Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 232 of 332
Found at i:76905188 original size:40 final size:40
Alignment explanation
Indices: 76905114--76905333 Score: 284
Period size: 40 Copynumber: 5.5 Consensus size: 40
76905104 AAGTATCTTT
* *
76905114 GGGATTTAG-CCGGATATAGT-AGCTCGCACAAATGCCTTC
1 GGGACTTAGCCCGGATATAGTCA-CTAGCACAAATGCCTTC
* * **
76905153 GGGTCTTAGCCCGGATGTAGTCACTAGCATGAATGCCTTC
1 GGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTC
76905193 GGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTC
1 GGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTC
*
76905233 GGGACTTAGCCCGGGTATAG-CAACTACTCGCACAAATGCCTTC
1 GGGACTTAGCCCGGATATAGTC-ACTA---GCACAAATGCCTTC
* *
76905276 GGGACTTAGCCCGGATATAGTAACTTGCACAAATGCCTTC
1 GGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTC
*
76905316 GGGACTTAGCTCGGATAT
1 GGGACTTAGCCCGGATAT
76905334 CATCCGAATA
Statistics
Matches: 159, Mismatches: 15, Indels: 13
0.85 0.08 0.07
Matches are distributed among these distances:
39 8 0.05
40 114 0.72
41 1 0.01
43 36 0.23
ACGTcount: A:0.25, C:0.25, G:0.25, T:0.25
Consensus pattern (40 bp):
GGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTC
Found at i:76905293 original size:83 final size:79
Alignment explanation
Indices: 76905114--76905333 Score: 282
Period size: 83 Copynumber: 2.7 Consensus size: 79
76905104 AAGTATCTTT
* * * *
76905114 GGGATTTAG-CCGGATATAGTAGCTCGCACAAATGCCTTCGGGTCTTAGCCCGGATGTAGTCACT
1 GGGACTTAGCCCGGATATAGTA-CTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCACT
**
76905178 AGCATGAATGCCTTC
65 AGCACAAATGCCTTC
*
76905193 GGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGGTATAG-CAAC
1 GGGACTTAGCCCGGATATAGT-ACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTC-AC
76905257 TACTCGCACAAATGCCTTC
64 TA---GCACAAATGCCTTC
* *
76905276 GGGACTTAGCCCGGATATAGTAACTTGCACAAATGCCTTCGGGACTTAGCTCGGATAT
1 GGGACTTAGCCCGGATATAGT-ACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
76905334 CATCCGAATA
Statistics
Matches: 124, Mismatches: 11, Indels: 8
0.87 0.08 0.06
Matches are distributed among these distances:
79 9 0.07
80 48 0.39
81 1 0.01
83 66 0.53
ACGTcount: A:0.25, C:0.25, G:0.25, T:0.25
Consensus pattern (79 bp):
GGGACTTAGCCCGGATATAGTACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTA
GCACAAATGCCTTC
Found at i:76912496 original size:24 final size:23
Alignment explanation
Indices: 76912434--76912506 Score: 76
Period size: 24 Copynumber: 3.0 Consensus size: 23
76912424 ATACTCACCA
76912434 TAGCTCG-AATGAGCTTACTGATATAT
1 TAGCTCGTAA-GAGCTTACTG-T-T-T
76912460 TAGCTCGTAAGAGCTTACTGTTT
1 TAGCTCGTAAGAGCTTACTGTTT
* *
76912483 TCAGCTCGTCAGAGCTTACCGTTT
1 T-AGCTCGTAAGAGCTTACTGTTT
76912507 CATCTCAATA
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
23 2 0.05
24 21 0.49
25 1 0.02
26 17 0.40
27 2 0.05
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.36
Consensus pattern (23 bp):
TAGCTCGTAAGAGCTTACTGTTT
Found at i:76914078 original size:59 final size:59
Alignment explanation
Indices: 76914009--76914128 Score: 143
Period size: 59 Copynumber: 2.0 Consensus size: 59
76913999 GGTTTTTTAC
* * * * * * *
76914009 AAAATTAAAATGAAAATGGAGAAATGGAGTC-TTTTGAAAATAAATGTGGTTTTCTCTAA
1 AAAATGAAAATGAAAATAGAGAAATAGAATCATTTAG-AAATAAATGTGATTTTCTCCAA
* *
76914068 AAAATGAAAATGAAAATAGTGAAATAGAATCATTTAGAAATGAATGTGATTTTCTCCAA
1 AAAATGAAAATGAAAATAGAGAAATAGAATCATTTAGAAATAAATGTGATTTTCTCCAA
76914127 AA
1 AA
76914129 TGATAATGAC
Statistics
Matches: 51, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
59 47 0.92
60 4 0.08
ACGTcount: A:0.47, C:0.06, G:0.17, T:0.30
Consensus pattern (59 bp):
AAAATGAAAATGAAAATAGAGAAATAGAATCATTTAGAAATAAATGTGATTTTCTCCAA
Found at i:76918356 original size:14 final size:14
Alignment explanation
Indices: 76918320--76918358 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
76918310 TTGTTTCACT
* *
76918320 GAAAATGACTTCTG
1 GAAAATGATTTCTA
76918334 GAAAATGATTTCTA
1 GAAAATGATTTCTA
76918348 GAAAATGATTT
1 GAAAATGATTT
76918359 GCTTTTCTGG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.41, C:0.08, G:0.18, T:0.33
Consensus pattern (14 bp):
GAAAATGATTTCTA
Found at i:76918824 original size:15 final size:15
Alignment explanation
Indices: 76918804--76918857 Score: 54
Period size: 15 Copynumber: 3.3 Consensus size: 15
76918794 ATACTACAAA
76918804 ATATTTATTATTAAT
1 ATATTTATTATTAAT
*
76918819 ATATTTATAATTGTAAT
1 ATATTTATTA-T-TAAT
*
76918836 AAATATTTATTATTAAA
1 --ATATTTATTATTAAT
76918853 ATATT
1 ATATT
76918858 AATATTGAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
15 14 0.44
16 1 0.03
17 7 0.22
18 1 0.03
19 9 0.28
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
ATATTTATTATTAAT
Found at i:76918915 original size:15 final size:17
Alignment explanation
Indices: 76918890--76918925 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
76918880 ATGTGAATAA
76918890 TATTGTTTAAAA-TTAT
1 TATTGTTTAAAATTTAT
76918906 TATT-TTTAAAATTTAT
1 TATTGTTTAAAATTTAT
76918922 TATT
1 TATT
76918926 AAAATAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (17 bp):
TATTGTTTAAAATTTAT
Found at i:76918921 original size:13 final size:14
Alignment explanation
Indices: 76918885--76918931 Score: 51
Period size: 13 Copynumber: 3.3 Consensus size: 14
76918875 ATAATATGTG
*
76918885 AATAATATTGTTTAA
1 AATATTATT-TTTAA
76918900 AATTATTATTTTTAA
1 AA-TATTATTTTTAA
*
76918915 AAT-TTATTATTAA
1 AATATTATTTTTAA
76918928 AATA
1 AATA
76918932 AAATTGAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
13 12 0.43
14 1 0.04
15 9 0.32
16 6 0.21
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (14 bp):
AATATTATTTTTAA
Found at i:76921910 original size:40 final size:40
Alignment explanation
Indices: 76921856--76922040 Score: 203
Period size: 40 Copynumber: 4.6 Consensus size: 40
76921846 CTTGCACAAG
* * *
76921856 GCCTTCGGGTCTTAGCCCGGATATGGTCACTAGCACAGAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
*
76921896 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
* * * ** *
76921936 GCCTTTGGGTCTTAGCCCGAATATAG-CAACTCTCACGAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAAT
* * * *
76921976 GCCTTC-GGATCTTAGTCCAGTTATAGTCACCTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCA-CTAGCACAAAT
76922017 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
76922041 CATTCGAATA
Statistics
Matches: 116, Mismatches: 24, Indels: 9
0.78 0.16 0.06
Matches are distributed among these distances:
39 3 0.03
40 85 0.73
41 25 0.22
42 3 0.03
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:76922761 original size:38 final size:38
Alignment explanation
Indices: 76922636--76922760 Score: 232
Period size: 38 Copynumber: 3.3 Consensus size: 38
76922626 TGCTTACCTA
76922636 TGGCCGAACATACACATCAACTTATGTACTCATTCATG
1 TGGCCGAACATACACATCAACTTATGTACTCATTCATG
76922674 TGGCCGAACATACACATCAACTTATGTACTCATTCATG
1 TGGCCGAACATACACATCAACTTATGTACTCATTCATG
* *
76922712 TGGCCGAACATGCACATCAAGTTATGTACTCATTCATG
1 TGGCCGAACATACACATCAACTTATGTACTCATTCATG
76922750 TGGCCGAACAT
1 TGGCCGAACAT
76922761 GAAGCAAGAG
Statistics
Matches: 85, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 85 1.00
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (38 bp):
TGGCCGAACATACACATCAACTTATGTACTCATTCATG
Found at i:76929597 original size:40 final size:40
Alignment explanation
Indices: 76929428--76929687 Score: 255
Period size: 40 Copynumber: 6.5 Consensus size: 40
76929418 CTCAAGTAAT
* * * *
76929428 CTTCGGGATTTAG-CCGGATATA-ACTACTTGCAC-AAGGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* *
76929466 CTTCGGGTCTTAGCCCGGATATGGTCACTAGCAC-AATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * * * *
76929505 CTTCGGGACTTAGCTCGAAAATAGTCGCTAGCA-AGAATAC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACA-AATGC
*
76929545 CCTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * * *
76929585 CTCCGGGTCTTAGCCCGGATATAG-CAACTCGCACGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* * *
76929625 CTTC-GGATCTTAGTCCGGTTATAGTCACCTAGCACAAAAGC
1 CTTCGGGA-CTTAGCCCGGATATAGTCA-CTAGCACAAATGC
76929666 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
76929688 CATTCGAATA
Statistics
Matches: 179, Mismatches: 33, Indels: 17
0.78 0.14 0.07
Matches are distributed among these distances:
38 11 0.06
39 49 0.27
40 88 0.49
41 28 0.16
42 3 0.02
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:76930355 original size:20 final size:20
Alignment explanation
Indices: 76930327--76930368 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
76930317 ATGTGGCCGA
76930327 ACATACACATCAACTTATGT
1 ACATACACATCAACTTATGT
*
76930347 ACATGCACATCAACTTATGT
1 ACATACACATCAACTTATGT
76930367 AC
1 AC
76930369 TCATTCATGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.38, C:0.26, G:0.07, T:0.29
Consensus pattern (20 bp):
ACATACACATCAACTTATGT
Found at i:76932359 original size:43 final size:42
Alignment explanation
Indices: 76932287--76932448 Score: 148
Period size: 43 Copynumber: 3.8 Consensus size: 42
76932277 CAATGCTAAC
* * * *
76932287 GTCCTAGACGTGGTCTTACATGTAATCAAATATTGATGCCATT
1 GTCCCAGACATGGTCTTACACGAAATCAAATATTGATGCCA-T
* **
76932330 GTCCCAGACAGGGTCTTACACGAAATCAAATA-TGATGTTGAT
1 GTCCCAGACATGGTCTTACACGAAATCAAATATTGATG-CCAT
* * *
76932372 GTCCCAGACATGGCCTTACACGTAAATCTAAA-ATTGATACCAAG
1 GTCCCAGACATGGTCTTACACG-AAATC-AAATATTGATGCC-AT
* * *
76932416 GTCCTAGACATGGTCTTACACGAATTCACATAT
1 GTCCCAGACATGGTCTTACACGAAATCAAATAT
76932449 CGGAAATCCT
Statistics
Matches: 96, Mismatches: 17, Indels: 12
0.77 0.14 0.10
Matches are distributed among these distances:
42 28 0.29
43 40 0.42
44 28 0.29
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.28
Consensus pattern (42 bp):
GTCCCAGACATGGTCTTACACGAAATCAAATATTGATGCCAT
Found at i:76941040 original size:27 final size:28
Alignment explanation
Indices: 76941010--76941067 Score: 91
Period size: 27 Copynumber: 2.1 Consensus size: 28
76941000 ACCTCACATG
76941010 GGGCAAAATAGTCATCTTACCATATA-A
1 GGGCAAAATAGTCATCTTACCATATATA
* *
76941037 GGGCAAAATAGTCATTTTATCATATATA
1 GGGCAAAATAGTCATCTTACCATATATA
76941065 GGG
1 GGG
76941068 GGTCTAGGTA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
27 24 0.86
