Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 369 of 410
Found at i:113049153 original size:19 final size:19
Alignment explanation
Indices: 113049125--113049169 Score: 81
Period size: 19 Copynumber: 2.3 Consensus size: 19
113049115 CAGAAAATGC
113049125 TTTCTAGAAAATGATTTACT
1 TTTCT-GAAAATGATTTACT
113049145 TTTCTGAAAATGATTTACT
1 TTTCTGAAAATGATTTACT
113049164 TTTCTG
1 TTTCTG
113049170 GTGTTTGGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 20 0.80
20 5 0.20
ACGTcount: A:0.29, C:0.11, G:0.11, T:0.49
Consensus pattern (19 bp):
TTTCTGAAAATGATTTACT
Found at i:113055897 original size:23 final size:23
Alignment explanation
Indices: 113055815--113055901 Score: 83
Period size: 21 Copynumber: 4.0 Consensus size: 23
113055805 CCTGATCAGT
*
113055815 ATACGACACATAAAGTGCCT-AA
1 ATACGACACACAAAGTGCCTGAA
* * *
113055837 A-ACAACACACGAGGTGCCTG--
1 ATACGACACACAAAGTGCCTGAA
* *
113055857 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACAAAGTGCCTGAA
*
113055880 ATACGACACATAAAGTGCCTGA
1 ATACGACACACAAAGTGCCTGA
113055902 TCAGTAAAGC
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
20 1 0.02
21 32 0.60
22 1 0.02
23 19 0.36
ACGTcount: A:0.39, C:0.25, G:0.21, T:0.15
Consensus pattern (23 bp):
ATACGACACACAAAGTGCCTGAA
Found at i:113057374 original size:16 final size:17
Alignment explanation
Indices: 113057339--113057374 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 17
113057329 CCTAATTCTC
113057339 CCTT-TTTCTTTTCTTT
1 CCTTCTTTCTTTTCTTT
113057355 -CTTCTTTC-TTTCTTT
1 CCTTCTTTCTTTTCTTT
113057370 CCTTC
1 CCTTC
113057375 CCCTGCTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (17 bp):
CCTTCTTTCTTTTCTTT
Found at i:113058316 original size:22 final size:22
Alignment explanation
Indices: 113058273--113058328 Score: 53
Period size: 22 Copynumber: 2.6 Consensus size: 22
113058263 TAGTCATATA
* * *
113058273 ATAAATTATTAATATAACAAAT
1 ATAATTTATTATTTTAACAAAT
*
113058295 ATAATTTATTATTTTAATAAAT
1 ATAATTTATTATTTTAACAAAT
*
113058317 -T-ATTTAATATTT
1 ATAATTTATTATTT
113058329 CAATTCTATT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
20 10 0.34
21 1 0.03
22 18 0.62
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (22 bp):
ATAATTTATTATTTTAACAAAT
Found at i:113058354 original size:13 final size:14
Alignment explanation
Indices: 113058336--113058377 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
113058326 TTTCAATTCT
113058336 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
113058349 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
113058364 ATTTTAAATAATAT
1 ATTTT-AATAATAT
113058378 TATTGACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:113058362 original size:16 final size:16
Alignment explanation
Indices: 113058340--113058376 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
113058330 AATTCTATTT
113058340 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
113058357 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
113058372 TAATA
1 TAATA
113058377 TTATTGACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:113058954 original size:14 final size:14
Alignment explanation
Indices: 113058919--113058957 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
113058909 CCAGAAAAAT
*
113058919 AAATCATATTCCAG
1 AAATCATTTTCCAG
113058933 AAATCATTTTCCAG
1 AAATCATTTTCCAG
*
113058947 AAGTCATTTTC
1 AAATCATTTTC
113058958 AGTGAAACAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.36, C:0.21, G:0.08, T:0.36
Consensus pattern (14 bp):
AAATCATTTTCCAG
Found at i:113080423 original size:128 final size:128
Alignment explanation
Indices: 113080229--113080462 Score: 299
Period size: 128 Copynumber: 1.8 Consensus size: 128
113080219 GACTAATATG
* * * * * * * *
113080229 TCATCTATCAAGTCCAATTGAGGAGATGTTTTGTCTTAGGCATTGGAGTGGATGACTCCTAGAAG
1 TCATCTATCAAGTCCAATTGAGGAGATGTTTTGTCATAGACATTAGAGCGAAAGACTCCCAAAAG
* * *
113080294 ATAAAGACTTAGATGTGACTAACTAGACTAATAGTACATCGAACTAGACTCAAGAAGAATAGA
66 ATAAAGACATAGATGCGACTAACTAGACTAACAGTACATCGAACTAGACTCAAGAAGAATAGA
* * * *
113080357 TCATGTATCAAGTTCAATTGGGGATATGTTTTGTCAT-GCACATTAGAGCGAAAGACTCCCAAAA
1 TCATCTATCAAGTCCAATTGAGGAGATGTTTTGTCATAG-ACATTAGAGCGAAAGACTCCCAAAA
* *
113080421 GATAAAGACATAGATGCGACTGACTAGACTGACAGTACATCG
65 GATAAAGACATAGATGCGACTAACTAGACTAACAGTACATCG
113080463 GATTATACCC
Statistics
Matches: 88, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
127 1 0.01
128 87 0.99
ACGTcount: A:0.35, C:0.16, G:0.22, T:0.26
Consensus pattern (128 bp):
TCATCTATCAAGTCCAATTGAGGAGATGTTTTGTCATAGACATTAGAGCGAAAGACTCCCAAAAG
ATAAAGACATAGATGCGACTAACTAGACTAACAGTACATCGAACTAGACTCAAGAAGAATAGA
Found at i:113080502 original size:22 final size:22
Alignment explanation
Indices: 113080477--113080520 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
113080467 ATACCCAAGG
113080477 TGTGGATTTATTCACTTGTGAC
1 TGTGGATTTATTCACTTGTGAC
113080499 TGTGGATTTATTCACTTGTGAC
1 TGTGGATTTATTCACTTGTGAC
113080521 GTTCAAAGTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.18, C:0.14, G:0.23, T:0.45
Consensus pattern (22 bp):
TGTGGATTTATTCACTTGTGAC
Found at i:113082781 original size:21 final size:20
Alignment explanation
Indices: 113082755--113082794 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
113082745 TGGTTCAACA
*
113082755 GGTAAGAAAAAGAAATGAAAT
1 GGTAAG-AAAACAAATGAAAT
*
113082776 GGTAAGTAAACAAATGAAA
1 GGTAAGAAAACAAATGAAA
113082795 CGGTTCATGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.60, C:0.03, G:0.23, T:0.15
Consensus pattern (20 bp):
GGTAAGAAAACAAATGAAAT
Found at i:113095059 original size:76 final size:76
Alignment explanation
Indices: 113094929--113095074 Score: 181
Period size: 76 Copynumber: 1.9 Consensus size: 76
113094919 GGCCTAAAGA
* * *
113094929 CCCGCAGGCTATATGCTGGAATTATCTCCGAGTTAAATCCCGCAGGCTTTGTGCTAGTAATATAT
1 CCCGCAGGCTATATGCTGGAATTATCTCAGAGTTAAATCCCGCAGGCCTAGTGCTAGTAATATAT
113094994 CCGGGTTAAAT
66 CCGGGTTAAAT
* * *
113095005 CCCGCAGGCT-TCATGCTGGTAATATATC-CAG-GTTAAATCCTGCAGGCCTAGTGCTGGTATTA
1 CCCGCAGGCTAT-ATGCTGG-AAT-TATCTCAGAGTTAAATCCCGCAGGCCTAGTGCTAGTAATA
*
113095067 TATTCGGG
63 TATCCGGG
113095075 CCTTCGTGCC
Statistics
Matches: 60, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
75 1 0.02
76 50 0.83
77 5 0.08
78 4 0.07
ACGTcount: A:0.23, C:0.23, G:0.24, T:0.30
Consensus pattern (76 bp):
CCCGCAGGCTATATGCTGGAATTATCTCAGAGTTAAATCCCGCAGGCCTAGTGCTAGTAATATAT
CCGGGTTAAAT
Found at i:113095062 original size:38 final size:38
Alignment explanation
Indices: 113094929--113095069 Score: 155
Period size: 38 Copynumber: 3.7 Consensus size: 38
113094919 GGCCTAAAGA
*
113094929 CCCGCAGGCTATA-TGCTGG-AAT-TATCTCCGAGTTAAAT
1 CCCGCAGGCT-TAGTGCTGGTAATATATC-CAG-GTTAAAT
* * *
113094967 CCCGCAGGCTTTGTGCTAGTAATATATCCGGGTTAAAT
1 CCCGCAGGCTTAGTGCTGGTAATATATCCAGGTTAAAT
113095005 CCCGCAGGCTTCA-TGCTGGTAATATATCCAGGTTAAAT
1 CCCGCAGGCTT-AGTGCTGGTAATATATCCAGGTTAAAT
* * *
113095043 CCTGCAGGCCTAGTGCTGGTATTATAT
1 CCCGCAGGCTTAGTGCTGGTAATATAT
113095070 TCGGGCCTTC
Statistics
Matches: 89, Mismatches: 9, Indels: 10
0.82 0.08 0.09
Matches are distributed among these distances:
37 2 0.02
38 78 0.88
39 5 0.06
40 4 0.04
ACGTcount: A:0.24, C:0.23, G:0.23, T:0.30
Consensus pattern (38 bp):
CCCGCAGGCTTAGTGCTGGTAATATATCCAGGTTAAAT
Found at i:113095120 original size:43 final size:43
Alignment explanation
Indices: 113095067--113095176 Score: 175
Period size: 43 Copynumber: 2.6 Consensus size: 43
113095057 GCTGGTATTA
*
113095067 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTAATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCAGTAATGTG
* ** *
113095110 TATTCAGGCCTTCGTGGATAGCAGGCTTCGTGCCAGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCAGTAATGTG
113095153 TATTCGGGCCTTCGTGCCTAGCAG
1 TATTCGGGCCTTCGTGCCTAGCAG
113095177 ACGTAATGCC
Statistics
Matches: 59, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 59 1.00
ACGTcount: A:0.14, C:0.25, G:0.32, T:0.30
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCAGTAATGTG
Found at i:113095552 original size:45 final size:45
Alignment explanation
Indices: 113095485--113095596 Score: 124
Period size: 45 Copynumber: 2.5 Consensus size: 45
113095475 TTGATTTGAT
* *
113095485 TATTCGGGCCTTT-GAGCTTAGCAAACTATAATACCGGTGAGAT-A
1 TATTCGGG-CTTTCGAGCCTAGCAAACTATAATACCGGTGAAATGA
** * *
113095529 CTATTCGGGCTTTCGAGCCTAGCAGGCTATAATGCTGGTGAAATGA
1 -TATTCGGGCTTTCGAGCCTAGCAAACTATAATACCGGTGAAATGA
113095575 TATT-GGGC-TTCGAGCCTAGCAA
1 TATTCGGGCTTTCGAGCCTAGCAA
113095597 GCGAAATGCC
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
43 13 0.22
44 8 0.14
45 36 0.62
46 1 0.02
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.29
Consensus pattern (45 bp):
TATTCGGGCTTTCGAGCCTAGCAAACTATAATACCGGTGAAATGA
Found at i:113095835 original size:10 final size:10
Alignment explanation
Indices: 113095806--113095835 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
113095796 TGGGTCAGGG
*
113095806 TGTGAAAGTG
1 TGTGAAAGTA
113095816 TGTGAAAGTA
1 TGTGAAAGTA
113095826 TGTGAAAGTA
1 TGTGAAAGTA
113095836 GTTGATTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.37, C:0.00, G:0.33, T:0.30
Consensus pattern (10 bp):
TGTGAAAGTA
Found at i:113096804 original size:38 final size:38
Alignment explanation
Indices: 113096781--113096942 Score: 270
Period size: 38 Copynumber: 4.3 Consensus size: 38
113096771 ATGCTAGAAT
* *
113096781 TATATCCTGGTTAAATCCCGCAGGCTTTGTGCTGGTAA
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAA
113096819 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAA
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAA
113096857 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAA
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAA
* * *
113096895 TATATCCGGGTTAAATCCCGCAGGCCTAGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAA
*
113096933 TATATTCGGG
1 TATATCCGGG
113096943 CCTTCGTGCC
Statistics
Matches: 118, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 118 1.00
ACGTcount: A:0.21, C:0.22, G:0.26, T:0.31
Consensus pattern (38 bp):
TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAA
Found at i:113096983 original size:43 final size:43
Alignment explanation
Indices: 113096935--113097038 Score: 190
Period size: 43 Copynumber: 2.4 Consensus size: 43
113096925 GCTGGTATTA
*
113096935 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCAGTGATGTG
*
113096978 TATTCGGGCCTTCATGCCTAGCAGGCTTCGTGCCAGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCAGTGATGTG
113097021 TATTCGGGCCTTCGTGCC
1 TATTCGGGCCTTCGTGCC
113097039 AGGCGTAATG
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 58 1.00
ACGTcount: A:0.11, C:0.27, G:0.32, T:0.31
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCAGTGATGTG
Found at i:113104013 original size:46 final size:46
Alignment explanation
Indices: 113103963--113104138 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
113103953 TGGTTGAGCA
113103963 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
113104009 TCCGAACTCGTTGAGTTGAGTCCGAGTTCA-TGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* * *
113104054 CATCCGAGCTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
113104102 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
113104139 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 64 0.58
47 28 0.25
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:113104119 original size:93 final size:93
Alignment explanation
Indices: 113103960--113104130 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
113103950 GGATGGTTGA
* *
113103960 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
113104025 TGAGTCCGAGTTCATGAGATGTAACTAG
66 TGAGTCCGAGTTCATGAGATGTAACTAG
* * *
113104053 GCATCCGAGCTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
113104118 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
113104131 GCTTATGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCATGAGATGTAACTAG
Found at i:113111596 original size:46 final size:46
Alignment explanation
Indices: 113111546--113111721 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
113111536 TGGTTGAGCA
113111546 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
113111592 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
113111637 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
