Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
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: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 154 of 250
Found at i:49669697 original size:21 final size:19
Alignment explanation
Indices: 49669671--49669737 Score: 52
Period size: 19 Copynumber: 3.5 Consensus size: 19
49669661 ATATTAATTA
49669671 AATAATAATAACAATAACAAT
1 AATAATAATAA-AATAA-AAT
49669692 AATAAT--TAAATATAAAACT
1 AATAATAATAAA-ATAAAA-T
*
49669711 -ATAATAAT-AAATAATAAG
1 AATAATAATAAAATAA-AAT
49669729 AATAATAAT
1 AATAATAAT
49669738 TTAATATATT
Statistics
Matches: 39, Mismatches: 1, Indels: 14
0.72 0.02 0.26
Matches are distributed among these distances:
18 12 0.31
19 20 0.51
20 1 0.03
21 6 0.15
ACGTcount: A:0.66, C:0.04, G:0.01, T:0.28
Consensus pattern (19 bp):
AATAATAATAAAATAAAAT
Found at i:49669704 original size:40 final size:40
Alignment explanation
Indices: 49669651--49669744 Score: 97
Period size: 40 Copynumber: 2.4 Consensus size: 40
49669641 TTATTTAATT
49669651 TAATAA-TATAATATTAATTAA-ATAATAAT-AACAATAACAA
1 TAATAATTA-AATATTAA--AACATAATAATAAACAATAACAA
* *
49669691 TAATAATTAAATA-TAAAACTATAATAATAAATAATAAGAA
1 TAATAATTAAATATTAAAAC-ATAATAATAAACAATAACAA
*
49669731 TAATAATTTAATAT
1 TAATAATTAAATAT
49669745 ATTTTAACAC
Statistics
Matches: 46, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
37 2 0.04
39 11 0.24
40 31 0.67
41 2 0.04
ACGTcount: A:0.62, C:0.03, G:0.01, T:0.34
Consensus pattern (40 bp):
TAATAATTAAATATTAAAACATAATAATAAACAATAACAA
Found at i:49670607 original size:22 final size:22
Alignment explanation
Indices: 49670582--49670632 Score: 57
Period size: 23 Copynumber: 2.3 Consensus size: 22
49670572 ATGCCAGAAC
* *
49670582 TTAAATCGAGCTTAGAGAGCAT
1 TTAAATAGAGCTTAGAGAACAT
* *
49670604 TTAAATTAGAGTTTAGGGAACAT
1 TTAAA-TAGAGCTTAGAGAACAT
49670627 TTAAAT
1 TTAAAT
49670633 TAACTCAGGA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
22 6 0.25
23 18 0.75
ACGTcount: A:0.39, C:0.08, G:0.20, T:0.33
Consensus pattern (22 bp):
TTAAATAGAGCTTAGAGAACAT
Found at i:49671880 original size:41 final size:41
Alignment explanation
Indices: 49671820--49671913 Score: 125
Period size: 41 Copynumber: 2.3 Consensus size: 41
49671810 ACAAGTTACC
* * * * *
49671820 TGATACGACACACCGGCACGAAGCTTGCTAGGCTCGAGGCT
1 TGATACGATACACCAGCACGAAGCCTGCTAAGCTCAAGGCT
*
49671861 TGATACAATACACCAGCACGAAGCCTGCTAAGCTCAAGGCT
1 TGATACGATACACCAGCACGAAGCCTGCTAAGCTCAAGGCT
*
49671902 CGATACGATACA
1 TGATACGATACA
49671914 TCTAGTACAA
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 45 1.00
ACGTcount: A:0.31, C:0.29, G:0.23, T:0.17
Consensus pattern (41 bp):
TGATACGATACACCAGCACGAAGCCTGCTAAGCTCAAGGCT
Found at i:49678731 original size:16 final size:16
Alignment explanation
Indices: 49678712--49678751 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
49678702 TTTAGTAATT
49678712 TTTTTATAATAT-TATA
1 TTTTTA-AATATATATA
*
49678728 TTTTTAATTATATATA
1 TTTTTAAATATATATA
49678744 TTTTTAAA
1 TTTTTAAA
49678752 ATTAGTGTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 4 0.19
16 17 0.81
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
TTTTTAAATATATATA
Found at i:49683220 original size:94 final size:93
Alignment explanation
Indices: 49683105--49683416 Score: 317
Period size: 94 Copynumber: 3.3 Consensus size: 93
49683095 TGTGAGAGCC
*
49683105 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGATGAGGGCTAGTGTAAGACGTGTTTG
1 AGTGTAAGACCATGTCTGGGACATGGCATC-G-ATTGAGATGAGTGCTAGTGTAAGACGTGTTTG
* *
49683170 GGACATGCATCAGCCAC-ATTACGATATCT
64 GGACATGCATCAGCCACTATCACGATAGCT
* * * *
49683199 AGTGTAAGATCATGTCTGGGACATGGCATCGATGTAGAGATGAGTGCCAGTGTAAGACGTGTCTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGAT-T-GAGATGAGTGCTAGTGTAAGACGTGTTTG
* * * * * * *
49683264 GGACATGAATCAGCCTCAATGATGGTAGCC
64 GGACATGCATCAGCCACTATCACGATAGCT
* * * * * ** * *
49683294 AATGTAAGA-CGTGTCTGGGACAT-GCATCGACTAAGCTTCGTGCTAATGTAAGACATGTTTGGG
1 AGTGTAAGACCATGTCTGGGACATGGCATCGATTGAGATGAGTGCTAGTGTAAGACGTGTTTGGG
*
49683357 ACATGCATCAG-CACTTATACACGAGAGCT
66 ACATGCATCAGCCAC-TAT-CACGATAGCT
*
49683386 AGTGTAAGACCATGTCTGGGACATAGCATCG
1 AGTGTAAGACCATGTCTGGGACATGGCATCG
49683417 GCCTCGATGA
Statistics
Matches: 177, Mismatches: 34, Indels: 14
0.79 0.15 0.06
Matches are distributed among these distances:
90 2 0.01
91 34 0.19
92 16 0.09
93 22 0.12
94 88 0.50
95 15 0.08
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.25
Consensus pattern (93 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGATTGAGATGAGTGCTAGTGTAAGACGTGTTTGGG
ACATGCATCAGCCACTATCACGATAGCT
Found at i:49683262 original size:47 final size:44
Alignment explanation
Indices: 49683097--49683416 Score: 162
Period size: 47 Copynumber: 6.8 Consensus size: 44
49683087 TTGGGTTATG
* * *
49683097 TGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGA
1 TGAGTGCCAGTGTAAGA-CGTGTCTGGGACAT-GCATC-G-ATTAAGA
* * * *
49683145 TGAGGGCTAGTGTAAGACGTGTTTGGGACATGCATCAGCCACATTACGA
1 TGAGTGCCAGTGTAAGACGTGTCTGGGACATGCATC-G----ATTAAGA
* *
49683194 T-A-T-CTAGTGTAAGATCATGTCTGGGACATGGCATCGATGTAGAGA
1 TGAGTGCCAGTGTAAGA-CGTGTCTGGGACAT-GCATCGAT-TA-AGA
* * * *
49683239 TGAGTGCCAGTGTAAGACGTGTCTCGGACATGAATCAGCCTCAATGA
1 TGAGTGCCAGTGTAAGACGTGTCTGGGACATGCATC-G-ATTAA-GA
* * *
49683286 TG-GTAGCCAATGTAAGACGTGTCTGGGACATGCATCGACTAAGC
1 TGAGT-GCCAGTGTAAGACGTGTCTGGGACATGCATCGATTAAGA
** * * * * *
49683330 TTCGTGCTAATGTAAGACATGTTTGGGACATGCATCAGCACTTATACA
1 TGAGTGCCAGTGTAAGACGTGTCTGGGACATGCATC-G-A-TTA-AGA
* * * *
49683378 CGAGAGCTAGTGTAAGACCATGTCTGGGACATAGCATCG
1 TGAGTGCCAGTGTAAGA-CGTGTCTGGGACAT-GCATCG
49683417 GCCTCGATGA
Statistics
Matches: 214, Mismatches: 37, Indels: 41
0.73 0.13 0.14
Matches are distributed among these distances:
43 2 0.01
44 32 0.15
45 8 0.04
46 27 0.13
47 74 0.35
48 45 0.21
49 21 0.10
50 5 0.02
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.25
Consensus pattern (44 bp):
TGAGTGCCAGTGTAAGACGTGTCTGGGACATGCATCGATTAAGA
Found at i:49683421 original size:141 final size:141
Alignment explanation
Indices: 49683098--49683444 Score: 311
Period size: 141 Copynumber: 2.5 Consensus size: 141
49683088 TGGGTTATGT
* * * *
49683098 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGATGAGG--GCTAGTGTAAG
1 GAGAGCCAGTGTAAGACCATGTCTGGGACAT-GCATCGGC-CTCA-ATGAGGTAGCCAATGTAAG
* * * *
49683161 ACGTGTTTGGGACATGCATCAGCCACATTACGATATCTAGTGTAAGATCATGTCTGGGACATGGC
63 ACGTGTCTGGGACATGCATCAGCAACATTACGATAGCTAATGTAAGATCATGTCTGGGACATGGC
* *
49683226 ATCGATGTAGAGAT
128 ATCGATGTAGACAC
* * * * *
49683240 GAGTGCCAGTGTAAGA-CGTGTCTCGGACATGAATCAGCCTCAATGATGGTAGCCAATGTAAGAC
1 GAGAGCCAGTGTAAGACCATGTCTGGGACATGCATCGGCCTCAATGA-GGTAGCCAATGTAAGAC
*
49683304 GTGTCTGGGACATGCATC-GACTAAGC-TT-CG-T-GCTAATGTAAGA-CATGTTTGGGACAT-G
65 GTGTCTGGGACATGCATCAG-C-AA-CATTACGATAGCTAATGTAAGATCATGTCTGGGACATGG
*
49683362 CATCAGCACT-TATACAC
127 CATC-G-A-TGTAGACAC
* * ** *
49683379 GAGAGCTAGTGTAAGACCATGTCTGGGACATAGCATCGGCCTCGATGAAAATAGCCATTGTAAGA
1 GAGAGCCAGTGTAAGACCATGTCTGGGACAT-GCATCGGCCTCAATG-AGGTAGCCAATGTAAGA
49683444 C
64 C
49683445 CATGTCTAAG
Statistics
Matches: 166, Mismatches: 27, Indels: 25
0.76 0.12 0.11
Matches are distributed among these distances:
137 5 0.03
138 18 0.11
139 33 0.20
140 21 0.13
141 69 0.42
142 19 0.11
143 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (141 bp):
GAGAGCCAGTGTAAGACCATGTCTGGGACATGCATCGGCCTCAATGAGGTAGCCAATGTAAGACG
TGTCTGGGACATGCATCAGCAACATTACGATAGCTAATGTAAGATCATGTCTGGGACATGGCATC
GATGTAGACAC
Found at i:49683441 original size:49 final size:49
Alignment explanation
Indices: 49683386--49683514 Score: 195
Period size: 49 Copynumber: 2.6 Consensus size: 49
49683376 CACGAGAGCT
*
49683386 AGTGTAAGACCATGTCTGGGACATAGCATCGGCCTCGATGAAAATAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATGAAAATAGCC
* ** * *
49683435 ATTGTAAGACCATGTCTAAGACATGGCATTGGCCTCGATGAAGATAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATGAAAATAGCC
*
49683484 AGTGTAAGACCTTGTCTGGGACATGGCATCG
1 AGTGTAAGACCATGTCTGGGACATGGCATCG
49683515 ACAACTTAAC
Statistics
Matches: 69, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
49 69 1.00
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.23
Consensus pattern (49 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATGAAAATAGCC
Found at i:49690466 original size:39 final size:39
Alignment explanation
Indices: 49690263--49690478 Score: 272
Period size: 39 Copynumber: 5.5 Consensus size: 39
49690253 TGATATTTGA
* * * *
49690263 GAATTATATCTGGACTAAAAGTCCGCAGGCTATATGCGG
1 GAATTATATCCGGACTTAAAGTCCGTAGGCTATGTGCGG
* * *
49690302 GAATTACATCCGGACTTAAAGTCCGTAGGCTATATGCGA
1 GAATTATATCCGGACTTAAAGTCCGTAGGCTATGTGCGG
**
49690341 GAATTATATCCGGACTTAAAGTCCGTAGGCTATGTGCAA
1 GAATTATATCCGGACTTAAAGTCCGTAGGCTATGTGCGG
* * *
49690380 GAATTATATCTGGACTTAAAGTCCGCAGGCTATGTGCAG
1 GAATTATATCCGGACTTAAAGTCCGTAGGCTATGTGCGG
* * *
49690419 GAATTATATCCGGACTTAAGGTCCGTAGGCTACGTGTTGG
1 GAATTATATCCGGACTTAAAGTCCGTAGGCTATGTG-CGG
*
49690459 GAA-TATATCCGGGCTTAAAG
1 GAATTATATCCGGACTTAAAG
49690479 CCCCGAAGGC
Statistics
Matches: 157, Mismatches: 19, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
39 153 0.97
40 4 0.03
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.27
Consensus pattern (39 bp):
GAATTATATCCGGACTTAAAGTCCGTAGGCTATGTGCGG
Found at i:49690468 original size:117 final size:117
Alignment explanation
Indices: 49690262--49690478 Score: 328
Period size: 117 Copynumber: 1.9 Consensus size: 117
49690252 ATGATATTTG
*
49690262 AGAATTATATCTGGACTAAAAGTCCGCAGGCTATATGCGGGAATTACATCCGGACTTAAAGTCCG
1 AGAATTATATCTGGACTAAAAGTCCGCAGGCTATATGCAGGAATTACATCCGGACTTAAAGTCCG
*
49690327 TAGGCTATATGCGAGAATTATATCCGGACTTAAAGTCCGTAGGCTATGTGCA
66 TAGGCTACATGCGAGAATTATATCCGGACTTAAAGTCCGTAGGCTATGTGCA
* * * *
49690379 AGAATTATATCTGGACTTAAAGTCCGCAGGCTATGTGCAGGAATTATATCCGGACTTAAGGTCCG
1 AGAATTATATCTGGACTAAAAGTCCGCAGGCTATATGCAGGAATTACATCCGGACTTAAAGTCCG
* * * *
49690444 TAGGCTACGTGTTGGGAA-TATATCCGGGCTTAAAG
66 TAGGCTACATG-CGAGAATTATATCCGGACTTAAAG
49690479 CCCCGAAGGC
Statistics
Matches: 89, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
117 85 0.96
118 4 0.04
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.27
Consensus pattern (117 bp):
AGAATTATATCTGGACTAAAAGTCCGCAGGCTATATGCAGGAATTACATCCGGACTTAAAGTCCG
TAGGCTACATGCGAGAATTATATCCGGACTTAAAGTCCGTAGGCTATGTGCA
Found at i:49691733 original size:31 final size:31
Alignment explanation
Indices: 49691698--49691759 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
49691688 ATGAAAAGAG
49691698 ACATTTTGGAGTTTGTCTCTAAGTGTTTAGT
1 ACATTTTGGAGTTTGTCTCTAAGTGTTTAGT
49691729 ACATTTTGGAGTTTGTCTCTAAGTGTTTAGT
1 ACATTTTGGAGTTTGTCTCTAAGTGTTTAGT
49691760 GTGTCAGCTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.19, C:0.10, G:0.23, T:0.48
Consensus pattern (31 bp):
ACATTTTGGAGTTTGTCTCTAAGTGTTTAGT
Found at i:49696521 original size:94 final size:93
Alignment explanation
Indices: 49696403--49696756 Score: 362
Period size: 94 Copynumber: 3.8 Consensus size: 93
49696393 GTTATGTGAG
* * * *
49696403 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAGGGCTAGTGTAAGACGTG
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC-TTAAGATGAGTGCCAGTGTAAGACGTG
*
49696468 CCTGGGACATGCATCAGCCACATTACGAT
65 TCTGGGACATGCATCAGCCACATTACGAT
* * *
49696497 AGCCAGTGTACGACCATGTTTGGGACATGGCATCGGCGTAAAGATGAGTGCCAGTGTAAGACGTG
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC-TTAAGATGAGTGCCAGTGTAAGACGTG
* * * *
49696562 TCTGGGACATGCATCAGCCTCAATGATGGT
65 TCTGGGACATGCATCAGCCAC-ATTACGAT
* * * *
49696592 AGCCAGTGTAAGA-CGTGTCTAGGACAT-GCACCGGC-TAAGATGAGTGCCAGTGTAAGACATGT
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTTAAGATGAGTGCCAGTGTAAGACGTGT
* * *
49696654 CTGGGACATACGTCAG-CACTTATAC-AT
66 CTGGGACATGCATCAGCCACAT-TACGAT
* * *
49696681 GAGTACTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCT-CGATGAAGATAGCCAGTGTAAG
1 -AG--CCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTTAAGATG-AG-T-GCCAGTGTAAG
*
49696745 -CATGTCTGGGAC
60 ACGTGTCTGGGAC
49696757 TTGGTATCGG
Statistics
Matches: 217, Mismatches: 32, Indels: 20
0.81 0.12 0.07
