31
Alignment explanation
Indices: 56358397--56358460 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
56358387 CGTTTACAGT
*
56358397 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGACCCAGTAATATGAAATATGA
**
56358428 AAAGGCTTCGACCCAGTGTTATGAAATATGA
1 AAAGGCTTCGACCCAGTAATATGAAATATGA
56358459 AA
1 AA
56358461 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGACCCAGTAATATGAAATATGA
Found at i:56361473 original size:48 final size:48
Alignment explanation
Indices: 56361332--56361562 Score: 208
Period size: 48 Copynumber: 4.9 Consensus size: 48
56361322 AACATAGTAA
** *
56361332 GATGCCAATGTTATATCCCAGATATGGTCTTACATGGGATCACAAATC
1 GATGCCAATGCCATATCCCAGATATGGTCTTACATGGGATCACATATC
* * * * * *
56361380 GAAGCC-A----ATAGCCCAGCTATGGTCTTACACGATG-TCTCATATC
1 GATGCCAATGCCATATCCCAGATATGGTCTTACATG-GGATCACATATC
* *
56361423 GATGCCAATGCCATATCCTAGATATGGTCTTACATGGGATCACATGTC
1 GATGCCAATGCCATATCCCAGATATGGTCTTACATGGGATCACATATC
* * * * * *
56361471 GATGCTAATGCCATGTCCCAAACATGATCTTACATGGGATCTCATAAT-
1 GATGCCAATGCCATATCCCAGATATGGTCTTACATGGGATCACAT-ATC
* *
56361519 GATGCCAATGCCA-AGTCTCAGACATGGTCTTACATGGGATCACA
1 GATGCCAATGCCATA-TCCCAGATATGGTCTTACATGGGATCACA
56361563 CATAACCCTA
Statistics
Matches: 145, Mismatches: 29, Indels: 18
0.76 0.15 0.09
Matches are distributed among these distances:
43 33 0.23
44 2 0.01
47 2 0.01
48 107 0.74
49 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.27
Consensus pattern (48 bp):
GATGCCAATGCCATATCCCAGATATGGTCTTACATGGGATCACATATC
Found at i:56366850 original size:24 final size:25
Alignment explanation
Indices: 56366790--56366855 Score: 80
Period size: 24 Copynumber: 2.6 Consensus size: 25
56366780 CTCACCACAA
*
56366790 CTCGTATGAGCTTACCAATATATCAG
1 CTCGTATGAGCTTA-CTATATATCAG
* * *
56366816 CTCATAAGAGCTTACTAT-TCTCAG
1 CTCGTATGAGCTTACTATATATCAG
56366840 CTCGTATGAGCTTACT
1 CTCGTATGAGCTTACT
56366856 GATTTTGTAG
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
24 19 0.56
25 3 0.09
26 12 0.35
ACGTcount: A:0.27, C:0.24, G:0.15, T:0.33
Consensus pattern (25 bp):
CTCGTATGAGCTTACTATATATCAG
Found at i:56367534 original size:18 final size:18
Alignment explanation
Indices: 56367513--56367549 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
56367503 GAGTAAACAA
*
56367513 TGCAATAACAGTAATCAG
1 TGCAATAACAGTAAGCAG
*
56367531 TGCAGTAACAGTAAGCAG
1 TGCAATAACAGTAAGCAG
56367549 T
1 T
56367550 ATGCAAGTCC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.41, C:0.16, G:0.22, T:0.22
Consensus pattern (18 bp):
TGCAATAACAGTAAGCAG
Found at i:56367906 original size:27 final size:27
Alignment explanation
Indices: 56367875--56368084 Score: 144
Period size: 27 Copynumber: 7.8 Consensus size: 27
56367865 CATCACATAG
**
56367875 GGGCAAAACAGTCATCCTACCATATAA
1 GGGCAAAACAGTCATTTTACCATATAA
*
56367902 GGGCAAAATAGTCATTTTACC-TCATAA
1 GGGCAAAACAGTCATTTTACCAT-ATAA
*
56367929 AGGCAAAATCA-TCATTTTACCATATAA
1 GGGCAAAA-CAGTCATTTTACCATATAA
* * * *
56367956 GAGCAAAATC-GTCAATTTAACACATAA
1 GGGCAAAA-CAGTCATTTTACCATATAA
*
56367983 GGGCAAAATAGTCATTTTACCATATAA
1 GGGCAAAACAGTCATTTTACCATATAA
** * * **
56368010 ATG-AACAACCA-TTATTTTATCGCATAA
1 GGGCAA-AA-CAGTCATTTTACCATATAA
* * *
56368037 GGGCAAAACCA-TCATTTTAACACACAA
1 GGGCAAAA-CAGTCATTTTACCATATAA
* *
56368064 AGGCAAAATAGTCATTTTACC
1 GGGCAAAACAGTCATTTTACC
56368085 TTACAGGGGT
Statistics
Matches: 143, Mismatches: 31, Indels: 18
0.74 0.16 0.09
Matches are distributed among these distances:
26 4 0.03
27 134 0.94
28 5 0.03
ACGTcount: A:0.42, C:0.20, G:0.12, T:0.26
Consensus pattern (27 bp):
GGGCAAAACAGTCATTTTACCATATAA
Found at i:56367962 original size:54 final size:54
Alignment explanation
Indices: 56367870--56368085 Score: 185
Period size: 54 Copynumber: 4.0 Consensus size: 54
56367860 ACATACATCA
* ** *
56367870 CATAGGGGCAAAA-CAGTCATCCTACCATATAAGGGCAAAATAGTCATTTTACCT
1 CATAAGGGCAAAATCA-TCATTTTACCATATAAGAGCAAAATAGTCATTTTACCT
* * * * *
56367924 CATAAAGGCAAAATCATCATTTTACCATATAAGAGCAAAATCGTCAATTTAACA
1 CATAAGGGCAAAATCATCATTTTACCATATAAGAGCAAAATAGTCATTTTACCT
* * * *
56367978 CATAAGGGCAAAAT-AGTCATTTTACCATATAA-ATG-AACAACCA-TTATTTTATCG
1 CATAAGGGCAAAATCA-TCATTTTACCATATAAGA-GCAA-AA-TAGTCATTTTACCT
* *
56368032 CATAAGGGCAAAACCATCATTTTAACACACA-AAG-GCAAAATAGTCATTTTACCT
1 CATAAGGGCAAAATCATCATTTT-AC-CATATAAGAGCAAAATAGTCATTTTACCT
56368086 TACAGGGGTG
Statistics
Matches: 129, Mismatches: 22, Indels: 22
0.75 0.13 0.13
Matches are distributed among these distances:
53 5 0.04
54 112 0.87
55 9 0.07
56 3 0.02