113111685 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
113111722 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:113111702 original size:93 final size:93
Alignment explanation
Indices: 113111543--113111714 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
113111533 GGATGGTTGA
* *
113111543 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
113111608 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
113111636 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
113111701 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
113111715 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:113115014 original size:25 final size:26
Alignment explanation
Indices: 113114980--113115031 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
113114970 TGATCGTGAG
113114980 AGAATGTTAC-AATCAAGGCGTTCAA
1 AGAATGTTACAAATCAAGGCGTTCAA
113115005 AGAATGTTACAAATCAAGGCGTTCAA
1 AGAATGTTACAAATCAAGGCGTTCAA
113115031 A
1 A
113115032 ATTTTATTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 10 0.38
26 16 0.62
ACGTcount: A:0.42, C:0.15, G:0.19, T:0.23
Consensus pattern (26 bp):
AGAATGTTACAAATCAAGGCGTTCAA
Found at i:113118088 original size:39 final size:40
Alignment explanation
Indices: 113118004--113118088 Score: 118
Period size: 39 Copynumber: 2.1 Consensus size: 40
113117994 ACTTAATTCA
* *
113118004 CCAGCATCAAGCCTGCGGGACTTTAAACCCGGATACAATC
1 CCAGCATCAAGCCAGCGGGACTCTAAACCCGGATACAATC
* *
113118044 CCAGCATGAAGCCAGCGGGTCTCT-AACCCGGATACAATC
1 CCAGCATCAAGCCAGCGGGACTCTAAACCCGGATACAATC
*
113118083 TCAGCA
1 CCAGCA
113118089 CAATTCATTT
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
39 20 0.50
40 20 0.50
ACGTcount: A:0.29, C:0.33, G:0.21, T:0.16
Consensus pattern (40 bp):
CCAGCATCAAGCCAGCGGGACTCTAAACCCGGATACAATC
Found at i:113118255 original size:47 final size:47
Alignment explanation
Indices: 113118156--113118358 Score: 259
Period size: 47 Copynumber: 4.3 Consensus size: 47
113118146 TGCACACTTT
* * *
113118156 TCACAATTGGTCATTCGGCCTTATCACA--TATTCACTTACACATAT-A
1 TCAC-ATTGGCCATTCGGCCTTATCACATGTATGCACTTTCACAT-TCA
**
113118202 TCACATTAACCATTCGGCCTTATCACATGTATGCACTTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATGTATGCACTTTCACATTCA
* * * **
113118249 TCACATTGGCCCTTCGGCCTTATCACGTATACACACTTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATGTATGCACTTTCACATTCA
**
113118296 TCACATTGGCCATTCAACCTTATCACATGTATGCACTTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATGTATGCACTTTCACATTCA
113118343 TCACATTGGCCATTCG
1 TCACATTGGCCATTCG
113118359 ATCTTAAGCT
Statistics
Matches: 134, Mismatches: 20, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
45 20 0.15
46 5 0.04
47 109 0.81
ACGTcount: A:0.27, C:0.30, G:0.10, T:0.33
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATGTATGCACTTTCACATTCA
Found at i:113118345 original size:25 final size:24
Alignment explanation
Indices: 113118223--113118349 Score: 77
Period size: 25 Copynumber: 5.3 Consensus size: 24
113118213 ATTCGGCCTT
*
113118223 ATCACATGTATGCACTTTCACATTC
1 ATCACAT-TAGGCACTTTCACATTC
* * *
113118248 ATCACATT-GGC-CCTTCGGCCTT-
1 ATCACATTAGGCACTTTC-ACATTC
* **
113118270 ATCACGTATACACACTTTCACATTC
1 ATCACAT-TAGGCACTTTCACATTC
* *
113118295 ATCACATT-GGC-CATTCAACCTT-
1 ATCACATTAGGCACTTTC-ACATTC
*
113118317 ATCACATGTATGCACTTTCACATTC
1 ATCACAT-TAGGCACTTTCACATTC
113118342 ATCACATT
1 ATCACATT
113118350 GGCCATTCGA
Statistics
Matches: 74, Mismatches: 18, Indels: 21
0.65 0.16 0.19
Matches are distributed among these distances:
22 21 0.28
23 12 0.16
24 13 0.18
25 28 0.38
ACGTcount: A:0.27, C:0.31, G:0.09, T:0.34
Consensus pattern (24 bp):
ATCACATTAGGCACTTTCACATTC
Found at i:113119536 original size:2 final size:2
Alignment explanation
Indices: 113119529--113119556 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
113119519 TGCCACATGC
113119529 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
113119557 TCATCCAAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:113135066 original size:18 final size:18
Alignment explanation
Indices: 113135035--113135072 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
113135025 ATATCATATT
113135035 TTATAGTACAAATTATAA
1 TTATAGTACAAATTATAA
*
113135053 TTATA-TACATAATTTTAA
1 TTATAGTACA-AATTATAA
113135071 TT
1 TT
113135073 CTAAAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.47
Consensus pattern (18 bp):
TTATAGTACAAATTATAA
Found at i:113139755 original size:30 final size:30
Alignment explanation
Indices: 113139720--113139796 Score: 100
Period size: 30 Copynumber: 2.6 Consensus size: 30
113139710 ACACAAATTC
**
113139720 TTAAGAAAAGAATTATTCTTAACACATAGG
1 TTAAGAAAAGAATTATTCACAACACATAGG
* **
113139750 TTAAGAAAAGAATGATTCACAACACATATT
1 TTAAGAAAAGAATTATTCACAACACATAGG
*
113139780 TTAAGAAAAGATTTATT
1 TTAAGAAAAGAATTATT
113139797 GATCACAATT
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.48, C:0.09, G:0.12, T:0.31
Consensus pattern (30 bp):
TTAAGAAAAGAATTATTCACAACACATAGG
Found at i:113146111 original size:405 final size:398
Alignment explanation
Indices: 113145160--113146569 Score: 1422
Period size: 405 Copynumber: 3.6 Consensus size: 398
113145150 CAGTGTTGGA
* *
113145160 CTGCCTGTTCTTGAAGCAAGATCAGTAGAAGATATTGATTTGGCATTTAAGCAACTTCATGAAGG
1 CTGCCTGTTCTTGAAGCAAGATCAGTTGAAGATATTGATTTGGCTTTTAAGCAACTTCATGAAGG
* * * * *
113145225 AGCTGATTTTGAGGAAGTAATTCTTCCAAGGATGATTAAGAATCAGCCGGATCATGCAGATACGA
66 AG-TGATGTTGAGGAAGTAATTCTTCCAAGCATGATTGAGAATCAGCCGGATCATGAAGATAC-C
* * ** * **
113145290 AC-TCGGATTTACCTGTTGTCGAGGTGAGATCTCTGGAGGATATACATAATGCTTTGC-T-GCAG
129 ACTTC-AAATTACCTGTTGTCGAGGCAAGATCTCTGGAGGATATACATAATGCTTTCCATAAAAG
*
113145352 GACCCAGAACCTAATCTAGCTCAGCTGCCACATTCCA-CAGACTTGAGGAATGGATCATCAGAAG
193 GA-CCAGAACCTAATCTAGCTGAGCTGCCACATTCCAGCAGACTTGAGGAATGGATCATCAGAAG
* * * * *
113145416 TAGAGCAGCATGTTGTTGTTTCTTCTGAAGAGATTGAAGTTAGTAATGCTGTCTCTGGTATTGAA
257 TAGAGCAGCATGATGTGGTTTCTTCT-AAGAGATTGAAGTTGGCAATGCAGTCTCTGGTATTGAA
** * * * * * * *
113145481 GAAGGTTTTGATAATGCTGCTGGTGAACCCAAAAATGAAGAAGAAATAGAAGAACTAAAGACAGA
321 GAACATCTTCAGAATGCTCCTGATGAACCAAAAAAAGAAGAAGAAATAGAAGAACTAAAGACAGA
*
113145546 AACCAATGTGGAG
386 AACCAATGCGGAG
* *
113145559 TTACCTGTTCTTGAAGCAAGATCAGTTGAAGATATTGATTTGGCTTTTAAGCAACTTCATGAAGG
1 CTGCCTGTTCTTGAAGCAAGATCAGTTGAAGATATTGATTTGGCTTTTAAGCAACTTCATGAAGG
* * *
113145624 AGTGGATGTTGAGGAAGTAATTCTTCCAAGTATGATTGAGAATCTGCCAGATCAT-ACAGATACC
66 AGT-GATGTTGAGGAAGTAATTCTTCCAAGCATGATTGAGAATCAGCCGGATCATGA-AGATACC
* *
113145688 ACTTCAGAATTTCCTGTTGTCGAGGCAATATCTCTGGATGG-TATACATAATGCTTT-CATAAAA
129 ACTTCA-AATTACCTGTTGTCGAGGCAAGATCTCTGGA-GGATATACATAATGCTTTCCATAAAA
* * * *
113145751 GGACCGGAACCTAATCCAGCTGAGCTGCCACA-TACAGCAGACTTGAGGCATGGATCATCAGAAG
192 GGACCAGAACCTAATCTAGCTGAGCTGCCACATTCCAGCAGACTTGAGGAATGGATCATCAGAAG
*
113145815 TAGAGCAGCATGATGTGGTTTGTTCTAATGAGATTGAAGTTGGCCAA-GCAGTCTCTGGCT-TTG
257 TAGAGCAGCATGATGTGGTTTCTTCTAA-GAGATTGAAGTTGG-CAATGCAGTCTCTGG-TATTG
* *
113145878 AAGAACATCTTCAGAACGTTGCTCCTGATGAACCAAAAAAAGAATATGAAGAAATAGAAGAATTG
319 AAGAACATCTTCAGAA---TGCTCCTGATGAACCAAAAAAAG-A-A-GAAGAAATAGAAGAACTA
** *
113145943 AAGATGGAGACCAATGCGGAG
378 AAGACAGAAACCAATGCGGAG
* * *
113145964 CTGCCTGTTCTGGATGCAAGATCGGTTGAAGATATTGATTTGGCTTTTAAGCAACTTCATGAAGG
1 CTGCCTGTTCTTGAAGCAAGATCAGTTGAAGATATTGATTTGGCTTTTAAGCAACTTCATGAAGG
* * * * * * *
113146029 TGTAGATGTTGAGGAAGTAGTACTTGCAAGCATGATTGAGGATCAGCTGGATCATGAAGATTCCA
66 AGT-GATGTTGAGGAAGTAATTCTTCCAAGCATGATTGAGAATCAGCCGGATCATGAAGATACCA
113146094 CTTCAAAGTTACCTGTTGTCGAGGCAAGATCTCTGGAGGATATACATAATGCTTTCCA-AAAAGG
130 CTTCAAA-TTACCTGTTGTCGAGGCAAGATCTCTGGAGGATATACATAATGCTTTCCATAAAAGG
* * * *
113146158 TCCAGAACCTAATCTGGCTGAGCTGCCA-ATTTCCAG-AGACTTGAGAAATGGATCATCAGAAAT
194 ACCAGAACCTAATCTAGCTGAGCTGCCACA-TTCCAGCAGACTTGAGGAATGGATCATCAGAAGT
* * **
113146221 GGAGCAGCATGATGCGGTTTCTAATAAAGAGATTGAAGTT-G-AA---A---------A-T--AG
258 AGAGCAGCATGATGTGGTTTCTTCT-AAGAGATTGAAGTTGGCAATGCAGTCTCTGGTATTGAAG
* * * * * * *
113146269 -------TCAGAATGCTGCCAG-TGAACCAAAAAATGACCATGAAGAAACAGAGGAAATGAAGAT
322 AACATCTTCAGAATGCT-CCTGATGAACCAAAAAAAGA--A-GAAGAAATAGAAGAACTAAAGAC
* * *
113146326 GGAGACCAATGCAGAG
383 AGAAACCAATGCGGAG
* * * *
113146342 CTGCCTGTTCTTGAAGCAAGATCACTGGAAGACATTGATTTGGCTTTTAAGCAACTTCATGGAGG
1 CTGCCTGTTCTTGAAGCAAGATCAGTTGAAGATATTGATTTGGCTTTTAAGCAACTTCATGAAGG
* * * * *
113146407 AGTTGATGTTGAGGAAGTAATTCTTCCAAGCATGATTGAGAATCAGCAGGGTGATGCAGATACTA
66 AG-TGATGTTGAGGAAGTAATTCTTCCAAGCATGATTGAGAATCAGCCGGATCATGAAGATACCA
* * * * * * * * * *
113146472 ATTCGGATTTACCAGTTGTTGAGGCGAGATCTCTGGAGGATATACAGAGTGCTTTTCA-ACAAGG
130 CTTC-AAATTACCTGTTGTCGAGGCAAGATCTCTGGAGGATATACATAATGCTTTCCATAAAAGG
* * *
113146536 CCCAGAATCTAATCTAGCTGAGGTGCCACATTCC
194 ACCAGAACCTAATCTAGCTGAGCTGCCACATTCC
113146570 TCAGGAGTAG
Statistics
Matches: 866, Mismatches: 115, Indels: 81
0.82 0.11 0.08
Matches are distributed among these distances:
377 1 0.00
378 244 0.28
379 6 0.01
381 6 0.01
388 2 0.00
390 1 0.00
398 9 0.01
399 271 0.31
400 10 0.01
402 21 0.02
403 1 0.00
404 7 0.01
405 278 0.32
406 9 0.01
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.27
Consensus pattern (398 bp):
CTGCCTGTTCTTGAAGCAAGATCAGTTGAAGATATTGATTTGGCTTTTAAGCAACTTCATGAAGG
AGTGATGTTGAGGAAGTAATTCTTCCAAGCATGATTGAGAATCAGCCGGATCATGAAGATACCAC
TTCAAATTACCTGTTGTCGAGGCAAGATCTCTGGAGGATATACATAATGCTTTCCATAAAAGGAC
CAGAACCTAATCTAGCTGAGCTGCCACATTCCAGCAGACTTGAGGAATGGATCATCAGAAGTAGA
GCAGCATGATGTGGTTTCTTCTAAGAGATTGAAGTTGGCAATGCAGTCTCTGGTATTGAAGAACA
TCTTCAGAATGCTCCTGATGAACCAAAAAAAGAAGAAGAAATAGAAGAACTAAAGACAGAAACCA
ATGCGGAG
Found at i:113149390 original size:20 final size:20
Alignment explanation
Indices: 113149344--113149390 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
113149334 TTGTACGAGA
113149344 TTGCACTTCGGTGCCCCTAT
1 TTGCACTTCGGTGCCCCTAT
* * * *
113149364 TTACACTTTGGTGTCCCTGT
1 TTGCACTTCGGTGCCCCTAT
113149384 TTGCACT
1 TTGCACT
113149391 ATAGTGCTTT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.11, C:0.30, G:0.19, T:0.40
Consensus pattern (20 bp):
TTGCACTTCGGTGCCCCTAT
Found at i:113150722 original size:22 final size:23
Alignment explanation
Indices: 113150669--113150771 Score: 109
Period size: 23 Copynumber: 4.5 Consensus size: 23
113150659 AAAGACGAAT
*
113150669 AATGAAGATTCTCTGCAATGAAC
1 AATGAAGATTCTCTACAATGAAC
* *
113150692 AGTGAAGATTTTCTACAA-GAAC
1 AATGAAGATTCTCTACAATGAAC
* *
113150714 AATGGAGATTCTCTACAATGATC
1 AATGAAGATTCTCTACAATGAAC
* * * *
113150737 AGTAAAGATTCGCTACAATAAAC
1 AATGAAGATTCTCTACAATGAAC
*
113150760 AATAAAGATTCT
1 AATGAAGATTCT
113150772 TCGTAAAAAA
Statistics
Matches: 64, Mismatches: 15, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
22 19 0.30
23 45 0.70
ACGTcount: A:0.42, C:0.16, G:0.16, T:0.27
Consensus pattern (23 bp):
AATGAAGATTCTCTACAATGAAC
Found at i:113150753 original size:45 final size:45
Alignment explanation
Indices: 113150669--113150771 Score: 125
Period size: 45 Copynumber: 2.3 Consensus size: 45
113150659 AAAGACGAAT
* * **
113150669 AATGAAGATTCTCTGCAATGAACAGTGAAGATTTTCTACAAGAAC
1 AATGAAGATTCTCTACAATGAACAGTAAAGATTCGCTACAAGAAC
* * *
113150714 AATGGAGATTCTCTACAATGATCAGTAAAGATTCGCTACAATAAAC
1 AATGAAGATTCTCTACAATGAACAGTAAAGATTCGCTACAA-GAAC
*
113150760 AATAAAGATTCT
1 AATGAAGATTCT
113150772 TCGTAAAAAA
Statistics
Matches: 48, Mismatches: 9, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
45 35 0.73
46 13 0.27
ACGTcount: A:0.42, C:0.16, G:0.16, T:0.27
Consensus pattern (45 bp):
AATGAAGATTCTCTACAATGAACAGTAAAGATTCGCTACAAGAAC
Found at i:113151985 original size:3 final size:3
Alignment explanation
Indices: 113151977--113152028 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
113151967 AGACTTCGAA
113151977 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
113152025 TAT T
1 TAT T
113152029 TGCTCTACAG
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:113154239 original size:32 final size:32
Alignment explanation
Indices: 113154198--113154263 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
113154188 ACCCCAATAC
113154198 CAATTATATGCACCAATTAAGAATTTCTTTAT
1 CAATTATATGCACCAATTAAGAATTTCTTTAT
113154230 CAATTATATGCACCAATTAAGAATTTCTTTAT
1 CAATTATATGCACCAATTAAGAATTTCTTTAT
113154262 CA
1 CA