Matches are distributed among these distances:
89 2 0.01
90 5 0.02
91 39 0.18
92 10 0.05
93 19 0.09
94 98 0.45
95 20 0.09
96 13 0.06
97 11 0.05
ACGTcount: A:0.27, C:0.21, G:0.30, T:0.22
Consensus pattern (93 bp):
AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTTAAGATGAGTGCCAGTGTAAGACGTGT
CTGGGACATGCATCAGCCACATTACGAT
Found at i:49696568 original size:47 final size:45
Alignment explanation
Indices: 49696399--49696756 Score: 233
Period size: 47 Copynumber: 7.6 Consensus size: 45
49696389 TTGGGTTATG
* **
49696399 TGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGA
1 TGAGTGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-TAAAGA
* * * * * * * **
49696447 CGAGGGCTAGTGTAAGACGTGCCTGGGACATGCATCAGCCACATTA
1 TGAGTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCTA-AAGA
* * *
49696493 CGA-TAGCCAGTGTACGACCATGTTTGGGACATGGCATCGGCGTAAAGA
1 TGAGT-GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-TAAAGA
* * *
49696541 TGAGTGCCAGTGTAAGACGTGTCTGGGACATGCATCAGCCTCAATGA
1 TGAGTGCCAGTGTAAGACATGTCTGGGACATGCATC-GGCT-AAAGA
* * *
49696588 TG-GTAGCCAGTGTAAGACGTGTCTAGGACATGCACCGGCT-AAGA
1 TGAGT-GCCAGTGTAAGACATGTCTGGGACATGCATCGGCTAAAGA
* * * * *
49696632 TGAGTGCCAGTGTAAGACATGTCTGGGACATACGTCAGCACTTATACA
1 TGAGTGCCAGTGTAAGACATGTCTGGGACATGCATC-G-GC-TAAAGA
* * *
49696680 TGAGTACTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCT--CGA
1 TGAGTGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGG-CTAAAGA
49696726 TGAAGATAGCCAGTGTAAG-CATGTCTGGGAC
1 TG-AG-T-GCCAGTGTAAGACATGTCTGGGAC
49696757 TTGGTATCGG
Statistics
Matches: 242, Mismatches: 48, Indels: 41
0.73 0.15 0.12
Matches are distributed among these distances:
44 31 0.13
45 3 0.01
46 36 0.15
47 87 0.36
48 55 0.23
49 27 0.11
50 3 0.01
ACGTcount: A:0.27, C:0.21, G:0.30, T:0.22
Consensus pattern (45 bp):
TGAGTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCTAAAGA
Found at i:49704289 original size:42 final size:42
Alignment explanation
Indices: 49704242--49704322 Score: 153
Period size: 42 Copynumber: 1.9 Consensus size: 42
49704232 AAATTATAAT
49704242 ATTATTTAACTATATAAACAATATAATTGTTTTGTCTTTAAA
1 ATTATTTAACTATATAAACAATATAATTGTTTTGTCTTTAAA
*
49704284 ATTATTTAACTATATAAATAATATAATTGTTTTGTCTTT
1 ATTATTTAACTATATAAACAATATAATTGTTTTGTCTTT
49704323 TCACTTAATG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.38, C:0.06, G:0.05, T:0.51
Consensus pattern (42 bp):
ATTATTTAACTATATAAACAATATAATTGTTTTGTCTTTAAA
Found at i:49704478 original size:40 final size:40
Alignment explanation
Indices: 49704423--49704503 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
49704413 TCAAAACGAC
49704423 ATAGTTTTGCCTTTTCTTATTTGGATTTTCGAATAACTCG
1 ATAGTTTTGCCTTTTCTTATTTGGATTTTCGAATAACTCG
49704463 ATAGTTTTGCCTTTTCTTATTTGGATTTTCGAATAACTCG
1 ATAGTTTTGCCTTTTCTTATTTGGATTTTCGAATAACTCG
49704503 A
1 A
49704504 ATTGTGTAAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.21, C:0.15, G:0.15, T:0.49
Consensus pattern (40 bp):
ATAGTTTTGCCTTTTCTTATTTGGATTTTCGAATAACTCG
Found at i:49705150 original size:22 final size:23
Alignment explanation
Indices: 49705118--49705160 Score: 63
Period size: 22 Copynumber: 1.9 Consensus size: 23
49705108 ATCCTGGTTT
49705118 AATTAATAAAA-ATATATATTTCA
1 AATTAATAAAATATAT-TATTTCA
49705141 AATT-ATAAAATATATTATTT
1 AATTAATAAAATATATTATTT
49705161 AATACATTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (23 bp):
AATTAATAAAATATATTATTTCA
Found at i:49705493 original size:44 final size:44
Alignment explanation
Indices: 49705430--49705563 Score: 268
Period size: 44 Copynumber: 3.0 Consensus size: 44
49705420 TTTTTATTGC
49705430 ATTTCTCTTCTTTTCTATCATCATTACAAGTAGTATACTCTTAT
1 ATTTCTCTTCTTTTCTATCATCATTACAAGTAGTATACTCTTAT
49705474 ATTTCTCTTCTTTTCTATCATCATTACAAGTAGTATACTCTTAT
1 ATTTCTCTTCTTTTCTATCATCATTACAAGTAGTATACTCTTAT
49705518 ATTTCTCTTCTTTTCTATCATCATTACAAGTAGTATACTCTTAT
1 ATTTCTCTTCTTTTCTATCATCATTACAAGTAGTATACTCTTAT
49705562 AT
1 AT
49705564 ACATATGAAG
Statistics
Matches: 90, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 90 1.00
ACGTcount: A:0.25, C:0.20, G:0.04, T:0.50
Consensus pattern (44 bp):
ATTTCTCTTCTTTTCTATCATCATTACAAGTAGTATACTCTTAT
Found at i:49705647 original size:24 final size:24
Alignment explanation
Indices: 49705620--49705677 Score: 82
Period size: 24 Copynumber: 2.4 Consensus size: 24
49705610 TGGGTTACAA
*
49705620 GAAGATGAAATGTG-AAGAGTTAAG
1 GAAGATGAAAGGTGAAAG-GTTAAG
49705644 GAAGATGAAAGGTGAAAGGTTAAG
1 GAAGATGAAAGGTGAAAGGTTAAG
*
49705668 AAAGATGAAA
1 GAAGATGAAA
49705678 AGTTGAACAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
24 28 0.90
25 3 0.10
ACGTcount: A:0.50, C:0.00, G:0.33, T:0.17
Consensus pattern (24 bp):
GAAGATGAAAGGTGAAAGGTTAAG
Found at i:49727223 original size:25 final size:25
Alignment explanation
Indices: 49727194--49727241 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
49727184 AATGGGGTGC
49727194 AAAAA-CAAAATAAGAAAAAAAGAAA
1 AAAAATCAAAA-AAGAAAAAAAGAAA
**
49727219 AAAAATGTAAAAAGAAAAAAAGA
1 AAAAATCAAAAAAGAAAAAAAGA
49727242 GAAGAAGACA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 17 0.85
26 3 0.15
ACGTcount: A:0.81, C:0.02, G:0.10, T:0.06
Consensus pattern (25 bp):
AAAAATCAAAAAAGAAAAAAAGAAA
Found at i:49730246 original size:48 final size:49
Alignment explanation
Indices: 49730175--49730277 Score: 181
Period size: 50 Copynumber: 2.1 Consensus size: 49
49730165 TTAGGGAACG
*
49730175 AAACTGATCTAATGTGAA-TTTTTTTTCATTATCATAATTTTCTTTCAA
1 AAACTGATCTAATGAGAATTTTTTTTTCATTATCATAATTTTCTTTCAA
49730223 AAACTGATCTAATGAGAATTTTTTTTTTCATTATCATAATTTTCTTTCAA
1 AAACTGATCTAATGAGAA-TTTTTTTTTCATTATCATAATTTTCTTTCAA
49730273 AAACT
1 AAACT
49730278 AATTCATAAT
Statistics
Matches: 52, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
48 17 0.33
50 35 0.67
ACGTcount: A:0.33, C:0.13, G:0.06, T:0.49
Consensus pattern (49 bp):
AAACTGATCTAATGAGAATTTTTTTTTCATTATCATAATTTTCTTTCAA
Found at i:49733054 original size:19 final size:20
Alignment explanation
Indices: 49733017--49733054 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
49733007 AAGGTATACC
* *
49733017 AATTTTTAACGGTAGAAATA
1 AATTTTTAACAGTAAAAATA
49733037 AATTTTTAACAG-AAAAAT
1 AATTTTTAACAGTAAAAAT
49733055 TTTATTTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 5 0.31
20 11 0.69
ACGTcount: A:0.50, C:0.05, G:0.11, T:0.34
Consensus pattern (20 bp):
AATTTTTAACAGTAAAAATA
Found at i:49733698 original size:3 final size:3
Alignment explanation
Indices: 49733690--49733728 Score: 60
Period size: 3 Copynumber: 13.0 Consensus size: 3
49733680 AGGATGTCGC
* *
49733690 GGT GGT GGT GGT GGT GGT GGT GGT GGT CGT GCT GGT GGT
1 GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT
49733729 TGTAGGGGCA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.00, C:0.05, G:0.62, T:0.33
Consensus pattern (3 bp):
GGT
Found at i:49738011 original size:24 final size:24
Alignment explanation
Indices: 49737982--49738030 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
49737972 GTAGACTAAG
*
49737982 TAGATATACTCATAAACTAAGCAA
1 TAGATATACTCATAAACCAAGCAA
*
49738006 TAGATATACTCATAATCCAAGCAA
1 TAGATATACTCATAAACCAAGCAA
49738030 T
1 T
49738031 GAGCATACCT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.47, C:0.18, G:0.08, T:0.27
Consensus pattern (24 bp):
TAGATATACTCATAAACCAAGCAA
Found at i:49738038 original size:24 final size:24
Alignment explanation
Indices: 49737982--49738038 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 24
49737972 GTAGACTAAG
* *
49737982 TAGATATACTCATAAACTAAGCAA
1 TAGACATACTCATAAACCAAGCAA
* *
49738006 TAGATATACTCATAATCCAAGCAA
1 TAGACATACTCATAAACCAAGCAA
49738030 T-GAGCATAC
1 TAGA-CATAC
49738039 CTTAAAGGTA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
23 2 0.07
24 27 0.93
ACGTcount: A:0.46, C:0.19, G:0.11, T:0.25
Consensus pattern (24 bp):
TAGACATACTCATAAACCAAGCAA
Found at i:49741114 original size:12 final size:12
Alignment explanation
Indices: 49741088--49741131 Score: 70
Period size: 12 Copynumber: 3.6 Consensus size: 12
49741078 AAACTAAATT
*
49741088 AATATAAAATAAA
1 AATAAAAAAT-AA
49741101 AATAAAAAATAA
1 AATAAAAAATAA
49741113 AATAAAAAATAA
1 AATAAAAAATAA
49741125 AATAAAA
1 AATAAAA
49741132 TAAGATTCTT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
12 21 0.70
13 9 0.30
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (12 bp):
AATAAAAAATAA
Found at i:49741114 original size:18 final size:17
Alignment explanation
Indices: 49741091--49741134 Score: 70
Period size: 17 Copynumber: 2.5 Consensus size: 17
49741081 CTAAATTAAT
49741091 ATAAAATAAAAATAAAAA
1 ATAAAATAAAAA-AAAAA
*
49741109 ATAAAATAAAAAATAAA
1 ATAAAATAAAAAAAAAA
49741126 ATAAAATAA
1 ATAAAATAA
49741135 GATTCTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
17 13 0.52
18 12 0.48
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (17 bp):
ATAAAATAAAAAAAAAA
Found at i:49742487 original size:21 final size:22
Alignment explanation
Indices: 49742444--49742488 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
49742434 GACGAAATAC
*
49742444 ATGAGATTTATTTGTTTATAAT
1 ATGAGATTTATTTATTTATAAT
49742466 ATGAG-TTTAATTTATTTA-AAT
1 ATGAGATTT-ATTTATTTATAAT
49742487 AT
1 AT
49742489 TGTGATGTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 8 0.38
22 13 0.62
ACGTcount: A:0.36, C:0.00, G:0.11, T:0.53
Consensus pattern (22 bp):
ATGAGATTTATTTATTTATAAT
Found at i:49743362 original size:87 final size:86
Alignment explanation
Indices: 49743208--49743370 Score: 229
Period size: 87 Copynumber: 1.9 Consensus size: 86
49743198 TGTGTAAGGA
* * *
49743208 TGAGTTTTTACTCTTAATGAATTTATAGCCTAGAAATTGGGTGGTCTTATTGAGACGTACTTAAT
1 TGAGTTTTTACTCTTAATGAATTCATAGCCTAGAAATTGGGTGGTCCTATTGAGAAGTACTTAAT
49743273 GAATTCACCGACTTGAGAGGT
66 GAATTCACCGACTTGAGAGGT
* * * * *
49743294 TGAGTTTATTACTCTTAATGAGTTCATATCCTAGAATTTGGGTGTTCCTATTGAGATAG-ACTTG
1 TGAGTTT-TTACTCTTAATGAATTCATAGCCTAGAAATTGGGTGGTCCTATTGAGA-AGTACTTA
49743358 ATGAATTCACCGA
64 ATGAATTCACCGA
49743371 ACTTAAATTT
Statistics
Matches: 67, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
86 7 0.10
87 59 0.88
88 1 0.01
ACGTcount: A:0.28, C:0.13, G:0.21, T:0.38
Consensus pattern (86 bp):
TGAGTTTTTACTCTTAATGAATTCATAGCCTAGAAATTGGGTGGTCCTATTGAGAAGTACTTAAT
GAATTCACCGACTTGAGAGGT
Found at i:49744885 original size:12 final size:12
Alignment explanation
Indices: 49744868--49744907 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
49744858 GATTTACACA
*
49744868 CTATTCCAACAT
1 CTATTCCAATAT
*
49744880 CTATTCCAATGT
1 CTATTCCAATAT
*
49744892 CTATCCCAATAT
1 CTATTCCAATAT
49744904 CTAT
1 CTAT
49744908 GCATGCAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.30, C:0.30, G:0.03, T:0.38
Consensus pattern (12 bp):
CTATTCCAATAT
Found at i:49773102 original size:46 final size:46
Alignment explanation
Indices: 49773035--49773207 Score: 215
Period size: 46 Copynumber: 3.7 Consensus size: 46
49773025 AACCCGCCCC
* *
49773035 TAAGTGAACTCAGACTCAACTCAACGAGCTCGGACGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCA
* * * * *
49773081 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAG-TTACA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-TTCGCATCCA
* * *
49773127 TTTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 --TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCA
49773174 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
49773208 TGCTCAACCA
Statistics
Matches: 105, Mismatches: 17, Indels: 10
0.80 0.13 0.08
Matches are distributed among these distances:
45 2 0.02
46 67 0.64
47 34 0.32
48 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCA
Found at i:49773148 original size:93 final size:93
Alignment explanation
Indices: 49773040--49773210 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
49773030 GCCCCTAAGT
*
49773040 GAACTCAGACTCAACTCAACGAGCTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
49773105 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
* *
49773133 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
49773198 CGAGTTCGGATGC
66 CGAGTTCGGATGC
49773211 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:49780750 original size:92 final size:93