28 4 0.14
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.29
Consensus pattern (28 bp):
GGGCAAAATAGTCATCTTACCATATATA
Found at i:76949764 original size:27 final size:27
Alignment explanation
Indices: 76949734--76949789 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
76949724 ATTATCCATG
76949734 TTATTGTTAATATACTTGAAATCTATC
1 TTATTGTTAATATACTTGAAATCTATC
76949761 TTATTGTTAATATACTTGAAATCTATC
1 TTATTGTTAATATACTTGAAATCTATC
76949788 TT
1 TT
76949790 GCTATGATTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.32, C:0.11, G:0.07, T:0.50
Consensus pattern (27 bp):
TTATTGTTAATATACTTGAAATCTATC
Found at i:76950260 original size:48 final size:47
Alignment explanation
Indices: 76950091--76950271 Score: 197
Period size: 48 Copynumber: 3.8 Consensus size: 47
76950081 GGAGATATGA
* * *
76950091 GAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCTTGATATGT
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGATGTGT
* * * *
76950138 G-TC-AGTGTAAGACCATGTCTGGGACATGTCATCAGCAC-CGATAGATGA
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATC-G-ACTTGAT-G-TGT
* *
76950186 GAGCCAGTGTAAGACCACGTCTGGGACATGGCATCGACTTTGATGTGT
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGAC-TTGATGTGT
* *
76950234 GAGCTAGTGTAAGACCATGTCCGGGACATGGCGTCGAC
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGAC
76950272 ACCTTACCCT
Statistics
Matches: 110, Mismatches: 16, Indels: 15
0.78 0.11 0.11
Matches are distributed among these distances:
45 28 0.25
46 5 0.05
47 2 0.02
48 41 0.37
49 3 0.03
50 31 0.28
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.24
Consensus pattern (47 bp):
GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGATGTGT
Found at i:76956417 original size:50 final size:50
Alignment explanation
Indices: 76956331--76956669 Score: 393
Period size: 50 Copynumber: 6.9 Consensus size: 50
76956321 TGATGCTAGG
*
76956331 GAGATATAAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTC
1 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTC
* * * * *
76956381 GAGACATGAGAGCTAGTGTAAGACAATGTATAGGACATGGTATCGGCCTC
1 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTC
* *
76956431 GAGATATGAGAGCTAGTGTAAGACAATGTCTGGGACATGGCATAGGCCTC
1 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTC
* *
76956481 GAGATATGAGAGCTAGGGTAAGACCATGTCTAGGACATGGCATCGG-CT-
1 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTC
* * * * * *
76956529 -TGATATGTG-TC-AGCGTAAGACCATGTCTGGAACATGGCATCGGCATC
1 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTC
* * * * * *
76956576 GATAGATGAAAGCCAGTGTAAGACCATGTTTGGGACATGGCATTGGCCTC
1 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTC
* ** *
76956626 GATATACAAGAG-TCAGTGTAAGACCATGTTTGGGACATGGCATC
1 GAGATATGAGAGCT-AGTGTAAGACCATGTCTGGGACATGGCATC
76956670 AGGTCCTTAC
Statistics
Matches: 244, Mismatches: 39, Indels: 12
0.83 0.13 0.04
Matches are distributed among these distances:
45 29 0.12
46 2 0.01
47 7 0.03
48 4 0.02
49 3 0.01
50 199 0.82
ACGTcount: A:0.29, C:0.18, G:0.30, T:0.23
Consensus pattern (50 bp):
GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTC
Found at i:76960876 original size:27 final size:27
Alignment explanation
Indices: 76960838--76960901 Score: 94
Period size: 27 Copynumber: 2.4 Consensus size: 27
76960828 AAGATCCCAG
76960838 AGTGTAAAATTA-CTGAAATACCCTTGT
1 AGTGTAAAATTATC-GAAATACCCTTGT
*
76960865 AGTGTAAAATTATCGAAATTCCCTTGT
1 AGTGTAAAATTATCGAAATACCCTTGT
*
76960892 AGGGTAAAAT
1 AGTGTAAAAT
76960902 GACTATTTTG
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
27 33 0.97
28 1 0.03
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.33
Consensus pattern (27 bp):
AGTGTAAAATTATCGAAATACCCTTGT
Found at i:76961363 original size:27 final size:27
Alignment explanation
Indices: 76961313--76961381 Score: 84
Period size: 27 Copynumber: 2.6 Consensus size: 27
76961303 ATTATGGCTT
* ***
76961313 TGTGCCTATCATATTTATTGATGACTC
1 TGTGCCGATCATATTTACCCATGACTC
*
76961340 TGTGCCGATCATATTTACCCATGACTG
1 TGTGCCGATCATATTTACCCATGACTC
*
76961367 TGTGCCGATTATATT
1 TGTGCCGATCATATT
76961382 ACTGTCGCTG
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.22, C:0.20, G:0.17, T:0.41
Consensus pattern (27 bp):
TGTGCCGATCATATTTACCCATGACTC
Found at i:76963727 original size:25 final size:24
Alignment explanation
Indices: 76963664--76963720 Score: 87
Period size: 25 Copynumber: 2.3 Consensus size: 24
76963654 GTAAGGAGGG
*
76963664 GATATGGGAGAAGATTTAGGAGCT
1 GATAAGGGAGAAGATTTAGGAGCT
76963688 GATAAGGGAAGAAGATTTAGGAGCT
1 GATAAGGG-AGAAGATTTAGGAGCT
76963713 GATTAAGG
1 GA-TAAGG
76963721 AGCAAGAGTT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
24 7 0.23
25 18 0.60
26 5 0.17
ACGTcount: A:0.37, C:0.04, G:0.37, T:0.23
Consensus pattern (24 bp):
GATAAGGGAGAAGATTTAGGAGCT
Found at i:76965160 original size:27 final size:27
Alignment explanation
Indices: 76965120--76965231 Score: 154
Period size: 27 Copynumber: 4.2 Consensus size: 27
76965110 AGGAAGCGTC
* *
76965120 CTGGTGGCTATGCCACATTTATCTGAT
1 CTGGTGGCTCTGCCACATTTATCTGTT
*
76965147 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACATTTATCTGTT
*
76965174 CTGGTGGCTCTGCCACAATTATCTGTT
1 CTGGTGGCTCTGCCACATTTATCTGTT
* * *
76965201 TTGGTGACTCTGTCACA-TTATCTGTT
1 CTGGTGGCTCTGCCACATTTATCTGTT
76965227 CTGGT
1 CTGGT
76965232 AGCCATGCTG
Statistics
Matches: 76, Mismatches: 9, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
26 13 0.17
27 63 0.83
ACGTcount: A:0.15, C:0.23, G:0.22, T:0.39
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACATTTATCTGTT
Found at i:76967800 original size:48 final size:48
Alignment explanation
Indices: 76967733--76967889 Score: 228
Period size: 48 Copynumber: 3.3 Consensus size: 48
76967723 CGTCATGTTA
76967733 CAGACATAGTCTTACACTAGCTTGTATATCTCGAGGCTGATGCATGTCC
1 CAGACAT-GTCTTACACTAGCTTGTATATCTCGAGGCTGATGCATGTCC
* * * **
76967782 CAGACATGTCTTACACTAGC-TCT-CATCTCAATACTGATGCATGTCC
1 CAGACATGTCTTACACTAGCTTGTATATCTCGAGGCTGATGCATGTCC
*
76967828 CAGACATGTCTTACACTAGCTTGTATATCTCGAGGCCGATGCATGTCC
1 CAGACATGTCTTACACTAGCTTGTATATCTCGAGGCTGATGCATGTCC
*
76967876 CAGATATGTCTTAC
1 CAGACATGTCTTAC
76967890 GCTGGCTCTC
Statistics
Matches: 94, Mismatches: 12, Indels: 5
0.85 0.11 0.05
Matches are distributed among these distances:
46 39 0.41
47 4 0.04
48 44 0.47
49 7 0.07
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.31
Consensus pattern (48 bp):
CAGACATGTCTTACACTAGCTTGTATATCTCGAGGCTGATGCATGTCC
Found at i:76967950 original size:94 final size:93
Alignment explanation
Indices: 76967733--76967941 Score: 296
Period size: 94 Copynumber: 2.2 Consensus size: 93
76967723 CGTCATGTTA
*
76967733 CAGACATAGTCTTACACTAGCTTGTATATCTCGAGGCTGATGCATGTCCCAGACATGTCTTACAC
1 CAGACAT-GTCTTACACTAGCTTGTATATCTCGAGGCCGATGCATGTCCCAGACATGTCTTACAC
76967798 TAGCTCTCATCTCAATACTGATGCATGTCC
65 TAGCTCTCA-CTCAATACTGATGCATGTCC
* *
76967828 CAGACATGTCTTACACTAGCTTGTATATCTCGAGGCCGATGCATGTCCCAGATATGTCTTACGCT
1 CAGACATGTCTTACACTAGCTTGTATATCTCGAGGCCGATGCATGTCCCAGACATGTCTTACACT
* * *
76967893 GGCTCTCA-T-AATATGGTCGATGCATGTCT
66 AGCTCTCACTCAATA--CT-GATGCATGTCC
*
76967922 TAGACATGTCTTACACTAGC
1 CAGACATGTCTTACACTAGC
76967942 ACACATATCA
Statistics
Matches: 104, Mismatches: 7, Indels: 7
0.88 0.06 0.06
Matches are distributed among these distances:
91 4 0.04
92 1 0.01
93 1 0.01
94 91 0.88
95 7 0.07
ACGTcount: A:0.24, C:0.26, G:0.19, T:0.31
Consensus pattern (93 bp):
CAGACATGTCTTACACTAGCTTGTATATCTCGAGGCCGATGCATGTCCCAGACATGTCTTACACT
AGCTCTCACTCAATACTGATGCATGTCC
Found at i:76975841 original size:27 final size:26
Alignment explanation
Indices: 76975821--76975912 Score: 89
Period size: 27 Copynumber: 3.5 Consensus size: 26
76975811 TGCCATTATG
76975821 TGGTAAAATGACTGAAATG-CCTCTACA
1 TGGT-AAATGACTGAAATGCCCT-TACA
** * **
76975848 TGGTAAATGACT-ATTTTGCCCCTATG
1 TGGTAAATGACTGA-AATGCCCTTACA
76975874 TGGTAAAATGACTGAAATGCCCTTACA
1 TGGT-AAATGACTGAAATGCCCTTACA
76975901 TGGTAAATGACT
1 TGGTAAATGACT
76975913 ATTTTTCCCC
Statistics
Matches: 51, Mismatches: 10, Indels: 9
0.73 0.14 0.13
Matches are distributed among these distances:
25 1 0.02
26 24 0.47
27 25 0.49
28 1 0.02
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (26 bp):
TGGTAAATGACTGAAATGCCCTTACA
Found at i:76975851 original size:53 final size:53
Alignment explanation
Indices: 76975771--76975928 Score: 223
Period size: 53 Copynumber: 3.0 Consensus size: 53
76975761 CCCTAATTGA
* *
76975771 TAAAATGATTGAAATG-CTCCTACATGGTAAATGA-TAGTTTTGCCATTATGTGG
1 TAAAATGACTGAAATGCCT-CTACATGGTAAATGACTA-TTTTGCCACTATGTGG
*
76975824 TAAAATGACTGAAATGCCTCTACATGGTAAATGACTATTTTGCCCCTATGTGG
1 TAAAATGACTGAAATGCCTCTACATGGTAAATGACTATTTTGCCACTATGTGG
* *
76975877 TAAAATGACTGAAATGCC-CTTACATGGTAAATGACTATTTTTCCCCTATGTG
1 TAAAATGACTGAAATGCCTC-TACATGGTAAATGACTATTTTGCCACTATGTG
76975929 AGGTGAATAT
Statistics
Matches: 98, Mismatches: 4, Indels: 6
0.91 0.04 0.06
Matches are distributed among these distances:
52 1 0.01
53 93 0.95
54 4 0.04
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.34
Consensus pattern (53 bp):
TAAAATGACTGAAATGCCTCTACATGGTAAATGACTATTTTGCCACTATGTGG
Found at i:76975867 original size:26 final size:26
Alignment explanation
Indices: 76975790--76975917 Score: 77
Period size: 26 Copynumber: 4.8 Consensus size: 26
76975780 TGAAATGCTC
76975790 CTACATGGTAAATGA-TAGTTTTGCCAT
1 CTACATGGTAAATGACTA-TTTTGCC-T
** **
76975817 -TATGTGGTAAAATGACTGA-AATGCCT
1 CTACATGGT-AAATGACT-ATTTTGCCT
*
76975843 CTACATGGTAAATGACTATTTTGCCC
1 CTACATGGTAAATGACTATTTTGCCT
** **
76975869 CTATGTGGTAAAATGACTGA-AATGCC-
1 CTACATGGT-AAATGACT-ATTTTGCCT
76975895 CTTACATGGTAAATGACTATTTT
1 C-TACATGGTAAATGACTATTTT
76975918 TCCCCTATGT
Statistics
Matches: 75, Mismatches: 17, Indels: 19
0.68 0.15 0.17
Matches are distributed among these distances:
25 2 0.03
26 36 0.48
27 34 0.45
28 2 0.03
29 1 0.01
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (26 bp):
CTACATGGTAAATGACTATTTTGCCT
Found at i:76975923 original size:27 final size:27
Alignment explanation
Indices: 76975844--76975923 Score: 67
Period size: 27 Copynumber: 3.0 Consensus size: 27
76975834 GAAATGCCTC
*
76975844 TACATGGTAAATGACTATTTTGCCCC-
1 TACATGGTAAATGACTATTTTTCCCCT