113154264 TACTACTGCT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.38, C:0.17, G:0.06, T:0.39
Consensus pattern (32 bp):
CAATTATATGCACCAATTAAGAATTTCTTTAT
Found at i:113156870 original size:20 final size:20
Alignment explanation
Indices: 113156842--113156879 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
113156832 CTCTTACATT
* *
113156842 ATTATATAATTGAAACTTCC
1 ATTACATAATTAAAACTTCC
113156862 ATTACATAATTAAAACTT
1 ATTACATAATTAAAACTT
113156880 TTCTGAGAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.45, C:0.13, G:0.03, T:0.39
Consensus pattern (20 bp):
ATTACATAATTAAAACTTCC
Found at i:113156984 original size:23 final size:23
Alignment explanation
Indices: 113156955--113157006 Score: 95
Period size: 23 Copynumber: 2.3 Consensus size: 23
113156945 ATATTTCTAT
113156955 TGTTCACTCTAGAGAATATTTCC
1 TGTTCACTCTAGAGAATATTTCC
*
113156978 TGTTCACTTTAGAGAATATTTCC
1 TGTTCACTCTAGAGAATATTTCC
113157001 TGTTCA
1 TGTTCA
113157007 TCTTCATTCA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.25, C:0.19, G:0.13, T:0.42
Consensus pattern (23 bp):
TGTTCACTCTAGAGAATATTTCC
Found at i:113157849 original size:22 final size:23
Alignment explanation
Indices: 113157824--113157867 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
113157814 ACTAAACCAA
113157824 TTCA-ACATATTT-TCAAGATAAT
1 TTCATACATATTTAT-AAGATAAT
*
113157846 TTCATGCATATTTATAAGATAA
1 TTCATACATATTTATAAGATAA
113157868 CGTCATCACA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 4 0.21
23 14 0.74
24 1 0.05
ACGTcount: A:0.41, C:0.11, G:0.07, T:0.41
Consensus pattern (23 bp):
TTCATACATATTTATAAGATAAT
Found at i:113157873 original size:23 final size:23
Alignment explanation
Indices: 113157829--113157873 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
113157819 ACCAATTCAA
**
113157829 CATATTTTCAAGATAATTTCATG
1 CATATTTTCAAGATAACGTCATG
113157852 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAACGTCAT
113157874 CACATACCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.38, C:0.13, G:0.09, T:0.40
Consensus pattern (23 bp):
CATATTTTCAAGATAACGTCATG
Found at i:113160856 original size:283 final size:282
Alignment explanation
Indices: 113160349--113160915 Score: 1107
Period size: 283 Copynumber: 2.0 Consensus size: 282
113160339 TAAAATTTCC
113160349 TAACGAAAATTTAATACCACATTACTAACATTTCATAAATATTTATAAAATTATTTTTGACTCGG
1 TAACGAAAATTTAATACCACATTACTAACATTTCATAAATATTTATAAAATTATTTTTGACTCGG
113160414 TTTTACGAGATAAAGGTCTCGATACTTTATTTTTACCCAATTTCTTCAATAATTTCTTTTTCTAA
66 TTTTACGAGATAAAGGTCTCGATACTTTATTTTTACCCAATTTCTTCAATAATTTCTTTTTCTAA
113160479 CTAACCACTAAATCGGTAAAATTTTTCTATCAATATTTTCATACGATTTTCCTATCATATCAATT
131 CTAACCACTAAATCGGTAAAATTTTTCTATCAATATTTTCATACGATTTTCCTATCATATCAATT
*
113160544 TTCATGCAAAAATATTGAAATAAATTTCTCTTTAAATCGGATTTGTGGTTACGAAACTACTATTC
196 TTCATGCAAAAATATTAAAATAAATTTCTC-TTAAATCGGATTTGTGGTTACGAAACTACTATTC
113160609 CGATAACCTTGAATTTAGGCCAT
260 CGATAACCTTGAATTTAGGCCAT
*
113160632 TAACGAAATTTTAATACCACATTACTAACATTTCATAAATATTTATAAAATTATTTTTGACTCGG
1 TAACGAAAATTTAATACCACATTACTAACATTTCATAAATATTTATAAAATTATTTTTGACTCGG
113160697 TTTTACGAGATAAAGGTCTCGATACTTTATTTTTACCCAATTTCTTCAATAATTTCTTTTTCTAA
66 TTTTACGAGATAAAGGTCTCGATACTTTATTTTTACCCAATTTCTTCAATAATTTCTTTTTCTAA
113160762 CTAACCACTAAATCGGTAAAATTTTTCTATCAATATTTTCATACGATTTTCCTATCATATCAATT
131 CTAACCACTAAATCGGTAAAATTTTTCTATCAATATTTTCATACGATTTTCCTATCATATCAATT
113160827 TTCATGCAAAAATATTAAAATAAATTTCTCTTAAATCGGATTTGTGGTTACGAAACTACTATTCC
196 TTCATGCAAAAATATTAAAATAAATTTCTCTTAAATCGGATTTGTGGTTACGAAACTACTATTCC
113160892 GATAACCTTGAATTTAGGCCAT
261 GATAACCTTGAATTTAGGCCAT
113160914 TA
1 TA
113160916 CACGTTCATT
Statistics
Matches: 282, Mismatches: 2, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
282 59 0.21
283 223 0.79
ACGTcount: A:0.34, C:0.17, G:0.08, T:0.41
Consensus pattern (282 bp):
TAACGAAAATTTAATACCACATTACTAACATTTCATAAATATTTATAAAATTATTTTTGACTCGG
TTTTACGAGATAAAGGTCTCGATACTTTATTTTTACCCAATTTCTTCAATAATTTCTTTTTCTAA
CTAACCACTAAATCGGTAAAATTTTTCTATCAATATTTTCATACGATTTTCCTATCATATCAATT
TTCATGCAAAAATATTAAAATAAATTTCTCTTAAATCGGATTTGTGGTTACGAAACTACTATTCC
GATAACCTTGAATTTAGGCCAT
Found at i:113164441 original size:14 final size:14
Alignment explanation
Indices: 113164422--113164451 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
113164412 AAATTGATAA
113164422 TAATTATGAATTTC
1 TAATTATGAATTTC
113164436 TAATTATGAATTTC
1 TAATTATGAATTTC
113164450 TA
1 TA
113164452 TCTTTAAGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.37, C:0.07, G:0.07, T:0.50
Consensus pattern (14 bp):
TAATTATGAATTTC
Found at i:113167052 original size:56 final size:55
Alignment explanation
Indices: 113166939--113167052 Score: 174
Period size: 56 Copynumber: 2.1 Consensus size: 55
113166929 ATTTCGAAAC
* *
113166939 CTAAAAAAACCTACTCCTCCTTGACTCTGATAATAATAAATTATTTTCTGTTAAT
1 CTAAAAAAACCTACTCCTCCTTGACTCTGATAATAATAAATTATTTTCCGCTAAT
* * *
113166994 CTAAAAATACCTGCTCCTCCTTGGACTCTGATAATAATAAATTATTTTCCGCTGAT
1 CTAAAAAAACCTACTCCTCCTT-GACTCTGATAATAATAAATTATTTTCCGCTAAT
113167050 CTA
1 CTA
113167053 TTTTTTTTTA
Statistics
Matches: 53, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
55 20 0.38
56 33 0.62
ACGTcount: A:0.33, C:0.22, G:0.08, T:0.37
Consensus pattern (55 bp):
CTAAAAAAACCTACTCCTCCTTGACTCTGATAATAATAAATTATTTTCCGCTAAT
Found at i:113178328 original size:21 final size:22
Alignment explanation
Indices: 113178282--113178329 Score: 55
Period size: 21 Copynumber: 2.2 Consensus size: 22
113178272 AGACACGACC
*
113178282 GTGCCTCTGCACCACATGGGCTT
1 GTGCCTCTG-ACCACATCGGCTT
113178305 GTGCCTCTG-CCACA-CGGCTGT
1 GTGCCTCTGACCACATCGGCT-T
113178326 GTGC
1 GTGC
113178330 TACTCCCTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
20 4 0.17
21 10 0.43
23 9 0.39
ACGTcount: A:0.10, C:0.35, G:0.29, T:0.25
Consensus pattern (22 bp):
GTGCCTCTGACCACATCGGCTT
Found at i:113179956 original size:9 final size:9
Alignment explanation
Indices: 113179942--113179980 Score: 71
Period size: 9 Copynumber: 4.4 Consensus size: 9
113179932 TTTATTTTAT
113179942 AAAAAAAT-
1 AAAAAAATA
113179950 AAAAAAATA
1 AAAAAAATA
113179959 AAAAAAATA
1 AAAAAAATA
113179968 AAAAAAATA
1 AAAAAAATA
113179977 AAAA
1 AAAA
113179981 CAATGTCTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
8 8 0.27
9 22 0.73
ACGTcount: A:0.90, C:0.00, G:0.00, T:0.10
Consensus pattern (9 bp):
AAAAAAATA
Found at i:113183126 original size:19 final size:21
Alignment explanation
Indices: 113183093--113183132 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
113183083 GTCCCCTATA
113183093 GTTTAAAAAATTTTCT-AAGT
1 GTTTAAAAAATTTTCTGAAGT
*
113183113 GTTTCAAAAA-TTTCTGAAGT
1 GTTTAAAAAATTTTCTGAAGT
113183133 TATCGGTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.38, C:0.07, G:0.12, T:0.42
Consensus pattern (21 bp):
GTTTAAAAAATTTTCTGAAGT
Found at i:113183463 original size:37 final size:37
Alignment explanation
Indices: 113183390--113183463 Score: 96
Period size: 38 Copynumber: 2.0 Consensus size: 37
113183380 TTTCTAAATT
* * *
113183390 TTATAAAATATAAAATAAAATATTTTAATATAATTTA
1 TTATAAAATATAAAATAAAATAATATAAAATAATTTA
*
113183427 TTATAAAATATTAAATTAAAATAATATAAAAT-ATTTA
1 TTATAAAATA-TAAAATAAAATAATATAAAATAATTTA
113183464 ATAATAATCC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
37 15 0.47
38 17 0.53
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (37 bp):
TTATAAAATATAAAATAAAATAATATAAAATAATTTA
Found at i:113185015 original size:24 final size:22
Alignment explanation
Indices: 113184975--113185023 Score: 62
Period size: 24 Copynumber: 2.1 Consensus size: 22
113184965 CTATTTTATG
113184975 TATAATTTATTTAAAATTGCTT
1 TATAATTTATTTAAAATTGCTT
* *
113184997 TATAATATTCATTTTAAATTGTTT
1 TATAAT-TT-ATTTAAAATTGCTT
113185021 TAT
1 TAT
113185024 TGTGCATTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 6 0.26
23 2 0.09
24 15 0.65
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.57
Consensus pattern (22 bp):
TATAATTTATTTAAAATTGCTT
Found at i:113185122 original size:26 final size:26
Alignment explanation
Indices: 113185075--113185182 Score: 94
Period size: 26 Copynumber: 4.0 Consensus size: 26
113185065 TTTTTTTTGC
*
113185075 ATTAGTTATTTTAAATTGTTT-TACAT
1 ATTATTTATTTTAAATT-TTTATACAT
*
113185101 ATTATTTATTTTAAATATTTT-TATAT
1 ATTATTTATTTTAAAT-TTTTATACAT
* * *
113185127 GTTATTTACTTTAAGCTATTTTATATATAT
1 ATTATTTATTTTAA---ATTTT-TATACAT
*
113185157 ATGATTTATTTTAAATTTTTATACAT
1 ATTATTTATTTTAAATTTTTATACAT
113185183 GTTAACTTTC
Statistics
Matches: 68, Mismatches: 8, Indels: 12
0.77 0.09 0.14
Matches are distributed among these distances:
26 40 0.59
27 6 0.09
28 3 0.04
29 3 0.04
30 16 0.24
ACGTcount: A:0.32, C:0.04, G:0.05, T:0.59
Consensus pattern (26 bp):
ATTATTTATTTTAAATTTTTATACAT
Found at i:113185416 original size:24 final size:25
Alignment explanation
Indices: 113185379--113185440 Score: 72
Period size: 24 Copynumber: 2.5 Consensus size: 25
113185369 ATATTATTTT
* *
113185379 ATTGTTTTTAATATTAATGATTTTAA
1 ATTGCTTTT-ATATTAATGACTTTAA
* *
113185405 ATTG-TTTTATATTATTTACTTTAA
1 ATTGCTTTTATATTAATGACTTTAA
113185429 ATTGCTTTTATA
1 ATTGCTTTTATA
113185441 GTATCTATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 17 0.53
25 11 0.34
26 4 0.12
ACGTcount: A:0.31, C:0.03, G:0.06, T:0.60
Consensus pattern (25 bp):
ATTGCTTTTATATTAATGACTTTAA
Found at i:113185437 original size:25 final size:24
Alignment explanation
Indices: 113185400--113185454 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 24
113185390 TATTAATGAT
* *
113185400 TTTAAATTGTTTTATATTATTTAC
1 TTTAAATTGTTTTATAGTATCTAC
*
113185424 TTTAAATTGCTTTTATAGTATCTAT
1 TTTAAATTG-TTTTATAGTATCTAC
113185449 TTTAAA
1 TTTAAA
113185455 CCTTTATATA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
24 9 0.33
25 18 0.67
ACGTcount: A:0.31, C:0.05, G:0.05, T:0.58
Consensus pattern (24 bp):
TTTAAATTGTTTTATAGTATCTAC
Found at i:113185466 original size:2 final size:2
Alignment explanation
Indices: 113185459--113185494 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
113185449 TTTAAACCTT
113185459 TA TA TA TA TA TA TA TA TA TA TA TA -A TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
113185495 TATTTATTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:113191044 original size:24 final size:24
Alignment explanation
Indices: 113190994--113191045 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
113190984 TTAGTAAGTC
* **
113190994 AAATAAATTATGCTAATAAATGCT
1 AAATAAATTATACTAATAAATAAT
*
113191018 AAATATATTATACTAATAAATAAT
1 AAATAAATTATACTAATAAATAAT
113191042 AAAT
1 AAAT
113191046 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.56, C:0.06, G:0.04, T:0.35
Consensus pattern (24 bp):
AAATAAATTATACTAATAAATAAT
Found at i:113192194 original size:25 final size:25
Alignment explanation
Indices: 113192160--113192210 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
113192150 ATAATAGCAT
113192160 AGTCTGATCTTCATTGCCAATCTAA
1 AGTCTGATCTTCATTGCCAATCTAA
113192185 AGTCTGATCTTCATTGCCAATCTAA
1 AGTCTGATCTTCATTGCCAATCTAA
113192210 A
1 A
113192211 CCTCAACATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.29, C:0.24, G:0.12, T:0.35
Consensus pattern (25 bp):
AGTCTGATCTTCATTGCCAATCTAA
Found at i:113195496 original size:13 final size:13
Alignment explanation
Indices: 113195458--113195500 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
113195448 GCTCAATGCA
*
113195458 AAATTGTAATTTT
1 AAATTCTAATTTT
* * *
113195471 GAATTTTATTTTT
1 AAATTCTAATTTT
113195484 AAATTCTAATTTT
1 AAATTCTAATTTT
113195497 AAAT
1 AAAT
113195501 CAAAATAAAA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.37, C:0.02, G:0.05, T:0.56
Consensus pattern (13 bp):
AAATTCTAATTTT
Found at i:113197445 original size:27 final size:27
Alignment explanation
Indices: 113197412--113197474 Score: 99
Period size: 27 Copynumber: 2.3 Consensus size: 27
113197402 TAGATTTTAG
113197412 TTAAGATAATTAAGAATTTAAATCAAA
1 TTAAGATAATTAAGAATTTAAATCAAA
* *
113197439 TTAAGATAATTAAGAGTTTAAATTAAA
1 TTAAGATAATTAAGAATTTAAATCAAA
*
113197466 TTAGGATAA
1 TTAAGATAA
113197475 CTAGAGTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.52, C:0.02, G:0.11, T:0.35
Consensus pattern (27 bp):
TTAAGATAATTAAGAATTTAAATCAAA
Found at i:113197488 original size:26 final size:27
Alignment explanation
Indices: 113197412--113197488 Score: 93