ACGTcount: A:0.42, C:0.20, G:0.12, T:0.26
Consensus pattern (54 bp):
CATAAGGGCAAAATCATCATTTTACCATATAAGAGCAAAATAGTCATTTTACCT
Found at i:56368027 original size:81 final size:81
Alignment explanation
Indices: 56367898--56368085 Score: 236
Period size: 81 Copynumber: 2.3 Consensus size: 81
56367888 ATCCTACCAT
* *
56367898 ATAAGGGCAAAATAGTCATTTTACCTCATAAAGGCAAAATCATCATTTTACCATATAAGAGCAAA
1 ATAAGGGCAAAATAGTCATTTTACCTCATAAAGGCAAAACCATCATTTTACCACATAAGAGCAAA
* *
56367963 ATCGTCAATTTAACAC
66 ACCATCAATTTAACAC
* * * * *
56367979 ATAAGGGCAAAATAGTCATTTTACCAT-ATAAATG-AACAACCATTATTTTATCGCATAAGGGCA
1 ATAAGGGCAAAATAGTCATTTTACC-TCATAAAGGCAA-AACCATCATTTTACCACATAAGAGCA
*
56368042 AAACCATCATTTTAACAC
64 AAACCATCAATTTAACAC
* *
56368060 ACAAAGGCAAAATAGTCATTTTACCT
1 ATAAGGGCAAAATAGTCATTTTACCT
56368086 TACAGGGGTG
Statistics
Matches: 93, Mismatches: 12, Indels: 5
0.85 0.11 0.05
Matches are distributed among these distances:
80 3 0.03
81 89 0.96
82 1 0.01
ACGTcount: A:0.43, C:0.19, G:0.11, T:0.28
Consensus pattern (81 bp):
ATAAGGGCAAAATAGTCATTTTACCTCATAAAGGCAAAACCATCATTTTACCACATAAGAGCAAA
ACCATCAATTTAACAC
Found at i:56368103 original size:27 final size:27
Alignment explanation
Indices: 56368073--56368218 Score: 107
Period size: 27 Copynumber: 5.4 Consensus size: 27
56368063 AAGGCAAAAT
*
56368073 AGTCATTTTACCTTACAGGGGTGTTAC
1 AGTCATTTTACCTTACAGGGGTATTAC
**
56368100 AGTCGCTTTACCTTACAGGGGTATTAC
1 AGTCATTTTACCTTACAGGGGTATTAC
* * ** *
56368127 AGTCATTATACCCTATGGGGGTATTTC
1 AGTCATTTTACCTTACAGGGGTATTAC
* * * **
56368154 GGTCATTTTACCCTA-TGGGGTATTTT
1 AGTCATTTTACCTTACAGGGGTATTAC
* * * **
56368180 GGTCATTTTACCCTA-TGGGAGTATTTT
1 AGTCATTTTACCTTACAGGG-GTATTAC
56368207 AGTCATTTTACC
1 AGTCATTTTACC
56368219 CTATGAGGGT
Statistics
Matches: 103, Mismatches: 15, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
26 28 0.27
27 75 0.73
ACGTcount: A:0.21, C:0.18, G:0.21, T:0.40
Consensus pattern (27 bp):
AGTCATTTTACCTTACAGGGGTATTAC
Found at i:56368183 original size:26 final size:26
Alignment explanation
Indices: 56368128--56368239 Score: 161
Period size: 27 Copynumber: 4.2 Consensus size: 26
56368118 GGGTATTACA
* *
56368128 GTCATTATACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTAT-GGGGTATTTTG
56368155 GTCATTTTACCCTATGGGGTATTTTG
1 GTCATTTTACCCTATGGGGTATTTTG
*
56368181 GTCATTTTACCCTATGGGAGTATTTTA
1 GTCATTTTACCCTATGGG-GTATTTTG
*
56368208 GTCATTTTACCCTATGAGGGTATGTTG
1 GTCATTTTACCCTATG-GGGTATTTTG
56368235 GTCAT
1 GTCAT
56368240 CATTTCGGCC
Statistics
Matches: 78, Mismatches: 5, Indels: 4
0.90 0.06 0.05
Matches are distributed among these distances:
26 28 0.36
27 48 0.62
28 2 0.03
ACGTcount: A:0.19, C:0.16, G:0.23, T:0.42
Consensus pattern (26 bp):
GTCATTTTACCCTATGGGGTATTTTG
Found at i:56368192 original size:53 final size:54
Alignment explanation
Indices: 56368128--56368239 Score: 172
Period size: 53 Copynumber: 2.1 Consensus size: 54
56368118 GGGTATTACA
* * *
56368128 GTCATTATACCCTATGGGGGTATTTCGGTCATTTTACCCTATG-GGGTATTTTG
1 GTCATTATACCCTATGGGAGTATTTCAGTCATTTTACCCTATGAGGGTATGTTG
* *
56368181 GTCATTTTACCCTATGGGAGTATTTTAGTCATTTTACCCTATGAGGGTATGTTG
1 GTCATTATACCCTATGGGAGTATTTCAGTCATTTTACCCTATGAGGGTATGTTG
56368235 GTCAT
1 GTCAT
56368240 CATTTCGGCC
Statistics
Matches: 53, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
53 39 0.74
54 14 0.26
ACGTcount: A:0.19, C:0.16, G:0.23, T:0.42
Consensus pattern (54 bp):
GTCATTATACCCTATGGGAGTATTTCAGTCATTTTACCCTATGAGGGTATGTTG
Found at i:56372683 original size:47 final size:47
Alignment explanation
Indices: 56372629--56373039 Score: 624
Period size: 47 Copynumber: 8.6 Consensus size: 47
56372619 TATTTGAATA
56372629 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
56372676 AATGTGAAAGTGTATATATATATGTGATAAGGCCTAATGGCCGACGTGATG
1 AATGTGAAAGTG----TATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
56372727 AATGTGAGAGTGTATATATGTGATAAGGCCTAATGGCCGACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
56372774 AATGTGAGAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
56372821 AATGTGAAAGCGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
56372868 AATGTGAAAGTGTATATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG----TATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
56372919 AATGTGAGAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * *
56372966 AATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
56373013 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
56373040 TCCCGAAGGG
Statistics