** ** *
76975870 TATGTGGTAAAATGACTGA--AATGCCCT
1 TACATGGT-AAATGACT-ATTTTTCCCCT
76975897 TACATGGTAAATGACTATTTTTCCCCT
1 TACATGGTAAATGACTATTTTTCCCCT
76975924 ATGTGAGGTG
Statistics
Matches: 38, Mismatches: 11, Indels: 9
0.66 0.19 0.16
Matches are distributed among these distances:
25 1 0.03
26 17 0.45
27 19 0.50
28 1 0.03
ACGTcount: A:0.29, C:0.20, G:0.16, T:0.35
Consensus pattern (27 bp):
TACATGGTAAATGACTATTTTTCCCCT
Found at i:76976268 original size:18 final size:18
Alignment explanation
Indices: 76976245--76976288 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
76976235 ACTTGTATAA
76976245 TGTTACTGCACTGA-TTAC
1 TGTTACTGCACT-ATTTAC
*
76976263 TGTTACTGCACTATTTAT
1 TGTTACTGCACTATTTAC
76976281 TGTTACTG
1 TGTTACTG
76976289 TAATCTGCCA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 1 0.04
18 23 0.96
ACGTcount: A:0.20, C:0.18, G:0.16, T:0.45
Consensus pattern (18 bp):
TGTTACTGCACTATTTAC
Found at i:76981360 original size:23 final size:24
Alignment explanation
Indices: 76981334--76981378 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
76981324 TTATCCCCAC
*
76981334 ATGGAGTGTAG-GGTTGGATGGAG
1 ATGGAGTGTAGAGGCTGGATGGAG
76981357 ATGGAGTGTAGAGGCTGGATGG
1 ATGGAGTGTAGAGGCTGGATGG
76981379 GTTGGACTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 11 0.55
24 9 0.45
ACGTcount: A:0.22, C:0.02, G:0.51, T:0.24
Consensus pattern (24 bp):
ATGGAGTGTAGAGGCTGGATGGAG
Found at i:76983584 original size:25 final size:25
Alignment explanation
Indices: 76983555--76983606 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
76983545 AAGAATAATT
**
76983555 TGAATATTTGATATTGCCTAATAAA
1 TGAATATCCGATATTGCCTAATAAA
* *
76983580 TGAATATCCGATATTGCTTAGTAAA
1 TGAATATCCGATATTGCCTAATAAA
76983605 TG
1 TG
76983607 TCAAGTCAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.37, C:0.10, G:0.15, T:0.38
Consensus pattern (25 bp):
TGAATATCCGATATTGCCTAATAAA
Found at i:76984206 original size:27 final size:27
Alignment explanation
Indices: 76984176--76984243 Score: 68
Period size: 27 Copynumber: 2.6 Consensus size: 27
76984166 AGAACATATG
* *
76984176 TGGGCCAAAGCCCATTACA-ATATCATT
1 TGGGCCAAAGCCCATAACAGA-ATCAAT
* *
76984203 TGGGTCATAGCCCATAACAGAATCAAT
1 TGGGCCAAAGCCCATAACAGAATCAAT
*
76984230 TGGGCCTAA-CCCAT
1 TGGGCCAAAGCCCAT
76984244 CTTCGCCTCA
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
26 5 0.15
27 27 0.82
28 1 0.03
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (27 bp):
TGGGCCAAAGCCCATAACAGAATCAAT
Found at i:76984836 original size:22 final size:22
Alignment explanation
Indices: 76984811--76984854 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
76984801 TATTTCAAAA
*
76984811 ATTTTACAAATTAAGGGTGTTT
1 ATTTTACAAATCAAGGGTGTTT
*
76984833 ATTTTACAAATCGAGGGTGTTT
1 ATTTTACAAATCAAGGGTGTTT
76984855 CGGTAATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.30, C:0.07, G:0.20, T:0.43
Consensus pattern (22 bp):
ATTTTACAAATCAAGGGTGTTT
Found at i:76984871 original size:27 final size:27
Alignment explanation
Indices: 76984833--76985052 Score: 237
Period size: 27 Copynumber: 8.1 Consensus size: 27
76984823 AAGGGTGTTT
* *
76984833 ATTTTACAAATCGAGGGTGTTTCGGTA
1 ATTTTACAAATCGAGGGTATTTCAGTA
** *
76984860 ATTTTACAAATCGAGAATATTTCGGTA
1 ATTTTACAAATCGAGGGTATTTCAGTA
* * * *
76984887 ATTTTATAAATTGAAGGTATTTTAGTA
1 ATTTTACAAATCGAGGGTATTTCAGTA
* *
76984914 AATTTACAAATCGAGGGTGTTTCAGTA
1 ATTTTACAAATCGAGGGTATTTCAGTA
* *
76984941 ATTTTGCAAACCGAGGGTATTTCAGTA
1 ATTTTACAAATCGAGGGTATTTCAGTA
*
76984968 ATTTTACAAAACGAGGGTATTTCAGTA
1 ATTTTACAAATCGAGGGTATTTCAGTA
**
76984995 ATTTTACAAATTAAGGGTATTTC-GATA
1 ATTTTACAAATCGAGGGTATTTCAG-TA
* * *
76985022 ATTTTATAAATTG-GGGTTATTTCGGTA
1 ATTTTACAAATCGAGGG-TATTTCAGTA
76985049 ATTT
1 ATTT
76985053 CTCTTTATTA
Statistics
Matches: 163, Mismatches: 27, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
26 4 0.02
27 158 0.97
28 1 0.01
ACGTcount: A:0.33, C:0.09, G:0.19, T:0.40
Consensus pattern (27 bp):
ATTTTACAAATCGAGGGTATTTCAGTA
Found at i:76985406 original size:28 final size:28
Alignment explanation
Indices: 76985369--76985515 Score: 188
Period size: 28 Copynumber: 5.3 Consensus size: 28
76985359 TGGCCCCTTT
* * *
76985369 AGGCCCAATCTCGTTCACATGGCCCATC
1 AGGCCCAATCACATTCATATGGCCCATC
*
76985397 AGGCCCAATCACATTCATATCGCCCATC
1 AGGCCCAATCACATTCATATGGCCCATC
*
76985425 AGGCCCGATCACATTCATATGGCCCATC
1 AGGCCCAATCACATTCATATGGCCCATC
* * *
76985453 A-GCCCGATCACATTCATATGGCTCATT
1 AGGCCCAATCACATTCATATGGCCCATC
** *
76985480 AGGCCTGATCACATTCATATAGCCCATC
1 AGGCCCAATCACATTCATATGGCCCATC
76985508 AGGCCCAA
1 AGGCCCAA
76985516 CTTTCCCACC
Statistics
Matches: 104, Mismatches: 14, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
27 25 0.24
28 79 0.76
ACGTcount: A:0.27, C:0.35, G:0.16, T:0.22
Consensus pattern (28 bp):
AGGCCCAATCACATTCATATGGCCCATC
Found at i:76985484 original size:55 final size:55
Alignment explanation
Indices: 76985367--76985515 Score: 190
Period size: 55 Copynumber: 2.7 Consensus size: 55
76985357 TTTGGCCCCT
* * * *
76985367 TTAGGCCCAATCTCGTTCACATGGCCCATCAGGCCCAATCACATTCATATCGCCCA
1 TTAGGCCCGATCACATTCATATGGCCCATCA-GCCCAATCACATTCATATCGCCCA
* * * *
76985423 TCAGGCCCGATCACATTCATATGGCCCATCAGCCCGATCACATTCATATGGCTCA
1 TTAGGCCCGATCACATTCATATGGCCCATCAGCCCAATCACATTCATATCGCCCA
* *
76985478 TTAGGCCTGATCACATTCATATAGCCCATCAGGCCCAA
1 TTAGGCCCGATCACATTCATATGGCCCATCA-GCCCAA
76985516 CTTTCCCACC
Statistics
Matches: 80, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
55 49 0.61
56 31 0.39
ACGTcount: A:0.26, C:0.35, G:0.15, T:0.23
Consensus pattern (55 bp):
TTAGGCCCGATCACATTCATATGGCCCATCAGCCCAATCACATTCATATCGCCCA
Found at i:76988381 original size:27 final size:27
Alignment explanation
Indices: 76988324--76988383 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
76988314 CGAAACAATC
* * *
76988324 ATTTTACCGTACAGGGGTATGTCGGTC
1 ATTTTACCGTACAAGGGTATGTCGATA
*
76988351 ATTTTACAC-TACAAGGGTATTTCGATA
1 ATTTTAC-CGTACAAGGGTATGTCGATA
76988378 ATTTTA
1 ATTTTA
76988384 AAAATCGAGG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 27 0.96
28 1 0.04
ACGTcount: A:0.27, C:0.15, G:0.20, T:0.38
Consensus pattern (27 bp):
ATTTTACCGTACAAGGGTATGTCGATA
Found at i:76988394 original size:27 final size:27
Alignment explanation
Indices: 76988364--76988545 Score: 215
Period size: 27 Copynumber: 6.7 Consensus size: 27
76988354 TTACACTACA
*
76988364 AGGGTATTTC-GATAATTTTAAAAATCG
1 AGGGTATTTCAG-TAATTTTACAAATCG
* * *
76988391 AGGGTGTTTCGGTAATTTTACAAATCA
1 AGGGTATTTCAGTAATTTTACAAATCG
* ** **
76988418 AGAGTATTTTGGTAATTTTACAAATTA
1 AGGGTATTTCAGTAATTTTACAAATCG
*
76988445 AAGGTATTTCAGTAATTTTACAAATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
*
76988472 AGGGTGTTTCAGTAATTTTACAAATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
*
76988499 AGGGTATTTCAGTAATTTTACAAA-CC
1 AGGGTATTTCAGTAATTTTACAAATCG
76988525 AGGGGTATTTCAGTAAATTTT
1 A-GGGTATTTCAGT-AATTTT
76988546 CTTTATTATG
Statistics
Matches: 135, Mismatches: 17, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
26 2 0.01
27 126 0.93
28 7 0.05
ACGTcount: A:0.34, C:0.09, G:0.19, T:0.38
Consensus pattern (27 bp):
AGGGTATTTCAGTAATTTTACAAATCG
Found at i:76988461 original size:81 final size:81
Alignment explanation
Indices: 76988366--76988545 Score: 245
Period size: 81 Copynumber: 2.2 Consensus size: 81
76988356 ACACTACAAG
* **
76988366 GGTATTTC-GATAATTTTAAAAATCGAGGGTGTTTCGGTAATTTTACAAATCAAGAGTATTTTGG
1 GGTATTTCAG-TAATTTTAAAAATCGAGGGTGTTTCAGTAATTTTACAAATCAAGAGTATTTCAG
**
76988430 TAATTTTACAAATTAAA
65 TAATTTTACAAACCAAA
* * *
76988447 GGTATTTCAGTAATTTTACAAATCGAGGGTGTTTCAGTAATTTTACAAATCGAGGGTATTTCAGT
1 GGTATTTCAGTAATTTTAAAAATCGAGGGTGTTTCAGTAATTTTACAAATCAAGAGTATTTCAGT
**
76988512 AATTTTACAAACCAGG
66 AATTTTACAAACCAAA
76988528 GGTATTTCAGTAAATTTT
1 GGTATTTCAGT-AATTTT
76988546 CTTTATTATG
Statistics
Matches: 87, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
81 80 0.92
82 7 0.08
ACGTcount: A:0.33, C:0.09, G:0.18, T:0.39
Consensus pattern (81 bp):
GGTATTTCAGTAATTTTAAAAATCGAGGGTGTTTCAGTAATTTTACAAATCAAGAGTATTTCAGT
AATTTTACAAACCAAA
Found at i:76988897 original size:28 final size:28
Alignment explanation
Indices: 76988861--76989064 Score: 255
Period size: 28 Copynumber: 7.3 Consensus size: 28
76988851 TGGCCTCTTT
* * *
76988861 AGGCCCAATCTCGTTCACATGGCCCATC
1 AGGCCCAATCACATTCATATGGCCCATC
* * *
76988889 AGGCCCAATCTCGTTCACATGGCCCATC
1 AGGCCCAATCACATTCATATGGCCCATC
* *
76988917 AGGCCCAATCATATTCATATGGCCCATT
1 AGGCCCAATCACATTCATATGGCCCATC
*
76988945 AGGCCCAATCACATTCATATGGCTCATC
1 AGGCCCAATCACATTCATATGGCCCATC
* **
76988973 AAGCCTTATCACATTCATATGGCCCATC
1 AGGCCCAATCACATTCATATGGCCCATC
* * *
76989001 AGGCTCGATCACATTCTTATGGCCCATC
1 AGGCCCAATCACATTCATATGGCCCATC
* *
76989029 AGGCCCGATCACATTCATATGGCCCATT
1 AGGCCCAATCACATTCATATGGCCCATC
76989057 AGGCCCAA
1 AGGCCCAA
76989065 CTACTTCCCA
Statistics
Matches: 155, Mismatches: 21, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 155 1.00
ACGTcount: A:0.25, C:0.34, G:0.16, T:0.25
Consensus pattern (28 bp):
AGGCCCAATCACATTCATATGGCCCATC
Found at i:76993639 original size:20 final size:21
Alignment explanation
Indices: 76993614--76993652 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
76993604 GCCTCTTTAA
76993614 GTTTTTATT-CTTTAATTTGG
1 GTTTTTATTACTTTAATTTGG
*
76993634 GTTTTTATTATTTTAATTT
1 GTTTTTATTACTTTAATTT
76993653 ATATCTGCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.18, C:0.03, G:0.10, T:0.69
Consensus pattern (21 bp):
GTTTTTATTACTTTAATTTGG
Found at i:76995027 original size:40 final size:40
Alignment explanation
Indices: 76994967--76995059 Score: 114
Period size: 40 Copynumber: 2.3 Consensus size: 40
76994957 GATATCTCAT
* * *
76994967 ACACTAAGTGTCGTACATAGCTGAAGCTATCTCAAATCGC
1 ACACTAAGTGCCATACATAGCCGAAGCTATCTCAAATCGC
* * * * *
76995007 ACACTAAGTGCCATATATAGCCGAAGTTATGTCGAATTGC
1 ACACTAAGTGCCATACATAGCCGAAGCTATCTCAAATCGC
76995047 ACACTAAGTGCCA
1 ACACTAAGTGCCA
76995060 CAAATAACCG
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 45 1.00
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.25
Consensus pattern (40 bp):
ACACTAAGTGCCATACATAGCCGAAGCTATCTCAAATCGC
Found at i:77000794 original size:49 final size:50