Alignment explanation
Indices: 49780639--49780808 Score: 306
Period size: 92 Copynumber: 1.8 Consensus size: 93
49780629 ACCCCTAAGT
* *
49780639 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTC-GACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
49780703 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
*
49780731 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
49780796 CGAGTTCGGATGC
66 CGAGTTCGGATGC
49780809 TCAACCATCC
Statistics
Matches: 74, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
92 49 0.66
93 25 0.34
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:49780782 original size:46 final size:46
Alignment explanation
Indices: 49780634--49780805 Score: 201
Period size: 46 Copynumber: 3.7 Consensus size: 46
49780624 AACCCACCCC
* * *
49780634 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* *
49780680 TAAGTGAACTC-GACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
49780727 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
49780772 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
49780806 TGCTCAACCA
Statistics
Matches: 105, Mismatches: 11, Indels: 20
0.77 0.08 0.15
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 22 0.21
46 46 0.44
47 24 0.23
48 1 0.01
49 3 0.03
50 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:49786954 original size:48 final size:46
Alignment explanation
Indices: 49786855--49786975 Score: 149
Period size: 47 Copynumber: 2.6 Consensus size: 46
49786845 ATGGATGTGT
*
49786855 GCTAGTGTAAGACATGTCTGGGACAT-ACATCGGCCACATTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGACATCGG-CACATTAAGAGA
*
49786901 GCTAGTGTAAGACCATGTCTGGGACATGGCATC-G-ACATTAAGACAAGA
1 GCTAGTGTAAGA-CATGTCTGGGACATGACATCGGCACATTAAG---AGA
*
49786949 GCTAGTGTAAGACATGTCTGGGGCATG
1 GCTAGTGTAAGACATGTCTGGGACATG
49786976 CATTGACCTC
Statistics
Matches: 67, Mismatches: 3, Indels: 9
0.85 0.04 0.11
Matches are distributed among these distances:
45 7 0.10
46 12 0.18
47 29 0.43
48 19 0.28
ACGTcount: A:0.30, C:0.18, G:0.29, T:0.23
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGACATCGGCACATTAAGAGA
Found at i:49787110 original size:49 final size:48
Alignment explanation
Indices: 49786858--49787219 Score: 212
Period size: 49 Copynumber: 7.6 Consensus size: 48
49786848 GATGTGTGCT
* * * * *
49786858 AGTGTAAGACATGTCTGGGACAT-ACATCGGCCA-C-ATTATGAGAGCT
1 AGTGTAAGACCTGTCTGGGACATGGCATC-GACATCGATGATGAGAGCC
* * ** *
49786904 AGTGTAAGACCATGTCTGGGACATGGCATCGACAT-TAAGACAAGAGCT
1 AGTGTAAGACC-TGTCTGGGACATGGCATCGACATCGATGATGAGAGCC
* * * * *
49786952 AGTGTAAGACATGTCTGGGGCAT-GCATTGACCTCGA-GAT-ATGCAAGCT
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACATCGATGATGA-G--AGCC
* * * * ***
49787000 AGTGTAAGACCTGTCTAGGA-ATTGACATC-AGCTTC-A-CAT--GTTTC
1 AGTGTAAGACCTGTCTGGGACA-TGGCATCGA-CATCGATGATGAGAGCC
*
49787044 AGTGTAAGACCTATCTGGGACATGGCATCGACATCGATGGATGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACATCGAT-GATGAGAGCC
* * * * * * *
49787093 AATGTAAAACCTGTCTGGGACATGGCATCGGCGTCGATATATGAAAGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACATCGAT-GATGAGAGCC
* * * *
49787142 AGTGTAAGACCTGTCTGGGACATGGCATTGACTTAGATG-TGTGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACATCGATGATGAGAGCC
* *
49787189 AGTGTAAGACCATGTTTGGAACATGGCATCG
1 AGTGTAAGACC-TGTCTGGGACATGGCATCG
49787220 GCATTGTACC
Statistics
Matches: 243, Mismatches: 54, Indels: 36
0.73 0.16 0.11
Matches are distributed among these distances:
44 27 0.11
45 4 0.02
46 22 0.09
47 46 0.19
48 64 0.26
49 80 0.33
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.25
Consensus pattern (48 bp):
AGTGTAAGACCTGTCTGGGACATGGCATCGACATCGATGATGAGAGCC
Found at i:49787135 original size:142 final size:140
Alignment explanation
Indices: 49786904--49787157 Score: 323
Period size: 142 Copynumber: 1.8 Consensus size: 140
49786894 TATGAGAGCT
* * * * *
49786904 AGTGTAAGACCATGTCTGGGACATGGCATCGACATTAAGACAAGAGCTAGTGTAAGACATGTCTG
1 AGTGTAAGACCATATCTGGGACATGGCATCGACATGAAGACAAGAGCCAATGTAAAACATGTCTG
* * *
49786969 GGGCATGCATTGACCTCGAGATATGCAAG-CTAGTGTAAGACCTGTCTAGGAATTGACATCAGCT
66 GGACATGCATCGACCTCGAGATATGAAAGTC-AGTGTAAGACCTGTCTAGGAATTGACATCAGCT
49787033 TCACATGTTTC
130 TCACATGTTTC
* ** *
49787044 AGTGTAAGACC-TATCTGGGACATGGCATCGACATCGATGGATGAGAGCCAATGTAAAACCTGTC
1 AGTGTAAGACCATATCTGGGACATGGCATCGACAT-GA-AGACAAGAGCCAATGTAAAACATGTC
* * *
49787108 TGGGACATGGCATCGGCGTCGATATATGAAAGTCAGTGTAAGACCTGTCT
64 TGGGACAT-GCATCGACCTCGAGATATGAAAGTCAGTGTAAGACCTGTCT
49787158 GGGACATGGC
Statistics
Matches: 95, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
139 22 0.23
140 12 0.13
141 26 0.27
142 34 0.36
143 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (140 bp):
AGTGTAAGACCATATCTGGGACATGGCATCGACATGAAGACAAGAGCCAATGTAAAACATGTCTG
GGACATGCATCGACCTCGAGATATGAAAGTCAGTGTAAGACCTGTCTAGGAATTGACATCAGCTT
CACATGTTTC
Found at i:49787153 original size:98 final size:97
Alignment explanation
Indices: 49787042--49787221 Score: 254
Period size: 98 Copynumber: 1.8 Consensus size: 97
49787032 TTCACATGTT
*
49787042 TCAGTGTAAGACCTATCTGGGACATGGCATCGACATCGATGGATGAGAGCCAATGTAAAACC-TG
1 TCAGTGTAAGACCTATCTGGGACATGGCATCGACATAGAT-G-TGAGAGCCAATGTAAAACCATG
*
49787106 TCTGGGACATGGCATCGGCGTCGATATATGAAAG
64 TCTGGAACATGGCATCGGCGTCGATATATGAAAG
* * * * * * *
49787140 TCAGTGTAAGACCTGTCTGGGACATGGCATTGACTTAGATGTGTGAGCCAGTGTAAGACCATGTT
1 TCAGTGTAAGACCTATCTGGGACATGGCATCGACATAGATGTGAGAGCCAATGTAAAACCATGTC
49787205 TGGAACATGGCATCGGC
66 TGGAACATGGCATCGGC
49787222 ATTGTACCCT
Statistics
Matches: 72, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
96 16 0.22
97 20 0.28
98 36 0.50
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.24
Consensus pattern (97 bp):
TCAGTGTAAGACCTATCTGGGACATGGCATCGACATAGATGTGAGAGCCAATGTAAAACCATGTC
TGGAACATGGCATCGGCGTCGATATATGAAAG
Found at i:49795252 original size:16 final size:16
Alignment explanation
Indices: 49795231--49795264 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
49795221 ACAGTCTTCT
49795231 TTCTTCCATACCTTTC
1 TTCTTCCATACCTTTC
**
49795247 TTCTTCTGTACCTTTC
1 TTCTTCCATACCTTTC
49795263 TT
1 TT
49795265 TACCAAAGTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.09, C:0.32, G:0.03, T:0.56
Consensus pattern (16 bp):
TTCTTCCATACCTTTC
Found at i:49805477 original size:18 final size:18
Alignment explanation
Indices: 49805454--49805492 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
49805444 CTTGAACTTT
* *
49805454 ATTTTTGGATGATTTTTA
1 ATTTTTGCATGAGTTTTA
*
49805472 ATTTTTGCATTAGTTTTA
1 ATTTTTGCATGAGTTTTA
49805490 ATT
1 ATT
49805493 ACTTAGGATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.23, C:0.03, G:0.13, T:0.62
Consensus pattern (18 bp):
ATTTTTGCATGAGTTTTA
Found at i:49806172 original size:24 final size:25
Alignment explanation
Indices: 49806114--49806172 Score: 61
Period size: 24 Copynumber: 2.4 Consensus size: 25
49806104 CTCAAGTATA
* *
49806114 TTTTATTTTCATGTTTATTTCTTGT
1 TTTTATTTTTATGTTTATTTCTAGT
49806139 TTTT-TGTTTTA-GTTTATTT-TCAGT
1 TTTTAT-TTTTATGTTTATTTCT-AGT
49806163 TTTTATTTTT
1 TTTTATTTTT
49806173 GGGTAGTTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
23 1 0.03
24 19 0.66
25 9 0.31
ACGTcount: A:0.12, C:0.05, G:0.08, T:0.75
Consensus pattern (25 bp):
TTTTATTTTTATGTTTATTTCTAGT
Found at i:49814677 original size:33 final size:33
Alignment explanation
Indices: 49814640--49814706 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
49814630 TTTTTAAAAA
49814640 ATAATTTTTAATTCTTTTATTTAAAGATAATAT
1 ATAATTTTTAATTCTTTTATTTAAAGATAATAT
49814673 ATAATTTTTAATTCTTTTATTTAAAGATAATAT
1 ATAATTTTTAATTCTTTTATTTAAAGATAATAT
49814706 A
1 A
49814707 AAAGTGTGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.54
Consensus pattern (33 bp):
ATAATTTTTAATTCTTTTATTTAAAGATAATAT
Found at i:49814791 original size:28 final size:28
Alignment explanation
Indices: 49814755--49814813 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
49814745 AATTATAATT
49814755 TAAAAGAATGAATATCTTTATAATTTCA
1 TAAAAGAATGAATATCTTTATAATTTCA
49814783 TAAAAGAATGAATATCTTTATAATTTCA
1 TAAAAGAATGAATATCTTTATAATTTCA
49814811 TAA
1 TAA
49814814 TTAAGTTAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.47, C:0.07, G:0.07, T:0.39
Consensus pattern (28 bp):
TAAAAGAATGAATATCTTTATAATTTCA
Found at i:49815053 original size:3 final size:3
Alignment explanation
Indices: 49815045--49815077 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
49815035 ACTATAGGCA
49815045 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
49815078 AAAAAGATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:49815751 original size:18 final size:17
Alignment explanation
Indices: 49815711--49815753 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
49815701 CGATTAGATC
49815711 ATTAA-TTTTTTATATA
1 ATTAATTTTTTTATATA
* *
49815727 CTTAATTTTTTTATCTA
1 ATTAATTTTTTTATATA
49815744 ATTCAATTTT
1 ATT-AATTTT
49815754 AACAACTTTG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 4 0.18
17 12 0.55
18 6 0.27
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (17 bp):
ATTAATTTTTTTATATA
Found at i:49817105 original size:5 final size:5
Alignment explanation
Indices: 49817095--49817127 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
49817085 TATAAAATAG
49817095 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
49817128 TTAACTCCAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:49818192 original size:21 final size:22
Alignment explanation
Indices: 49818166--49818212 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
49818156 CTCTGCTCAA
*
49818166 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
49818187 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
49818209 ACTC
1 ACTC
49818213 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:49823587 original size:22 final size:21
Alignment explanation
Indices: 49823562--49823643 Score: 83
Period size: 22 Copynumber: 3.8 Consensus size: 21
49823552 CCCGAATCAG
*
49823562 CTATTTTGTTATTGTTTCGCTA
1 CTATTTTGTTATTATTT-GCTA
* *
49823584 CTATTTTATTTTTATTTTGCTA
1 CTATTTTGTTATTA-TTTGCTA
* *
49823606 CTATTTCGTTATTATATTGTTA
1 CTATTTTGTTATTAT-TTGCTA
*
49823628 CTATTTTGTTGTTATT
1 CTATTTTGTTATTATT
49823644 GTTTTGATAT
Statistics
Matches: 49, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
21 2 0.04
22 44 0.90
23 3 0.06
ACGTcount: A:0.17, C:0.10, G:0.10, T:0.63
Consensus pattern (21 bp):
CTATTTTGTTATTATTTGCTA
Found at i:49823610 original size:11 final size:11
Alignment explanation
Indices: 49823562--49823637 Score: 53
Period size: 11 Copynumber: 6.9 Consensus size: 11
49823552 CCCGAATCAG
49823562 CTATTTTGTTA
1 CTATTTTGTTA
* * * *
49823573 TTGTTTCGCTA
1 CTATTTTGTTA
* *
49823584 CTATTTTATTT
1 CTATTTTGTTA
* *
49823595 TTATTTTGCTA
1 CTATTTTGTTA
*
49823606 CTATTTCGTTA
1 CTATTTTGTTA
* *
49823617 TTATATTGTTA
1 CTATTTTGTTA
49823628 CTATTTTGTT
1 CTATTTTGTT
49823638 GTTATTGTTT
Statistics
Matches: 43, Mismatches: 22, Indels: 0
0.66 0.34 0.00
Matches are distributed among these distances:
11 43 1.00
ACGTcount: A:0.17, C:0.11, G:0.09, T:0.63
Consensus pattern (11 bp):
CTATTTTGTTA
Found at i:49826517 original size:6 final size:6
Alignment explanation
Indices: 49826506--49826666 Score: 59
Period size: 6 Copynumber: 27.0 Consensus size: 6
49826496 AAGAAAAGCT
* * *
49826506 ATAATA ATAATA GTAATT ATAATA A-AAGTA ATAATA ATAA-A TATAACA
1 ATAATA ATAATA ATAATA ATAATA ATAA-TA ATAATA ATAATA -ATAATA
* * * * * *
49826554 ATAGTA ATATTA GTGATA A-AA-A ATAATA GCT-ATA AAAATA A-ACATA
1 ATAATA ATAATA ATAATA ATAATA ATAATA -ATAATA ATAATA ATA-ATA
** * * * *
49826600 ATAACC ATGACA ATAAAGA ATAATA GTAATA ATAATA ATAATGA A-AATA
1 ATAATA ATAATA AT-AATA ATAATA ATAATA ATAATA ATAAT-A ATAATA
*
49826649 A-AAGTA ATATTA ATAATA
1 ATAA-TA ATAATA ATAATA
49826667 TATTGTATTA
Statistics
Matches: 115, Mismatches: 26, Indels: 28
0.68 0.15 0.17
Matches are distributed among these distances:
4 2 0.02
5 11 0.10
6 90 0.78
7 12 0.10
ACGTcount: A:0.61, C:0.04, G:0.07, T:0.29
Consensus pattern (6 bp):
ATAATA
Found at i:49826529 original size:15 final size:15
Alignment explanation