Matches: 338, Mismatches: 18, Indels: 16
0.91 0.05 0.04
Matches are distributed among these distances:
47 247 0.73
51 91 0.27
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:56372892 original size:145 final size:145
Alignment explanation
Indices: 56372629--56373028 Score: 637
Period size: 145 Copynumber: 2.8 Consensus size: 145
56372619 TATTTGAATA
*
56372629 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAGAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG----TA
*
56372694 TATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAGAGTG----TATATATGTGATAAGG
62 TATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTATATATATATGTGATAAGG
56372755 CCTAATGGCCGACGTGATG
127 CCTAATGGCCGACGTGATG
*
56372774 AATGTGAGAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGCGTATATA
1 AATGTGAGAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
*
56372839 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGTGATAAGGCCTA
66 TGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTATATATATATGTGATAAGGCCTA
*
56372904 ATGGCCGATGTGATG
131 ATGGCCGACGTGATG
56372919 AATGTGAGAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAGAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* * * * * *
56372984 TGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA
66 TGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTATA
56373029 AATGTGATAA
Statistics
Matches: 238, Mismatches: 13, Indels: 8
0.92 0.05 0.03
Matches are distributed among these distances:
141 45 0.19
145 193 0.81
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (145 bp):
AATGTGAGAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
TGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTATATATATATGTGATAAGGCCTA
ATGGCCGACGTGATG
Found at i:56372956 original size:192 final size:192
Alignment explanation
Indices: 56372629--56373039 Score: 714
Period size: 192 Copynumber: 2.1 Consensus size: 192
56372619 TATTTGAATA
56372629 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
56372694 TATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAGAGTGTATATATGTGATAAGGCCTA
66 TATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAGAGTGTATATATGTGATAAGGCCTA
* * * * *
56372759 ATGGCCGACGTGATGAATGTGAGAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
131 ATGGCCGACGTGATGAATGTGAAAGTGTATATATGTGACAAGGCCGAATGGCCAACGTGATG
*
56372821 AATGTGAAAGCGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
*
56372886 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAGAGTGTATATATGTGATAAGGCCTA
66 TATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAGAGTGTATATATGTGATAAGGCCTA
* * *
56372951 ATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATG
131 ATGGCCGACGTGATGAATGTGAAAGTGTATATATGTGACAAGGCCGAATGGCCAACGTGATG
* *
56373013 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
56373040 TCCCGAAGGG
Statistics
Matches: 206, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
192 206 1.00
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (192 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
TATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAGAGTGTATATATGTGATAAGGCCTA
ATGGCCGACGTGATGAATGTGAAAGTGTATATATGTGACAAGGCCGAATGGCCAACGTGATG
Found at i:56373214 original size:37 final size:37
Alignment explanation
Indices: 56373158--56373236 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 37
56373148 CCGAGCTCTA
* * *
56373158 AAGACCCGATGACTACGTGTGG-GAATTTTGTTCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
56373195 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
56373232 AAGAC
1 AAGAC
56373237 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 36 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.18, G:0.30, T:0.27
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:56376497 original size:63 final size:63
Alignment explanation
Indices: 56376394--56376520 Score: 218
Period size: 63 Copynumber: 2.0 Consensus size: 63
56376384 GAGGCCAAAA
* *
56376394 TTAGCATGGGGGAAGCCATGGATAGGGCTTTTAAGATTTTCAAGCTCAATAGTAAGTCCGTTC
1 TTAGCATGGGGGAAGCCAGGGATAGGGCTTTCAAGATTTTCAAGCTCAATAGTAAGTCCGTTC
* *
56376457 TTAGCATGGGGGAAGCCAGGGCTAGGGCTTTCAAGCTTTTCAAGCTCAATAGTAAGTCCGTTC
1 TTAGCATGGGGGAAGCCAGGGATAGGGCTTTCAAGATTTTCAAGCTCAATAGTAAGTCCGTTC
56376520 T
1 T
56376521 AACCCCGTTT
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
63 60 1.00
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (63 bp):
TTAGCATGGGGGAAGCCAGGGATAGGGCTTTCAAGATTTTCAAGCTCAATAGTAAGTCCGTTC