Alignment explanation
Indices: 77000604--77000799 Score: 191
Period size: 50 Copynumber: 3.9 Consensus size: 50
77000594 TCTATTGTGA
* * * * *
77000604 GGTCGCATGTGTAGCACTAAGTGTAGGCTACTATGCGTACTC-GA-AAACT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTAC-CAGATAATCT
* * * ** *
77000653 GTGATCACTTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTCA
1 G-G-TCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATCT
* * *
77000705 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAAT-T
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATCT
* * *
77000754 GGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGATA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATA
77000800 GCTTTGGCTA
Statistics
Matches: 120, Mismatches: 23, Indels: 8
0.79 0.15 0.05
Matches are distributed among these distances:
49 41 0.34
50 43 0.36
51 34 0.28
52 2 0.02
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.29
Consensus pattern (50 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATCT
Found at i:77003732 original size:29 final size:28
Alignment explanation
Indices: 77003663--77003791 Score: 154
Period size: 29 Copynumber: 4.6 Consensus size: 28
77003653 ACCCCTACAT
*
77003663 ACATGCATATGGCCCACTT-GGCCCA-TC
1 ACATTCATATGGCCCA-TTAGGCCCATTC
* *
77003690 TCATTTATATGGCCCATTAGGCCCGATTC
1 ACATTCATATGGCCCATTAGGCCC-ATTC
*
77003719 ACATTCATATGGCCCATCAGGCCCAATTC
1 ACATTCATATGGCCCATTAGGCCC-ATTC
*
77003748 ACATTCATATGGCCCATTAGGCCCAATC
1 ACATTCATATGGCCCATTAGGCCCATTC
* *
77003776 TCATTTATATGGCCCA
1 ACATTCATATGGCCCA
77003792 ACAAGCCCAA
Statistics
Matches: 88, Mismatches: 11, Indels: 5
0.85 0.11 0.05
Matches are distributed among these distances:
26 2 0.02
27 18 0.20
28 18 0.20
29 50 0.57
ACGTcount: A:0.25, C:0.32, G:0.16, T:0.28
Consensus pattern (28 bp):
ACATTCATATGGCCCATTAGGCCCATTC
Found at i:77003807 original size:57 final size:58
Alignment explanation
Indices: 77003691--77003808 Score: 166
Period size: 57 Copynumber: 2.1 Consensus size: 58
77003681 TGGCCCATCT
* * * * *
77003691 CATTTATATGGCCCATTAGGCCCGATTCACATTCATATGGCCCATCAGGCCCAATTCA
1 CATTCATATGGCCCATTAGGCCCGAATCACATTCATATGGCCCAACAAGCCCAAATCA
* *
77003749 CATTCATATGGCCCATTAGGCCC-AATCTCATTTATATGGCCCAACAAGCCCAAATCA
1 CATTCATATGGCCCATTAGGCCCGAATCACATTCATATGGCCCAACAAGCCCAAATCA
77003806 CAT
1 CAT
77003809 AACGTTCAAG
Statistics
Matches: 53, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
57 31 0.58
58 22 0.42
ACGTcount: A:0.29, C:0.31, G:0.14, T:0.26
Consensus pattern (58 bp):
CATTCATATGGCCCATTAGGCCCGAATCACATTCATATGGCCCAACAAGCCCAAATCA
Found at i:77007994 original size:29 final size:29
Alignment explanation
Indices: 77007958--77008035 Score: 111
Period size: 29 Copynumber: 2.7 Consensus size: 29
77007948 CATCTTATTT
*
77007958 ATATGGCCCATCCGACCCAATTCACATTC
1 ATATGGCCCATCAGACCCAATTCACATTC
* *
77007987 ATATGGCCTATCAGGCCCAATTCACATTC
1 ATATGGCCCATCAGACCCAATTCACATTC
* *
77008016 ATATGGCCCATTAGGCCCAA
1 ATATGGCCCATCAGACCCAA
77008036 CCGGCCCAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.28, C:0.33, G:0.14, T:0.24
Consensus pattern (29 bp):
ATATGGCCCATCAGACCCAATTCACATTC
Found at i:77008284 original size:8 final size:8
Alignment explanation
Indices: 77008268--77008302 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
77008258 GCAGCTAAAC
*
77008268 TTTCAGCT
1 TTTCGGCT
77008276 TTTCGGCT
1 TTTCGGCT
*
77008284 TTTCGGCA
1 TTTCGGCT
77008292 TTTCGGCT
1 TTTCGGCT
77008300 TTT
1 TTT
77008303 ACCGATCTAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.06, C:0.23, G:0.20, T:0.51
Consensus pattern (8 bp):
TTTCGGCT
Found at i:77009537 original size:8 final size:8
Alignment explanation
Indices: 77009524--77009553 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
77009514 AAATTTTCAT
77009524 GATTTTGG
1 GATTTTGG
*
77009532 GATTTTTG
1 GATTTTGG
77009540 GATTTTGG
1 GATTTTGG
77009548 GATTTT
1 GATTTT
77009554 TGGGGCGTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.13, C:0.00, G:0.30, T:0.57
Consensus pattern (8 bp):
GATTTTGG
Found at i:77009538 original size:9 final size:9
Alignment explanation
Indices: 77009526--77009557 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
77009516 ATTTTCATGA
77009526 TTTTGGGAT
1 TTTTGGGAT
77009535 TTTT-GGA-
1 TTTTGGGAT
77009542 TTTTGGGAT
1 TTTTGGGAT
77009551 TTTTGGG
1 TTTTGGG
77009558 GCGTTACAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
7 4 0.19
8 6 0.29
9 11 0.52
ACGTcount: A:0.09, C:0.00, G:0.34, T:0.56
Consensus pattern (9 bp):
TTTTGGGAT
Found at i:77009545 original size:16 final size:16
Alignment explanation
Indices: 77009524--77009556 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
77009514 AAATTTTCAT
77009524 GATTTTGGGATTTTTG
1 GATTTTGGGATTTTTG
77009540 GATTTTGGGATTTTTG
1 GATTTTGGGATTTTTG
77009556 G
1 G
77009557 GGCGTTACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.12, C:0.00, G:0.33, T:0.55
Consensus pattern (16 bp):
GATTTTGGGATTTTTG
Found at i:77011847 original size:40 final size:39
Alignment explanation
Indices: 77011757--77011977 Score: 212
Period size: 40 Copynumber: 5.5 Consensus size: 39
77011747 ACCCAAGTAT
* ** * *
77011757 CTTCGGGATTTAG-CCGGATATAACCACTCGCAC-AAGGC
1 CTTC-GGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * * *
77011795 CTTCGGGTCTTAGCCTGGATATGGTCACTAGCATAAATGC
1 CTTC-GGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
77011835 CTTCAGGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
1 CTTC-GGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * * *
77011875 CTTCGGATTTTGGCCCGGATATAGTAACTCGCACAAATGC
1 CTTCGGA-CTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
77011915 CTTCGGATCTTAGTCCTGATATAGTCACTTAGCACAAAAGC
1 CTTCGGA-CTTAGCCCGGATATAGTCAC-TAGCACAAATGC
77011956 CTTCGGGACTTAGCCCGGATAT
1 CTTC-GGACTTAGCCCGGATAT
77011978 CATTCGAATA
Statistics
Matches: 149, Mismatches: 29, Indels: 7
0.81 0.16 0.04
Matches are distributed among these distances:
38 11 0.07
39 17 0.11
40 92 0.62
41 26 0.17
42 3 0.02
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (39 bp):
CTTCGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:77019897 original size:40 final size:40
Alignment explanation
Indices: 77019814--77020034 Score: 259
Period size: 40 Copynumber: 5.5 Consensus size: 40
77019804 ACCCAAGTAT
** * *
77019814 CTTCGGGAT-TTAG-CCGGATATAACCACTCGCAC-AAGGC
1 CTTCGGG-TCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
77019852 CTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
77019892 CTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* * * *
77019932 CTTCGGGTTTTGGCCCGGATATAGTAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
77019972 CTTCGGATCTTAGTCCGGATATAGTCACTTAGCACAAAAGC
1 CTTCGGGTCTTAGCCCGGATATAGTCAC-TAGCACAAATGC
*
77020013 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
77020035 CATTCGAATA
Statistics
Matches: 153, Mismatches: 26, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
37 1 0.01
38 11 0.07
39 15 0.10
40 97 0.63
41 29 0.19
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.25
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:77031227 original size:20 final size:20
Alignment explanation
Indices: 77031202--77031244 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
77031192 TATCCCATGC
*
77031202 TTAGCATATTTTTGGATTAA
1 TTAGCATATTTTTGGATGAA
77031222 TTAGCATATTTTTGGATGAA
1 TTAGCATATTTTTGGATGAA
77031242 TTA
1 TTA
77031245 TCCTTAGATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.30, C:0.05, G:0.16, T:0.49
Consensus pattern (20 bp):
TTAGCATATTTTTGGATGAA
Found at i:77033148 original size:42 final size:42
Alignment explanation
Indices: 77033088--77033183 Score: 156
Period size: 42 Copynumber: 2.3 Consensus size: 42
77033078 GTGTTATAGC
* *
77033088 TATGGTCTTACGCGAAGTCTCATATCGATGCCATATCCCAGA
1 TATGGTCTTACACAAAGTCTCATATCGATGCCATATCCCAGA
* *
77033130 TATGGTCTTACACAAAGTCTCATATTGATGCCATATCCTAGA
1 TATGGTCTTACACAAAGTCTCATATCGATGCCATATCCCAGA
77033172 TATGGTCTTACA
1 TATGGTCTTACA
77033184 TGTACTCTTA
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 50 1.00
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.32
Consensus pattern (42 bp):
TATGGTCTTACACAAAGTCTCATATCGATGCCATATCCCAGA
Found at i:77041638 original size:20 final size:19
Alignment explanation
Indices: 77041609--77041653 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
77041599 TGGGCCTTGA
*
77041609 CCCATATCAACATAGTTGGG
1 CCCATATCAACACAGTT-GG
* *
77041629 CCCATTTCAATACAGTTGG
1 CCCATATCAACACAGTTGG
77041648 CCCATA
1 CCCATA
77041654 ACAAAATAGT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.27
Consensus pattern (19 bp):
CCCATATCAACACAGTTGG
Found at i:77048660 original size:43 final size:43
Alignment explanation
Indices: 77048613--77048730 Score: 132
Period size: 42 Copynumber: 2.8 Consensus size: 43
77048603 AACATATAAA
*
77048613 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCAAACAT-CG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAAT-AAACATACG
* ** * ** *
77048656 ATGCCACTGTCCTTGACAGGGTCTTACACG-AATTTAGATACG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATAAACATACG
*
77048698 ATGCCGATGTCCCAGACATGGTCTTACACGTAA
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAA
77048731 AACAGAAGTC
Statistics
Matches: 60, Mismatches: 13, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
41 3 0.05
42 30 0.50
43 27 0.45
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.26
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGTAATAAACATACG
Found at i:77050458 original size:34 final size:34
Alignment explanation
Indices: 77050417--77050486 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
77050407 ATGTGCACGA
77050417 GTAAGACCATGGCATCGATATATAATTCTGATAT
1 GTAAGACCATGGCATCGATATATAATTCTGATAT
77050451 GTAAGACCATGGCATCGATATATAATTCTGATAT
1 GTAAGACCATGGCATCGATATATAATTCTGATAT
77050485 GT
1 GT
77050487 GTTTACGAGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.34, C:0.14, G:0.19, T:0.33
Consensus pattern (34 bp):
GTAAGACCATGGCATCGATATATAATTCTGATAT
Found at i:77055025 original size:39 final size:40
Alignment explanation
Indices: 77054947--77055025 Score: 140