Indices: 49826506--49826546 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
49826496 AAGAAAAGCT
*
49826506 ATAATAATAATAGTA
1 ATAATAATAAAAGTA
*
49826521 ATTATAATAAAAGTA
1 ATAATAATAAAAGTA
49826536 ATAATAATAAA
1 ATAATAATAAA
49826547 TATAACAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (15 bp):
ATAATAATAAAAGTA
Found at i:49826537 original size:24 final size:24
Alignment explanation
Indices: 49826510--49826567 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
49826500 AAAGCTATAA
* *
49826510 TAATAATAGTAATTATAATAAAAG
1 TAATAATAGTAAATATAACAAAAG
* *
49826534 TAATAATAATAAATATAACAATAG
1 TAATAATAGTAAATATAACAAAAG
*
49826558 TAATATTAGT
1 TAATAATAGT
49826568 GATAAAAAAT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.57, C:0.02, G:0.07, T:0.34
Consensus pattern (24 bp):
TAATAATAGTAAATATAACAAAAG
Found at i:49826870 original size:149 final size:144
Alignment explanation
Indices: 49826741--49827027 Score: 340
Period size: 149 Copynumber: 2.0 Consensus size: 144
49826731 TTAATTAGTA
* *
49826741 ATAA-AGTAATAA-A-TAAACAT-AAAAAGGAAA-GT-GTATAATATAATAATATTAAAATAAGG
1 ATAATAGTAATAATATTAAA-ATAAAAAAGCAAATGTAGTATAATA-AA-AATATTAAAATAAAG
* * * *
49826800 TAAT-T-AAAAATATTACGA-TATAAATACATATATATATATGCATATTTAATAAAAATATACAC
63 TAATATAAAAAATAATACGAGTATAAA-A-ATATATACATATACATATATAATAAAAA-ATACAC
49826862 TAATATTAATAATAATAATG
125 TAATATTAATAATAATAATG
49826882 ATAATAGTAATAATATTAAAATACAAAAAGCAAATGTAGTATAATAAAAATATTAAAATAAAGTA
1 ATAATAGTAATAATATTAAAATA-AAAAAGCAAATGTAGTATAATAAAAATATTAAAATAAAGTA
*
49826947 ATAATAAAAAAATAATACTATGTATAAAAATATATACATATACATATATAATAAAAAATACACTA
65 AT-AT-AAAAAATAATACGA-GTATAAAAATATATACATATACATATATAATAAAAAATACACTA
*
49827012 ATATATAATACTAATA
127 ATAT-TAATAATAATA
49827028 CTAATACATT
Statistics
Matches: 124, Mismatches: 8, Indels: 20
0.82 0.05 0.13
Matches are distributed among these distances:
141 4 0.03
142 8 0.06
143 3 0.02
144 4 0.03
145 27 0.22
146 4 0.03
147 9 0.07
148 12 0.10
149 46 0.37
150 1 0.01
151 6 0.05
ACGTcount: A:0.59, C:0.05, G:0.06, T:0.31
Consensus pattern (144 bp):
ATAATAGTAATAATATTAAAATAAAAAAGCAAATGTAGTATAATAAAAATATTAAAATAAAGTAA
TATAAAAAATAATACGAGTATAAAAATATATACATATACATATATAATAAAAAATACACTAATAT
TAATAATAATAATG
Found at i:49826953 original size:3 final size:3
Alignment explanation
Indices: 49826922--49827182 Score: 57
Period size: 3 Copynumber: 85.0 Consensus size: 3
49826912 CAAATGTAGT
* * * * *
49826922 ATA ATA AAA ATA TTA A-A ATA A-A GTA ATA ATA A-A AAA ATA ATA CT-
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
49826966 ATGT ATA AAA ATA TATA CAT- ATA CATA TATA ATA A-A A-A ATA CACTA
1 AT-A ATA ATA ATA -ATA -ATA ATA -ATA -ATA ATA ATA ATA ATA -A-TA
* * * * *
49827012 ATA TATA ATA CTA ATA CTA ATA CATTA ATA AAA ATA ATA AGA AT- ATG
1 ATA -ATA ATA ATA ATA ATA ATA -A-TA ATA ATA ATA ATA ATA ATA ATA
*
49827059 TTA ATA ATA ATCA ATTA ATGA ATTGA A-A ATA A-A ATGA ATAA ATAA ATA
1 ATA ATA ATA AT-A A-TA AT-A A-T-A ATA ATA ATA AT-A AT-A AT-A ATA
* * * * *
49827107 CACA A-A ATA A-A AT- ATA ATT ATA ATA GTA ATA TTA ACA A-A ATA
1 -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
49827149 ATA ATA ATA ATA ATA AGTTA A-A GTA ATA ATA ATA
1 ATA ATA ATA ATA ATA A--TA ATA ATA ATA ATA ATA
49827183 TATGTTAATT
Statistics
Matches: 192, Mismatches: 36, Indels: 60
0.67 0.12 0.21
Matches are distributed among these distances:
2 27 0.14
3 115 0.60
4 38 0.20
5 12 0.06
ACGTcount: A:0.61, C:0.05, G:0.04, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:49827205 original size:22 final size:21
Alignment explanation
Indices: 49827150--49827205 Score: 67
Period size: 22 Copynumber: 2.6 Consensus size: 21
49827140 AACAAAATAA
49827150 TAATAATAATAATAAGTTAAAG
1 TAATAATAAT-ATAAGTTAAAG
* **
49827172 TAATAATAATATATGTTAATT
1 TAATAATAATATAAGTTAAAG
49827193 TAATACATAATAT
1 TAATA-ATAATAT
49827206 GGAAAATAAC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
21 13 0.43
22 17 0.57
ACGTcount: A:0.54, C:0.02, G:0.05, T:0.39
Consensus pattern (21 bp):
TAATAATAATATAAGTTAAAG
Found at i:49828058 original size:23 final size:23
Alignment explanation
Indices: 49828013--49828060 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
49828003 TAATTTCATT
* *
49828013 AAAAATAAACATACATCTCTCTA
1 AAAAAAAAACATACATCTATCTA
* *
49828036 AAAAAAAAACATACCTGTATCTA
1 AAAAAAAAACATACATCTATCTA
49828059 AA
1 AA
49828061 TCTCATCACA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.56, C:0.19, G:0.02, T:0.23
Consensus pattern (23 bp):
AAAAAAAAACATACATCTATCTA
Found at i:49843794 original size:22 final size:22
Alignment explanation
Indices: 49843769--49843813 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
49843759 CTTTCATGTC
* *
49843769 TTATTCTGAGTAAATATTCTTT
1 TTATTCTAAGCAAATATTCTTT
*
49843791 TTATTTTAAGCAAATATTCTTT
1 TTATTCTAAGCAAATATTCTTT
49843813 T
1 T
49843814 CTTGCATTTC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.29, C:0.09, G:0.07, T:0.56
Consensus pattern (22 bp):
TTATTCTAAGCAAATATTCTTT
Found at i:49844212 original size:25 final size:25
Alignment explanation
Indices: 49844178--49844230 Score: 97
Period size: 25 Copynumber: 2.1 Consensus size: 25
49844168 TGCAAGAGTC
*
49844178 CAAAGATATCTTCGTATGGTCATAT
1 CAAAGATATCTTCGCATGGTCATAT
49844203 CAAAGATATCTTCGCATGGTCATAT
1 CAAAGATATCTTCGCATGGTCATAT
49844228 CAA
1 CAA
49844231 GACATGCCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.34, C:0.19, G:0.15, T:0.32
Consensus pattern (25 bp):
CAAAGATATCTTCGCATGGTCATAT
Found at i:49847275 original size:9 final size:9
Alignment explanation
Indices: 49847262--49847305 Score: 61
Period size: 9 Copynumber: 4.9 Consensus size: 9
49847252 AAGGGTGCCT
*
49847262 AAAAAAATT
1 AAAAAAATA
*
49847271 AAAAAAACA
1 AAAAAAATA
*
49847280 AAAAAAACA
1 AAAAAAATA
49847289 AAAAAAATA
1 AAAAAAATA
49847298 AAAAAAAT
1 AAAAAAAT
49847306 GAGAGGCTGA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 32 1.00
ACGTcount: A:0.86, C:0.05, G:0.00, T:0.09
Consensus pattern (9 bp):
AAAAAAATA
Found at i:49848754 original size:177 final size:176
Alignment explanation
Indices: 49848458--49848945 Score: 744
Period size: 177 Copynumber: 2.8 Consensus size: 176
49848448 ATGGTGAGTC
*
49848458 TTTTAGCCACCAACCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAAATACAAGTCTTATCT
1 TTTTAGCCACCAACCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTG-AAATACAGGTCTTATCT
49848523 TCCTAAAGTTGCAGGAAGCAGACTGAAAGTTACA-AGTCTTATCTCCATGTATCGGCTATGGAGT
65 TCCTAAAGTTGCAGGAAGCAGACTGAAAGTTACAGA-TCTTATCTCCATGTATCGGCTATGGAGT
* * *
49848587 AGATTGAAAATGGCGAATCTTATCTCTATGTATCGGCTATGGAGCAGA
129 AGATTAAAAATGGCGAATCTTATATCCATGTATCGGCTATGGAGCAGA
* * *
49848635 TTTTAGCCACCAACCTTATCTCTCTAAGGTAGCAAGAGAGCAGTTTGCAAATATAGGTCTTATCT
1 TTTTAGCCACCAACCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTG-AAATACAGGTCTTATCT
* *
49848700 TCCTAAAGTTGCAGGAAGTAGACTGAAAGTTACAGATCTTATCTCCATGTATCGGCTATGGAGCA
65 TCCTAAAGTTGCAGGAAGCAGACTGAAAGTTACAGATCTTATCTCCATGTATCGGCTATGGAGTA
* *
49848765 GATCAAAAATGGCGAGTCTTATATCCATGTATCGGCTATGGAGCAGA
130 GATTAAAAATGGCGAATCTTATATCCATGTATCGGCTATGGAGCAGA
* * *
49848812 TTTTAGCTACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATACAGGCCTTATCT
1 TTTTAGCCACCAACCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAA-ATACAGGTCTTATCT
* * * * * * *
49848877 TCCTGAAGTTGCAGAAAGCAGACTGAAAATTGCAGACCTTATCTCCATGTATCGACTATAGAGTA
65 TCCTAAAGTTGCAGGAAGCAGACTGAAAGTTACAGATCTTATCTCCATGTATCGGCTATGGAGTA
49848942 GATT
130 GATT
49848946 TAAGCCATCA
Statistics
Matches: 281, Mismatches: 28, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
176 2 0.01
177 278 0.99
178 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (176 bp):
TTTTAGCCACCAACCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAATACAGGTCTTATCTT
CCTAAAGTTGCAGGAAGCAGACTGAAAGTTACAGATCTTATCTCCATGTATCGGCTATGGAGTAG
ATTAAAAATGGCGAATCTTATATCCATGTATCGGCTATGGAGCAGA
Found at i:49852567 original size:91 final size:91
Alignment explanation
Indices: 49852460--49852726 Score: 358
Period size: 91 Copynumber: 2.9 Consensus size: 91
49852450 CTTGTATAAT
* * * *
49852460 AATAATACACAAATTGATAATTTAAATACCACATTAAATATTTTCAAAGTATAAGTACCACATTG
1 AATAATACACAAATTGATAGTTTAAGTACCACATTAGATATTTTCAAAGTATAAGTACCACATTA
*
49852525 GATATTTTATAAAAATACAAGTAACA
66 GACATTTTATAAAAATACAAGTAACA
* * *
49852551 TATAATACACAAATTGATAGTTTAAGTACCACATTAGATATTTTTAAAGTATAAGAACCACATTA
1 AATAATACACAAATTGATAGTTTAAGTACCACATTAGATATTTTCAAAGTATAAGTACCACATTA
* *
49852616 GACATTTTATGAAAGA-ACAAGTACCA
66 GACATTTTAT-AAAAATACAAGTAACA
* * * * * *
49852642 AATAATACATAAATTGATAGTTTAAGTATCATATTAGACATTTTCAAAGTA-CAGATACTACATT
1 AATAATACACAAATTGATAGTTTAAGTACCACATTAGATATTTTCAAAGTATAAG-TACCACATT
49852706 AGACATTTTATAAAAATACAA
65 AGACATTTTATAAAAATACAA
49852727 TTACAAAATG
Statistics
Matches: 153, Mismatches: 20, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
90 6 0.04
91 143 0.93
92 4 0.03
ACGTcount: A:0.47, C:0.12, G:0.09, T:0.32
Consensus pattern (91 bp):
AATAATACACAAATTGATAGTTTAAGTACCACATTAGATATTTTCAAAGTATAAGTACCACATTA
GACATTTTATAAAAATACAAGTAACA
Found at i:49853919 original size:67 final size:67
Alignment explanation
Indices: 49853800--49853931 Score: 187
Period size: 67 Copynumber: 2.0 Consensus size: 67
49853790 TCGAACTAGA
* *
49853800 GCATTCAAAGATACATGTCTGACTAAATACATTCAATCACTCGGGAACTTTTTTTCATGTATCTT
1 GCATTCAAAGATACATGTCCGACTAAATACATTCAATCACTCGCGAACTTTTTTTCATGTATCTT
49853865 GG
66 GG
* * * * *
49853867 GCATTCACAGATACGTGTCCGACTAAATATATTCAATTAC-C-CGAACTTTTTTTCATGTATTTT
1 GCATTCAAAGATACATGTCCGACTAAATACATTCAATCACTCGCGAACTTTTTTTCATGTATCTT
49853930 GG
66 GG
49853932 AGGACTTTTG
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
65 22 0.38
66 1 0.02
67 35 0.60
ACGTcount: A:0.29, C:0.20, G:0.14, T:0.37
Consensus pattern (67 bp):
GCATTCAAAGATACATGTCCGACTAAATACATTCAATCACTCGCGAACTTTTTTTCATGTATCTT
GG
Found at i:49860409 original size:25 final size:25
Alignment explanation
Indices: 49860380--49860430 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
49860370 CAAAGGAAAA
**
49860380 TCCTAATCTAATTCCTAATTTAAAG
1 TCCTAATAGAATTCCTAATTTAAAG
*
49860405 TCCTAATAGAATTCTTAATTTAAAG
1 TCCTAATAGAATTCCTAATTTAAAG
49860430 T
1 T
49860431 TTATAAGGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.37, C:0.16, G:0.06, T:0.41
Consensus pattern (25 bp):
TCCTAATAGAATTCCTAATTTAAAG
Found at i:49870270 original size:31 final size:31
Alignment explanation
Indices: 49870202--49870410 Score: 287
Period size: 31 Copynumber: 6.8 Consensus size: 31
49870192 ATAAATGACA
*
49870202 AGTGAAAAGTGGTAGTTTCGGCTACCTGAT-
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
49870232 AGTGAAAAGTGGTAGTTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
** *
49870263 AGTGAAAAGTGGTAGCTTTTGCTACCTGATT
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
49870294 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* * *
49870325 AGTGAAAAATGGTAGCTCCGACTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* * *
49870356 AGTGAAAAAT-GTAGCTCCAGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
49870386 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
49870411 AAGTGACAAG
Statistics
Matches: 161, Mismatches: 16, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
30 56 0.35
31 105 0.65
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.28
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:49870379 original size:92 final size:92
Alignment explanation
Indices: 49870202--49870410 Score: 294
Period size: 92 Copynumber: 2.3 Consensus size: 92
49870192 ATAAATGACA
* * * * *
49870202 AGTGAAAAGTGGTAGTTTCGGCTACCTGATAGTGAAAAGTGGTAGTTTCGGCTACCTGATCAGTG
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATAGTGAAAAATGGTAGCTCCGACTACCTGATCAGTG
* *** *
49870267 AAAAGTGGTAGCTTTTGCTACCTGATT
66 AAAAATGGTAGCTCCAGCTACCTGATC
*
49870294 AGTGAAAAGTGGTAGCTTCTGCTACCTGATCAGTGAAAAATGGTAGCTCCGACTACCTGATCAGT
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGAT-AGTGAAAAATGGTAGCTCCGACTACCTGATCAGT
49870359 GAAAAAT-GTAGCTCCAGCTACCTGATC
65 GAAAAATGGTAGCTCCAGCTACCTGATC
*
49870386 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
49870411 AAGTGACAAG
Statistics