Found at i:56377729 original size:64 final size:64
Alignment explanation
Indices: 56377584--56377831 Score: 182
Period size: 68 Copynumber: 3.8 Consensus size: 64
56377574 TAGATGGAAC
* * * * * *
56377584 GTAGCTAGGTCACATGTATGGTGCTGA-GTGCACATCATGT-GTACAAGAGAGCTACAAGACATT
1 GTAGCTAGGTCGCATGGATGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGCTAC--GAGA-T
*
56377647 ATGAT
61 A-AAT
* * * *
56377652 GTAGCTAGGTCGCATGGTTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATATAT
1 GTAGCTAGGTCGCATGGATGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAAAT
* * * * *
56377716 GTAGCTAGGTCGCATGCATGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGATAA
1 GTAGCTAGGTCGCATGGATGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGATAA
56377781 AT
63 AT
* * * *
56377783 -TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGA
1 GTAGCTAGGTCGCATGGATGGTACT-ATGTGTACACCATGTAG-ACAAGAGA
56377832 ATCGAACTAT
Statistics
Matches: 145, Mismatches: 28, Indels: 19
0.76 0.15 0.10
Matches are distributed among these distances:
62 1 0.01
63 17 0.12
64 24 0.17
65 2 0.01
66 22 0.15
67 34 0.23
68 44 0.30
69 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.25
Consensus pattern (64 bp):
GTAGCTAGGTCGCATGGATGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAAAT
Found at i:56378854 original size:15 final size:16
Alignment explanation
Indices: 56378836--56378865 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
56378826 ACGGAAACGA
56378836 TGGTAT-ATGAAATAT
1 TGGTATAATGAAATAT
56378851 TGGTATAATGAAATA
1 TGGTATAATGAAATA
56378866 AATGATATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.43, C:0.00, G:0.20, T:0.37
Consensus pattern (16 bp):
TGGTATAATGAAATAT
Found at i:56381053 original size:46 final size:46
Alignment explanation
Indices: 56380936--56381059 Score: 176
Period size: 46 Copynumber: 2.7 Consensus size: 46
56380926 TAACCCGCCC
* * * ** *
56380936 TAAGTGAACTTGGACTCAACTCAACAAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCA
* *
56380982 TAAGTGAACTCGGACACAACTCAACGAGTTCGAACATTCGCATCCG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCA
56381028 TAAGTGAACTCGGACTCAACTCAACGAGTTCG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCG
56381060 GATGCTCAAC
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 69 1.00
ACGTcount: A:0.31, C:0.27, G:0.21, T:0.21
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCA
Found at i:56388016 original size:46 final size:44
Alignment explanation
Indices: 56387947--56388120 Score: 181
Period size: 46 Copynumber: 3.8 Consensus size: 44
56387937 GTAACCTGCC
*
56387947 CCTAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCTAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTT-GCAT
*
56387992 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CC-TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTGCAT
* * * ** *
56388042 -CTGA-CGAACTCAGACTCAACTCAACGAGTTCGAACATTTGCAT
1 CCTAAGTGAACTCGGACTCAACTCAACGAGTTCGGGC-GTTGCAT
56388085 CCGTAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CC-TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
56388121 ATGCTCAACC
Statistics
Matches: 107, Mismatches: 13, Indels: 17
0.78 0.09 0.12
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 4 0.04
46 58 0.54
47 26 0.24
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (44 bp):
CCTAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTGCAT
Found at i:56388062 original size:93 final size:93
Alignment explanation
Indices: 56387954--56388124 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
56387944 GCCCCTAAGT
* ** *
56387954 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
56388019 CGAGTTCGGATGCCTAGTTACATCTGAC
66 CGAGTTCGGATGCCTAGTTACATCTGAC
* * *
56388047 GAACTCAGACTCAACTCAACGAGTTCGAACATTTGCATCCGTAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
56388112 CGAGTTCGGATGC
66 CGAGTTCGGATGC
56388125 TCAACCATCT
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTGAC
Found at i:56411577 original size:27 final size:27
Alignment explanation
Indices: 56411543--56411888 Score: 421
Period size: 27 Copynumber: 12.9 Consensus size: 27
56411533 AAATGATTAC
*
56411543 TTTGCCCTTATGGGGTAAAATGACTGT
1 TTTGCCCTTATGAGGTAAAATGACTGT
*
56411570 TCTT-CCCTTATGAGGTAAAATGACTAT
1 T-TTGCCCTTATGAGGTAAAATGACTGT
*
56411597 TTTGCCCTTAT-AGGTAAAATGACTAT
1 TTTGCCCTTATGAGGTAAAATGACTGT
*
56411623 TTTGCCCTTATGAGGTAAACTGACTGT
1 TTTGCCCTTATGAGGTAAAATGACTGT
* * *
56411650 TTCGCCTTTATGGGGTAAAATGACTGT
1 TTTGCCCTTATGAGGTAAAATGACTGT
* *