Period size: 27 Copynumber: 2.9 Consensus size: 27
113197402 TAGATTTTAG
* * *
113197412 TTAAGATAATTAAGAATTTAAATCAAA
1 TTAAGATAACTAAGAGTTTAAATTAAA
*
113197439 TTAAGATAATTAAGAGTTTAAATTAAA
1 TTAAGATAACTAAGAGTTTAAATTAAA
* *
113197466 TTAGGATAACT-AGAGTTTTAATT
1 TTAAGATAACTAAGAGTTTAAATT
113197489 TATTTAAAAT
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
26 11 0.24
27 34 0.76
ACGTcount: A:0.48, C:0.03, G:0.12, T:0.38
Consensus pattern (27 bp):
TTAAGATAACTAAGAGTTTAAATTAAA
Found at i:113200766 original size:2 final size:2
Alignment explanation
Indices: 113200759--113200795 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
113200749 ATTGGCTTAT
* *
113200759 AC AC AC AC AT AC AC AT AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
113200796 TAAATACATA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.51, C:0.43, G:0.00, T:0.05
Consensus pattern (2 bp):
AC
Found at i:113203424 original size:16 final size:16
Alignment explanation
Indices: 113203399--113203442 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
113203389 GCAATTAGGG
113203399 TTAGGGTTTTGAAAATT
1 TTAGGGTTTT-AAAATT
*
113203416 TTA-GGTTTTTAAATT
1 TTAGGGTTTTAAAATT
113203431 TTAGGGTTTTAA
1 TTAGGGTTTTAA
113203443 GGAAAAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 8 0.33
16 13 0.54
17 3 0.12
ACGTcount: A:0.27, C:0.00, G:0.20, T:0.52
Consensus pattern (16 bp):
TTAGGGTTTTAAAATT
Found at i:113203431 original size:15 final size:15
Alignment explanation
Indices: 113203399--113203442 Score: 61
Period size: 15 Copynumber: 2.8 Consensus size: 15
113203389 GCAATTAGGG
113203399 TTAGGGTTTTGAAAATT
1 TTAGGGTTTT--AAATT
*
113203416 TTAGGTTTTTAAATT
1 TTAGGGTTTTAAATT
113203431 TTAGGGTTTTAA
1 TTAGGGTTTTAA
113203443 GGAAAAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 16 0.64
17 9 0.36
ACGTcount: A:0.27, C:0.00, G:0.20, T:0.52
Consensus pattern (15 bp):
TTAGGGTTTTAAATT
Found at i:113203554 original size:96 final size:97
Alignment explanation
Indices: 113203437--113203613 Score: 250
Period size: 96 Copynumber: 1.8 Consensus size: 97
113203427 AATTTTAGGG
* * ** *
113203437 TTTTAAGGAAAAAAATTAAATAAATTAAGGTTTAGTGTTTGTTAATTAAATTAATTACTAA-TTT
1 TTTTAAGGAAAAAAATCAAATAAATTAAGGTTTAGGGTTACTTAAGTAAATTAATTA-TAATTTT
113203501 TAAAAAATTAGATTATGGTTTAGTGTTTATGGT
65 TAAAAAATTAGATTATGGTTTAGTGTTTATGGT
* *
113203534 TTTTAAGG-AAAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAATTTTT
1 TTTTAAGGAAAAAAATCAAATAAATTAAGGTTTAGGGTTACTTAAGTAAATTAATTATAA--TTT
113203598 TTAAAAAATTAGATTA
64 TTAAAAAATTAGATTA
113203614 AGATTTTAGG
Statistics
Matches: 70, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
95 3 0.04
96 41 0.59
97 8 0.11
98 18 0.26
ACGTcount: A:0.42, C:0.02, G:0.14, T:0.42
Consensus pattern (97 bp):
TTTTAAGGAAAAAAATCAAATAAATTAAGGTTTAGGGTTACTTAAGTAAATTAATTATAATTTTT
AAAAAATTAGATTATGGTTTAGTGTTTATGGT
Found at i:113203981 original size:126 final size:125
Alignment explanation
Indices: 113203716--113204261 Score: 806
Period size: 126 Copynumber: 4.3 Consensus size: 125
113203706 TAATCTAAAA
* * * * *
113203716 AAGCTTCTACGTGGACGCTCTTTTCCTACAATAGTCTATGAAAAAATAAATTTGAGAAGACGTGT
1 AAGCTTCCACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGT
*
113203781 CTGCGCAAATAGTGTCAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAG
66 CTGCGCAAATAGTGTAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAG
* *
113203841 AAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTATCTGAAAAAATAATTTTGAGAAGACGTGT
1 AAGCTTCCACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGT
* * **
113203906 CTGTGCAAATAGTTTAAAAAATACTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAG
66 CTGCGCAAATAGTGT-AAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAG
* *
113203967 AAGCTTCCACGTGGACGTTCTTTTGCTACAATAGTCTCTGAAAAAATAATTTTGAGAAGACGTGT
1 AAGCTTCCACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGT
* * *
113204032 CTGCGCAAATAGTGGTAAAAACGCTTCAAGCAGGATGCATTTTCAGCAAAATTACTGGAAG
66 CTGCGCAAATAGT-GTAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAG
* * *
113204093 AAGC-TCTCACGTGGATGCTCTTTTGCTACAGTGGTCTCTGAAAAAATAATTTTGAGAAGACGTA
1 AAGCTTC-CACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTG
* ** *
113204157 TTTGCATAAATAGTGTCAAAAACGCTTCAAGCAGGATGCATTTTCAGCAAAAGTACTGAAAG
65 TCTGCGCAAATAGTGT-AAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAG
* * *
113204219 AAGCTCCCACGTGGACGCTCTTTTGCTACAGTGGTTTCTGAAA
1 AAGCTTCCACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAA
113204262 TAACTTGGGC
Statistics
Matches: 380, Mismatches: 36, Indels: 9
0.89 0.08 0.02
Matches are distributed among these distances:
125 75 0.20
126 303 0.80
127 2 0.01
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (125 bp):
AAGCTTCCACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGT
CTGCGCAAATAGTGTAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAG
Found at i:113208482 original size:7 final size:7
Alignment explanation
Indices: 113208472--113208505 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
113208462 GTTAAATAAA
113208472 AAATACT
1 AAATACT
113208479 AAATACT
1 AAATACT
113208486 AAATACT
1 AAATACT
113208493 AAATACT
1 AAATACT
113208500 AAATAC
1 AAATAC
113208506 GAATCCACTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.59, C:0.15, G:0.00, T:0.26
Consensus pattern (7 bp):
AAATACT
Found at i:113208483 original size:14 final size:14
Alignment explanation
Indices: 113208464--113208497 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
113208454 ATATATTAGT
113208464 TAAATAAAAAATAC
1 TAAATAAAAAATAC
**
113208478 TAAATACTAAATAC
1 TAAATAAAAAATAC
113208492 TAAATA
1 TAAATA
113208498 CTAAATACGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.65, C:0.09, G:0.00, T:0.26
Consensus pattern (14 bp):
TAAATAAAAAATAC
Found at i:113208488 original size:21 final size:21
Alignment explanation
Indices: 113208464--113208505 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
113208454 ATATATTAGT
113208464 TAAATAAAAAATACTAAATAC
1 TAAATAAAAAATACTAAATAC
**
113208485 TAAATACTAAATACTAAATAC
1 TAAATAAAAAATACTAAATAC
113208506 GAATCCACTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.62, C:0.12, G:0.00, T:0.26
Consensus pattern (21 bp):
TAAATAAAAAATACTAAATAC
Found at i:113209673 original size:22 final size:22
Alignment explanation
Indices: 113209661--113209710 Score: 68
Period size: 20 Copynumber: 2.4 Consensus size: 22
113209651 TAACGAGAGT
113209661 TTTGAGAGGAATTTAAGAGAAA
1 TTTGAGAGGAATTTAAGAGAAA
* *
113209683 TTTGAGA-G-ATTTGAGAGGAA
1 TTTGAGAGGAATTTAAGAGAAA
113209703 TTTGAGAG
1 TTTGAGAG
113209711 AATATTGAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 17 0.68
21 1 0.04
22 7 0.28
ACGTcount: A:0.38, C:0.00, G:0.32, T:0.30
Consensus pattern (22 bp):
TTTGAGAGGAATTTAAGAGAAA
Found at i:113209718 original size:11 final size:10
Alignment explanation
Indices: 113209661--113209718 Score: 64
Period size: 11 Copynumber: 5.5 Consensus size: 10
113209651 TAACGAGAGT
113209661 TTTGAGAGGAA
1 TTTGAGA-GAA
*
113209672 TTTAAGAGAAA
1 TTTGAGAG-AA
113209683 TTTGAGAG-A
1 TTTGAGAGAA
113209692 TTTGAGAGGAA
1 TTTGAGA-GAA
113209703 TTTGAGAGAA
1 TTTGAGAGAA
113209713 TATTGA
1 T-TTGA
113209719 AAGATTGAAG
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
9 8 0.20
10 6 0.15
11 27 0.66
ACGTcount: A:0.40, C:0.00, G:0.29, T:0.31
Consensus pattern (10 bp):
TTTGAGAGAA
Found at i:113209724 original size:31 final size:31
Alignment explanation
Indices: 113209661--113209724 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 31
113209651 TAACGAGAGT
*
113209661 TTTGAGAGGAATTTAAGAGAAATTTGAGAGA
1 TTTGAGAGGAATTTAAGAGAAATTTGAAAGA
*
113209692 TTTGAGAGGAATTTGAGAG-AATATTGAAAGA
1 TTTGAGAGGAATTTAAGAGAAAT-TTGAAAGA
113209723 TT
1 TT
113209725 GAAGATTGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 3 0.10
31 27 0.90
ACGTcount: A:0.41, C:0.00, G:0.28, T:0.31
Consensus pattern (31 bp):
TTTGAGAGGAATTTAAGAGAAATTTGAAAGA
Found at i:113213397 original size:25 final size:25
Alignment explanation
Indices: 113213368--113213424 Score: 89
Period size: 25 Copynumber: 2.2 Consensus size: 25
113213358 CTAACAAAAA
113213368 AAAAAAGAAGAAAAAACCTAA-CCCCC
1 AAAAAA-AAG-AAAAACCTAACCCCCC
113213394 AAAAAAAAGAAAAACCTAACCCCCC
1 AAAAAAAAGAAAAACCTAACCCCCC
113213419 AAAAAA
1 AAAAAA
113213425 CAACCAAGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
24 10 0.33
25 14 0.47
26 6 0.20
ACGTcount: A:0.65, C:0.26, G:0.05, T:0.04
Consensus pattern (25 bp):
AAAAAAAAGAAAAACCTAACCCCCC
Found at i:113213406 original size:24 final size:25
Alignment explanation
Indices: 113213368--113213424 Score: 89
Period size: 24 Copynumber: 2.3 Consensus size: 25
113213358 CTAACAAAAA
113213368 AAAAAAGAAGAAAAAACCTAACCCCC
1 AAAAAA-AAGAAAAAACCTAACCCCC
113213394 AAAAAAAAG-AAAAACCTAACCCCC
1 AAAAAAAAGAAAAAACCTAACCCCC
*
113213418 CAAAAAA
1 AAAAAAA
113213425 CAACCAAGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
24 21 0.70
25 3 0.10
26 6 0.20
ACGTcount: A:0.65, C:0.26, G:0.05, T:0.04
Consensus pattern (25 bp):
AAAAAAAAGAAAAAACCTAACCCCC
Found at i:113216054 original size:12 final size:12
Alignment explanation
Indices: 113216037--113216072 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
113216027 AGTCATTTGA
113216037 CATTCATGCATT
1 CATTCATGCATT
113216049 CATTCATGCATT
1 CATTCATGCATT
*
113216061 CATTCATACATT
1 CATTCATGCATT
113216073 GCATATCCCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.28, C:0.25, G:0.06, T:0.42
Consensus pattern (12 bp):
CATTCATGCATT
Found at i:113224654 original size:72 final size:71
Alignment explanation
Indices: 113224533--113224727 Score: 248
Period size: 72 Copynumber: 2.7 Consensus size: 71
113224523 GAGTTAAGCC
* * * *
113224533 TTTT-AATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGC
1 TTTTCAATTTTTGTTTTT-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGA
113224597 TAAGGTA
65 TAAGGTA
**
113224604 TTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGA
1 TTTTCAATTTTTGT-TTTTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGA
*
113224669 TGAGGTA
65 TAAGGTA
* * * *
113224676 ATTTCAATTTCTGTTTGTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGA
1 TTTTCAATTTTTGTTT-TTAA-AATCAACTCATATTGCGAGAGGTGAGTTGA
113224728 ACCTTTTAAT
Statistics
Matches: 107, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
71 6 0.06
72 70 0.65
73 31 0.29
ACGTcount: A:0.26, C:0.14, G:0.23, T:0.37
Consensus pattern (71 bp):
TTTTCAATTTTTGTTTTTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGAT
AAGGTA
Found at i:113224901 original size:88 final size:88
Alignment explanation
Indices: 113224752--113225084 Score: 454
Period size: 88 Copynumber: 3.8 Consensus size: 88
113224742 ACTTTTTCAA
* *
113224752 AATCAGCTCATATTACGAGAGGTGAGTTGAGCCTCAGGTCACGCCGAGGTATTTTCAATTTCTGT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCCGAGGTATTTTCAATTTCTGT
*
113224817 CTTCATTATTATGTTTTTGAAAG
66 TTTCATTATTATGTTTTTGAAAG
* *
113224840 AATCAGCTTATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCCGAGGTATTTTCAATTTCTGT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCCGAGGTATTTTCAATTTCTGT
113224905 TTTCATTATTATGTTTTTGAAAG
66 TTTCATTATTATGTTTTTGAAAG
* * *
113224928 AATCAACTCGTATTGCGAGAAGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGT--CACGCCGAGGTATTTTCAATTTCT
* * * *
113224993 GTTTTTCAAT-TTCTG-TCTTGAAAAAA
64 G-TTTTCATTATTATGTTTTTG--AAAG
* * * * *
113225019 AATCAACTCATATTGCGAGAGGTAAGTTGAGCCTTAGGACACGCTGAGGTAATTTCAATTTCTGT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCCGAGGTATTTTCAATTTCTGT
113225084 T
66 T
113225085 GTCAAAAAAA
Statistics
Matches: 220, Mismatches: 20, Indels: 10
0.88 0.08 0.04
Matches are distributed among these distances:
88 121 0.55
89 27 0.12
90 29 0.13
91 43 0.20
ACGTcount: A:0.26, C:0.17, G:0.22, T:0.35
Consensus pattern (88 bp):
AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCCGAGGTATTTTCAATTTCTGT
TTTCATTATTATGTTTTTGAAAG
Found at i:113225000 original size:14 final size:14
Alignment explanation
Indices: 113224981--113225008 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
113224971 CGCCGAGGTA
113224981 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
113224995 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