Matches: 103, Mismatches: 13, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
92 67 0.65
93 36 0.35
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.28
Consensus pattern (92 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATAGTGAAAAATGGTAGCTCCGACTACCTGATCAGTG
AAAAATGGTAGCTCCAGCTACCTGATC
Found at i:49870514 original size:47 final size:46
Alignment explanation
Indices: 49870428--49870545 Score: 146
Period size: 47 Copynumber: 2.5 Consensus size: 46
49870418 AAGTGATTTC
* * *
49870428 CGTATAAGACCATATCTGGGATATGGCATCGGTGTGATATATGCTA
1 CGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGATA
* * *
49870474 CTGTATAAGACCATATCTGGGATATGGCATCATTGAGATATGTGATT
1 C-GTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGATA
* * *
49870521 CGTGTAAGACCATAGCTGGGCTATG
1 CGTATAAGACCATATCTGGGATATG
49870546 ACATTGATAA
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
46 22 0.35
47 40 0.65
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.31
Consensus pattern (46 bp):
CGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGATA
Found at i:49872314 original size:21 final size:21
Alignment explanation
Indices: 49872288--49872342 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
49872278 TGTAGGCTGC
* *
49872288 ACAGAAGCACATAAGTGCTAA
1 ACAGAAACACATAAGGGCTAA
* *
49872309 ACAGAAACCCATAAGGGTTAA
1 ACAGAAACACATAAGGGCTAA
* *
49872330 ACAAAAACTCATA
1 ACAGAAACACATA
49872343 TGAGTTGACA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.51, C:0.20, G:0.15, T:0.15
Consensus pattern (21 bp):
ACAGAAACACATAAGGGCTAA
Found at i:49879560 original size:15 final size:14
Alignment explanation
Indices: 49879540--49879577 Score: 58
Period size: 15 Copynumber: 2.6 Consensus size: 14
49879530 TGAGTTTTTG
49879540 TTTTTAATTTTAATA
1 TTTTTAATTTTAA-A
49879555 TTTTTAATTTTTAAA
1 TTTTTAA-TTTTAAA
49879570 TTTTTAAT
1 TTTTTAAT
49879578 AATTTTTAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 1 0.05
15 15 0.68
16 6 0.27
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (14 bp):
TTTTTAATTTTAAA
Found at i:49879959 original size:13 final size:13
Alignment explanation
Indices: 49879941--49879972 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
49879931 AAAGTGATGG
49879941 TTTATCAAAGAAC
1 TTTATCAAAGAAC
49879954 TTTATCAAAGAAC
1 TTTATCAAAGAAC
49879967 TTTATC
1 TTTATC
49879973 TTGAAATCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.41, C:0.16, G:0.06, T:0.38
Consensus pattern (13 bp):
TTTATCAAAGAAC
Found at i:49880336 original size:20 final size:19
Alignment explanation
Indices: 49880311--49880382 Score: 65
Period size: 19 Copynumber: 3.6 Consensus size: 19
49880301 TAATTACAAA
49880311 TTTATAACATATAGTTTAAT
1 TTTATAACAT-TAGTTTAAT
*
49880331 TTTATAAACATTTTA-TTTTAT
1 TTTAT-AACA--TTAGTTTAAT
* *
49880352 TTTATTACATTAGCTTAAT
1 TTTATAACATTAGTTTAAT
*
49880371 TTTATAATATTA
1 TTTATAACATTA
49880383 ACAAACATAT
Statistics
Matches: 42, Mismatches: 6, Indels: 9
0.74 0.11 0.16
Matches are distributed among these distances:
18 3 0.07
19 14 0.33
20 8 0.19
21 14 0.33
22 2 0.05
23 1 0.02
ACGTcount: A:0.36, C:0.06, G:0.03, T:0.56
Consensus pattern (19 bp):
TTTATAACATTAGTTTAAT
Found at i:49881542 original size:31 final size:32
Alignment explanation
Indices: 49881473--49881547 Score: 91
Period size: 32 Copynumber: 2.4 Consensus size: 32
49881463 ACACATATTA
** *
49881473 ATTTTTAATTTTTTTTTTAAAAATATTTATAT
1 ATTTTTAATTTAATATTTAAAAATATTTATAT
*
49881505 -TATTTTAATTTAATATTTAATAAT-TTTATAT
1 AT-TTTTAATTTAATATTTAAAAATATTTATAT
49881536 ATTTTTAATTTA
1 ATTTTTAATTTA
49881548 TTGATTTTTC
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
31 18 0.49
32 19 0.51
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (32 bp):
ATTTTTAATTTAATATTTAAAAATATTTATAT
Found at i:49881544 original size:16 final size:16
Alignment explanation
Indices: 49881498--49881546 Score: 50
Period size: 16 Copynumber: 3.1 Consensus size: 16
49881488 TTTAAAAATA
49881498 TTTATAT-TATTTTAA-
1 TTTATATAT-TTTTAAT
*
49881513 TTTA-ATATTTAATAAT
1 TTTATATATTT-TTAAT
49881529 TTTATATATTTTTAAT
1 TTTATATATTTTTAAT
49881545 TT
1 TT
49881547 ATTGATTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
14 4 0.14
15 8 0.29
16 10 0.36
17 6 0.21
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
TTTATATATTTTTAAT
Found at i:49881547 original size:15 final size:15
Alignment explanation
Indices: 49881497--49881548 Score: 54
Period size: 15 Copynumber: 3.4 Consensus size: 15
49881487 TTTTAAAAAT
49881497 ATTTATAT-TATTTTA
1 ATTTATATAT-TTTTA
*
49881512 ATTTA-ATATTTAATA
1 ATTTATATATTT-TTA
49881527 ATTTTATATATTTTTA
1 A-TTTATATATTTTTA
49881543 ATTTAT
1 ATTTAT
49881549 TGATTTTTCA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
14 4 0.13
15 14 0.45
16 7 0.23
17 6 0.19
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (15 bp):
ATTTATATATTTTTA
Found at i:49884487 original size:16 final size:16
Alignment explanation
Indices: 49884466--49884531 Score: 63
Period size: 16 Copynumber: 4.4 Consensus size: 16
49884456 GATTGATATT
49884466 GAAATGAAAAATATGA
1 GAAATGAAAAATATGA
49884482 GAAATG---AATATGA
1 GAAATGAAAAATATGA
*
49884495 G--ATGAGAAAATATTA
1 GAAATGA-AAAATATGA
*
49884510 -AAATGACAAATATGA
1 GAAATGAAAAATATGA
49884525 GAAATGA
1 GAAATGA
49884532 TTATGAGATG
Statistics
Matches: 40, Mismatches: 3, Indels: 14
0.70 0.05 0.25
Matches are distributed among these distances:
11 3 0.08
13 8 0.20
15 13 0.32
16 16 0.40
ACGTcount: A:0.58, C:0.02, G:0.20, T:0.21
Consensus pattern (16 bp):
GAAATGAAAAATATGA
Found at i:49884522 original size:43 final size:43
Alignment explanation
Indices: 49884461--49884546 Score: 145
Period size: 43 Copynumber: 2.0 Consensus size: 43
49884451 TATGTGATTG
*
49884461 ATATTGAAATGAAAAATATGAGAAATGAATATGAGATGAGAAA
1 ATATTAAAATGAAAAATATGAGAAATGAATATGAGATGAGAAA
* *
49884504 ATATTAAAATGACAAATATGAGAAATGATTATGAGATGAGAAA
1 ATATTAAAATGAAAAATATGAGAAATGAATATGAGATGAGAAA
49884547 TGAAATATGA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.55, C:0.01, G:0.20, T:0.24
Consensus pattern (43 bp):
ATATTAAAATGAAAAATATGAGAAATGAATATGAGATGAGAAA
Found at i:49887763 original size:21 final size:21
Alignment explanation
Indices: 49887739--49887780 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
49887729 TGGAGCAAAT
49887739 AACATAAAAAAATAT-TTTAAA
1 AACA-AAAAAAATATATTTAAA
* *
49887760 AACAAAACATATATATTTAAA
1 AACAAAAAAAATATATTTAAA
49887781 GGTGATAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.64, C:0.07, G:0.00, T:0.29
Consensus pattern (21 bp):
AACAAAAAAAATATATTTAAA
Found at i:49887862 original size:21 final size:21
Alignment explanation
Indices: 49887838--49887877 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
49887828 ATGAAGATAT
*
49887838 AATAAATAACAAAGAATAAAC
1 AATAAACAACAAAGAATAAAC
* *
49887859 AATATACAAGAAAGAATAA
1 AATAAACAACAAAGAATAA
49887878 CAAAGCAATA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.70, C:0.07, G:0.07, T:0.15
Consensus pattern (21 bp):
AATAAACAACAAAGAATAAAC
Found at i:49893203 original size:175 final size:176
Alignment explanation
Indices: 49892941--49893260 Score: 447
Period size: 175 Copynumber: 1.8 Consensus size: 176
49892931 TAGATCTTCA
*
49892941 ATCTTCAATCTTCAGTCTGCTTCCTTGCTGCCTCAGGAAGATAAGACTAAAATCGCTAACCTGCT
1 ATCTTCAATCTTCAGTCTGCTTCCTTGCTGCCTCAGAAAGATAAGACTAAAATCGCTAACCTGCT
* * * *
49893006 CTCTTGCTACCTCAGAGAGATAAGGCTAGTGGCTAAAATCTGCTCCATTG-CTG-TACATGGAGA
66 CTCTTGCTACCTCAGAGAGATAAGACTAGAGGCTAAAATCTGCTCCAATGTC-GATACATAGAGA
49893069 TAAG-TTTTGCCATCTTCGATCTGCTCTACTACTACTTAGAGAGATAAG
130 TAAGATTTT-CC-TCTTCGATCTGCTCTACTACTACTTAGAGAGATAAG
* * *
49893117 ATCTTCAA-CTTTCAGTCTGCTTTCTTGCTAG-CTCAGAAAGATAAGACT-TAATC-TTCAACCT
1 ATCTTCAATC-TTCAGTCTGCTTCCTTGCT-GCCTCAGAAAGATAAGACTAAAATCGCT-AACCT
* *
49893178 GCTCTCTTGCTACCTCAGAGAGATAAGACTTGAGGCTTAAATCTGCTCCAATGTCGATACATAGA
63 GCTCTCTTGCTACCTCAGAGAGATAAGACTAGAGGCTAAAATCTGCTCCAATGTCGATACATAGA
49893243 GATAAGATTTTCCTCTTC
128 GATAAGATTTTCCTCTTC
49893261 CAATATTCAA
Statistics
Matches: 128, Mismatches: 10, Indels: 13
0.85 0.07 0.09
Matches are distributed among these distances:
174 1 0.01
175 64 0.50
176 58 0.45
177 5 0.04
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.32
Consensus pattern (176 bp):
ATCTTCAATCTTCAGTCTGCTTCCTTGCTGCCTCAGAAAGATAAGACTAAAATCGCTAACCTGCT
CTCTTGCTACCTCAGAGAGATAAGACTAGAGGCTAAAATCTGCTCCAATGTCGATACATAGAGAT
AAGATTTTCCTCTTCGATCTGCTCTACTACTACTTAGAGAGATAAG
Found at i:49893367 original size:147 final size:146
Alignment explanation
Indices: 49893134--49893398 Score: 383
Period size: 147 Copynumber: 1.8 Consensus size: 146
49893124 ACTTTCAGTC
*
49893134 TGCTTTCTTGCTAGCTCAGAAAGATAAGACTTAATCTTCAACCTGCTCTCTTGCTACCTCAGAGA
1 TGCTTCCTTGCTAGCTCAGAAAGATAAGACTTAATCTTCAACCTGCTCTCTTGCTACCTCAGAGA
* * *
49893199 GATAAGACTTGAGGCTTAAATCTGCTCCAATG-TCGATACATAGAGATAAGATTTTCCTCTTCCA
66 GAGAAGACTAGAGGCTAAAATCTGCTCCAATGCTCG-TACATAGAGATAAGATTTTCCTCTTCCA
49893263 ATATTCAATCTTCAATT
130 ATATTCAATCTTCAATT
*
49893280 TGCTTCCTTGCTA-CTTCAGGAAGATAAGAC-TACCATCTTCAACCTGCTCTCTTGCTACCTCAG
1 TGCTTCCTTGCTAGC-TCAGAAAGATAAGACTTA--ATCTTCAACCTGCTCTCTTGCTACCTCAG
* * * * *
49893343 AGAGAGAAGGCTAGTGGCTAAAATCTGCTCCATTGCTTGTACATGGAGATAAGATT
63 AGAGAGAAGACTAGAGGCTAAAATCTGCTCCAATGCTCGTACATAGAGATAAGATT
49893399 CACCATCTTC
Statistics
Matches: 105, Mismatches: 10, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
145 3 0.03
146 26 0.25
147 74 0.70
148 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.32
Consensus pattern (146 bp):
TGCTTCCTTGCTAGCTCAGAAAGATAAGACTTAATCTTCAACCTGCTCTCTTGCTACCTCAGAGA
GAGAAGACTAGAGGCTAAAATCTGCTCCAATGCTCGTACATAGAGATAAGATTTTCCTCTTCCAA
TATTCAATCTTCAATT
Found at i:49893569 original size:322 final size:321
Alignment explanation
Indices: 49892935--49893574 Score: 910
Period size: 322 Copynumber: 2.0 Consensus size: 321
49892925 GGGAAATAGA
* * *
49892935 TCTTCAATCTTCAATCTTCAGTCTGCTTCCTTGCTGCCTCAGGAAGATAAGACTAAAATCGCTAA
1 TCTTCAATATTCAATCTTCAATCTGCTTCCTTGCTACCTCAGGAAGATAAGACTAAAATCGCTAA
*
49893000 CCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTAGTGGCTAAAATCTGCTCCATTGCTGTACATG
66 CCTGCTCTCTTGCTACCTCAGAGAGAGAAGGCTAGTGGCTAAAATCTGCTCCATTGCTGTACATG
* ** *
49893065 GAGATAAGTTTTGCCATCTTCGATCTGCTCTACTACTACTTAGAGAGATAAGATCTTCAACTTTC
131 GAGATAAGATTCACCATCTTCGATCTGCTCTACTACTACTTAGAGAGATAAGATCTTCAACTTCC
* * * * *
49893130 AGTCTGCTTTCTTGCTAGCTCAGAAAGATAAGACTTAATCTTCAACCTGCTCTCTTGCTACCTCA
196 AGTCTGCTTCCTTGATACCTCAGAAAGATAAGAATCAATCTTCAACCTGCTCTCTTGCTACCTCA
* * * * *
49893195 GAGAGATAAGACTTGAGGCTTAAATCTGCTCCAATGTCGATACATAGAGATAAGATTTTCC
261 GAGAGATAAGACTGGAGGCTAAAATATACTCCAATGTCAATACATAGAGATAAGATTTTCC
* * ** *
49893256 TCTTCCAATATTCAATCTTCAATTTGCTTCCTTGCTACTTCAGGAAGATAAGACTACCATC-TTC
1 TCTT-CAATATTCAATCTTCAATCTGCTTCCTTGCTACCTCAGGAAGATAAGACTAAAATCGCT-
49893320 AACCTGCTCTCTTGCTACCTCAGAGAGAGAAGGCTAGTGGCTAAAATCTGCTCCATTGCTTGTAC
64 AACCTGCTCTCTTGCTACCTCAGAGAGAGAAGGCTAGTGGCTAAAATCTGCTCCATTGC-TGTAC
*
49893385 ATGGAGATAAGATTCACCATCTTCGATCTGCT-TCACTACTACTTAGGGAGATAAGATCTTCAA-
128 ATGGAGATAAGATTCACCATCTTCGATCTGCTCT-ACTACTACTTAGAGAGATAAGATCTTCAAC
* * *
49893448 TCTCCAGTTTGCTTCCTTGATACCTTAGAAAGATAAGAATCATTCTTCAACCTGCTCTCTTGCTA
192 T-TCCAGTCTGCTTCCTTGATACCTCAGAAAGATAAGAATCAATCTTCAACCTGCTCTCTTGCTA
* * * * * *
49893513 CCTCAGAGAGATAAGGCTGGTGG-TAAAATATACTTCATTGTCAATATATGGAGATAAGATTT
256 CCTCAGAGAGATAAGACTGGAGGCTAAAATATACTCCAATGTCAATACATAGAGATAAGATTT
49893575 ATAGTCTTTG
Statistics
Matches: 281, Mismatches: 33, Indels: 9
0.87 0.10 0.03
Matches are distributed among these distances:
321 5 0.02
322 140 0.50
323 136 0.48
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.32
Consensus pattern (321 bp):
TCTTCAATATTCAATCTTCAATCTGCTTCCTTGCTACCTCAGGAAGATAAGACTAAAATCGCTAA
CCTGCTCTCTTGCTACCTCAGAGAGAGAAGGCTAGTGGCTAAAATCTGCTCCATTGCTGTACATG
GAGATAAGATTCACCATCTTCGATCTGCTCTACTACTACTTAGAGAGATAAGATCTTCAACTTCC
AGTCTGCTTCCTTGATACCTCAGAAAGATAAGAATCAATCTTCAACCTGCTCTCTTGCTACCTCA
GAGAGATAAGACTGGAGGCTAAAATATACTCCAATGTCAATACATAGAGATAAGATTTTCC
Found at i:49893624 original size:175 final size:177
Alignment explanation
Indices: 49893266--49893987 Score: 813