56411677 TTTGCCCTTGT-AGGGTAAAATGACAGT
1 TTTGCCCTTATGA-GGTAAAATGACTGT
* * *
56411704 TTTGCTCTTATAAGGTAAAATAACTGT
1 TTTGCCCTTATGAGGTAAAATGACTGT
56411731 TTTGCCCTTATGAGGTAAAATGACTGT
1 TTTGCCCTTATGAGGTAAAATGACTGT
* * * *
56411758 TTTGCCCTTTTGGGGTAAAATGATTAT
1 TTTGCCCTTATGAGGTAAAATGACTGT
* * *
56411785 TTTGCTCTTATGAGGTAAAATGATTAT
1 TTTGCCCTTATGAGGTAAAATGACTGT
56411812 TTTGCCCTTATGAGGTAAAATGACTGT
1 TTTGCCCTTATGAGGTAAAATGACTGT
* * *
56411839 TTTGCCCTTATGTGGTAAAATGATTAT
1 TTTGCCCTTATGAGGTAAAATGACTGT
* *
56411866 TTTTCCCTT-TTATGGTAAAATGA
1 TTTGCCCTTATGA-GGTAAAATGA
56411889 ATATTTTACC
Statistics
Matches: 277, Mismatches: 36, Indels: 12
0.85 0.11 0.04
Matches are distributed among these distances:
26 29 0.10
27 245 0.88
28 3 0.01
ACGTcount: A:0.26, C:0.14, G:0.20, T:0.40
Consensus pattern (27 bp):
TTTGCCCTTATGAGGTAAAATGACTGT
Found at i:56416956 original size:40 final size:40
Alignment explanation
Indices: 56416901--56417092 Score: 235
Period size: 40 Copynumber: 4.8 Consensus size: 40
56416891 ATTTGAATGA
*
56416901 GATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATTT
1 GATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTT
* *
56416941 GATCCGGGCTAAGTCCCAAAGGCATTTGTGCTAGTGATTT
1 GATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTT
* *
56416981 GATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
1 GATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTT
* * * * *
56417022 -ATCCGGGCTAAGACCCGAAGGCATTCGTTCGAGTTGCTAT
1 GATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTT
* * *
56417062 G-CCCGGGTTAAGACCCGAAGGCAATTGTGCT
1 GATCCGGGCTAAGACCCGAAGGCATTTGTGCT
56417093 TGTGGTAATA
Statistics
Matches: 136, Mismatches: 14, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
40 131 0.96
41 5 0.04
ACGTcount: A:0.22, C:0.22, G:0.30, T:0.26
Consensus pattern (40 bp):
GATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTT
Found at i:56420702 original size:48 final size:48
Alignment explanation
Indices: 56420425--56420750 Score: 251
Period size: 48 Copynumber: 6.9 Consensus size: 48
56420415 GGGATAAGTT
* * * *
56420425 GCCGATGCCATGTCCCAGACATTGTCTTACACTGGCTA-GCATCATCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGC-ACTCATC-TCTAC
* * * * * * * *
56420474 GCGGATGCCATGTCCTAGACATGGTCTTATACTAGCTCTCGTATATAC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCATCTCTAC
* * * * *
56420522 GTGCTGATG-CATGTCCTAGACAT-ATCTTACACTAGCA--CAACTCTTA-
1 --GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCATCTC-TAC
* * * * * *
56420568 GTCGAT-ACGTGTCCCAGACA-CGTCTTACACTGGCTA-TCATCATCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGC-ACTCATC-TCTAC
*
56420615 GCCGATG-CATGTCCTAGACAT-GTCTTACACTGGCACTCATCTCTAC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCATCTCTAC
*
56420661 ACCGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCATCTCTAC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCATCTCTAC
** * *
56420709 ATCGATGCCATGTCCCAGACATGGTCCTACATTGGCACTCAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCAT
56420751 AATGTGGCTG
Statistics
Matches: 224, Mismatches: 38, Indels: 31
0.76 0.13 0.11
Matches are distributed among these distances:
44 26 0.12
45 1 0.00
46 16 0.07
47 51 0.23
48 77 0.34
49 47 0.21
50 6 0.03
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCATCTCTAC
Found at i:56420714 original size:141 final size:142
Alignment explanation
Indices: 56420427--56420744 Score: 342
Period size: 141 Copynumber: 2.2 Consensus size: 142
56420417 GATAAGTTGC
* * *
56420427 CGATGCCATGTCCCAGACATTGTCTTACACTGGCTAGCATCATCGAGGCGGATGCCATGTCCTAG
1 CGATGACATGTCCCAGACATCGTCTTACACTGGCTAGCATCATCGAGGCCGATGCCATGTCCTAG
* * * * * *
56420492 ACATGGTCTTATACTAGCTCTCGTATATACGTGCTGATGCATGTCCTAGACATATCTTACACTAG
66 ACATGGTCTTACACTAGCACTCATATATACG-ACCGATGCATGTCCCAGACATATCTTACACTAG
*
56420557 CACAACTCTTAGT
130 CACAACTCTTAAT
* *
56420570 CGAT-ACGTGTCCCAGACA-CGTCTTACACTGGCTATCATCATCGAGGCCGATG-CATGTCCTAG
1 CGATGACATGTCCCAGACATCGTCTTACACTGGCTAGCATCATCGAGGCCGATGCCATGTCCTAG
* * * * *
56420632 ACAT-GTCTTACACTGGCACTCATCTCTAC-ACCGATGCCATGTCCCAGACATGGTCTTACACTG
66 ACATGGTCTTACACTAGCACTCATATATACGACCGATG-CATGTCCCAGACAT-ATCTTACACTA
*
56420695 GCAC-TCATCTCTACAT
129 GCACAAC-TCT-TA-AT
* * * *
56420711 CGATGCCATGTCCCAGACATGGTCCTACATTGGC
1 CGATGACATGTCCCAGACATCGTCTTACACTGGC
56420745 ACTCATAATG
Statistics
Matches: 145, Mismatches: 23, Indels: 14
0.80 0.13 0.08
Matches are distributed among these distances:
137 5 0.03
138 14 0.10
139 35 0.24
140 16 0.11