113225009 CTTGAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.14, G:0.07, T:0.64
Consensus pattern (14 bp):
TTTTCAATTTCTGT
Found at i:113225121 original size:74 final size:76
Alignment explanation
Indices: 113224996--113225156 Score: 211
Period size: 74 Copynumber: 2.1 Consensus size: 76
113224986 AATTTCTGTT
* *
113224996 TTTCAATTTCTGTCTTGAAAAAAAATCAACTCATATTGCGAGAGGTAAGTTGAGCCTTAGG-ACA
1 TTTCAATTTCTGTCTTGAAAAAAAATCAACTCATATTGCGAGAGGCAAGTTGAGCCTCAGGCACA
*
113225060 CGCTGAGGTAA
66 CGCCGAGGTAA
* * * *
113225071 TTTCAATTTCTG--TTGTCAAAAAAATCAACTCGTATTGCGAGTGGCGAGTTGAGCCTCAGGTCA
1 TTTCAATTTCTGTCTTG-AAAAAAAATCAACTCATATTGCGAGAGGCAAGTTGAGCCTCAGG-CA
*
113225134 CACGCCGAGGTAT
64 CACGCCGAGGTAA
113225147 TTTCAATTTC
1 TTTCAATTTC
113225157 CGTTTTTCAA
Statistics
Matches: 75, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
73 3 0.04
74 38 0.51
75 12 0.16
76 22 0.29
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31
Consensus pattern (76 bp):
TTTCAATTTCTGTCTTGAAAAAAAATCAACTCATATTGCGAGAGGCAAGTTGAGCCTCAGGCACA
CGCCGAGGTAA
Found at i:113225232 original size:165 final size:165
Alignment explanation
Indices: 113224928--113225490 Score: 837
Period size: 165 Copynumber: 3.4 Consensus size: 165
113224918 TTTTTGAAAG
*
113224928 AATCAACTCGTATTGCGAGAAGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCT
1 AATCAACTCGTATTGCGAGAAGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCC
* ** * *
113224993 GTTTTTCAATTTCTGTCTTGAAAAAAAATCAACTCATATTGCGAGAGGTAAGTTGAGCCTTAGGA
66 GTTTTTCAATTTCTGCCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA
113225058 CACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAA
131 CACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAA
**
113225093 AATCAACTCGTATTGCGAGTGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCC
1 AATCAACTCGTATTGCGAGAAGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCC
* *
113225158 GTTTTTCAATTTCTGCCTTTCAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAACCTCAGGA
66 GTTTTTCAATTTCTGCCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA
*
113225223 CATGCTGAGGTAATTTCAATTTCTGTTGTCAAAAA
131 CACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAA
* * * * * *
113225258 AGTCAACTCGTATTGCGAGAGGTGAGTTGAGTCTCAGATCACACGCCGAGGTATTTTCAATTTTC
1 AATCAACTCGTATTGCGAGAAGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCC
*
113225323 GTTTTTCAATTTCTGCCTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG
66 GTTTTTCAATTTCTGCCTTTC--AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
*
113225388 GACACGCTGAGGTAATTTCAATTTCTGTTTTC--AAA
129 GACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAA
* * ** * ** *
113225423 ATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG--ACACGTTGAGGTATTTTCAATTTCT
1 AATCAACTCGTATTGCGAGAAGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCC
113225486 GTTTT
66 GTTTT
113225491 CAAAAAATCA
Statistics
Matches: 363, Mismatches: 33, Indels: 6
0.90 0.08 0.01
Matches are distributed among these distances:
163 26 0.07
165 268 0.74
167 69 0.19
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.33
Consensus pattern (165 bp):
AATCAACTCGTATTGCGAGAAGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCC
GTTTTTCAATTTCTGCCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA
CACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAA
Found at i:113225449 original size:72 final size:73
Alignment explanation
Indices: 113225347--113225721 Score: 394
Period size: 72 Copynumber: 5.0 Consensus size: 73
113225337 GCCTTTCAAA
*
113225347 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTT
113225412 CTGTTTTC
66 CTGTTTTC
* ** ** *
113225420 -AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTT
113225484 CTGTTTTC
66 CTGTTTTC
* * * * * *
113225492 AAAAAATCAATTTATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATTTTCAAT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG--GACACGCTGAGGTATTTTCAAT
*
113225557 TTCTATCTTTC
64 TTCTGT-TTTC
* ** *
113225568 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGAGGTATTTTTTC
1 -AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-G-GGACACGCTGAGGTA--TTTTC
* *
113225633 AATTTATATTTTTC
61 AATTTCT-GTTTTC
* * *
113225647 AAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGGTCACATG-TCGAGGTATTTTCA
1 -AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG--ACACGCT-GAGGTATTTTCA
**
113225711 AAATCTGTTTT
62 ATTTCTGTTTT
113225722 TTAAATTCTG
Statistics
Matches: 248, Mismatches: 41, Indels: 23
0.79 0.13 0.07
Matches are distributed among these distances:
72 65 0.26
73 32 0.13
75 23 0.09
76 8 0.03
77 55 0.22
78 3 0.01
79 61 0.25
80 1 0.00
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.33
Consensus pattern (73 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTT
CTGTTTTC
Found at i:113225590 original size:77 final size:77
Alignment explanation
Indices: 113225325--113225853 Score: 425
Period size: 79 Copynumber: 6.7 Consensus size: 77
113225315 CAATTTTCGT
** *
113225325 TTTTCAATTTCTGCCTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG--
1 TTTTCAATTTCTATCTTTC--AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCT
*
113225388 GACACGCTGAGGTA
64 CACACGCTGAGGTA
* * * ** **
113225402 ATTTCAATTTCTGT-TTTC--AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCC-T--CAAG
1 TTTTCAATTTCTATCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGC-TC
*
113225461 ACACGTTGAGGTA
65 ACACGCTGAGGTA
* * *
113225474 TTTTCAATTTCTGT-TTTC-AAAAAATCAATTTATATTGCGAGAGGTGAGTTGAGCCTTGGCTCA
1 TTTTCAATTTCTATCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCA
* *
113225537 CGCGCTGAGCTA
66 CACGCTGAGGTA
* *
113225549 TTTTCAATTTCTATCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-CTTCAGATC
1 TTTTCAATTTCTATCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT-GGCTC
*
113225613 ACACACTGAGGTA
65 ACACGCTGAGGTA
* * * * * *
113225626 TTTTTTCAATTTATATTTTTCAAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGGT
1 --TTTTCAATTTCTATCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCT
*
113225691 CACATG-TCGAGGTA
64 CACACGCT-GAGGTA
* *** *
113225705 TTTTCAAAATCTGTTTTTTAAATTCTGTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGA
1 TTTTC--AA-----TTTCT--A-TCT-TTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
** *
113225770 GCCTTGGCTCACGTGCTGAGCTA
55 GCCTTGGCTCACACGCTGAGGTA
* * *
113225793 TTTTCAATTTCTGTTTTTTTTTCAAAAAAATTCAACTCATATTGCAAGAGGTGAGTTGAGC
1 TTTTCAATTTC----TATCTTTCAAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGC
113225854 TTTTTAATTT
Statistics
Matches: 367, Mismatches: 54, Indels: 57
0.77 0.11 0.12
Matches are distributed among these distances:
72 63 0.17
73 31 0.08
74 1 0.00
75 23 0.06
76 12 0.03
77 63 0.17
78 1 0.00
79 65 0.18
80 2 0.01
81 10 0.03
82 30 0.08
84 4 0.01
85 1 0.00
86 3 0.01
87 2 0.01
88 55 0.15
89 1 0.00
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (77 bp):
TTTTCAATTTCTATCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCA
CACGCTGAGGTA
Found at i:113225677 original size:79 final size:76
Alignment explanation
Indices: 113225325--113226063 Score: 442
Period size: 88 Copynumber: 9.2 Consensus size: 76
113225315 CAATTTTCGT
* *
113225325 TTTTCAATTTCTGCCTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-G-G
1 TTTTCAATTTCTG-TTTTC--AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGAT
*
113225388 GACACGCTGAGGTA
63 CACACGCTGAGGTA
* * ** *
113225402 ATTTCAATTTCTGTTTTC--AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCA-A-GAC
1 TTTTCAATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCAC
*
113225463 ACGTTGAGGTA
66 ACGCTGAGGTA
* * ** *
113225474 TTTTCAATTTCTGTTTTC-AAAAAATCAATTTATATTGCGAGAGGTGAGTTGAGCCTTGGCTCAC
1 TTTTCAATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCAC
* *
113225538 GCGCTGAGCTA
66 ACGCTGAGGTA
* *
113225549 TTTTCAATTTCTATCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCA
1 TTTTCAATTTCTGT-TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCA
*
113225614 CACACTGAGGTA
65 CACGCTGAGGTA
* * * * * *
113225626 TTTTTTCAATTTATATTTTTCAAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGGT
1 --TTTTCAATTTCT-GTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGAT
*
113225691 CACATG-TCGAGGTA
63 CACACGCT-GAGGTA
** * *
113225705 TTTTCAAAATCTGTTTTTTAAATTCTGTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGA
1 TTTTCAATTTCTG--TTTTCAA----------AAAAATCAACTCATATTGCGAGAGGTGAGTTGA
** * ** *
113225770 GCCTTGGCTCACGTGCTGAGCTA
54 GCCTCAGATCACACGCTGAGGTA
* *
113225793 TTTTCAATTTCTGTTTTTTTTTCAAAAAAATTCAACTCATATTGCAAGAGGTGAGTTGAGCTTTT
1 TTTTCAATTTCTG-----TTTTCAAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGC--CT
* * * * *
113225858 TA-ATTTCTGCGAGAGTTGAGTTGA
58 CAGA--TC-AC-A-CGCTGAGGT-A
* *
113225882 GTCTTTTAATTTCTGTTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCCAG-
1 -T-TTTCAATTTCTG-TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-CAGA
**
113225944 TCACA-TATCGAGGTA
62 TCACACGCT-GAGGTA
**
113225959 TTTTCAAAATCTGCTTTTCAAGTTAAGTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
1 TTTTCAATTTCTG-TTTTC------A-----AAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
** * * *
113226024 GCCTTGGCTCACGCGCTGAGCTA
54 GCCTCAGATCACACGCTGAGGTA
113226047 TTTTCAATTTCTGTTTT
1 TTTTCAATTTCTGTTTT
113226064 TAATGTCTGT
Statistics
Matches: 522, Mismatches: 84, Indels: 102
0.74 0.12 0.14
Matches are distributed among these distances:
72 65 0.12
73 32 0.06
75 37 0.07
76 9 0.02
77 71 0.14
78 11 0.02
79 65 0.12
80 2 0.00
81 7 0.01
82 29 0.06
83 1 0.00
84 30 0.06
85 7 0.01
86 1 0.00
87 11 0.02
88 121 0.23
89 3 0.01
90 1 0.00
91 19 0.04
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (76 bp):
TTTTCAATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCAC
ACGCTGAGGTA
Found at i:113225880 original size:30 final size:30
Alignment explanation
Indices: 113225839--113225896 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 30
113225829 TCATATTGCA
113225839 AGAGGTGAGTTGAG-CTTTTTAATTTCTGCG
1 AGAGGTGAGTTGAGTC-TTTTAATTTCTGCG
*
113225869 AGAGTTGAGTTGAGTCTTTTAATTTCTG
1 AGAGGTGAGTTGAGTCTTTTAATTTCTG
113225897 TTTTTCAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 25 0.96
31 1 0.04
ACGTcount: A:0.21, C:0.09, G:0.28, T:0.43
Consensus pattern (30 bp):
AGAGGTGAGTTGAGTCTTTTAATTTCTGCG
Found at i:113225963 original size:166 final size:166
Alignment explanation
Indices: 113225720--113226025 Score: 388
Period size: 166 Copynumber: 1.8 Consensus size: 166
113225710 AAAATCTGTT
* ** *
113225720 TTTTAAATTCTGTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTG
1 TTTTAAATTCTGTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAACCTCAGCTCACATG
**
113225785 CTGAGCTATTTTCAATTTCTG-TTTT-TT-TTTCAAAAAAATTCAACTCATATTGCAAGAGGTGA
66 CTGAGCTATTTTCAAAATCTGCTTTTATTATTTC-AAAAAA-TCAACTCATATTGCAAGAGGTGA
113225847 GTTGAGCTTTTTAATTTCTGCGAGAGTTGAGTTGAGTC
129 GTTGAGCTTTTTAATTTCTGCGAGAGTTGAGTTGAGTC
* *
113225885 TTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCCAG-TCACA
1 TTTTAAATTCTG-TTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAACCT-CAGCTCACA
* * *
113225949 T-ATCGAGGTATTTTCAAAATCTGCTTTTCAAGTTAAGTTTCAAAAAATCAACTCATATTGCGAG
64 TGCT-GAGCTATTTTCAAAATCTGCTTTT--A-TT-A-TTTCAAAAAATCAACTCATATTGCAAG
113226013 AGGTGAGTTGAGC
123 AGGTGAGTTGAGC
113226026 CTTGGCTCAC
Statistics
Matches: 119, Mismatches: 11, Indels: 15
0.82 0.08 0.10
Matches are distributed among these distances:
165 12 0.10
166 61 0.51
167 5 0.04
171 2 0.02
172 29 0.24
173 6 0.05
174 4 0.03
ACGTcount: A:0.29, C:0.15, G:0.19, T:0.37
Consensus pattern (166 bp):
TTTTAAATTCTGTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAACCTCAGCTCACATG
CTGAGCTATTTTCAAAATCTGCTTTTATTATTTCAAAAAATCAACTCATATTGCAAGAGGTGAGT
TGAGCTTTTTAATTTCTGCGAGAGTTGAGTTGAGTC
Found at i:113225997 original size:254 final size:248
Alignment explanation
Indices: 113225486--113226064 Score: 762
Period size: 254 Copynumber: 2.3 Consensus size: 248
113225476 TTCAATTTCT
* *
113225486 GTTTTCAAAAAATCAATTTATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATT
1 GTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATT
* *
113225551 TTCAATTTC----TATCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGAT
66 TTCAATTTCTGTTTTTCTTTCAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCTTCAGAT
* *
113225612 CACACACTGAGGTATTTTTTCAATTTATATTTTTCAAAAAAATCAACTCACATTGCGAGATGTGA
131 CACACACTGAGGTATCTTTTCAATTTATATTTTTC-AAAAAATCAACTCACATTGCGAGAGGTGA
* ** * * * **
113225677 GTTGAGCCTCGGGTCACATGTCGAGGTATTTTCAAAATCTGTTTTTTAAATTCT
195 GTTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTGCTTTTCAAATTAA
* *
113225731 GTTTTC-AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATT
1 GTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATT
* *
113225795 TTCAATTTCTGTTTTTTTTTCAAAAAAATTCAACTCATATTGCAAGAGGTGAGTTGAGCTTTTTA
66 TTCAATTTCTGTTTTTCTTTCAAAAAAA-TCAACTCATATTGCAAGAGGTGAGTTGAGC--TTCA
* * * * * * *
113225860 -ATTTCTGCGAGAGTTGAGTTGAGTCTTTT-AATTTCTGTTTTTC-AAAAATCAACTCATATTGC
128 GA--TC-AC-ACA-CTGAGGT-A-TCTTTTCAATTTATATTTTTCAAAAAATCAACTCACATTGC
*
113225922 GAGAGGTGAGTTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTGCTTTTCAAGTTAA
186 GAGAGGTGAGTTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTGCTTTTCAAATTAA
113225985 G-TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATT
1 GTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATT
113226049 TTCAATTTCTGTTTTT
66 TTCAATTTCTGTTTTT
113226065 AATGTCTGTT
Statistics
Matches: 291, Mismatches: 28, Indels: 21
0.86 0.08 0.06
Matches are distributed among these distances:
244 63 0.22
245 6 0.02
248 13 0.04
249 29 0.10
250 1 0.00
251 3 0.01
252 2 0.01
253 5 0.02
254 146 0.50
255 5 0.02
256 13 0.04
257 5 0.02
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.37
Consensus pattern (248 bp):
GTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATT
TTCAATTTCTGTTTTTCTTTCAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCTTCAGAT
CACACACTGAGGTATCTTTTCAATTTATATTTTTCAAAAAATCAACTCACATTGCGAGAGGTGAG
TTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTGCTTTTCAAATTAA
Found at i:113226752 original size:26 final size:25
Alignment explanation
Indices: 113226723--113226778 Score: 94
Period size: 25 Copynumber: 2.2 Consensus size: 25
113226713 CCCTCCCAAA
113226723 AAAAAACCTAACCAAAAAAAAAAAAG
1 AAAAAACCTAACC-AAAAAAAAAAAG
*
113226749 AAAAAACCTAACCCAAAAAAAAAAG
1 AAAAAACCTAACCAAAAAAAAAAAG
113226774 AAAAA
1 AAAAA
113226779 TCTAACCCCC
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
25 16 0.55
26 13 0.45
ACGTcount: A:0.77, C:0.16, G:0.04, T:0.04
Consensus pattern (25 bp):
AAAAAACCTAACCAAAAAAAAAAAG
Found at i:113226783 original size:24 final size:24
Alignment explanation
Indices: 113226720--113226786 Score: 91
Period size: 24 Copynumber: 2.8 Consensus size: 24
113226710 AAGCCCTCCC
*
113226720 AAAA-AAAAACCTAACCAAAAAAAA
1 AAAAGAAAAACCTAACC-CAAAAAA
113226744 AAAAGAAAAAACCTAACCCAAAAAA
1 AAAAG-AAAAACCTAACCCAAAAAA
*
113226769 AAAAGAAAAATCTAACCC
1 AAAAGAAAAACCTAACCC
113226787 CCTAAAAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
24 16 0.41
25 11 0.28
26 12 0.31
ACGTcount: A:0.72, C:0.19, G:0.03, T:0.06
Consensus pattern (24 bp):
AAAAGAAAAACCTAACCCAAAAAA
Found at i:113226797 original size:25 final size:25
Alignment explanation
Indices: 113226723--113226786 Score: 94
Period size: 26 Copynumber: 2.6 Consensus size: 25
113226713 CCCTCCCAAA
*
113226723 AAAAAACCTAACCAAAAAAAAAAAAG
1 AAAAAACCTAACC-CAAAAAAAAAAG
113226749 AAAAAACCTAACCCAAAAAAAAAAG
1 AAAAAACCTAACCCAAAAAAAAAAG
*
113226774 -AAAAATCTAACCC
1 AAAAAACCTAACCC
113226787 CCTAAAAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
24 12 0.33
25 11 0.31
26 13 0.36
ACGTcount: A:0.70, C:0.20, G:0.03, T:0.06
Consensus pattern (25 bp):
AAAAAACCTAACCCAAAAAAAAAAG
Found at i:113227191 original size:17 final size:18
Alignment explanation
Indices: 113227169--113227211 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
113227159 CGGCCACCGT
*
113227169 GGGCGGTGGCCGGCGA-C
1 GGGCGGTGGCCGACGATC
*
113227186 GGGCGGCGGCCGACGATC
1 GGGCGGTGGCCGACGATC
*
113227204 GGCCGGTG
1 GGGCGGTG
113227212 ATCGGCCCCC
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 14 0.67
18 7 0.33
ACGTcount: A:0.07, C:0.30, G:0.56, T:0.07
Consensus pattern (18 bp):
GGGCGGTGGCCGACGATC
Found at i:113227725 original size:2 final size:2
Alignment explanation
Indices: 113227718--113227742 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
113227708 ATTATATGCC
113227718 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
113227743 TTGTACATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:113233294 original size:24 final size:25
Alignment explanation
Indices: 113233240--113233287 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
113233230 TTCAGCTTGC
113233240 ATGAGCTTCTCGTTATATAGCTCGG
1 ATGAGCTTCTCGTTATATAGCTCGG
*
113233265 AAGAGCTTACT-GTT-TATAGCTCG
1 ATGAGCTT-CTCGTTATATAGCTCG
113233288 TGTGAGCATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 9 0.43
25 10 0.48
26 2 0.10
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.35
Consensus pattern (25 bp):
ATGAGCTTCTCGTTATATAGCTCGG
Found at i:113235260 original size:22 final size:22
Alignment explanation
Indices: 113235205--113235251 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 22
113235195 AAAAGCTATC
*
113235205 TACA-AATCAAATCTTTAAGAT
1 TACAGAATCATATCTTTAAGAT
113235226 TACAGAATCATATCTTCTAAGAT
1 TACAGAATCATATCTT-TAAGAT
113235249 TAC
1 TAC
113235252 GTTTCATATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 4 0.17
22 10 0.43
23 9 0.39
ACGTcount: A:0.43, C:0.17, G:0.06, T:0.34
Consensus pattern (22 bp):
TACAGAATCATATCTTTAAGAT
Found at i:113237134 original size:24 final size:24
Alignment explanation
Indices: 113237089--113237134 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
113237079 TTTTTATTTT
* *
113237089 TATATATTTTTAAATTTATTATTA
1 TATATATTTTAAAATATATTATTA
113237113 TATATATTTTGAAAATAT-TTAT
1 TATATATTTT-AAAATATATTAT
113237135 GTATTTTTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 14 0.74
25 5 0.26
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (24 bp):
TATATATTTTAAAATATATTATTA
Found at i:113240039 original size:30 final size:30
Alignment explanation
Indices: 113240003--113240067 Score: 96
Period size: 30 Copynumber: 2.2 Consensus size: 30
113239993 CAACTTAACA
113240003 AACAAATGAT-TCTAAAATAATAACAAAATT
1 AACAAATG-TCTCTAAAATAATAACAAAATT
* *
113240033 AACAAATGTCTTTAAAATAATGACAAAATT
1 AACAAATGTCTCTAAAATAATAACAAAATT
113240063 AACAA
1 AACAA
113240068 TAAAATAAGT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
29 1 0.03
30 31 0.97
ACGTcount: A:0.58, C:0.11, G:0.05, T:0.26
Consensus pattern (30 bp):
AACAAATGTCTCTAAAATAATAACAAAATT
Found at i:113240122 original size:22 final size:22
Alignment explanation
Indices: 113240097--113240139 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
113240087 TATCCAAACA
113240097 ATAACAACAAAATAGTAGCAAC
1 ATAACAACAAAATAGTAGCAAC
* * *
113240119 ATAATAGCAAAATGGTAGCAA
1 ATAACAACAAAATAGTAGCAA
113240140 AATATGGAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.56, C:0.14, G:0.14, T:0.16
Consensus pattern (22 bp):
ATAACAACAAAATAGTAGCAAC
Found at i:113240137 original size:11 final size:11
Alignment explanation
Indices: 113240104--113240143 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
113240094 ACAATAACAA
113240104 CAAAATAGTAG
1 CAAAATAGTAG
* *
113240115 CAACATAATAG
1 CAAAATAGTAG
*
113240126 CAAAATGGTAG
1 CAAAATAGTAG
113240137 CAAAATA
1 CAAAATA
113240144 TGGAGAAAAT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.55, C:0.12, G:0.15, T:0.17
Consensus pattern (11 bp):
CAAAATAGTAG
Found at i:113243469 original size:101 final size:100
Alignment explanation
Indices: 113243291--113243487 Score: 250
Period size: 101 Copynumber: 2.0 Consensus size: 100
113243281 GGCCCACACG
* * * * * ** *
113243291 GGCGTGTGATAATTGGGTCAGGCCGTGTGATCTACACGGTCTAGGCCAATCTAGACGTATGGGCT
1 GGCGTGTGATAACTGGGCCAAGCCGTGTGATCCACACGGGCTAGGCCAATCTAGACGTATGACCC
*
113243356 ACACGAGTGTGTGGACCCACACGGGCATGCCATACT
66 ACACGAGCGTGTGGACCCACA-GGGCATGCCATACT
* * *
113243392 GGCGTGTGATAACTGGGCCAAGCCGTGTGTTCCACACGGGCTAGGCCAATCTGGACGTGTGACCC
1 GGCGTGTGATAACTGGGCCAAGCCGTGTGATCCACACGGGCTAGGCCAATCTAGACGTATGACCC
* * *
113243457 ACAGGAGCGTGTGGGCCCACAGGGTATGCCA
66 ACACGAGCGTGTGGACCCACAGGGCATGCCA
113243488 CATAGGCGTG
Statistics
Matches: 81, Mismatches: 15, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
100 9 0.11
101 72 0.89
ACGTcount: A:0.21, C:0.25, G:0.34, T:0.20
Consensus pattern (100 bp):
GGCGTGTGATAACTGGGCCAAGCCGTGTGATCCACACGGGCTAGGCCAATCTAGACGTATGACCC
ACACGAGCGTGTGGACCCACAGGGCATGCCATACT
Found at i:113248188 original size:19 final size:19
Alignment explanation
Indices: 113248150--113248189 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
113248140 AAAATATCAT
* *
113248150 ATTAATTTTAATTGATTTG
1 ATTAATTTAAATTGACTTG
*
113248169 ATTAATTTAAATTTACTTG
1 ATTAATTTAAATTGACTTG
113248188 AT
1 AT
113248190 CAAAATTAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.35, C:0.03, G:0.07, T:0.55
Consensus pattern (19 bp):
ATTAATTTAAATTGACTTG
Found at i:113250523 original size:2 final size:2
Alignment explanation
Indices: 113250516--113250549 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
113250506 CCAAATACTC
113250516 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
113250550 TATCATTATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:113253488 original size:2 final size:2
Alignment explanation
Indices: 113253483--113253511 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
113253473 ATATAATCTA
113253483 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
113253512 CACGTAGGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:113253826 original size:16 final size:17
Alignment explanation
Indices: 113253807--113253844 Score: 53
Period size: 16 Copynumber: 2.3 Consensus size: 17
113253797 GGATAACGAA
113253807 AAAAAAT-TATAAAT-AT
1 AAAAAATCTA-AAATAAT
113253823 AAAAAATCTAAAATAAT
1 AAAAAATCTAAAATAAT
113253840 AAAAA
1 AAAAA
113253845 TAAATAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 11 0.55
17 9 0.45
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (17 bp):
AAAAAATCTAAAATAAT
Found at i:113253841 original size:23 final size:24
Alignment explanation
Indices: 113253809--113253853 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
113253799 ATAACGAAAA
* *
113253809 AAAATTATAAATATAAA-AAATCT
1 AAAATAATAAAAATAAATAAATCT
113253832 AAAATAATAAAAATAAATAAAT
1 AAAATAATAAAAATAAATAAAT
113253854 TAAGTTCCGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 15 0.79
24 4 0.21
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (24 bp):
AAAATAATAAAAATAAATAAATCT
Found at i:113255227 original size:14 final size:14
Alignment explanation
Indices: 113255208--113255238 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
113255198 CATAGTACAG
113255208 TTTGTATTAAGAAA
1 TTTGTATTAAGAAA
113255222 TTTGTATTAAGAAA
1 TTTGTATTAAGAAA
113255236 TTT
1 TTT
113255239 ATTTGGTGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.39, C:0.00, G:0.13, T:0.48
Consensus pattern (14 bp):
TTTGTATTAAGAAA
Found at i:113263745 original size:18 final size:17
Alignment explanation
Indices: 113263722--113263755 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
113263712 CATTTGGCCT
113263722 GCCCGTATGAGCCCACAA
1 GCCCGTAT-AGCCCACAA
*
113263740 GCCCGTGTAGCCCACA
1 GCCCGTATAGCCCACA
113263756 CGGCCCAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.24, C:0.41, G:0.24, T:0.12
Consensus pattern (17 bp):
GCCCGTATAGCCCACAA
Found at i:113268279 original size:23 final size:22
Alignment explanation
Indices: 113268224--113268280 Score: 55
Period size: 23 Copynumber: 2.6 Consensus size: 22
113268214 TGAAAAAATT
*
113268224 ATTTTAA-ATATTTTAATGAAA
1 ATTTTAATATTTTTTAATGAAA
* *
113268245 A-TTGAATAATTTTTTATATTAAA
1 ATTTTAAT-ATTTTTTA-ATGAAA
113268268 ATTTTAATATTTT
1 ATTTTAATATTTT
113268281 AAAATATATC
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
20 4 0.14
21 1 0.04
22 7 0.25
23 11 0.39
24 5 0.18
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (22 bp):
ATTTTAATATTTTTTAATGAAA
Found at i:113268593 original size:44 final size:44
Alignment explanation
Indices: 113268530--113268617 Score: 167
Period size: 44 Copynumber: 2.0 Consensus size: 44
113268520 TACAATGTCA
*
113268530 AATACTCCAATAAAACTAAAGTTACAGGGTGAAAATTTTGTAAT
1 AATACTCCAATAAAACTAAAATTACAGGGTGAAAATTTTGTAAT