Period size: 175 Copynumber: 4.1 Consensus size: 177
49893256 TCTTCCAATA
* *
49893266 TTCAATCTTCAATTTGCTTCCTTGCTA-CTTCAGGAAGATAAGACTACCA-TCTTCAACCTGCTC
1 TTCAATCTTCAATCTGCTTCCTTGCTACCTT-AGGAAGATAAGA--ATCATTCTTCAACCTGCTC
* * **
49893329 TCTTGCTACCTCAGAGAGAGAAGGCTAGTGGCTAAAATCTGCTCCATTG-CTTGTACATGGAGAT
63 TCTTGCTACCTCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATTGTC-AATACATGGAGAT
* *
49893393 AAGATTCACCA-TCTTCGATCTGCTT-CACTACTACTTAGGGAGATAAGATC
127 AAGATTTACCAGTCTTCGATCTG-TTCCACTACTATTTAGGGAGATAAGATC
* * * * *
49893443 TTCAATCTCCAGTTTGCTTCCTTGATACCTTAGAAAGATAAGAATCATTCTTCAACCTGCTCTCT
1 TTCAATCTTCAATCTGCTTCCTTGCTACCTTAGGAAGATAAGAATCATTCTTCAACCTGCTCTCT
* * * *
49893508 TGCTACCTCAGAGAGATAAGGCTGGTGG-TAAAATATACTTCATTGTCAATATATGGAGATAAGA
66 TGCTACCTCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATTGTCAATACATGGAGATAAGA
* * * * *
49893572 TTTA-TAGTCTTTGGTCTGTTCCACTACTGTTTAGGGAGGTAAGA-C
131 TTTACCAGTCTTCGATCTGTTCCACTACTATTTAGGGAGATAAGATC
* * * *
49893617 ATTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTCATTCTTTAACCTGCTCTC
1 -TTCAATCTTCAATCTGCTTCCTTGCTACCTTAGGAAGATAAGAATCATTCTTCAACCTGCTCTC
* * *
49893682 TTGCTACCTCAGAGAGATAAGGCTGGTGGCTTAAATCTGCTCCATTTTCGATACATGGAGATAAG
65 TTGCTACCTCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATTGTCAATACATGGAGATAAG
** * * *
49893747 ATTTACCAG-CTTCGATCTGCCCCACTGCAACTTCAGGGAGATAAGATC
130 ATTTACCAGTCTTCGATCTGTTCCACTACTA-TTTAGGGAGATAAGATC
* * * **
49893795 TTCAATCTTCAATCTGCTTCCTTGCTACTTTAGGAAGATAAGACTACAATCGCCAACCTGCTCTC
1 TTCAATCTTCAATCTGCTTCCTTGCTACCTTAGGAAGATAAGAAT-CATTCTTCAACCTGCTCTC
* * * * *
49893860 TTGCTACCACAGAGAGAT-AGG-TCAGTGGCTAAAATCTGCTCCA-TGCCGATACATGAAGATAA
65 TTGCTACCTCAGAGAGATAAGGCT-GGTGGCTAAAATCTGCTCCATTGTCAATACATGGAGATAA
** * * **
49893922 GATTCGCCA-TCTTCGATCTGCTCCGCTACTGCTTAGGGAGATAAGATC
129 GATTTACCAGTCTTCGATCTGTTCCACTACTATTTAGGGAGATAAGATC
*
49893970 TTCAATCTTCAGTCTGCT
1 TTCAATCTTCAATCTGCT
49893988 CCACTGTAAC
Statistics
Matches: 465, Mismatches: 67, Indels: 28
0.83 0.12 0.05
Matches are distributed among these distances:
174 4 0.01
175 181 0.39
176 131 0.28
177 113 0.24
178 36 0.08
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (177 bp):
TTCAATCTTCAATCTGCTTCCTTGCTACCTTAGGAAGATAAGAATCATTCTTCAACCTGCTCTCT
TGCTACCTCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATTGTCAATACATGGAGATAAGA
TTTACCAGTCTTCGATCTGTTCCACTACTATTTAGGGAGATAAGATC
Found at i:49893856 original size:44 final size:45
Alignment explanation
Indices: 49893776--49893866 Score: 105
Period size: 44 Copynumber: 2.0 Consensus size: 45
49893766 CCCCACTGCA
* * ** *
49893776 ACTTCAGGGAGATAAGATCTTCAATCTTCAATCTGCT-TCCTTGCT
1 ACTTCAGGAAGATAAGATCTACAATCGCCAACCTGCTCT-CTTGCT
*
49893821 ACTTTAGGAAGATAAGA-CTACAATCGCCAACCTGCTCTCTTGCT
1 ACTTCAGGAAGATAAGATCTACAATCGCCAACCTGCTCTCTTGCT
49893865 AC
1 AC
49893867 CACAGAGAGA
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
44 23 0.59
45 16 0.41
ACGTcount: A:0.27, C:0.26, G:0.15, T:0.31
Consensus pattern (45 bp):
ACTTCAGGAAGATAAGATCTACAATCGCCAACCTGCTCTCTTGCT
Found at i:49893922 original size:352 final size:351
Alignment explanation
Indices: 49893265--49893987 Score: 931
Period size: 352 Copynumber: 2.1 Consensus size: 351
49893255 CTCTTCCAAT
* * *
49893265 ATTCAATCTTCAATTTGCTTCCTTGCTACTTCAGGAAGATAAGACTACCATCTTCAACCTGCTCT
1 ATTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTA-CATCTTCAACCTGCTCT
49893330 CTTGCTACCTCAGAGAGAGAAGGCTAGTGGCTAAAATCTGCTCCATTGCTTGTACATGGAGATAA
65 CTTGCTACCTCAGAGAGAGAAGGCTAGTGGCTAAAATCTGCTCCATT-CTTGTACATGGAGATAA
* ** * * *
49893395 GATTCACCATCTTCGATCTGCTTCACTACTACTTAGGGAGATAAGATCTTCAATCTCCAGTTTGC
129 GATTCACCAGCTTCGATCTGCCCCACTACAACTTAGGGAGATAAGATCTTCAATCTCCAATCTGC
* ** *
49893460 TTCCTTGATACCTTAGAAAGATAAGAATCATTCTTCAACCTGCTCTCTTGCTACCTCAGAGAGAT
194 TTCCTTGATACCTTAGAAAGATAAGAATCAATCGCCAACCTGCTCTCTTGCTACCACAGAGAGAT
* * * * * * * * *
49893525 AAGGCTGGTGGTAAAATATACTTCATTGTCAATATATGGAGATAAGATT-TATAGTCTTTGGTCT
259 AAGGCTAGTGGTAAAATATACTCCATTGCCAATACATGAAGATAAGATTCGACA-TCTTCGATCT
* * *
49893589 GTTCCACTACTGTTTAGGGAGGTAAGA-C
323 GCTCCACTACTGCTTAGGGAGATAAGATC
*
49893617 ATTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACT-CATTCTTTAACCTGCTCT
1 ATTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTACA-TCTTCAACCTGCTCT
* * *
49893681 CTTGCTACCTCAGAGAGATAAGGCTGGTGGCTTAAATCTGCTCCATT-TTCGATACATGGAGATA
65 CTTGCTACCTCAGAGAGAGAAGGCTAGTGGCTAAAATCTGCTCCATTCTT-G-TACATGGAGATA
* * *
49893745 AGATTTACCAGCTTCGATCTGCCCCACTGCAACTTCAGGGAGATAAGATCTTCAATCTTCAATCT
128 AGATTCACCAGCTTCGATCTGCCCCACTACAACTT-AGGGAGATAAGATCTTCAATCTCCAATCT
* * * *
49893810 GCTTCCTTGCTACTTTAGGAAGATAAGACTACAATCGCCAACCTGCTCTCTTGCTACCACAGAGA
192 GCTTCCTTGATACCTTAGAAAGATAAGAAT-CAATCGCCAACCTGCTCTCTTGCTACCACAGAGA
* * * *
49893875 GAT-AGG-TCAGTGGCTAAAATCTGCTCCA-TGCCGATACATGAAGATAAGATTCGCCATCTTCG
256 GATAAGGCT-AGTGG-TAAAATATACTCCATTGCCAATACATGAAGATAAGATTCGACATCTTCG
*
49893937 ATCTGCTCCGCTACTGCTTAGGGAGATAAGATC
319 ATCTGCTCCACTACTGCTTAGGGAGATAAGATC
49893970 -TTCAATCTTCAGTCTGCT
1 ATTCAATCTTCAGTCTGCT
49893988 CCACTGTAAC
Statistics
Matches: 321, Mismatches: 41, Indels: 18
0.84 0.11 0.05
Matches are distributed among these distances:
349 2 0.01
350 3 0.01
351 100 0.31
352 170 0.53
353 46 0.14
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (351 bp):
ATTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTACATCTTCAACCTGCTCTC
TTGCTACCTCAGAGAGAGAAGGCTAGTGGCTAAAATCTGCTCCATTCTTGTACATGGAGATAAGA
TTCACCAGCTTCGATCTGCCCCACTACAACTTAGGGAGATAAGATCTTCAATCTCCAATCTGCTT
CCTTGATACCTTAGAAAGATAAGAATCAATCGCCAACCTGCTCTCTTGCTACCACAGAGAGATAA
GGCTAGTGGTAAAATATACTCCATTGCCAATACATGAAGATAAGATTCGACATCTTCGATCTGCT
CCACTACTGCTTAGGGAGATAAGATC
Found at i:49894011 original size:175 final size:175
Alignment explanation
Indices: 49893301--49894191 Score: 806
Period size: 175 Copynumber: 5.1 Consensus size: 175
49893291 TACTTCAGGA
* * *
49893301 AGATAAGACTACCATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGAGAAGGCTAGTGGCTAAAA
1 AGATAAGACT-CAATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGCTAAAA
* * *
49893366 TCTGCTCCATTGCTTG-TACATGGAGATAAGATTCACCATCTTCGATCTGCTTCACTACTACTTA
65 TCTGCTCCATTGC-CGATACATGGAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTA
* * * * *
49893430 GGGAGATAAGATCTTCAATCTCCAGTTTGCTTCCT-TGATACCT-TAGAA
129 GGGAGATAAGATCTTCAATCTTCAGTCTGCTCCCTGT-A-ACCTCAAG-G
* *
49893478 AGATAAGAATCATTCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGG-TAAAAT
1 AGATAAGACTCAATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGCTAAAAT
* * * * * * * * * * * *
49893542 ATACTTCATTGTCAATATATGGAGATAAGATTTA-TAGTCTTTGGTCTGTTCCACTACTGTTTAG
66 CTGCTCCATTGCCGATACATGGAGATAAGATTCACCA-TCTTCGATCTGCTCCACTACTGCTTAG
* *
49893606 GGAGGTAAGA-CATTCAATCTTCAGTCTGCTTCCTTGCT-ACCTC-AGG
130 GGAGATAAGATC-TTCAATCTTCAGTCTGC-TCCCTG-TAACCTCAAGG
* * *
49893652 AAGATAAGACTCATTCTTTAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGCTTAAA
1 -AGATAAGACTCAATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGCTAAAA
** * * * * **
49893717 TCTGCTCCATTTTCGATACATGGAGATAAGATTTACCAGCTTCGATCTGCCCCACTGCAACTTCA
65 TCTGCTCCATTGCCGATACATGGAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTT-A
* * **
49893782 GGGAGATAAGATCTTCAATCTTCAATCTGCTTCCTTGCT-A-CTTTAGG
129 GGGAGATAAGATCTTCAATCTTCAGTCTGC-TCCCTG-TAACCTCAAGG
** * *
49893829 AAGATAAGACTACAATCGCCAACCTGCTCTCTTGCTACCACAGAGAGAT-AGG-TCAGTGGCTAA
1 -AGATAAGACT-CAATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCT-GGTGGCTAA
* * *
49893892 AATCTGCTCCA-TGCCGATACATGAAGATAAGATTCGCCATCTTCGATCTGCTCCGCTACTGCTT
63 AATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTT
*
49893956 AGGGAGATAAGATCTTCAATCTTCAGTCTGCTCCACTGTAACCTCAAAG
128 AGGGAGATAAGATCTTCAATCTTCAGTCTGCTCC-CTGTAACCTCAAGG
** * * * * * * * * *
49894005 AGATAAGACTTGTATAC-TGAGCCTGCTC-CACTGCAACTTCAGGGAGATAAAGCTGGTGACTTA
1 AGATAAGAC-TCAAT-CTTCAACCTGCTCTC-TTGCTACCTCAGAGAGATAAGGCTGGTGGCTAA
* * ** * *
49894068 AATCTACTCCATTGCCGGTACATGGAGATAAGATTCGTCATCGTT-GGTCTGTTCCACTACTGCT
63 AATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCATC-TTCGATCTGCTCCACTACTGCT
* * * * * * *
49894132 TAGGGAAATAAGACCTGCAATCTTCAGTCTACTCCACTGCAACCTGAGGG
127 TAGGGAGATAAGATCTTCAATCTTCAGTCTGCTCC-CTGTAACCTCAAGG
49894182 AGATAAGACT
1 AGATAAGACT
49894192 TGTTATGATC
Statistics
Matches: 589, Mismatches: 100, Indels: 51
0.80 0.14 0.07
Matches are distributed among these distances:
174 7 0.01
175 203 0.34
176 166 0.28
177 177 0.30
178 36 0.06
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.30
Consensus pattern (175 bp):
AGATAAGACTCAATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGCTAAAAT
CTGCTCCATTGCCGATACATGGAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGG
GAGATAAGATCTTCAATCTTCAGTCTGCTCCCTGTAACCTCAAGG
Found at i:49894011 original size:352 final size:351
Alignment explanation
Indices: 49893265--49894103 Score: 912
Period size: 352 Copynumber: 2.4 Consensus size: 351
49893255 CTCTTCCAAT
* * * * *
49893265 ATTCAATCTTCAATTTGCTTCCTTGCTACTTCAGGAAGATAAGACTACCA-TCTTCAACCTGCTC
1 ATTCAATCTTCAGTCTGCTTCCCTGCTACCTCAAGAAGATAAGACTA-CATTCTTCAACCTGCTC
* * *
49893329 TCTTGCTACCTCAGAGAGAGAAGGCTAGTGGCTAAAATCTGCTCCATTGCTT-GTACATGGAGAT
65 TCTTGCTACCTCAGAGAGATAAGGCTGGTGGCTTAAATCTGCTCCATT--TTCGTACATGGAGAT
* ** * * *
49893393 AAGATTCACCATCTTCGATCTGCTTCACTACTACTTAGGGAGATAAGATCTTCAATCTCCAGTTT
128 AAGATTCACCAGCTTCGATCTGCCCCACTACAACTTAGGGAGATAAGATCTTCAATCTCCAATCT
* ** *
49893458 GCTTCCTTGATACCTTAGAAAGATAAGAATCATTCTTCAACCTGCTCTCTTGCTACCTCAGAGAG
193 GCTTCCTTGATACCTTAGAAAGATAAGAATCAATCGCCAACCTGCTCTCTTGCTACCACAGAGAG
* * * * * * * * *
49893523 ATAAGGCTGGTGGTAAAATATACTTCATTGTCAATATATGGAGATAAGATTTATAGTCTTTGGTC
258 ATAAGGCTAGTGGTAAAATATACTCCATTGCCAATACATGAAGATAAGATTGACAGTCTTCGATC
* * *
49893588 TGTTCCACTACTGTTTAGGGAGGTAAGAC
323 TGCTCCACTACTGCTTAGGGAGATAAGAC
* * *
49893617 ATTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACT-CATTCTTTAACCTGCTCT
1 ATTCAATCTTCAGTCTGCTTCCCTGCTACCTCAAGAAGATAAGACTACATTCTTCAACCTGCTCT
49893681 CTTGCTACCTCAGAGAGATAAGGCTGGTGGCTTAAATCTGCTCCATTTTCGATACATGGAGATAA
66 CTTGCTACCTCAGAGAGATAAGGCTGGTGGCTTAAATCTGCTCCATTTTCG-TACATGGAGATAA
* * *
49893746 GATTTACCAGCTTCGATCTGCCCCACTGCAACTTCAGGGAGATAAGATCTTCAATCTTCAATCTG
130 GATTCACCAGCTTCGATCTGCCCCACTACAACTT-AGGGAGATAAGATCTTCAATCTCCAATCTG
* * * *
49893811 CTTCCTTGCTACTTTAGGAAGATAAGACTACAATCGCCAACCTGCTCTCTTGCTACCACAGAGAG
194 CTTCCTTGATACCTTAGAAAGATAAGAAT-CAATCGCCAACCTGCTCTCTTGCTACCACAGAGAG
* * * *
49893876 AT-AGG-TCAGTGGCTAAAATCTGCTCCA-TGCCGATACATGAAGATAAGATTCGCCA-TCTTCG
258 ATAAGGCT-AGTGG-TAAAATATACTCCATTGCCAATACATGAAGATAAGATT-GACAGTCTTCG
*
49893937 ATCTGCTCCGCTACTGCTTAGGGAGATAAGATC
320 ATCTGCTCCACTACTGCTTAGGGAGATAAGA-C
** * * *
49893970 -TTCAATCTTCAGTCTGC-TCCACTG-TAACCTCAA-AGAGATAAGACTTGTATAC-TGAGCCTG
1 ATTCAATCTTCAGTCTGCTTCC-CTGCT-ACCTCAAGA-AGATAAGAC-TACATTCTTCAACCTG
* * * * * * * **
49894030 CTC-CACTGCAACTTCAGGGAGATAAAGCTGGTGACTTAAATCTACTCCATTGCCGGTACATGGA
62 CTCTC-TTGCTACCTCAGAGAGATAAGGCTGGTGGCTTAAATCTGCTCCATTTTC-GTACATGGA
49894094 GATAAGATTC
125 GATAAGATTC
49894104 GTCATCGTTG
Statistics
Matches: 414, Mismatches: 57, Indels: 31
0.82 0.11 0.06
Matches are distributed among these distances:
349 2 0.00
350 3 0.01
351 105 0.25
352 187 0.45
353 113 0.27
354 4 0.01
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (351 bp):
ATTCAATCTTCAGTCTGCTTCCCTGCTACCTCAAGAAGATAAGACTACATTCTTCAACCTGCTCT
CTTGCTACCTCAGAGAGATAAGGCTGGTGGCTTAAATCTGCTCCATTTTCGTACATGGAGATAAG
ATTCACCAGCTTCGATCTGCCCCACTACAACTTAGGGAGATAAGATCTTCAATCTCCAATCTGCT
TCCTTGATACCTTAGAAAGATAAGAATCAATCGCCAACCTGCTCTCTTGCTACCACAGAGAGATA
AGGCTAGTGGTAAAATATACTCCATTGCCAATACATGAAGATAAGATTGACAGTCTTCGATCTGC
TCCACTACTGCTTAGGGAGATAAGAC
Found at i:49894480 original size:64 final size:63
Alignment explanation
Indices: 49894369--49894495 Score: 200
Period size: 64 Copynumber: 2.0 Consensus size: 63
49894359 TTCATGTATC
49894369 ATGCTTATGTCAAATAATTAGGTACTATGATCAAAATGAATCAAATGCACCTAACTAGATGTG
1 ATGCTTATGTCAAATAATTAGGTACTATGATCAAAATGAATCAAATGCACCTAACTAGATGTG
* ** * *
49894432 ATGCTTATGTCAAATAATTAGGATGCTATGATTGAAATGAATCAAATGCTCCTAACTGGATGTG