Period size: 40 Copynumber: 2.0 Consensus size: 40
77054937 ATTACAATTC
*
77054947 TTAAAAAAAATGTCAACTATGCCTAAATCTACTATTTTTT
1 TTAAAAAAAATGTCAACTATGCCTAAATCTACCATTTTTT
*
77054987 TTAAAAAAATTGTCAACTATGCCTAAATCTACCATTTTT
1 TTAAAAAAAATGTCAACTATGCCTAAATCTACCATTTTT
77055026 CTTACTTCTA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.39, C:0.16, G:0.05, T:0.39
Consensus pattern (40 bp):
TTAAAAAAAATGTCAACTATGCCTAAATCTACCATTTTTT
Found at i:77064807 original size:42 final size:42
Alignment explanation
Indices: 77064745--77064866 Score: 156
Period size: 43 Copynumber: 2.9 Consensus size: 42
77064735 TTAGGATTTT
* * *
77064745 TGAGACTACGTGTAATACCATATCTGGGATATGGCATCGATA
1 TGAGACTTCATGTAAGACCATATCTGGGATATGGCATCGATA
* *
77064787 TGAGACTTCATGTAAGACCATAGCTGGGCTACTGGCATCGATA
1 TGAGACTTCATGTAAGACCATATCTGGGATA-TGGCATCGATA
* *
77064830 CGAGA-TTACATGTAAGACCATATCAGGGATATGGCAT
1 TGAGACTT-CATGTAAGACCATATCTGGGATATGGCAT
77064867 TGGTATGATA
Statistics
Matches: 69, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
42 34 0.49
43 35 0.51
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (42 bp):
TGAGACTTCATGTAAGACCATATCTGGGATATGGCATCGATA
Found at i:77077687 original size:24 final size:24
Alignment explanation
Indices: 77077637--77077690 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 24
77077627 AATCGAATTT
*
77077637 GCACACATAGTGCTCGTCACACTC
1 GCACACATAGTGCTAGTCACACTC
77077661 GCACACATAGTGCCATAG-CACAC-C
1 GCACACATAGTG-C-TAGTCACACTC
77077685 GCACAC
1 GCACAC
77077691 TCAATGCATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
24 19 0.70
25 6 0.22
26 2 0.07
ACGTcount: A:0.30, C:0.39, G:0.17, T:0.15
Consensus pattern (24 bp):
GCACACATAGTGCTAGTCACACTC
Found at i:77091334 original size:18 final size:19
Alignment explanation
Indices: 77091302--77091340 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
77091292 CAAAACCCAT
*
77091302 AACACGGCCCATGTGGGCC
1 AACACGGCCCATGTGGCCC
*
77091321 AACAC-GCCCGTGTGGCCC
1 AACACGGCCCATGTGGCCC
77091339 AA
1 AA
77091341 TAAGCCCAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.23, C:0.38, G:0.28, T:0.10
Consensus pattern (19 bp):
AACACGGCCCATGTGGCCC
Found at i:77093786 original size:42 final size:43
Alignment explanation
Indices: 77093696--77093791 Score: 124
Period size: 42 Copynumber: 2.3 Consensus size: 43
77093686 GTCCCAGATG
* *
77093696 TGGTCTTACATGTAATCAAATATCGATGCCACTGTCCTAAACA
1 TGGTCTTACACGAAATCAAATATCGATGCCACTGTCCTAAACA
* * *
77093739 GGGTCTTACACGAAATCAAATAT-GATGCTGA-TGTCCTAGACA
1 TGGTCTTACACGAAATCAAATATCGATGC-CACTGTCCTAAACA
77093781 TGGTCTTACAC
1 TGGTCTTACAC
77093792 ATAAATCATA
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
42 25 0.54
43 21 0.46
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.29
Consensus pattern (43 bp):
TGGTCTTACACGAAATCAAATATCGATGCCACTGTCCTAAACA
Found at i:77093798 original size:43 final size:43
Alignment explanation
Indices: 77093696--77093799 Score: 115
Period size: 43 Copynumber: 2.4 Consensus size: 43
77093686 GTCCCAGATG
*
77093696 TGGTCTTACA-TGTAATCAAATATCGATGCCACTGTCCTAAACA
1 TGGTCTTACACT-AAATCAAATATCGATGCCACTGTCCTAAACA
* * * *
77093739 GGGTCTTACACGAAATCAAATAT-GATGCTGA-TGTCCTAGACA
1 TGGTCTTACACTAAATCAAATATCGATGC-CACTGTCCTAAACA
77093781 TGGTCTTACACATAAATCA
1 TGGTCTTACAC-TAAATCA
77093800 TAAGTCAATG
Statistics
Matches: 51, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
42 25 0.49
43 26 0.51
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.29
Consensus pattern (43 bp):
TGGTCTTACACTAAATCAAATATCGATGCCACTGTCCTAAACA
Found at i:77098612 original size:29 final size:29
Alignment explanation
Indices: 77098580--77098675 Score: 147
Period size: 29 Copynumber: 3.3 Consensus size: 29
77098570 GCCCACTAGG
*
77098580 CATTCATATGGCCTATTAGGCCTAAATCA
1 CATTCATATGGCCTATTAGGCCCAAATCA
* **
77098609 CATTCGTATGGCCCGTTAGGCCCAAATCA
1 CATTCATATGGCCTATTAGGCCCAAATCA
*
77098638 AATTCATATGGCCTATTAGGCCCAAATCA
1 CATTCATATGGCCTATTAGGCCCAAATCA
77098667 CATTCATAT
1 CATTCATAT
77098676 ACATGCTTTC
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 58 1.00
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (29 bp):
CATTCATATGGCCTATTAGGCCCAAATCA
Found at i:77098908 original size:16 final size:16
Alignment explanation
Indices: 77098887--77098923 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
77098877 GTAGCCAAAC
*
77098887 TTTCGGCTTTTTGGCA
1 TTTCGGCTCTTTGGCA
77098903 TTTCGGCTCTTTGGCA
1 TTTCGGCTCTTTGGCA
77098919 TTTCG
1 TTTCG
77098924 AAATTTGTCG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.05, C:0.22, G:0.24, T:0.49
Consensus pattern (16 bp):
TTTCGGCTCTTTGGCA
Found at i:77100762 original size:27 final size:28
Alignment explanation
Indices: 77100678--77100772 Score: 129
Period size: 28 Copynumber: 3.4 Consensus size: 28
77100668 CATGAGATTG
* * * *
77100678 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
77100707 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
77100735 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
77100762 GCACTGAGTGT
1 GCACTAAGTGT
77100773 CCGGACTTAA
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 21 0.34
28 22 0.36
29 18 0.30
ACGTcount: A:0.27, C:0.13, G:0.27, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:77100786 original size:27 final size:27
Alignment explanation
Indices: 77100706--77100788 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
77100696 TAAATTGTAC
* * *
77100706 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTCCGA-CTTGAATATAT
* * *
77100734 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTCCGACTTGAATATAT
*
77100761 AGCACTGAGTGTCCGGACTT-AATATAT
1 AGCACTAAGTGTCC-GACTTGAATATAT
77100788 A
1 A
77100789 TTTTTGAATC
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
27 29 0.59
28 20 0.41
ACGTcount: A:0.30, C:0.13, G:0.24, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTCCGACTTGAATATAT
Found at i:77104987 original size:24 final size:25
Alignment explanation
Indices: 77104931--77104998 Score: 75
Period size: 24 Copynumber: 2.7 Consensus size: 25
77104921 GACTCACCTT
* *
77104931 AGCTCGTATGAGCTTACCGATATATC
1 AGCTCGTAAGAGCTTA-CTATATATC
* *
77104957 AGTTCGTAAGAGCTTACTAT-TCTC
1 AGCTCGTAAGAGCTTACTATATATC
*
77104981 AGCTCGTCAGAGCTTACT
1 AGCTCGTAAGAGCTTACT
77104999 GTTTTAGCTC
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
24 19 0.53
25 3 0.08
26 14 0.39
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (25 bp):
AGCTCGTAAGAGCTTACTATATATC
Found at i:77105224 original size:19 final size:19
Alignment explanation
Indices: 77105202--77105256 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 19
77105192 GTGTTATACA
77105202 GATGAATTACTGTTATATG
1 GATGAATTACTGTTATATG
* * *
77105221 GATGAAGTACTATTTAAATG
1 GATGAATTACT-GTTATATG
77105241 GAT-AAGTTACTGTTAT
1 GATGAA-TTACTGTTAT
77105257 GGAATGATTT
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
19 15 0.54
20 13 0.46
ACGTcount: A:0.35, C:0.05, G:0.20, T:0.40
Consensus pattern (19 bp):
GATGAATTACTGTTATATG
Found at i:77115451 original size:27 final size:27
Alignment explanation
Indices: 77115401--77115541 Score: 162
Period size: 27 Copynumber: 5.2 Consensus size: 27
77115391 GTGACGAAGT
77115401 CACCAGATACAGATAT-TGTGGCAGAGC
1 CACCAGA-ACAGATATATGTGGCAGAGC
* *
77115428 CACTAAAACAGATATATGTGGCAGAGC
1 CACCAGAACAGATATATGTGGCAGAGC
* * *
77115455 CACCAGATCAAATA-ATCGTGGCATAGC
1 CACCAGAACAGATATAT-GTGGCAGAGC
*
77115482 CACTAGAACAGATATATGTGGCAGAGC
1 CACCAGAACAGATATATGTGGCAGAGC
* *
77115509 CACCAGATCAGATA-ATTGTGGCATAGC
1 CACCAGAACAGATATA-TGTGGCAGAGC
77115536 CACCAG
1 CACCAG
77115542 GACGCTTCCT
Statistics
Matches: 96, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
26 11 0.11
27 83 0.86
28 2 0.02
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.18
Consensus pattern (27 bp):
CACCAGAACAGATATATGTGGCAGAGC
Found at i:77115476 original size:54 final size:54
Alignment explanation
Indices: 77115401--77115538 Score: 224
Period size: 54 Copynumber: 2.6 Consensus size: 54
77115391 GTGACGAAGT
*
77115401 CACCAGATACAGAT-ATTGTGGCAGAGCCACTAAAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACTAAAACAGATATATGTGGCAGAGC
* * *
77115455 CACCAGATCAAATAATCGTGGCATAGCCACTAGAACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACTAAAACAGATATATGTGGCAGAGC
77115509 CACCAGATCAGATAATTGTGGCATAGCCAC
1 CACCAGATCAGATAATTGTGGCATAGCCAC
77115539 CAGGACGCTT
Statistics
Matches: 77, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
53 4 0.05
54 73 0.95
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.19
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACTAAAACAGATATATGTGGCAGAGC
Found at i:77115709 original size:28 final size:26
Alignment explanation
Indices: 77115647--77115720 Score: 85
Period size: 28 Copynumber: 2.8 Consensus size: 26
77115637 AAATTAACCC
** *
77115647 TAGGGGTATAACGGTAATTTTGCACC
1 TAGGGGTATAATAGTAATTTTGCACA
*
77115673 TAGGGGTATAATAGTAATTTTTCATACA
1 TAGGGGTATAATAGTAATTTTGC--ACA
*
77115701 TAGGGGTATTATAGTAATTT
1 TAGGGGTATAATAGTAATTT
77115721 AGCTACTTTT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
26 20 0.49
28 21 0.51
ACGTcount: A:0.31, C:0.08, G:0.23, T:0.38
Consensus pattern (26 bp):
TAGGGGTATAATAGTAATTTTGCACA
Found at i:77117187 original size:26 final size:26
Alignment explanation
Indices: 77117156--77117263 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
77117146 TGAAATGCCC
* *
77117156 ATCATGGAACTTTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
77117182 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
77117208 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
77117234 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
77117260 ATCA
1 ATCA
77117264 ATTTATACCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.35, C:0.24, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:77123189 original size:6 final size:6
Alignment explanation
Indices: 77123180--77123204 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
77123170 AACCAAAGAA
77123180 AAAGTG AAAGTG AAAGTG AAAGTG A
1 AAAGTG AAAGTG AAAGTG AAAGTG A
77123205 TTCGAGATTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.32, T:0.16
Consensus pattern (6 bp):
AAAGTG