141 36 0.25
142 24 0.17
143 15 0.10
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (142 bp):
CGATGACATGTCCCAGACATCGTCTTACACTGGCTAGCATCATCGAGGCCGATGCCATGTCCTAG
ACATGGTCTTACACTAGCACTCATATATACGACCGATGCATGTCCCAGACATATCTTACACTAGC
ACAACTCTTAAT
Found at i:56441871 original size:50 final size:50
Alignment explanation
Indices: 56441786--56442039 Score: 251
Period size: 50 Copynumber: 5.1 Consensus size: 50
56441776 GCTAAATGAC
* * * * * **
56441786 CTTGTATATTCGGCCACATAGGTATGTACATATGTGATGTTGTATTGGAT
1 CTTGCATATTCGGCCATATAGGTAAGCACATATGTGATATTAAATTGGAT
* * * * *
56441836 CTTGAATATTCGGCCATGA-AGGTATGCACAAATGTGATATTATATTTGAAT
1 CTTGCATATTCGGCCAT-ATAGGTAAGCACATATGTGATATTA-AATTGGAT
* * * * * *
56441887 -TTGTATATTCTGCCATATAAGTAAGTACATATGTGATGTTAAATTTGAT
1 CTTGCATATTCGGCCATATAGGTAAGCACATATGTGATATTAAATTGGAT
* *
56441936 CTTGCATATTCGACCATATAGGTAAGCACATATGTGATATTAAATTTGAT
1 CTTGCATATTCGGCCATATAGGTAAGCACATATGTGATATTAAATTGGAT
* * * * *
56441986 CTTGCATATTCAGCCATATAGGTAAGCTCATATTTGATATTATATTTGAT
1 CTTGCATATTCGGCCATATAGGTAAGCACATATGTGATATTAAATTGGAT
56442036 CTTG
1 CTTG
56442040 TATAATTGGC
Statistics
Matches: 170, Mismatches: 30, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
49 6 0.04
50 158 0.93
51 6 0.04
ACGTcount: A:0.30, C:0.12, G:0.18, T:0.39
Consensus pattern (50 bp):
CTTGCATATTCGGCCATATAGGTAAGCACATATGTGATATTAAATTGGAT
Found at i:56441965 original size:100 final size:100
Alignment explanation
Indices: 56441786--56442039 Score: 316
Period size: 100 Copynumber: 2.5 Consensus size: 100
56441776 GCTAAATGAC
* * * * * *
56441786 CTTGTATATTCGGCCACATAGGTATGTACATATGTGATGTTGTATTGGATCTTGAATATTCGGCC
1 CTTGTATATTCAGCCATATAGGTAAGTACATATGTGATGTTATATTTGATCTTGAATATTCGACC
* *
56441851 ATGAAGGTATGCACAAATGTGATATTATATTTGAAT
66 ATGAAGGTAAGCACAAATGTGATATTAAATTTG-AT
* * * *
56441887 -TTGTATATTCTGCCATATAAGTAAGTACATATGTGATGTTAAATTTGATCTTGCATATTCGACC
1 CTTGTATATTCAGCCATATAGGTAAGTACATATGTGATGTTATATTTGATCTTGAATATTCGACC
*
56441951 AT-ATAGGTAAGCACATATGTGATATTAAATTTGAT
66 ATGA-AGGTAAGCACAAATGTGATATTAAATTTGAT
* * *
56441986 CTTGCATATTCAGCCATATAGGTAAGCT-CATATTTGATATTATATTTGATCTTG
1 CTTGTATATTCAGCCATATAGGTAAG-TACATATGTGATGTTATATTTGATCTTG
56442040 TATAATTGGC
Statistics
Matches: 132, Mismatches: 18, Indels: 7
0.84 0.11 0.04
Matches are distributed among these distances:
99 3 0.02
100 128 0.97
101 1 0.01
ACGTcount: A:0.30, C:0.12, G:0.18, T:0.39
Consensus pattern (100 bp):
CTTGTATATTCAGCCATATAGGTAAGTACATATGTGATGTTATATTTGATCTTGAATATTCGACC
ATGAAGGTAAGCACAAATGTGATATTAAATTTGAT
Found at i:56448485 original size:49 final size:50
Alignment explanation
Indices: 56448351--56448498 Score: 194
Period size: 50 Copynumber: 3.0 Consensus size: 50
56448341 ATGATCTATT
* **
56448351 GTGAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTATTAGATG
1 GTGAGGTCGCAGGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATG
*
56448401 GTGAGGTCAC-GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACT-
1 GTGAGGTCGCAG-GTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA-TG
* * *
56448451 GT-TGGTCGCAGGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGAT
1 GTGAGGTCGCAGGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT
56448499 AGCTTCAGCT
Statistics
Matches: 87, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
48 1 0.01
49 39 0.45
50 46 0.53
51 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.31, T:0.28
Consensus pattern (50 bp):
GTGAGGTCGCAGGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATG
Found at i:56451077 original size:14 final size:15
Alignment explanation
Indices: 56451053--56451081 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
56451043 TTTTATTGTG
56451053 TTTATTGTGTGTGAA
1 TTTATTGTGTGTGAA
56451068 TTTA-TGTGTGTGAA
1 TTTATTGTGTGTGAA
56451082 AATCTTGTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.21, C:0.00, G:0.28, T:0.52
Consensus pattern (15 bp):
TTTATTGTGTGTGAA
Found at i:56453463 original size:27 final size:27
Alignment explanation
Indices: 56453411--56453519 Score: 132
Period size: 27 Copynumber: 4.1 Consensus size: 27
56453401 CATGGCTACT
** *
56453411 AGAACAGATAA-TGTGATAGAGTCACC
1 AGAACAGATAATTGTGGCAGAGCCACC
*
56453437 AGAACAGATAATTGTGGTAGAGCCACC
1 AGAACAGATAATTGTGGCAGAGCCACC
*
56453464 AAAACAGAT-ATATGTGGCAGAGCCACC
1 AGAACAGATAAT-TGTGGCAGAGCCACC
* *
56453491 AGATCAGATAATTGTGGCATAGCCACC
1 AGAACAGATAATTGTGGCAGAGCCACC
56453518 AG
1 AG
56453520 GACGTTTCCT
Statistics
Matches: 73, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