113268574 AATACTCCAATAAAACTAAAATTACAGGGTGAAAATTTTGTAAT
1 AATACTCCAATAAAACTAAAATTACAGGGTGAAAATTTTGTAAT
113268618 CTTAGAGAAT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.47, C:0.11, G:0.12, T:0.30
Consensus pattern (44 bp):
AATACTCCAATAAAACTAAAATTACAGGGTGAAAATTTTGTAAT
Found at i:113268856 original size:16 final size:16
Alignment explanation
Indices: 113268837--113268871 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
113268827 AACCTAACCC
*
113268837 AAAAAAAA-ACAAAGA
1 AAAAAAAAGAAAAAGA
113268852 AAAAAAAAGAAAAAGA
1 AAAAAAAAGAAAAAGA
113268868 AAAA
1 AAAA
113268872 CTTACCCCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.89, C:0.03, G:0.09, T:0.00
Consensus pattern (16 bp):
AAAAAAAAGAAAAAGA
Found at i:113268886 original size:16 final size:15
Alignment explanation
Indices: 113268867--113268901 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
113268857 AAAGAAAAAG
* *
113268867 AAAAACTTACCCCAA
1 AAAAACCTAACCCAA
113268882 AAAAACCTAACCCAA
1 AAAAACCTAACCCAA
113268897 AAAAA
1 AAAAA
113268902 AAAGAAGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.63, C:0.29, G:0.00, T:0.09
Consensus pattern (15 bp):
AAAAACCTAACCCAA
Found at i:113271482 original size:12 final size:12
Alignment explanation
Indices: 113271465--113271500 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
113271455 ATTCATTTGA
113271465 CATTCATGCATT
1 CATTCATGCATT
113271477 CATTCATGCATT
1 CATTCATGCATT
*
113271489 CATTCATACATT
1 CATTCATGCATT
113271501 GCATATCCCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.28, C:0.25, G:0.06, T:0.42
Consensus pattern (12 bp):
CATTCATGCATT
Found at i:113276885 original size:71 final size:69
Alignment explanation
Indices: 113276691--113276954 Score: 323
Period size: 71 Copynumber: 3.7 Consensus size: 69
113276681 GAGTTAAGCC
* *
113276691 TTTTAATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCT
1 TTTTAATTTTTG-TTTT--AAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCT
113276756 GAGGTAT
63 GAGGTAT
* * ** * *
113276763 TTTCAATTTTTGTGTTTTAATCAACTCATATTGCGAG-AGATGAGTTGAGCCTCAAGACACGTTG
1 TTTTAATTTTTGT-TTTAAATCAACTCATATTGCGAGAAG-TGAGTTGAGCCTCGGGGCACGCTG
113276827 AGGTAT
64 AGGTAT
*
113276833 TTTTAATTTTTGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACACTG
1 TTTTAATTTTTGTTTT--AAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTG
113276898 AGGTAT
64 AGGTAT
* * ** * *
113276904 TTTTAGTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCT
1 TTTTAATTTTTGTTTTAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT
113276955 TTTAATTTTT
Statistics
Matches: 166, Mismatches: 21, Indels: 13
0.83 0.10 0.06
Matches are distributed among these distances:
69 35 0.21
70 56 0.34
71 59 0.36
72 16 0.10
ACGTcount: A:0.26, C:0.14, G:0.22, T:0.38
Consensus pattern (69 bp):
TTTTAATTTTTGTTTTAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAG
GTAT
Found at i:113276999 original size:122 final size:124
Alignment explanation
Indices: 113276833--113277079 Score: 383
Period size: 122 Copynumber: 2.0 Consensus size: 124
113276823 GTTGAGGTAT
113276833 TTTTAATTTTTGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACACTG
1 TTTTAATTTTTGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACACTG
* *
113276898 AGGTATTTT-TA-GTTTATGTTTTAAATT-GACTCATATTGCGAGAGGTGAGTTAAGCC
66 AGGTATTTTCAATGTTTATGTTTTAAATTCAACTCATATTGCGAGAGGTGAGTTAAGCC
* * *
113276954 TTTTAATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCT
1 TTTTAATTTTTG-TTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACACT
* * * *
113277019 GAGGTATTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCC
65 GAGGTATTTTCAATGTTTATGTTTTAAATTCAACTCATATTGCGAGAGGTGAGTTAAGCC
113277079 T
1 T
113277080 CAGGTCACGC
Statistics
Matches: 113, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
121 12 0.11
122 59 0.52
123 1 0.01
124 13 0.12
125 28 0.25
ACGTcount: A:0.25, C:0.14, G:0.22, T:0.39
Consensus pattern (124 bp):
TTTTAATTTTTGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACACTG
AGGTATTTTCAATGTTTATGTTTTAAATTCAACTCATATTGCGAGAGGTGAGTTAAGCC
Found at i:113277040 original size:263 final size:257
Alignment explanation
Indices: 113276524--113277116 Score: 1033
Period size: 263 Copynumber: 2.3 Consensus size: 257
113276514 TTTCAAGGAA
*
113276524 AATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTGTTGT
1 AATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTTGT
*
113276589 TTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTTAGT
66 TTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGACACACTGAGGTATTTTTAGT
113276654 TTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCAACT
131 TTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCAACT
113276719 CATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGTTTT
196 CATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGTTTT
113276781 AATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTTGT
1 AATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTTGT
*
113276846 TTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACACTGAGGTATTTTTAGT
66 TTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGACACACTGAGGTA---TT--T
113276911 TTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAA
126 TTA-GTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAA
113276976 TCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGT
190 TCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGT
113277041 TTT
255 TTT
* * * * * *
113277044 AATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCT
1 AA--TCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTT
113277109 GTTTTCAA
64 GTTTTCAA
113277117 TTTACGTTGT
Statistics
Matches: 319, Mismatches: 9, Indels: 8
0.95 0.03 0.02
Matches are distributed among these distances:
257 119 0.37
260 2 0.01
262 4 0.01
263 131 0.41
265 63 0.20
ACGTcount: A:0.26, C:0.15, G:0.23, T:0.37
Consensus pattern (257 bp):
AATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTTGT
TTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGACACACTGAGGTATTTTTAGT
TTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCAACT
CATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGTTTT
Found at i:113277075 original size:72 final size:71
Alignment explanation
Indices: 113276954--113277394 Score: 306
Period size: 72 Copynumber: 6.1 Consensus size: 71
113276944 GAGTTAAGCC
*
113276954 TTTT-AATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGC
1 TTTTCAATTTTTGTTTTT-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGC
113277018 TGAGGTA
65 TGAGGTA
** * *
113277025 TTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGC
1 TTTTCAATTTTTGT-TTTTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGC
113277090 TGAGGTA
65 TGAGGTA
* * ** * * * * ** * *** *
113277097 TTTTCAATTTCTG-TTTT-CAATTTACGT--TGTT-CAAGA-ATCAACTCATATTGCGAGAGGTA
1 TTTTCAATTTTTGTTTTTAAAATCAAC-TCATATTGCGAGAGGTGAGTTGAGCCT-CG-G-GGCA
* * ***
113277156 GGTTGA-ACC
62 CGCTGAGGTA
** * * *
113277165 TTTT-AATTTCTACTTTTTCAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGACACG
1 TTTTCAATTT-TTGTTTTT-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACG
113277229 CTGAGGTA
64 CTGAGGTA
* * ** *
113277237 ATTTCAATTTCTGTTGTCAAAAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCAC
1 TTTTCAATTTTTGTT-T--TTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCAC
113277302 GCTGAGGTA
63 GCTGAGGTA
* ** * * **
113277311 TTTTCAATTTTTATGTTTTAATTTCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACAC
1 TTTTCAATTTTTGT-TTTTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GG-GGCAC
*
113277376 GCCGAGGTA
63 GCTGAGGTA
113277385 TTTTCAATTT
1 TTTTCAATTT
113277395 CCGTTTTTCA
Statistics
Matches: 271, Mismatches: 77, Indels: 41
0.70 0.20 0.11
Matches are distributed among these distances:
66 5 0.02
67 10 0.04
68 8 0.03
69 13 0.05
70 6 0.02
71 15 0.06
72 110 0.41
73 16 0.06
74 87 0.32
75 1 0.00
ACGTcount: A:0.25, C:0.17, G:0.22, T:0.37
Consensus pattern (71 bp):
TTTTCAATTTTTGTTTTTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCT
GAGGTA
Found at i:113277377 original size:74 final size:74
Alignment explanation
Indices: 113277184--113277395 Score: 259
Period size: 74 Copynumber: 2.9 Consensus size: 74
113277174 CTACTTTTTC
* *
113277184 AAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCT
113277249 GTTGTCAAA
66 GTTGTCAAA
* * *
113277258 AAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTT-T
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCT
***
113277322 -TATGT-TTT
66 GT-TGTCAAA
** * * *
113277330 AATTTCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACACGCTGAGGTATTTTCAATTT
113277395 C
64 C
113277396 CGTTTTTCAA
Statistics
Matches: 118, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
72 35 0.30
73 4 0.03
74 79 0.67
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.32
Consensus pattern (74 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCT
GTTGTCAAA
Found at i:113277404 original size:14 final size:14
Alignment explanation
Indices: 113277385--113277419 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
113277375 CGCCGAGGTA
113277385 TTTTCAATTTCCGT
1 TTTTCAATTTCCGT
*
113277399 TTTTCAATTTCTGT
1 TTTTCAATTTCCGT
*
113277413 CTTTCAA
1 TTTTCAA
113277420 AAAAAATCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.17, C:0.20, G:0.06, T:0.57
Consensus pattern (14 bp):
TTTTCAATTTCCGT
Found at i:113277525 original size:74 final size:77
Alignment explanation
Indices: 113277400--113277561 Score: 240
Period size: 74 Copynumber: 2.1 Consensus size: 77
113277390 AATTTCCGTT
* *
113277400 TTTCAATTTCTGTCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-AC
1 TTTCAATTTCTGTCTGTCAAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGCAC
*
113277464 ACGCTGAGGTAA
66 ACGCCGAGGTAA
* *
113277476 TTTCAATTTCTGT-TGTC-AAAAAAATCAACTCGTATTGCGAGTGGCGAGTTGAGCCTCAGGTCA
1 TTTCAATTTCTGTCTGTCAAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGG-CA
*
113277539 CACGCCGAGGTAT
65 CACGCCGAGGTAA
113277552 TTTCAATTTC
1 TTTCAATTTC
113277562 CGTTTTTCAA
Statistics
Matches: 78, Mismatches: 6, Indels: 4
0.89 0.07 0.05
Matches are distributed among these distances:
74 40 0.51
75 3 0.04
76 35 0.45
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.31
Consensus pattern (77 bp):
TTTCAATTTCTGTCTGTCAAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGCAC
ACGCCGAGGTAA
Found at i:113277671 original size:165 final size:166
Alignment explanation
Indices: 113277238--113277897 Score: 955
Period size: 165 Copynumber: 4.0 Consensus size: 166
113277228 GCTGAGGTAA
* * *
113277238 TTTCAATTTCTG--TTGTC-AAAAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGC
1 TTTCAATTTCTGCCTT-TCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
* *** *
113277300 ACGCTGAGGTATTTTCAATTT-T-TATGT-TTTAATTTCAACTCGTATTGCGAGAGGCGAGTTGA
65 ACGCTGAGGTAATTTCAATTTCTGT-TGTCAAAAAATTCAACTCGTATTGCGAGAGGCGAGTTGA
113277362 GCCTCAGGTCACACGCCGAGGTATTTTCAATTTCCGTT
129 GCCTCAGGTCACACGCCGAGGTATTTTCAATTTCCGTT
*
113277400 TTTCAATTTCTGTCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
1 TTTCAATTTCTGCCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
* *
113277465 CGCTGAGGTAATTTCAATTTCTGTTGTCAAAAAAATCAACTCGTATTGCGAGTGGCGAGTTGAGC
66 CGCTGAGGTAATTTCAATTTCTGTTGTCAAAAAATTCAACTCGTATTGCGAGAGGCGAGTTGAGC
113277530 CTCAGGTCACACGCCGAGGTATTTTCAATTTCCGTT
131 CTCAGGTCACACGCCGAGGTATTTTCAATTTCCGTT
*
113277566 TTTCAATTTTTGCCTTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
1 TTTCAATTTCTGCCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
* *
113277630 CGCTGAGGTAATTTCAATTTCTGTTGTCAAAAAAGTCAACTCGTATTGCGAGAGGTGAGTTGAGC
66 CGCTGAGGTAATTTCAATTTCTGTTGTCAAAAAATTCAACTCGTATTGCGAGAGGCGAGTTGAGC
* * *
113277695 CTCAGATCACACGTCGAGGTATTTTCAATTTCCATT
131 CTCAGGTCACACGCCGAGGTATTTTCAATTTCCGTT
*
113277731 TTTCAATTTCTGCCTTTCAAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG
1 TTTCAATTTCTGCCTTTC---AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
* * ***
113277796 ACACGCTGAGGTAATTTCAATTTCTGTTTTC--AAAATTCAACTCATATTGCGAGAAATGAGTTG
63 ACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAAATTCAACTCGTATTGCGAGAGGCGAGTTG
* ** *
113277859 AGCCTCAAG--ACACGTTGAGGTATTTTCAATTTCTGTT
128 AGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCCGTT
113277896 TT
1 TT
113277898 CAAAAAATCA
Statistics
Matches: 458, Mismatches: 30, Indels: 17
0.91 0.06 0.03
Matches are distributed among these distances:
162 12 0.03
163 2 0.00
164 64 0.14
165 189 0.41
166 84 0.18
167 35 0.08
169 72 0.16
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.33
Consensus pattern (166 bp):
TTTCAATTTCTGCCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
CGCTGAGGTAATTTCAATTTCTGTTGTCAAAAAATTCAACTCGTATTGCGAGAGGCGAGTTGAGC
CTCAGGTCACACGCCGAGGTATTTTCAATTTCCGTT
Found at i:113277688 original size:74 final size:76
Alignment explanation
Indices: 113277582--113277726 Score: 224
Period size: 74 Copynumber: 1.9 Consensus size: 76
113277572 TTTTTGCCTT
*
113277582 TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG--GACACG-CTGAGGTAATTT
1 TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGTC-GAGGTAATTT
113277644 CAATTTCTGTTG
65 CAATTTCTGTTG
* * *
113277656 TCAAAAAAGTCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGTCGAGGTATTTTC
1 TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGTCGAGGTAATTTC
113277721 AATTTC
66 AATTTC
113277727 CATTTTTCAA
Statistics
Matches: 64, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
74 42 0.66
76 21 0.33
77 1 0.02
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (76 bp):
TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGTCGAGGTAATTTC
AATTTCTGTTG
Found at i:113277871 original size:72 final size:73
Alignment explanation
Indices: 113277754--113278093 Score: 378
Period size: 72 Copynumber: 4.5 Consensus size: 73
113277744 CTTTCAAAAA
** *
113277754 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTT
113277819 CTGTTTTC
66 CTGTTTTC
* ** *
113277827 -AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTT
113277891 CTGTTTTC
66 CTGTTTTC
* * ** * *
113277899 AAAAAATCAACTTATATTGCGAGAGGTGAGTTGACCCT-TGGCTCATGCGCTGAGCTATTTTCAA
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG-ACA--CGCTGAGGTATTTTCAA
*
113277963 TTTCTATCTTTC
63 TTTCTGT-TTTC
* * *
113277975 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGAGGTATTTTTTC
1 -AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA-A-GACACGCTGAGGTA--TTTTC
* *
113278040 AATTTATATTTTTC
61 AATTTCT-GTTTTC
* *
113278054 AAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTC
1 -AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
113278094 GGGTTACATG
Statistics
Matches: 223, Mismatches: 32, Indels: 18
0.82 0.12 0.07
Matches are distributed among these distances:
72 66 0.30
73 34 0.15
75 21 0.09
76 4 0.02
77 43 0.19
79 54 0.24
80 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.33
Consensus pattern (73 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTT
CTGTTTTC
Found at i:113278077 original size:79 final size:76
Alignment explanation
Indices: 113277753--113278470 Score: 427
Period size: 88 Copynumber: 9.0 Consensus size: 76
113277743 CCTTTCAAAA
** *
113277753 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-G-GGACACGCTGAGGTAATTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGAGGTATTTTCAA
113277816 TTTCTGTTTTC
66 TTTCTGTTTTC
* ** * *
113277827 --AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCA-A-GACACGTTGAGGTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGAGGTATTTTCAA
113277888 TTTCTGTTTTC
66 TTTCTGTTTTC
* * ** * ** *
113277899 -AAAAAATCAACTTATATTGCGAGAGGTGAGTTGACCCTTGGCTCATGCGCTGAGCTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGAGGTATTTTCAA
*
113277963 TTTCTATCTTTC
66 TTTCTGT-TTTC
* *
113277975 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGAGGTATTTTTTC
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGAGGTA--TTTTC
* *
113278040 AATTTATATTTTTC
64 AATTTCT-GTTTTC
* * * * * *
113278054 AAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGGTTACATG-TCGAGGTATTTTCA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCT-GAGGTATTTTCA
** *
113278118 AAATCTATTTTTC
65 ATTTCT-GTTTTC
* ** * **
113278131 AAATTCTGTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGA
1 -AA----------AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGA
*
113278196 GCTATTTTCAATTTCTGTTTTTTTTTC
55 GGTATTTTCAATTTCTG-----TTTTC
* * * * * *
113278223 AAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCTTTTTA-ATTTCTGCGAGAGTTGAGTT
1 AAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGC--CTCAGA--TC-AC-A-CGCTGAGGT
*
113278287 GAGTCTTTTAATTTCTGTTTTTC
58 -A-T-TTTCAATTTCTG-TTTTC
* **
113278310 --AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCCAG-TCACA-TATCGAGGTATTTTC
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-CAGATCACACGCT-GAGGTATTTTC
**
113278371 AAAATCTGCTTTTC
64 AATTTCTG-TTTTC
** * *
113278385 AAGTTAAGTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGA
1 ------A-----AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGA
*
113278450 GCTATTTTCAATTTCTGTTTT
55 GGTATTTTCAATTTCTGTTTT
113278471 TAATGTCTGT
Statistics
Matches: 505, Mismatches: 82, Indels: 101
0.73 0.12 0.15
Matches are distributed among these distances:
72 65 0.13
73 32 0.06
75 36 0.07
76 5 0.01
77 65 0.13
78 7 0.01
79 64 0.13
80 2 0.00
81 7 0.01
82 30 0.06
83 1 0.00
84 31 0.06
85 7 0.01
86 1 0.00
87 11 0.02
88 119 0.24
89 3 0.01
90 1 0.00
91 13 0.03
92 5 0.01
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (76 bp):
AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGAGGTATTTTCAA
TTTCTGTTTTC
Found at i:113278278 original size:30 final size:30
Alignment explanation
Indices: 113278242--113278303 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
113278232 CAACTCATAT
113278242 TGCGAGAGGTGAGTTGAG-CTTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGTC-TTTTAATTTC
*
113278272 TGCGAGAGTTGAGTTGAGTCTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGTCTTTTAATTTC
113278302 TG
1 TG
113278304 TTTTTCAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 29 0.97
31 1 0.03
ACGTcount: A:0.19, C:0.10, G:0.29, T:0.42
Consensus pattern (30 bp):
TGCGAGAGGTGAGTTGAGTCTTTTAATTTC
Found at i:113278374 original size:396 final size:382
Alignment explanation
Indices: 113277579--113278346 Score: 833
Period size: 396 Copynumber: 1.9 Consensus size: 382
113277569 CAATTTTTGC
* *
113277579 CTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTT
1 CTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCACACACTGAGGTAATTT
* * **
113277644 CAATTTCTGTTGTCAAAAAAGTCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGT
66 CAATTTATGTTGTCAAAAAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGT
** *
113277709 CGAGGTATTTTCAATTTCCATTTTTCAATTTCTGCCTTTCAAAAAAAAAAATCAACTCATATTGC
131 CGAGGTATTTTCAAAATCCATTTTTCAAATTCTGCCTTTC-----AAAAAATCAACTCATATTGC
* * *
113277774 GAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTC
191 GAGAAGTGAGTTGAGCCTCGGCACACGCTGAGCTAATTTCAATTTCTGTTTTCAAAATTCAACTC
*
113277839 ATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTGTTTTCAAAAA
256 ATATTGCGAGAAATGAGTTGAGCCTCAAGACAAGTTGAGGTATTTTCAATTTCTGTTTTCAAAAA
* * * * *
113277904 ATCAACTTATATTGCGAGAGGTGAGTTGACCCTTGGCTCATGCGCTGAGCTATTTTCAATTTCTA
321 ATCAACTCATATTGCGAGAGGTGAGTTGAACCTT-GCTCA--CGCTCAGCTATTATCAA-TGCTA
113277969 T
382 T
*
113277970 CTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGAGGTATT
1 CTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG--CACACACTGAGGTA--
* * * * * * *
113278035 TTTTCAATTTATATTTTTCAAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGGTTA
62 ATTTCAATTTAT-GTTGTCAAAAAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTCAGATCA
* * *
113278100 CATGTCGAGGTATTTTCAAAATCTATTTTTCAAATTCTG-TTTTC-AAAAATCAACTCATATTGC
126 CACGTCGAGGTATTTTCAAAATCCATTTTTCAAATTCTGCCTTTCAAAAAATCAACTCATATTGC
* * *
113278163 GAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAATTTCTGTTTTTTTTTCAAAAA
191 GAGAAGTGAGTTGAGCCTCGGCACAC--GCTGAGCTAATTTCAATTTCTG-----TTTTC---AA
** * * *
113278228 AATTCAACTCATATTGCGAGAGGTGAGTTGAGCTTTTTAATTTCTG-CGAGAGTTGAGTTGAGTC
246 AATTCAACTCATATTGCGAGAAATGAGTTGAGC--CTCAA-----GAC-A-AGTTGAGGT-A-T-
*
113278292 TTTTAATTTCTGTTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCT
299 TTTCAATTTCTG-TTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCT
113278347 CCAGTCACAT
Statistics
Matches: 314, Mismatches: 35, Indels: 37
0.81 0.09 0.10
Matches are distributed among these distances:
389 41 0.13
391 66 0.21
393 12 0.04
395 14 0.04
396 82 0.26
399 33 0.11
401 3 0.01
405 1 0.00
406 2 0.01
407 7 0.02
408 1 0.00
409 1 0.00
410 46 0.15
411 5 0.02
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (382 bp):
CTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCACACACTGAGGTAATTT
CAATTTATGTTGTCAAAAAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGT
CGAGGTATTTTCAAAATCCATTTTTCAAATTCTGCCTTTCAAAAAATCAACTCATATTGCGAGAA
GTGAGTTGAGCCTCGGCACACGCTGAGCTAATTTCAATTTCTGTTTTCAAAATTCAACTCATATT
GCGAGAAATGAGTTGAGCCTCAAGACAAGTTGAGGTATTTTCAATTTCTGTTTTCAAAAAATCAA
CTCATATTGCGAGAGGTGAGTTGAACCTTGCTCACGCTCAGCTATTATCAATGCTAT
Found at i:113278404 original size:254 final size:248
Alignment explanation
Indices: 113277893--113278471 Score: 753
Period size: 254 Copynumber: 2.3 Consensus size: 248
113277883 TTCAATTTCT
* * *
113277893 GTTTTCAAAAAATCAACTTATATTGCGAGAGGTGAGTTGACCCTTGGCTCATGCGCTGAGCTATT
1 GTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATT
*
113277958 TTCAATTTC----TATCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGAT
66 TTCAATTTCTGTTTTTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGAT
* *
113278019 CACACACTGAGGTATTTTTTCAATTTATATTTTTCAAAAAAATCAACTCACATTGCGAGATGTGA
131 CACACACTGAGGTATCTTTTCAATTTATATTTTTC-AAAAAATCAACTCACATTGCGAGAGGTGA
* ** * * * **
113278084 GTTGAGCCTCGGGTTACATGTCGAGGTATTTTCAAAATCTATTTTTCAAATTCT
195 GTTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTACTTTTCAAATTAA
* *
113278138 GTTTTC-AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATT
1 GTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATT
* *
113278202 TTCAATTTCTGTTTTTTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCTTTTTA
66 TTCAATTTCTGTTTTTCTTTCAAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGC--TTCA
* * * * * * *
113278267 -ATTTCTGCGAGAGTTGAGTTGAGTCTTTT-AATTTCTGTTTTTC-AAAAATCAACTCATATTGC
128 GA--TC-AC-ACA-CTGAGGT-A-TCTTTTCAATTTATATTTTTCAAAAAATCAACTCACATTGC
* *
113278329 GAGAGGTGAGTTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTGCTTTTCAAGTTAA
186 GAGAGGTGAGTTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTACTTTTCAAATTAA
113278392 G-TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATT
1 GTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATT
113278456 TTCAATTTCTGTTTTT
66 TTCAATTTCTGTTTTT
113278472 AATGTCTGTT
Statistics
Matches: 290, Mismatches: 29, Indels: 21
0.85 0.09 0.06
Matches are distributed among these distances:
244 62 0.21
245 6 0.02
248 13 0.04
249 30 0.10
250 1 0.00
251 3 0.01
252 2 0.01
253 5 0.02
254 145 0.50
255 5 0.02
256 13 0.04
257 5 0.02
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.37
Consensus pattern (248 bp):
GTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATT
TTCAATTTCTGTTTTTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGAT
CACACACTGAGGTATCTTTTCAATTTATATTTTTCAAAAAATCAACTCACATTGCGAGAGGTGAG
TTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTACTTTTCAAATTAA
Found at i:113279135 original size:17 final size:17
Alignment explanation
Indices: 113279115--113279150 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
113279105 AACCTAACCC
*
113279115 AAAAAAAA-ACAAAGAA
1 AAAAAAAAGAAAAAGAA
113279131 AAAAAAAAGAAAAAGAA
1 AAAAAAAAGAAAAAGAA
113279148 AAA
1 AAA
113279151 CTACCCCAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 8 0.44
17 10 0.56
ACGTcount: A:0.89, C:0.03, G:0.08, T:0.00
Consensus pattern (17 bp):
AAAAAAAAGAAAAAGAA
Found at i:113279149 original size:11 final size:11
Alignment explanation
Indices: 113279117--113279150 Score: 50
Period size: 12 Copynumber: 2.9 Consensus size: 11
113279107 CCTAACCCAA
113279117 AAAAAAACAAAG
1 AAAAAAA-AAAG
113279129 AAAAAAAAAAG
1 AAAAAAAAAAG
113279140 AAAAAGAAAAA
1 AAAAA-AAAAA
113279151 CTACCCCAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 9 0.43
12 12 0.57
ACGTcount: A:0.88, C:0.03, G:0.09, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAAG
Done.