Found at i:77128481 original size:40 final size:39
Alignment explanation
Indices: 77128444--77128621 Score: 198
Period size: 40 Copynumber: 4.5 Consensus size: 39
77128434 ATATCCGGAC
77128444 TAAGATCCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGT
1 TAAG-TCCGAAGGCATTTGTGCGAGATACTAAA-TCCGGGT
* *
77128484 TAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGT
1 TAAG-TCCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
* * *
77128524 TAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGT
1 TAAGT-CCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
* * * *
77128564 TAAGTCCCGAAGGCA-TTGTGTGAGTTACTAAAACCGGGC
1 TAAGT-CCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
*
77128603 TATGTCCCGAAGGCATTTG
1 TAAGT-CCGAAGGCATTTG
77128622 AACGAGGAGC
Statistics
Matches: 121, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
39 33 0.27
40 85 0.70
41 3 0.02
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (39 bp):
TAAGTCCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
Found at i:77128534 original size:80 final size:79
Alignment explanation
Indices: 77128450--77128621 Score: 229
Period size: 80 Copynumber: 2.2 Consensus size: 79
77128440 GGACTAAGAT
*
77128450 CCGAAGGCATTTGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACT
1 CCGAAGGCATTTGTGCGAGATATCAAA-TCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACT
* *
77128514 AAATCCGGGTTAAGTC
64 AAAACCGGGCTAAGTC
* * * * * *
77128530 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
*
77128595 AACCGGGCTATGTC
66 AACCGGGCTAAGTC
77128609 CCGAAGGCATTTG
1 CCGAAGGCATTTG
77128622 AACGAGGAGC
Statistics
Matches: 80, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
79 38 0.47
80 39 0.49
81 3 0.04
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
AACCGGGCTAAGTC
Found at i:77128639 original size:79 final size:80
Alignment explanation
Indices: 77128477--77128654 Score: 200
Period size: 79 Copynumber: 2.2 Consensus size: 80
77128467 AGATACAAAT
* * * *
77128477 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
77128542 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * * *
77128557 TCCGGGTTAAGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
77128621 GAACGAG-GAGCTATA
66 GAACGAGTGA-CTAAA
*
77128636 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
77128655 TACGTGATTT
Statistics
Matches: 83, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
78 16 0.19
79 48 0.58
80 19 0.23
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTGACTAAA
Found at i:77136094 original size:40 final size:40
Alignment explanation
Indices: 77135925--77136147 Score: 242
Period size: 39 Copynumber: 5.7 Consensus size: 40
77135915 TTGAATGCTG
* * * *
77135925 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
77135965 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
77136004 TTCCGGGTTAAG-CCCGAAGGCCTTTGTGCGAG-TACTAAA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
77136043 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
77136083 TCCGGGTTAAGTCCCGAAGGCA-TTGTGTGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
77136122 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
77136148 AACGAGGAGC
Statistics
Matches: 157, Mismatches: 18, Indels: 16
0.82 0.09 0.08
Matches are distributed among these distances:
38 14 0.09
39 74 0.47
40 61 0.39
41 8 0.05
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:77136138 original size:118 final size:119
Alignment explanation
Indices: 77135925--77136180 Score: 263
Period size: 118 Copynumber: 2.2 Consensus size: 119
77135915 TTGAATGCTG
* * *
77135925 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATTT
* * * ** *
77135990 GTGCGAGATACAAATTCCGGGTTAAGCCCGAAGGCCTTTGTGCGAGTA-CTAAA
66 GTGCGAGATACAAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGGAGCTAAA
* * * **
77136043 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCA-
1 TCCGGGTTAAGTCCCGAAGGC-TTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* * * *
77136105 TTGTGTGAGTTACTAAA-ACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTATA
64 TTGTGCGAGATAC-AAATACCGGGCTAAG-CCCGAAGGCATTTGAACGAGGAGCTAAA
*
77136162 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
77136181 TACGTGATTT
Statistics
Matches: 114, Mismatches: 19, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
117 20 0.18
118 81 0.71
119 13 0.11
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.25
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACAAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGGAGCTAAA
Found at i:77136165 original size:79 final size:79
Alignment explanation
Indices: 77136005--77136180 Score: 198
Period size: 79 Copynumber: 2.3 Consensus size: 79
77135995 AGATACAAAT
* * *
77136005 TCCGGGTTAAG-CCCGAAGGCCTTTGTGCGAGTACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGTACTAAAACCGGGCTAAGTCCCGAAGGCATTCG
** * *
77136069 TGCGAGTTATTAAA
66 AACGAGTGACTAAA
* * *
77136083 TCCGGGTTAAGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAG-TACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
77136147 GAACGAG-GAGCTATA
65 GAACGAGTGA-CTAAA
*
77136162 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
77136181 TACGTGATTT
Statistics
Matches: 83, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
78 36 0.43
79 47 0.57
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGTACTAAAACCGGGCTAAGTCCCGAAGGCATTCG
AACGAGTGACTAAA
Found at i:77143101 original size:37 final size:37
Alignment explanation
Indices: 77143051--77143129 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 37
77143041 TTATTACGAA
* * *
77143051 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACACGGACAAAATTC-CCACACGAAGTCATCGG
*
77143088 GTCTTACACGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACACGGACAAAATTCCCACACGAAGTCATCGG
77143125 GTCTT
1 GTCTT
77143130 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 35 0.95
38 2 0.05
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACACGGACAAAATTCCCACACGAAGTCATCGG
Found at i:77143326 original size:47 final size:47
Alignment explanation
Indices: 77143248--77143470 Score: 304
Period size: 47 Copynumber: 4.7 Consensus size: 47
77143238 CCCTTCGGGA
* * * * * * *
77143248 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
***
77143295 CCCGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
77143342 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
77143389 CTTATTACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
77143436 CTTATCTCATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
77143471 AGAATCCTAA
Statistics
Matches: 157, Mismatches: 18, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
46 1 0.01
47 156 0.99
ACGTcount: A:0.27, C:0.31, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:77149226 original size:27 final size:27
Alignment explanation
Indices: 77149196--77149346 Score: 92
Period size: 27 Copynumber: 5.6 Consensus size: 27
77149186 TGTAGGGTAG
*
77149196 AATTACTGAAATACCATTAGTTTA-CAA
1 AATTACTGAAATACCATT-GATTAGCAA
** *
77149223 AATTACCAAAATACCCTTGATTAGCAA
1 AATTACTGAAATACCATTGATTAGCAA
* *** * *
77149250 AATTATTGAAATACCCCCGATTTGTAA
1 AATTACTGAAATACCATTGATTAGCAA
* **** *
77149277 AATTACCGAAATACCCCCAATTTGCAA
1 AATTACTGAAATACCATTGATTAGCAA
* *
77149304 AATTACTGAAATACC-TCTGATTTGTAA
1 AATTACTGAAATACCAT-TGATTAGCAA
77149331 AATTA-TCGAAATACCA
1 AATTACT-GAAATACCA
77149347 CCGATTTGTA
Statistics
Matches: 100, Mismatches: 20, Indels: 7
0.79 0.16 0.06
Matches are distributed among these distances:
26 5 0.05
27 95 0.95
ACGTcount: A:0.42, C:0.20, G:0.09, T:0.30
Consensus pattern (27 bp):
AATTACTGAAATACCATTGATTAGCAA
Found at i:77149352 original size:27 final size:26
Alignment explanation
Indices: 77149221--77149506 Score: 286
Period size: 27 Copynumber: 10.7 Consensus size: 26
77149211 ATTAGTTTAC
* * * *
77149221 AAAATTACCAAAATACCCTTGATTAGC
1 AAAATTACCGAAATACCC-CGATTTGT
**
77149248 AAAATTATTGAAATACCCCCGATTTGT
1 AAAATTACCGAAATA-CCCCGATTTGT
* *
77149275 AAAATTACCGAAATACCCCCAATTTGC
1 AAAATTACCGAAATA-CCCCGATTTGT
* *
77149302 AAAATTACTGAAATACCTCTGATTTGT
1 AAAATTACCGAAATACC-CCGATTTGT
*
77149329 AAAATTATCGAAATACCACCGATTTGT
1 AAAATTACCGAAATACC-CCGATTTGT
* * * *
77149356 AAAATTATCAAAATACCCTTG-TAGTGT
1 AAAATTACCGAAATACCC-CGAT-TTGT
* *
77149383 AGAATTACTGAAATACCCCGATTTGT
1 AAAATTACCGAAATACCCCGATTTGT
*
77149409 AAAATTACCGAAATACCCTCAATTTGT
1 AAAATTACCGAAATACCC-CGATTTGT
* *
77149436 AAAATTACCAAAATACCCTCAATTTGT
1 AAAATTACCGAAATACCC-CGATTTGT
*
77149463 AAAATTACCAAAATACCCCGATTTGT
1 AAAATTACCGAAATACCCCGATTTGT
*
77149489 AAAATTATCGAAATACCC
1 AAAATTACCGAAATACCC
77149507 TTGTAGTGTA
Statistics
Matches: 219, Mismatches: 34, Indels: 13
0.82 0.13 0.05
Matches are distributed among these distances:
26 47 0.21
27 169 0.77
28 3 0.01
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.29
Consensus pattern (26 bp):
AAAATTACCGAAATACCCCGATTTGT
Found at i:77149448 original size:80 final size:80
Alignment explanation
Indices: 77149304--77149560 Score: 290
Period size: 80 Copynumber: 3.2 Consensus size: 80
77149294 CAATTTGCAA
* * *
77149304 AATTACTGAAATACCTCTGATTTGTAAAATTATCGAAATACCAC-CGATTTGTAAAATTATCAAA
1 AATTACTGAAATACC-CCGATTTGTAAAATTATCGAAATACC-CTCAATTTGTAAAATTAACAAA
*
77149368 ATACCCTTGTAGTGTAG
64 ATACCCTTGTAATGTAG
* *
77149385 AATTACTGAAATACCCCGATTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAAT
1 AATTACTGAAATACCCCGATTTGTAAAATTATCGAAATACCCTCAATTTGTAAAATTAACAAAAT
* *
77149450 ACCC-T-CAATTTGTAA
66 ACCCTTGTAA--TGTAG
** ** * * *
77149465 AATTACCAAAATACCCCGATTTGTAAAATTATCGAAATACCCT-TGTAGTGTAGAATTAACGAAA
1 AATTACTGAAATACCCCGATTTGTAAAATTATCGAAATACCCTCAAT-TTGTAAAATTAACAAAA
77149529 TACCCTTGTAATGTAG
65 TACCCTTGTAATGTAG
77149545 AATTA-TCGAAATACCC
1 AATTACT-GAAATACCC
77149561 TTGTAGTGTA
Statistics
Matches: 149, Mismatches: 20, Indels: 15
0.81 0.11 0.08
Matches are distributed among these distances:
78 1 0.01
79 3 0.02
80 127 0.85
81 16 0.11
82 2 0.01
ACGTcount: A:0.40, C:0.19, G:0.11, T:0.31
Consensus pattern (80 bp):
AATTACTGAAATACCCCGATTTGTAAAATTATCGAAATACCCTCAATTTGTAAAATTAACAAAAT
ACCCTTGTAATGTAG
Found at i:77149521 original size:27 final size:27