26 13 0.18
27 58 0.79
28 2 0.03
ACGTcount: A:0.39, C:0.19, G:0.24, T:0.18
Consensus pattern (27 bp):
AGAACAGATAATTGTGGCAGAGCCACC
Found at i:56453499 original size:54 final size:53
Alignment explanation
Indices: 56453413--56453518 Score: 149
Period size: 54 Copynumber: 2.0 Consensus size: 53
56453403 TGGCTACTAG
* * *
56453413 AACAGATAATGTGATAGAGTCACCAGAACAGATAATTGTGGTAGAGCCACCAA
1 AACAGATAATGTGACAGAGCCACCAGAACAGATAATTGTGGCAGAGCCACCAA
* * *
56453466 AACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCA
1 AACAGATA-ATGTGACAGAGCCACCAGAACAGATAATTGTGGCAGAGCCACCA
56453519 GGACGTTTCC
Statistics
Matches: 46, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
53 8 0.17
54 38 0.83
ACGTcount: A:0.39, C:0.20, G:0.23, T:0.19
Consensus pattern (53 bp):
AACAGATAATGTGACAGAGCCACCAGAACAGATAATTGTGGCAGAGCCACCAA
Found at i:56454780 original size:28 final size:29
Alignment explanation
Indices: 56454730--56454790 Score: 70
Period size: 30 Copynumber: 2.1 Consensus size: 29
56454720 GGCTATGGAG
* *
56454730 AAAAGAAGAGGAGAAAGTAGATGGAGAGAA
1 AAAAAAAGAGGAGAAAG-AGATGGACAGAA
* *
56454760 AAAAAAAGAGGAGGAAG-GATGGTCAGAA
1 AAAAAAAGAGGAGAAAGAGATGGACAGAA
56454788 AAA
1 AAA
56454791 CGGCACAACT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 12 0.44
30 15 0.56
ACGTcount: A:0.57, C:0.02, G:0.34, T:0.07
Consensus pattern (29 bp):
AAAAAAAGAGGAGAAAGAGATGGACAGAA
Found at i:56455613 original size:50 final size:50
Alignment explanation
Indices: 56455375--56455601 Score: 260
Period size: 50 Copynumber: 4.5 Consensus size: 50
56455365 CGTTACATGT
* * * * * *
56455375 ACATATGTGATGTTGTATTGGATCTTGAAAATTCGGCCATGA-AGGTATGC
1 ACATATGTGATATTATATTTGATCTTGCATATTCGGCCAT-ATAGGTAAGC
* * * * *
56455425 ACAAATGTGATATTATATTTGAAT-TTGTATATCCGGCCATATAAGTAAGT
1 ACATATGTGATATTATATTTG-ATCTTGCATATTCGGCCATATAGGTAAGC
* * * * *
56455475 ACATATATGATGTTAAATTTGATCTTGCATATTCAGCCATATTGGTAAGC
1 ACATATGTGATATTATATTTGATCTTGCATATTCGGCCATATAGGTAAGC
*
56455525 ACATATGTGATATTAAATTTGATCTTGCATATTCGGCCATATAGGTAAGC
1 ACATATGTGATATTATATTTGATCTTGCATATTCGGCCATATAGGTAAGC
*
56455575 TCATATGTGATATTATATTTGATCTTG
1 ACATATGTGATATTATATTTGATCTTG
56455602 TATAATTGGC
Statistics
Matches: 148, Mismatches: 26, Indels: 6
0.82 0.14 0.03
Matches are distributed among these distances:
49 3 0.02
50 143 0.97
51 2 0.01
ACGTcount: A:0.31, C:0.12, G:0.19, T:0.38
Consensus pattern (50 bp):
ACATATGTGATATTATATTTGATCTTGCATATTCGGCCATATAGGTAAGC
Found at i:56460268 original size:46 final size:46
Alignment explanation
Indices: 56460215--56460390 Score: 178
Period size: 46 Copynumber: 3.8 Consensus size: 46
56460205 TATTTAGGCA
*
56460215 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * * * *
56460261 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--ATG
* * *
56460306 CATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * * *
56460354 CCCGAGCTTGTTGAGTTGTGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
56460391 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 17, Indels: 14
0.77 0.12 0.10
Matches are distributed among these distances:
43 4 0.04
45 4 0.04
46 62 0.58
47 27 0.25
48 4 0.04
50 5 0.05
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
Found at i:56460368 original size:93 final size:93
Alignment explanation
Indices: 56460209--56460382 Score: 276
Period size: 93 Copynumber: 1.9 Consensus size: 93
56460199 CTAGGATATT
* * *
56460209 TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTG
1 TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTG
56460274 AGTTGAGTCCGAGTTCGTGAAATGTAAC
66 AGTTGAGTCCGAGTTCGTGAAATGTAAC
* * * *
56460302 TAGGCATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAACGCCCGAGCTTGTTG
1 TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTG
*
56460367 AGTTGTGTCCGAGTTC
66 AGTTGAGTCCGAGTTC
56460383 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (93 bp):
TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTG
AGTTGAGTCCGAGTTCGTGAAATGTAAC
Found at i:56465834 original size:46 final size:46
Alignment explanation
Indices: 56465781--56465956 Score: 169
Period size: 46 Copynumber: 3.8 Consensus size: 46
56465771 TATTTGGGCA
* *
56465781 TCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * * * *
56465827 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--ATG
* * *
56465872 CATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * * *
56465920 CCCGAGCTTGTTGAGTTGTGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
56465957 GCGGGTTACA
Statistics