1 ATGCTTATGTCAAATAATTAGG-TACTATGATCAAAATGAATCAAATGCACCTAACTAGATGTG
49894496 TTATGAACGA
Statistics
Matches: 58, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
63 22 0.38
64 36 0.62
ACGTcount: A:0.37, C:0.13, G:0.18, T:0.31
Consensus pattern (63 bp):
ATGCTTATGTCAAATAATTAGGTACTATGATCAAAATGAATCAAATGCACCTAACTAGATGTG
Found at i:49895628 original size:9 final size:9
Alignment explanation
Indices: 49895616--49895662 Score: 85
Period size: 9 Copynumber: 5.2 Consensus size: 9
49895606 TTTATTTTTA
49895616 TTTTTTGAT
1 TTTTTTGAT
49895625 TTTTTTGAT
1 TTTTTTGAT
49895634 TTTTTTGAT
1 TTTTTTGAT
49895643 TTTTTTGAT
1 TTTTTTGAT
*
49895652 TTTTTTTAT
1 TTTTTTGAT
49895661 TT
1 TT
49895663 CCATTACGAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
9 37 1.00
ACGTcount: A:0.11, C:0.00, G:0.09, T:0.81
Consensus pattern (9 bp):
TTTTTTGAT
Found at i:49902526 original size:47 final size:47
Alignment explanation
Indices: 49902413--49902649 Score: 343
Period size: 47 Copynumber: 5.1 Consensus size: 47
49902403 TTAGGATTTT
** * *
49902413 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGG-CA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
49902459 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
49902506 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
49902553 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * * *
49902600 ATGTGATGAACGTGGAA-GTGTATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGT-GAACATGCATATATGTGATAAGGCCGAATGGCCA
49902647 ATG
1 ATG
49902650 CGAAATGTGT
Statistics
Matches: 177, Mismatches: 12, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
46 41 0.23
47 133 0.75
48 3 0.02
ACGTcount: A:0.35, C:0.10, G:0.29, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:49902559 original size:22 final size:22
Alignment explanation
Indices: 49902488--49902559 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
49902478 GCATATATGA
49902488 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
* * *
49902510 GATGAATG-TGAACAT-GCATATATGT
1 GAT-AAGGCCG-A-ATGGC-CA-ATGT
49902535 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
49902557 GAT
1 GAT
49902560 GAATGTGAAC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 11 0.30
23 9 0.24
24 9 0.24
25 8 0.22
ACGTcount: A:0.33, C:0.14, G:0.29, T:0.24
Consensus pattern (22 bp):
GATAAGGCCGAATGGCCAATGT
Found at i:49902606 original size:22 final size:22
Alignment explanation
Indices: 49902531--49902606 Score: 59
Period size: 22 Copynumber: 3.3 Consensus size: 22
49902521 ACATGCATAT
*
49902531 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCAGAATGGCCA
*
49902553 ATGTGATGAATGTG-A-ACAT-GCATA
1 ATGTGAT-AA-G-GCAGA-ATGGC-CA
49902577 TATGTGATAAGGCAGAATGGCCA
1 -ATGTGATAAGGCAGAATGGCCA
49902600 ATGTGAT
1 ATGTGAT
49902607 GAACGTGGAA
Statistics
Matches: 42, Mismatches: 3, Indels: 18
0.67 0.05 0.29
Matches are distributed among these distances:
22 15 0.36
23 10 0.24
24 9 0.21
25 8 0.19
ACGTcount: A:0.34, C:0.12, G:0.29, T:0.25
Consensus pattern (22 bp):
ATGTGATAAGGCAGAATGGCCA
Found at i:49902679 original size:46 final size:46
Alignment explanation
Indices: 49902623--49902759 Score: 220
Period size: 46 Copynumber: 3.0 Consensus size: 46
49902613 GGAAGTGTAT
49902623 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
* *
49902669 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
* * * *
49902715 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATG
49902760 TGTATATATA
Statistics
Matches: 83, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 83 1.00
ACGTcount: A:0.34, C:0.09, G:0.31, T:0.26
Consensus pattern (46 bp):
ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
Found at i:49904297 original size:40 final size:40
Alignment explanation
Indices: 49904246--49904480 Score: 389
Period size: 40 Copynumber: 5.9 Consensus size: 40
49904236 TTATATATGG
49904246 TCCGGGCTAAGTCCCGAAGAGCATACGTGCTGGTGTTATA
1 TCCGGGCTAAGTCCCGAAGAGCATACGTGCTGGTGTTATA
49904286 TCCGGGCTAAGTCCCGAAGAGCATACGTGCTGGTGTTATA
1 TCCGGGCTAAGTCCCGAAGAGCATACGTGCTGGTGTTATA
*
49904326 TCCGGGCTACGTCCCGAAGAGCATACGTGCTGGTGTTATA
1 TCCGGGCTAAGTCCCGAAGAGCATACGTGCTGGTGTTATA
** *
49904366 TCTTGGCTAAGTCCCGAAGAGCATACGTGTTGGTGTTATA
1 TCCGGGCTAAGTCCCGAAGAGCATACGTGCTGGTGTTATA
* * *
49904406 TCCGGGCTAAGTCTCGAAGAGCATTCGTACTGGTGTTATA
1 TCCGGGCTAAGTCCCGAAGAGCATACGTGCTGGTGTTATA
* *
49904446 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTGGTG
1 TCCGGGCTAAGTCCCGAAGAGCATACGTGCTGGTG
49904481 ATGTGTATTC
Statistics
Matches: 181, Mismatches: 14, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 181 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGAGCATACGTGCTGGTGTTATA
Found at i:49904694 original size:25 final size:25
Alignment explanation
Indices: 49904644--49904696 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
49904634 TGTGTAACAA
* *
49904644 CAAATGAATAGGGGCACTATGTGTG
1 CAAATGAATAGAGGCACTATGAGTG
*
49904669 CAAATGATTAGAGGCACTGA-GAGTG
1 CAAATGAATAGAGGCACT-ATGAGTG
49904694 CAA
1 CAA
49904697 GTTCTTCAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 23 0.96
26 1 0.04
ACGTcount: A:0.36, C:0.13, G:0.30, T:0.21
Consensus pattern (25 bp):
CAAATGAATAGAGGCACTATGAGTG
Found at i:49908525 original size:25 final size:25
Alignment explanation
Indices: 49908450--49908647 Score: 147
Period size: 25 Copynumber: 8.3 Consensus size: 25
49908440 CCGAATGGCA
49908450 ATGTGATGAATGTGAACATGCATAT
1 ATGTGATGAATGTGAACATGCATAT
* * * *
49908475 ATGAGAT-AAGGCCG-A-ATGGC-CA-
1 ATGTGATGAATG-TGAACAT-GCATAT
49908497 ATGTGATGAATGTGAACATGCATAT
1 ATGTGATGAATGTGAACATGCATAT
* *
49908522 ATGTGAT-AAGGCTG-A-ATGGC-CA-
1 ATGTGATGAATG-TGAACAT-GCATAT
49908544 ATGTGATGAATGTGAACATGCATAT
1 ATGTGATGAATGTGAACATGCATAT
* * *
49908569 ATGTGAT-AAGGCCG-A-ATGGC-CA-
1 ATGTGATGAATG-TGAACAT-GCATAT
*
49908591 ATGTGATGAATGTGAACATGCATAA
1 ATGTGATGAATGTGAACATGCATAT
49908616 ATGTGATGAATGTGAACATGCATAT
1 ATGTGATGAATGTGAACATGCATAT
49908641 ATGTGAT
1 ATGTGAT
49908648 AAGGCAGAAT
Statistics
Matches: 133, Mismatches: 19, Indels: 42
0.69 0.10 0.22
Matches are distributed among these distances:
22 24 0.18
23 27 0.20
24 27 0.20
25 55 0.41
ACGTcount: A:0.35, C:0.11, G:0.27, T:0.27
Consensus pattern (25 bp):
ATGTGATGAATGTGAACATGCATAT
Found at i:49908550 original size:22 final size:22
Alignment explanation
Indices: 49908479--49908597 Score: 66
Period size: 22 Copynumber: 5.1 Consensus size: 22
49908469 GCATATATGA
*
49908479 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCTGAATGGCCAATGT
* *
49908501 GATGAATG-TGAACAT-GCATATATGT
1 GAT-AAGGCTG-A-ATGGC-CA-ATGT
49908526 GATAAGGCTGAATGGCCAATGT
1 GATAAGGCTGAATGGCCAATGT
* *
49908548 GATGAATG-TGAACAT-GCATATATGT
1 GAT-AAGGCTG-A-ATGGC-CA-ATGT
*
49908573 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCTGAATGGCCAATGT
49908595 GAT
1 GAT
49908598 GAATGTGAAC
Statistics
Matches: 73, Mismatches: 10, Indels: 28
0.66 0.09 0.25
Matches are distributed among these distances:
22 20 0.27
23 18 0.25
24 18 0.25
25 17 0.23
ACGTcount: A:0.34, C:0.13, G:0.29, T:0.25
Consensus pattern (22 bp):
GATAAGGCTGAATGGCCAATGT
Found at i:49908620 original size:47 final size:47
Alignment explanation
Indices: 49908404--49908622 Score: 368
Period size: 47 Copynumber: 4.7 Consensus size: 47
49908394 TTAGGATTTT
** * *
49908404 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGG-CA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
49908450 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
49908497 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCTGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
49908544 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
49908591 ATGTGATGAATGTGAACATGCATAAATGTGAT
1 ATGTGATGAATGTGAACATGCATATATGTGAT
49908623 GAATGTGAAC
Statistics
Matches: 165, Mismatches: 7, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
46 41 0.25
47 124 0.75
ACGTcount: A:0.35, C:0.10, G:0.28, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:49908624 original size:119 final size:119
Alignment explanation
Indices: 49908496--49908712 Score: 346
Period size: 119 Copynumber: 1.8 Consensus size: 119
49908486 CCGAATGGCC
* *
49908496 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCTGAATGGCCAATGTGATGAATGT-GAA
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCAATGTGATGAACGTGGAA
* *
49908560 CATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATA
66 -ATGCATATATGTGATAAAGCCAAATGGCCAATGTGATGAATGTGAACATGCATA
49908615 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCAATGTGATGAACGTGGAA
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCAATGTGATGAACGTGGAA
* * * *
49908680 GTGTATATATGTGGTAAAGCCAAATGGCTAATG
66 ATGCATATATGTGATAAAGCCAAATGGCCAATG
49908713 CGAAATGTGT
Statistics
Matches: 89, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
119 86 0.97
120 3 0.03
ACGTcount: A:0.35, C:0.10, G:0.28, T:0.27
Consensus pattern (119 bp):
AATGTGATGAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCAATGTGATGAACGTGGAA
ATGCATATATGTGATAAAGCCAAATGGCCAATGTGATGAATGTGAACATGCATA
Found at i:49908692 original size:72 final size:72
Alignment explanation
Indices: 49908543--49908676 Score: 250
Period size: 72 Copynumber: 1.9 Consensus size: 72
49908533 CTGAATGGCC
* *
49908543 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCAATGTGATGAACGTGAAC
49908608 ATGCATA
66 ATGCATA
49908615 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCAATGTGATGAACGTG
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCAATGTGATGAACGTG
49908677 GAAGTGTATA
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
72 60 1.00
ACGTcount: A:0.36, C:0.10, G:0.28, T:0.26
Consensus pattern (72 bp):
AATGTGATGAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCAATGTGATGAACGTGAAC
ATGCATA
Found at i:49908706 original size:47 final size:47
Alignment explanation
Indices: 49908615--49908712 Score: 110
Period size: 47 Copynumber: 2.1 Consensus size: 47
49908605 AACATGCATA
* *
49908615 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCAGAATGGCC
1 AATGTGATGAACGTGAACATGCATATATGTGATAAGCCAGAATGGCC
* * * *
49908662 AATGTGATGAACGTGGAA-GTGTATATATGTGGTAAAGCCA-AATGGCT
1 AATGTGATGAACGT-GAACATGCATATATGTGAT-AAGCCAGAATGGCC
49908709 AATG
1 AATG
49908713 CGAAATGTGT
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
47 35 0.81
48 8 0.19
ACGTcount: A:0.36, C:0.09, G:0.29, T:0.27
Consensus pattern (47 bp):
AATGTGATGAACGTGAACATGCATATATGTGATAAGCCAGAATGGCC
Found at i:49908742 original size:46 final size:46
Alignment explanation
Indices: 49908686--49908822 Score: 211
Period size: 46 Copynumber: 3.0 Consensus size: 46
49908676 GGAAGTGTAT
49908686 ATATGTGGTAAAGCCAAATGGCTAATGCGAAATGTGTATGAGATGG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAATGTGTATGAGATGG
* * *
49908732 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAATGTGTATGAGATGG
* * * *
49908778 ATATGTGGTAAAGCCAAATGGATAATGTGAGATATGTATGAGATG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAATGTGTATGAGATG
49908823 TGTATATATA
Statistics
Matches: 81, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 81 1.00
ACGTcount: A:0.36, C:0.08, G:0.31, T:0.26
Consensus pattern (46 bp):
ATATGTGGTAAAGCCAAATGGCTAATGCGAAATGTGTATGAGATGG
Found at i:49914155 original size:46 final size:46
Alignment explanation
Indices: 49914102--49914284 Score: 258
Period size: 46 Copynumber: 4.0 Consensus size: 46
49914092 TATATATACA
* * * *
49914102 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCAAATATC
1 CATCTCATACACATTTCACATTAGCCATTCGGCTTTACCACATATC
* * * *
49914148 CATCTCATACACGTTTCGCATTAGGCATTCGGCTTTACCTCATATC
1 CATCTCATACACATTTCACATTAGCCATTCGGCTTTACCACATATC
* * * *
49914194 CATCTAATACACGTTTCGCATTAGCCATTCGGCTTTACCTCATATC
1 CATCTCATACACATTTCACATTAGCCATTCGGCTTTACCACATATC
49914240 CATCTCATACACATTTCACATTAGCCATTCGGCTTTACCACATAT
1 CATCTCATACACATTTCACATTAGCCATTCGGCTTTACCACATAT
49914285 ATACACTTCC
Statistics
Matches: 123, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 123 1.00
ACGTcount: A:0.26, C:0.30, G:0.09, T:0.34
Consensus pattern (46 bp):
CATCTCATACACATTTCACATTAGCCATTCGGCTTTACCACATATC