Alignment explanation
Indices: 77149486--77149570 Score: 143
Period size: 27 Copynumber: 3.1 Consensus size: 27
77149476 TACCCCGATT
*
77149486 TGTAAAATTATCGAAATACCCTTGTAG
1 TGTAGAATTATCGAAATACCCTTGTAG
* *
77149513 TGTAGAATTAACGAAATACCCTTGTAA
1 TGTAGAATTATCGAAATACCCTTGTAG
77149540 TGTAGAATTATCGAAATACCCTTGTAG
1 TGTAGAATTATCGAAATACCCTTGTAG
77149567 TGTA
1 TGTA
77149571 AAATGACCAG
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 53 1.00
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.33
Consensus pattern (27 bp):
TGTAGAATTATCGAAATACCCTTGTAG
Found at i:77149875 original size:41 final size:41
Alignment explanation
Indices: 77149830--77149950 Score: 154
Period size: 41 Copynumber: 3.0 Consensus size: 41
77149820 AGGAAGTATA
*
77149830 TGAGGATCACATGGTTGCTTGACGACCGTGGATCCACCGAT
1 TGAGGATCACATGGTTGCTTGACGACAGTGGATCCACCGAT
* * **
77149871 TGAGGAT-AGCATGGTTGTTTGACGACTGTGGATCCATTGAT
1 TGAGGATCA-CATGGTTGCTTGACGACAGTGGATCCACCGAT
* * *
77149912 TAAGGATCGCATGGTTTCTTGACGACAGTGGATCCACCG
1 TGAGGATCACATGGTTGCTTGACGACAGTGGATCCACCG
77149951 GTGGCTTTTA
Statistics
Matches: 67, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
40 1 0.01
41 66 0.99
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.28
Consensus pattern (41 bp):
TGAGGATCACATGGTTGCTTGACGACAGTGGATCCACCGAT
Found at i:77150132 original size:22 final size:22
Alignment explanation
Indices: 77150098--77150156 Score: 57
Period size: 22 Copynumber: 2.7 Consensus size: 22
77150088 TATTCTGATC
* *
77150098 ATGGCTCTGTGCCAACCTAAAT
1 ATGGCTTTCTGCCAACCTAAAT
* * *
77150120 ATGGCTTTCTGCCATCTTAACT
1 ATGGCTTTCTGCCAACCTAAAT
77150142 ATGGC-TTCGTGCCAA
1 ATGGCTTTC-TGCCAA
77150157 ACGTATTTAC
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
21 3 0.10
22 27 0.90
ACGTcount: A:0.22, C:0.27, G:0.19, T:0.32
Consensus pattern (22 bp):
ATGGCTTTCTGCCAACCTAAAT
Found at i:77151176 original size:16 final size:16
Alignment explanation
Indices: 77151155--77151193 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
77151145 GTTTCTAATG
*
77151155 AAAACATGATTTTCGA
1 AAAACACGATTTTCGA
77151171 AAAACACGATTTTCGA
1 AAAACACGATTTTCGA
77151187 AAAACAC
1 AAAACAC
77151194 TTCAATGTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.49, C:0.18, G:0.10, T:0.23
Consensus pattern (16 bp):
AAAACACGATTTTCGA
Found at i:77152318 original size:98 final size:98
Alignment explanation
Indices: 77152140--77152319 Score: 245
Period size: 98 Copynumber: 1.8 Consensus size: 98
77152130 TCTGGATATG
* * * *
77152140 AGGGACCACTGGTAGGATATGTTAGTTGGTAATCAGATTAGGGTATATGTTGGGCCACTAATAGG
1 AGGGACCAATGGTAGGACATGTTAGTTGCTAACCAGATTAGGGTATATGTTGGGCCACTAATAGG
77152205 GCATGTCAGTTGCTAATCAAGTTGGTGGAGATA
66 GCATGTCAGTTGCTAATCAAGTTGGTGGAGATA
* * * ** *
77152238 AGGGGCCAATGGTAGGGCATGTTAGTTGCTAACCAGATT-GGTGTATGTGTTGGGTTACTAGTAG
1 AGGGACCAATGGTAGGACATGTTAGTTGCTAACCAGATTAGG-GTATATGTTGGGCCACTAATAG
*
77152302 GGCATGTTAGTTGCTAAT
65 GGCATGTCAGTTGCTAAT
77152320 TAGCCTGGCA
Statistics
Matches: 70, Mismatches: 11, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
97 2 0.03
98 68 0.97
ACGTcount: A:0.25, C:0.11, G:0.33, T:0.31
Consensus pattern (98 bp):
AGGGACCAATGGTAGGACATGTTAGTTGCTAACCAGATTAGGGTATATGTTGGGCCACTAATAGG
GCATGTCAGTTGCTAATCAAGTTGGTGGAGATA
Found at i:77162428 original size:26 final size:26
Alignment explanation
Indices: 77162399--77162506 Score: 207
Period size: 26 Copynumber: 4.2 Consensus size: 26
77162389 TGATACAAAT
77162399 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
77162425 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
77162451 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
77162477 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
77162503 TGAT
1 TGAT
77162507 GTGAATTTCA
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 80 1.00
ACGTcount: A:0.31, C:0.06, G:0.27, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:77164142 original size:27 final size:27
Alignment explanation
Indices: 77164102--77164213 Score: 118
Period size: 27 Copynumber: 4.1 Consensus size: 27
77164092 AGGAAGCGTC
*
77164102 CTGGTGGCTATGCCACAAATATCTGAT
1 CTGGTGGCTCTGCCACAAATATCTGAT
* * *
77164129 CTGGTGGCTCTGCCACATATACCTGTT
1 CTGGTGGCTCTGCCACAAATATCTGAT
* *
77164156 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCACAAATATCTG-AT
* * * *
77164184 CTGGTGACTCTGTCAC-ATTATCTGTT
1 CTGGTGGCTCTGCCACAAATATCTGAT
77164210 CTGG
1 CTGG
77164214 CAGCCATGCT
Statistics
Matches: 72, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
26 5 0.07
27 52 0.72
28 15 0.21
ACGTcount: A:0.17, C:0.25, G:0.23, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAAATATCTGAT
Found at i:77164209 original size:54 final size:54
Alignment explanation
Indices: 77164102--77164213 Score: 154
Period size: 54 Copynumber: 2.1 Consensus size: 54
77164092 AGGAAGCGTC
*
77164102 CTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATACCTGTT
1 CTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATACCTGTT
* * * * *
77164156 CTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAAATATCTG-ATCTGGTGACTCTGCCACATATACCTGTT
77164210 CTGG
1 CTGG
77164214 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
54 33 0.65
55 18 0.35
ACGTcount: A:0.17, C:0.25, G:0.23, T:0.35
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATACCTGTT
Found at i:77169443 original size:26 final size:26
Alignment explanation
Indices: 77169414--77169521 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
77169404 TGATACAAAT
77169414 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
77169440 TGATAATGGGTTAGGTAAATTTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
77169466 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
77169492 TGATAATGGGTTAGATAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
77169518 TGAT
1 TGAT
77169522 GGGAATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.31, C:0.06, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:77171156 original size:27 final size:27
Alignment explanation
Indices: 77171116--77171227 Score: 127
Period size: 27 Copynumber: 4.1 Consensus size: 27
77171106 AGGAAGCGTC
*
77171116 CTGGTGGCTATGCCACAAATATCTGAT
1 CTGGTGGCTCTGCCACAAATATCTGAT
* *
77171143 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAAATATCTGAT
* *
77171170 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCACAAATATCTG-AT
* * * *
77171198 CTGGTGACTCTGTCAC-ATTATCTGTT
1 CTGGTGGCTCTGCCACAAATATCTGAT
77171224 CTGG
1 CTGG
77171228 CAGCCATGCT
Statistics
Matches: 74, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
26 5 0.07
27 54 0.73
28 15 0.20
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.36
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAAATATCTGAT
Found at i:77171220 original size:54 final size:54
Alignment explanation
Indices: 77171116--77171227 Score: 163
Period size: 54 Copynumber: 2.1 Consensus size: 54
77171106 AGGAAGCGTC
*
77171116 CTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCTGTT
* * * *
77171170 CTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAAATATCTG-ATCTGGTGACTCTGCCACATATATCTGTT
77171224 CTGG
1 CTGG
77171228 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
54 34 0.65
55 18 0.35
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.36
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCTGTT
Found at i:77173905 original size:40 final size:40
Alignment explanation
Indices: 77173861--77174044 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
77173851 GCTACTCATT
*
77173861 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
77173901 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCA
* *
77173941 CCAATGCCTTCGGG-CTTAGCCCGG-AATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
* ** * * *
77173980 CAAATGCCTTC-GGATCTTAGTCCGAATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGTAAC-TCGCA
77174021 CAAA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
77174045 ACATCATTCG
Statistics
Matches: 122, Mismatches: 14, Indels: 16
0.80 0.09 0.11
Matches are distributed among these distances:
38 2 0.02
39 31 0.25
40 75 0.61
41 14 0.11
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:77174029 original size:79 final size:81
Alignment explanation
Indices: 77173861--77174045 Score: 218
Period size: 79 Copynumber: 2.3 Consensus size: 81
77173851 GCTACTCATT
* *
77173861 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAA-GCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
* * *
77173925 GATTTAGTAACTCGCAC
65 AATATAGTAACTAGCAC
* **
77173942 CAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCG
1 CAAAGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCG
* *
77174004 AATATGGTCACTTAGCA-
65 AATATAGTAAC-TAGCAC
77174021 CAAAGCCTTCGGGACTTAGCCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
77174046 CATCATTCGA
Statistics
Matches: 89, Mismatches: 11, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
78 3 0.03
79 58 0.65
80 25 0.28
81 3 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (81 bp):
CAAAGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGA
ATATAGTAACTAGCAC
Found at i:77182041 original size:39 final size:40
Alignment explanation
Indices: 77181924--77182106 Score: 185
Period size: 40 Copynumber: 4.6 Consensus size: 40
77181914 GCTACTCGTT
* * *
77181924 CAAATGCCTTCGGGACATAGCCC-AGTTATAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGAATT-TAGTAACTCGCA
* *
77181964 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGAATTTAGTAACTCGCA
* *
77182004 CCAATGCCTTCGGG-CTTAGCCCGAAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGAATTTAGTAACTCGCA
* * * * * * *
77182043 CAAATGCGTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGAATTTAGTAAC-TCGCA
77182084 CAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCG
77182107 GACATCATTC
Statistics
Matches: 118, Mismatches: 20, Indels: 10
0.80 0.14 0.07
Matches are distributed among these distances:
38 2 0.02
39 31 0.26
40 72 0.61
41 13 0.11
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGAATTTAGTAACTCGCA
Found at i:77182068 original size:79 final size:81
Alignment explanation
Indices: 77181926--77182106 Score: 201