Matches: 105, Mismatches: 18, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
43 4 0.04
45 4 0.04
46 61 0.58
47 27 0.26
48 4 0.04
50 5 0.05
ACGTcount: A:0.21, C:0.19, G:0.28, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
Found at i:56465936 original size:93 final size:93
Alignment explanation
Indices: 56465777--56465948 Score: 263
Period size: 93 Copynumber: 1.8 Consensus size: 93
56465767 AGGATATTTG
* * * *
56465777 GGCATCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAG
56465842 TTGAGTCCGAGTTCGTGAAATGTAACTA
66 TTGAGTCCGAGTTCGTGAAATGTAACTA
* * * *
56465870 GGCATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAACGCCCGAGCTTGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAG
*
56465935 TTGTGTCCGAGTTC
66 TTGAGTCCGAGTTC
56465949 ACTTATGGGC
Statistics
Matches: 70, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAAATGTAACTA
Found at i:56471400 original size:46 final size:46
Alignment explanation
Indices: 56471347--56471522 Score: 178
Period size: 46 Copynumber: 3.8 Consensus size: 46
56471337 TATTTGGGCA
* *
56471347 TCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * * * *
56471393 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--ATG
* * *
56471438 CATCCGAGCTCGTTGAGTTGAGTCCGAGTCCACTTATGGATGCAAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * *
56471486 CCCGAGCTCGTTGAGTTGTGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
56471523 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 17, Indels: 14
0.77 0.12 0.10
Matches are distributed among these distances:
43 4 0.04
45 4 0.04
46 62 0.58
47 27 0.25
48 4 0.04
50 5 0.05
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
Found at i:56471502 original size:93 final size:93
Alignment explanation
Indices: 56471343--56471514 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
56471333 AGGATATTTG
* * * * *
56471343 GGCATCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTCCACTTATGGATGCAAACGCCCGAACTCGTTGAG
56471408 TTGAGTCCGAGTTCGTGAAATGTAACTA
66 TTGAGTCCGAGTTCGTGAAATGTAACTA
* *
56471436 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTCCACTTATGGATGCAAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTCCACTTATGGATGCAAACGCCCGAACTCGTTGAG
*
56471501 TTGTGTCCGAGTTC
66 TTGAGTCCGAGTTC
56471515 ACTTATGGGC
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTCCACTTATGGATGCAAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAAATGTAACTA
Found at i:56472714 original size:25 final size:26
Alignment explanation
Indices: 56472669--56472720 Score: 63
Period size: 25 Copynumber: 2.0 Consensus size: 26
56472659 TTAAATACCT
*
56472669 ATATTAATAGTATTTTATTAAT-TTA
1 ATATTAATAGTATTATATTAATATTA
*
56472694 ATATTAA-AGTGATTATCTTAATATTA
1 ATATTAATAGT-ATTATATTAATATTA
56472720 A
1 A
56472721 ATATAATTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 3 0.13
25 16 0.70
26 4 0.17
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.50
Consensus pattern (26 bp):
ATATTAATAGTATTATATTAATATTA
Found at i:56472733 original size:17 final size:19
Alignment explanation
Indices: 56472687--56472735 Score: 66
Period size: 20 Copynumber: 2.6 Consensus size: 19
56472677 AGTATTTTAT
56472687 TAATTTAATATTAAAGTGA
1 TAATTTAATATTAAAGTGA
*
56472706 TTATCTTAATATTAAA-T-A
1 TAAT-TTAATATTAAAGTGA
56472724 TAATTTAATATT
1 TAATTTAATATT
56472736 TATCTTGTAG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 8 0.30
18 4 0.15
19 4 0.15
20 11 0.41
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (19 bp):
TAATTTAATATTAAAGTGA
Found at i:56474602 original size:64 final size:65
Alignment explanation
Indices: 56474524--56474707 Score: 259
Period size: 64 Copynumber: 2.8 Consensus size: 65
56474514 AGAGCTACGA
56474524 GATGTATACCATGTAGACAAGAGAGCTACGGGATAAATGTAGCTAGGTCACATGTGTGATAT-GG
1 GATGTATACCATGTAGACAAGAGAGCTACGGGATAAATGTAGCTAGGTCACATGTGTGAT-TCGG
56474588 -
65 T
*
56474588 GATGTATACCATGTAGACAAGAGAGCTACGGGATAAATGTAGCTAGGTCACATGTGTGGTTCCAG
1 GATGTATACCATGTAGACAAGAGAGCTACGGGATAAATGTAGCTAGGTCACATGTGTGATT-C-G
56474653 GT
64 GT
* * * *
56474655 GAAGGACACCATGTAGACAAGAGAGCTACGAGATAAAATG--GCTAGGTCACATG
1 GATGTATACCATGTAGACAAGAGAGCTACGGGAT-AAATGTAGCTAGGTCACATG
56474708 GGTGGTACTA
Statistics
Matches: 110, Mismatches: 5, Indels: 8
0.89 0.04 0.07
Matches are distributed among these distances:
63 1 0.01
64 59 0.54
66 15 0.14
67 30 0.27
68 5 0.05
ACGTcount: A:0.34, C:0.15, G:0.29, T:0.22
Consensus pattern (65 bp):
GATGTATACCATGTAGACAAGAGAGCTACGGGATAAATGTAGCTAGGTCACATGTGTGATTCGGT
Done.