Found at i:49914329 original size:47 final size:47
Alignment explanation
Indices: 49914255--49914589 Score: 492
Period size: 47 Copynumber: 7.1 Consensus size: 47
49914245 CATACACATT
* * * * * *
49914255 TCACATTAGCCATTCGGCTTTACCACATATATACACT-TCCACGTTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCA-TGTTCACATTCA
*
49914302 TCACATTGGCCATTCTGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
*
49914349 TTACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
*
49914396 TCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
*
49914443 TCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* **
49914490 TCACATTGGCCATTCGGCCGTATGTCATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * * **
49914537 TCACATTTGCCATTCGGCCTTATCTCATATATACACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
49914584 TCACAT
1 TCACAT
49914590 AAAATCCTAA
Statistics
Matches: 266, Mismatches: 21, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
46 1 0.00
47 265 1.00
ACGTcount: A:0.26, C:0.29, G:0.11, T:0.34
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:49914376 original size:22 final size:22
Alignment explanation
Indices: 49914351--49914469 Score: 59
Period size: 22 Copynumber: 5.1 Consensus size: 22
49914341 CACATTCATT
49914351 ACATTGGCCATTCGGCCTTATC
1 ACATTGGCCATTCGGCCTTATC
* * *
49914373 ACATATATG-CATGTTC-ACATTCATC
1 ACAT-T-GGCCA--TTCGGCCTT-ATC
49914398 ACATTGGCCATTCGGCCTTATCAC
1 ACATTGGCCATTCGGCCTTAT--C
* *
49914422 ACATAT-G-CATGTTC-ACATTCATC
1 ACAT-TGGCCA--TTCGGCCTT-ATC
49914445 ACATTGGCCATTCGGCCTTATC
1 ACATTGGCCATTCGGCCTTATC
49914467 ACA
1 ACA
49914470 CATATGCATG
Statistics
Matches: 71, Mismatches: 10, Indels: 32
0.63 0.09 0.28
Matches are distributed among these distances:
22 19 0.27
23 18 0.25
24 18 0.25
25 16 0.23
ACGTcount: A:0.25, C:0.29, G:0.13, T:0.32
Consensus pattern (22 bp):
ACATTGGCCATTCGGCCTTATC
Found at i:49914446 original size:25 final size:25
Alignment explanation
Indices: 49914417--49914494 Score: 69
Period size: 25 Copynumber: 3.2 Consensus size: 25
49914407 ATTCGGCCTT
49914417 ATCACACATATGCATGTTCACATTC
1 ATCACACATATGCATGTTCACATTC
* *
49914442 AT--CACAT-TGGCCA--TTCGGCCTT-
1 ATCACACATAT-G-CATGTTC-ACATTC
49914464 ATCACACATATGCATGTTCACATTC
1 ATCACACATATGCATGTTCACATTC
49914489 ATCACA
1 ATCACA
49914495 TTGGCCATTC
Statistics
Matches: 40, Mismatches: 4, Indels: 18
0.65 0.06 0.29
Matches are distributed among these distances:
22 6 0.15
23 11 0.28
24 11 0.28
25 12 0.30
ACGTcount: A:0.29, C:0.29, G:0.10, T:0.31
Consensus pattern (25 bp):
ATCACACATATGCATGTTCACATTC
Found at i:49914495 original size:23 final size:23
Alignment explanation
Indices: 49914421--49914495 Score: 59
Period size: 23 Copynumber: 3.2 Consensus size: 23
49914411 GGCCTTATCA
49914421 CACATATGCATGTTCACATTCAT
1 CACATATGCATGTTCACATTCAT
* *
49914444 CACAT-TGGCCA--TTCGGCCTT-AT
1 CACATAT-G-CATGTTC-ACATTCAT
49914466 CACACATATGCATGTTCACATTCAT
1 --CACATATGCATGTTCACATTCAT
49914491 CACAT
1 CACAT
49914496 TGGCCATTCG
Statistics
Matches: 39, Mismatches: 4, Indels: 18
0.64 0.07 0.30
Matches are distributed among these distances:
22 6 0.15
23 16 0.41
24 11 0.28
25 6 0.15
ACGTcount: A:0.28, C:0.29, G:0.11, T:0.32
Consensus pattern (23 bp):
CACATATGCATGTTCACATTCAT
Found at i:49917452 original size:39 final size:39
Alignment explanation
Indices: 49917396--49917539 Score: 243
Period size: 39 Copynumber: 3.7 Consensus size: 39
49917386 CCAACATAAT
*
49917396 TGCCTTCGGGATTTAGCCCGGATATAACACCAGCACGAA
1 TGCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAA
* **
49917435 TGCCTTCGGGACATAGCCCGGATATAACACCAGTGCGAA
1 TGCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAA
*
49917474 TGCCTTCGGAACTTAGCCCGGATATAACACCAGCACGAA
1 TGCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAA
49917513 TGCCTTCGGGACTTAGCCCGGATATAA
1 TGCCTTCGGGACTTAGCCCGGATATAA
49917540 ATCTCACACA
Statistics
Matches: 96, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 96 1.00
ACGTcount: A:0.28, C:0.28, G:0.24, T:0.20
Consensus pattern (39 bp):
TGCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAA
Found at i:49925401 original size:39 final size:39
Alignment explanation
Indices: 49925346--49925528 Score: 321
Period size: 39 Copynumber: 4.7 Consensus size: 39
49925336 CCAACATAAT
*
49925346 TGCCTTCGGGACTTAGCCTGGATATAACACCAGCACGAA
1 TGCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAA
*
49925385 TGCCTTCGGGATTTAGCCCGGATATAACACCAGCACGAA
1 TGCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAA
* *
49925424 TGCCTTCGGGACATAGCCCGGATATAACACCAGCACAAA
1 TGCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAA
*
49925463 TGCCTTCGGAACTTAGCCCGGATATAACACCAGCACGAA
1 TGCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAA
49925502 TGCCTTCGGGACTTAGCCCGGATATAA
1 TGCCTTCGGGACTTAGCCCGGATATAA
49925529 ATCTCACACA
Statistics
Matches: 135, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 135 1.00
ACGTcount: A:0.29, C:0.29, G:0.22, T:0.20
Consensus pattern (39 bp):
TGCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAA
Found at i:49933893 original size:24 final size:24
Alignment explanation
Indices: 49933866--49933918 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
49933856 TTTAATGAAT
* * * *
49933866 TAGTTTGCACATACTTGATAAAGC
1 TAGTTCGCACATACATGAAAAAAC
*
49933890 TAGTTCGCATATACATGAAAAAAC
1 TAGTTCGCACATACATGAAAAAAC
49933914 TAGTT
1 TAGTT
49933919 AGCGCATGAC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.32
Consensus pattern (24 bp):
TAGTTCGCACATACATGAAAAAAC
Found at i:49937455 original size:31 final size:31
Alignment explanation
Indices: 49937408--49937528 Score: 89
Period size: 31 Copynumber: 3.5 Consensus size: 31
49937398 TTAATATAAC
* *
49937408 ATTTGGTACCTGAACTTAACACTTTTTCTTA
1 ATTTGGTACTTAAACTTAACACTTTTTCTTA
49937439 ATTTGGTACTTAAACTTGACAAAACTTAACACTTTTTTCTTA
1 ATTTGG----T--ACTT---AAA-CTTAACAC-TTTTTCTTA
* * *
49937481 TTTTGGTACTTAAACTTGACACTTTTTCATA
1 ATTTGGTACTTAAACTTAACACTTTTTCTTA
*
49937512 AGTTGGTACTTAAACTT
1 ATTTGGTACTTAAACTT
49937529 TTTGGGGGTC
Statistics
Matches: 72, Mismatches: 7, Indels: 22
0.71 0.07 0.22
Matches are distributed among these distances:
31 29 0.40
32 7 0.10
33 3 0.04
35 1 0.01
36 4 0.06
37 3 0.04
38 1 0.01
40 2 0.03
41 8 0.11
42 14 0.19
ACGTcount: A:0.29, C:0.17, G:0.10, T:0.45
Consensus pattern (31 bp):
ATTTGGTACTTAAACTTAACACTTTTTCTTA
Found at i:49937466 original size:41 final size:42
Alignment explanation
Indices: 49937420--49937501 Score: 148
Period size: 42 Copynumber: 2.0 Consensus size: 42
49937410 TTGGTACCTG
49937420 AACTTAACAC-TTTTTCTTAATTTGGTACTTAAACTTGACAA
1 AACTTAACACTTTTTTCTTAATTTGGTACTTAAACTTGACAA
*
49937461 AACTTAACACTTTTTTCTTATTTTGGTACTTAAACTTGACA
1 AACTTAACACTTTTTTCTTAATTTGGTACTTAAACTTGACA
49937502 CTTTTTCATA
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
41 10 0.26
42 29 0.74
ACGTcount: A:0.32, C:0.17, G:0.07, T:0.44
Consensus pattern (42 bp):
AACTTAACACTTTTTTCTTAATTTGGTACTTAAACTTGACAA
Found at i:49937503 original size:32 final size:31
Alignment explanation
Indices: 49937460--49937528 Score: 93
Period size: 31 Copynumber: 2.2 Consensus size: 31
49937450 AAACTTGACA
* **
49937460 AAACTTAACACTTTTTTCTTATTTTGGTACTT
1 AAACTTAACAC-TTTTTCATAAGTTGGTACTT
*
49937492 AAACTTGACACTTTTTCATAAGTTGGTACTT
1 AAACTTAACACTTTTTCATAAGTTGGTACTT
49937523 AAACTT
1 AAACTT
49937529 TTTGGGGGTC
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
31 23 0.70
32 10 0.30
ACGTcount: A:0.29, C:0.16, G:0.09, T:0.46
Consensus pattern (31 bp):
AAACTTAACACTTTTTCATAAGTTGGTACTT
Found at i:49938982 original size:21 final size:22
Alignment explanation
Indices: 49938949--49938990 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
49938939 AAAAATGAAT
*
49938949 TTTTTCGTGTAAAAACTCAAGC
1 TTTTTCGTATAAAAACTCAAGC
*
49938971 TTTTTC-TATAAAATCTCAAG
1 TTTTTCGTATAAAAACTCAAG
49938991 TAACTCCCTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.33, C:0.17, G:0.10, T:0.40
Consensus pattern (22 bp):
TTTTTCGTATAAAAACTCAAGC
Found at i:49942154 original size:21 final size:22
Alignment explanation
Indices: 49942130--49942170 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
49942120 TAAATCTCTG
* *
49942130 GGGTTTAAGG-TCTAGATTTTA
1 GGGTTCAAGGTTCAAGATTTTA
49942151 GGGTTCAAGGTTCAAGATTT
1 GGGTTCAAGGTTCAAGATTT
49942171 AAGGTCGAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.24, C:0.07, G:0.29, T:0.39
Consensus pattern (22 bp):
GGGTTCAAGGTTCAAGATTTTA
Found at i:49942171 original size:21 final size:21
Alignment explanation
Indices: 49942130--49942196 Score: 50
Period size: 21 Copynumber: 3.2 Consensus size: 21
49942120 TAAATCTCTG
* *
49942130 GGGTTTAAGG-TCTAGATTTTA
1 GGGTTCAAGGTTCAAGA-TTTA
49942151 GGGTTCAAGGTTCAAGATTTA
1 GGGTTCAAGGTTCAAGATTTA
* *
49942172 AGG-TCGAGAGTTCAATG-TTTA
1 GGGTTCAAG-GTTCAA-GATTTA
49942193 GGGT
1 GGGT
49942197 CCAAAGTTGA
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
20 4 0.11
21 27 0.73
22 6 0.16
ACGTcount: A:0.25, C:0.07, G:0.31, T:0.36
Consensus pattern (21 bp):
GGGTTCAAGGTTCAAGATTTA
Found at i:49942204 original size:21 final size:21
Alignment explanation
Indices: 49942147--49942204 Score: 55
Period size: 21 Copynumber: 2.8 Consensus size: 21
49942137 AGGTCTAGAT
* *
49942147 TTTAGGGTTCAAGGTTCAAGA
1 TTTAGGGTCCAAAGTTCAAGA
* * *
49942168 TTTAAGGTCGAGAGTTCAATG-
1 TTTAGGGTCCAAAGTTCAA-GA
49942189 TTTAGGGTCCAAAGTT
1 TTTAGGGTCCAAAGTT
49942205 GAGGTTTAAA
Statistics
Matches: 28, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
21 27 0.96
22 1 0.04
ACGTcount: A:0.28, C:0.10, G:0.28, T:0.34
Consensus pattern (21 bp):
TTTAGGGTCCAAAGTTCAAGA
Found at i:49943674 original size:4 final size:4
Alignment explanation
Indices: 49943665--49943689 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
49943655 GCATTTAAAA
49943665 AAAG AAAG AAAG AAAG AAAG AAAG A
1 AAAG AAAG AAAG AAAG AAAG AAAG A
49943690 TGTCTTGGGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:49946649 original size:19 final size:21
Alignment explanation
Indices: 49946611--49946654 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 21
49946601 TAAAATATAA
* *
49946611 ATTTTGAATTTTTTATAAA-T
1 ATTTTAAATTTTTGATAAATT
49946631 ATTTTAAATTTTTGA-AAATT
1 ATTTTAAATTTTTGATAAATT
49946651 ATTT
1 ATTT
49946655 CGATTTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 3 0.14
20 18 0.86
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (21 bp):
ATTTTAAATTTTTGATAAATT
Found at i:49948322 original size:21 final size:22
Alignment explanation
Indices: 49948298--49948353 Score: 57
Period size: 21 Copynumber: 2.7 Consensus size: 22
49948288 TGGATGATTC
49948298 AAAATATTATAAAATT-TATTA
1 AAAATATTATAAAATTATATTA
*
49948319 AAAAT-TGTA-AAAATTATTTTA
1 AAAATAT-TATAAAATTATATTA
*
49948340 AAAA-ATTCTAAAAT
1 AAAATATTATAAAAT
49948354 GGAATTTGTC
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
20 8 0.28
21 21 0.72
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (22 bp):
AAAATATTATAAAATTATATTA
Found at i:49957151 original size:37 final size:37
Alignment explanation
Indices: 49957110--49957182 Score: 85
Period size: 37 Copynumber: 2.0 Consensus size: 37
49957100 AAAACGGTAA
*
49957110 GATTTACTC-AGTTAAGCTCCATTCAGTATAATAGTAT
1 GATTTACTCGA-TTAAGCTCCATTCAGTATAACAGTAT
* * **
49957147 GATTTGCTCGATTGAGCTTTATTCAGTATAACAGTA
1 GATTTACTCGATTAAGCTCCATTCAGTATAACAGTA
49957183 AGAGTTGGCT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
37 29 0.97
38 1 0.03
ACGTcount: A:0.30, C:0.15, G:0.16, T:0.38
Consensus pattern (37 bp):
GATTTACTCGATTAAGCTCCATTCAGTATAACAGTAT
Found at i:49960069 original size:30 final size:30
Alignment explanation
Indices: 49960035--49960097 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
49960025 ACTTAACAAG
*
49960035 CAAATGCCTCTAAAATAATAACAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
*
49960065 CAAATACCTTTAAAATAATAACAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
49960095 CAA
1 CAA
49960098 TAAAATAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.59, C:0.16, G:0.02, T:0.24
Consensus pattern (30 bp):
CAAATACCTCTAAAATAATAACAAAATTAA
Done.