Period size: 79 Copynumber: 2.3 Consensus size: 81
77181916 TACTCGTTCA
* **
77181926 AATGCCTTCGGGACATAGCCC-AGTTATAGTAACTCACACAAATGCCTTCGGGACTTAACCCGGA
1 AATGCCTTCGGGACTTAGCCCGAAATATAGTAACTCACACAAATGCCTTCGGGACTTAACCCGGA
* *
77181990 TTTAGTAAC-TCGCACC
66 TATAGTAACTTAGCA-C
* * **
77182006 AATGCCTTCGGG-CTTAGCCCGAAAT-TAGTAACTCGCACAAATGCGTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACTTAGCCCGAAATATAGTAACTCACACAAATGCCTTCGGGA-CTTAACCCGG
* *
77182068 ATATGGTCACTTAGCAC
65 ATATAGTAACTTAGCAC
*
77182085 AAAGCCTTCGGGACTTAGCCCG
1 AATGCCTTCGGGACTTAGCCCG
77182107 GACATCATTC
Statistics
Matches: 85, Mismatches: 12, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
78 3 0.04
79 55 0.65
80 27 0.32
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.24
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGAAATATAGTAACTCACACAAATGCCTTCGGGACTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:77186835 original size:27 final size:26
Alignment explanation
Indices: 77186788--77186845 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 26
77186778 ACCCCCGTCA
77186788 CCTC-CTCATATCTCATCTCACACATT
1 CCTCACTCATATCTCATCTCAC-CATT
*
77186814 CCTCACTCATCTCTTCAT-TCACCATT
1 CCTCACTCATATC-TCATCTCACCATT
77186840 CACTCA
1 C-CTCA
77186846 TTTCCTTCAC
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
26 9 0.32
27 15 0.54
28 4 0.14
ACGTcount: A:0.22, C:0.43, G:0.00, T:0.34
Consensus pattern (26 bp):
CCTCACTCATATCTCATCTCACCATT
Found at i:77194039 original size:25 final size:25
Alignment explanation
Indices: 77193993--77194040 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
77193983 AGCTGTAAAC
* *
77193993 GGTAAGCTCATTCAAGATGAATAAT
1 GGTAAGCTCATACAAGACGAATAAT
*
77194018 GGTAAGCTCATACAAGCCGAATA
1 GGTAAGCTCATACAAGACGAATA
77194041 GAGCTGAGAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.40, C:0.17, G:0.21, T:0.23
Consensus pattern (25 bp):
GGTAAGCTCATACAAGACGAATAAT
Found at i:77200019 original size:13 final size:13
Alignment explanation
Indices: 77200001--77200025 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
77199991 TAATTTATAT
77200001 GTGTGAAAATTTC
1 GTGTGAAAATTTC
77200014 GTGTGAAAATTT
1 GTGTGAAAATTT
77200026 TATCGTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:77201037 original size:80 final size:81
Alignment explanation
Indices: 77200943--77201098 Score: 253
Period size: 81 Copynumber: 1.9 Consensus size: 81
77200933 AAATACATGT
* *
77200943 CGTTAAATTTGATTGTATATATTATATTTGTG-TGAATTGAACTATTGCTTGTATATATACGTTT
1 CGTTAAATTTGATTGTATATATTATATTTGTGCCGAATTGAACTATTGATTGTATATATACGTTT
77201007 AAG-CTGAATTTTCTTA
66 AAGTC-GAATTTTCTTA
* *
77201023 CGTTAAATTTGATTGTCTATATTATATTTGTGCCGAATTGAACTATTGATTGTATATATATGTTT
1 CGTTAAATTTGATTGTATATATTATATTTGTGCCGAATTGAACTATTGATTGTATATATACGTTT
77201088 AAGTCGAATTT
66 AAGTCGAATTT
77201099 GTTTAAGTAT
Statistics
Matches: 70, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
80 31 0.44
81 38 0.54
82 1 0.01
ACGTcount: A:0.29, C:0.08, G:0.15, T:0.48
Consensus pattern (81 bp):
CGTTAAATTTGATTGTATATATTATATTTGTGCCGAATTGAACTATTGATTGTATATATACGTTT
AAGTCGAATTTTCTTA
Found at i:77201263 original size:43 final size:44
Alignment explanation
Indices: 77201215--77201298 Score: 134
Period size: 44 Copynumber: 1.9 Consensus size: 44
77201205 GATTCTGATA
*
77201215 TGTGATTT-CGTGTAAAACCATATCTGGGACGTCGGCATCGATT
1 TGTGATTTGCGTGTAAAACCATATCTGGGACATCGGCATCGATT
* *
77201258 TGTGATTTGCGTGTAAGACCATGTCTGGGACATCGGCATCG
1 TGTGATTTGCGTGTAAAACCATATCTGGGACATCGGCATCG
77201299 TATATGTGTT
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
43 8 0.22
44 29 0.78
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.31
Consensus pattern (44 bp):
TGTGATTTGCGTGTAAAACCATATCTGGGACATCGGCATCGATT
Found at i:77202990 original size:22 final size:22
Alignment explanation
Indices: 77202965--77203010 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
77202955 TTTTAATATG
77202965 TGAACATGCTTAGATTATGAAA
1 TGAACATGCTTAGATTATGAAA
77202987 TGAACATGCTTAGATTATGAAA
1 TGAACATGCTTAGATTATGAAA
77203009 TG
1 TG
77203011 TTATGTTTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.39, C:0.09, G:0.20, T:0.33
Consensus pattern (22 bp):
TGAACATGCTTAGATTATGAAA
Found at i:77206154 original size:24 final size:24
Alignment explanation
Indices: 77206127--77206199 Score: 66
Period size: 24 Copynumber: 3.2 Consensus size: 24
77206117 AGGCATCTGA
77206127 ACTTGTTGAGTTGAGTCCGAGTTC
1 ACTTGTTGAGTTGAGTCCGAGTTC
* * *
77206151 ACTTATGGA-TGTGAATACCGAG---
1 ACTTGTTGAGT-TGAGT-CCGAGTTC
77206173 -CTTGTTGAGTTGAGTCCGAGTTC
1 ACTTGTTGAGTTGAGTCCGAGTTC
77206196 ACTT
1 ACTT
77206200 ATGGGTGGGT
Statistics
Matches: 36, Mismatches: 6, Indels: 14
0.64 0.11 0.25
Matches are distributed among these distances:
20 5 0.14
21 10 0.28
22 1 0.03
23 1 0.03
24 14 0.39
25 5 0.14
ACGTcount: A:0.21, C:0.16, G:0.27, T:0.36
Consensus pattern (24 bp):
ACTTGTTGAGTTGAGTCCGAGTTC
Found at i:77208972 original size:15 final size:15
Alignment explanation
Indices: 77208952--77208994 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
77208942 TCGTATCTTG
77208952 GGTTTCTTTATTCTA
1 GGTTTCTTTATTCTA
* *
77208967 GGTTTCTCTA-TCTT
1 GGTTTCTTTATTCTA
77208981 GGATTTCTTTATTC
1 GG-TTTCTTTATTC
77208995 GGTTTTCTTG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
14 5 0.22
15 16 0.70
16 2 0.09
ACGTcount: A:0.12, C:0.16, G:0.14, T:0.58
Consensus pattern (15 bp):
GGTTTCTTTATTCTA
Found at i:77220854 original size:40 final size:39
Alignment explanation
Indices: 77220810--77220978 Score: 254
Period size: 40 Copynumber: 4.3 Consensus size: 39
77220800 GCTCCTCGTT
* *
77220810 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGTT-TAGTAACTCGCA
*
77220850 CAAATGCCTTCGGGACTTAACCCAGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCC-GGTTTAGTAACTCGCA
*
77220890 CAAATGCCTTCGGGACTTAACCCGGATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGTTTAGTAACTCGCA
77220929 CAAATGCCTTC-GGACTTAACCCGGATTTAGT-ACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-TTTAGTAACTCGCA
77220967 C-AATGCCTTCGG
1 CAAATGCCTTCGG
77220979 CTTAGCGGAA
Statistics
Matches: 120, Mismatches: 6, Indels: 8
0.90 0.04 0.06
Matches are distributed among these distances:
37 9 0.08
38 22 0.18
39 30 0.25
40 56 0.47
41 3 0.03
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAACCCGGTTTAGTAACTCGCA
Found at i:77220931 original size:39 final size:38
Alignment explanation
Indices: 77220810--77221022 Score: 253
Period size: 40 Copynumber: 5.7 Consensus size: 38
77220800 GCTCCTCGTT
* * *
77220810 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTC-GGACTTAACCCGGAT-TAGTAACTCGCA
*
77220850 CAAATGCCTTCGGGACTTAACCCAGATTTAGTAACTCGCA
1 CAAATGCCTTC-GGACTTAACCCGGA-TTAGTAACTCGCA
77220890 CAAATGCCTTCGGGACTTAACCCGGATTAGTAACTCGCA
1 CAAATGCCTTC-GGACTTAACCCGGATTAGTAACTCGCA
77220929 CAAATGCCTTCGGACTTAACCCGGATTTAGT-ACTCGCA
1 CAAATGCCTTCGGACTTAACCCGGA-TTAGTAACTCGCA
* *
77220967 C-AATGCCTTCGG-CTT-A-GCGGAAT-GT-ACTCGCA
1 CAAATGCCTTCGGACTTAACCCGGATTAGTAACTCGCA
*
77220999 CAAA-GCCTTCGGACTTAGCCCGGA
1 CAAATGCCTTCGGACTTAACCCGGA
77221023 ATCATTCAAA
Statistics
Matches: 158, Mismatches: 9, Indels: 17
0.86 0.05 0.09
Matches are distributed among these distances:
32 18 0.11
33 6 0.04
34 4 0.03
35 5 0.03
36 3 0.02
37 11 0.07
38 22 0.14
39 29 0.18
40 59 0.37
41 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (38 bp):
CAAATGCCTTCGGACTTAACCCGGATTAGTAACTCGCA
Found at i:77227557 original size:40 final size:40
Alignment explanation
Indices: 77227513--77227724 Score: 338
Period size: 40 Copynumber: 5.3 Consensus size: 40
77227503 GCTCCTCGTT
* *
77227513 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
77227553 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
77227593 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
77227633 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * * *
77227673 CCAATGCCTTCGGG-CTTAGCCCGGAATCAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
77227712 CAAATGCCTTCGG
1 CAAATGCCTTCGG
77227725 ATCTTAGTCC
Statistics
Matches: 163, Mismatches: 8, Indels: 3
0.94 0.05 0.02
Matches are distributed among these distances:
39 33 0.20
40 128 0.79
41 2 0.01
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:77238392 original size:39 final size:39
Alignment explanation
Indices: 77238314--77238602 Score: 334
Period size: 40 Copynumber: 7.3 Consensus size: 39
77238304 TCTTCGGAAT
*
77238314 TTAG-CCGGATATAATCACAAGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATAT-ATCACTAGCACAAATGCCTTCGGGTC
*
77238353 TTAGCCCGGATATATCAACTCGCACAAATGCCTTC-GGTC
1 TTAGCCCGGATATATC-ACTAGCACAAATGCCTTCGGGTC
* *
77238392 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGAT-ATATCACTAGCACAAATGCCTTCGGGTC
* * *
77238432 TTAACCCGG-TATAGCAACTCGCACAAATGCCTTC-GGTC
1 TTAGCCCGGATATATC-ACTAGCACAAATGCCTTCGGGTC
* * *
77238470 TTAGCCCAGATAAAATCACTAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGAT-ATATCACTAGCACAAATGCCTTCGGGTC
* * * *
77238510 TTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATATC-ACTAGCACAAATGCCTTCGGGTC
* * *
77238550 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGAC
1 TTAGCCCGGAT-ATATCACTAGCACAAATGCCTTCGGGTC
77238590 TTAGCCCGGATAT
1 TTAGCCCGGATAT
77238603 CATTCAAATG
Statistics
Matches: 209, Mismatches: 31, Indels: 20
0.80 0.12 0.08
Matches are distributed among these distances:
38 14 0.07
39 76 0.36
40 116 0.56
41 3 0.01
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (39 bp):
TTAGCCCGGATATATCACTAGCACAAATGCCTTCGGGTC
Found at i:77238467 original size:78 final size:78
Alignment explanation
Indices: 77238314--77238598 Score: 464
Period size: 78 Copynumber: 3.6 Consensus size: 78
77238304 TCTTCGGAAT
* * * * *
77238314 TTAG-CCGGATATAATCACAAGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCAC
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGG-TATAGCAACTCGCAC
77238378 AAATGCCTTCGGTC
65 AAATGCCTTCGGTC
77238392 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGTATAGCAACTCGCACA
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGTATAGCAACTCGCACA
77238457 AATGCCTTCGGTC
66 AATGCCTTCGGTC
*
77238470 TTAGCCCAGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCC-GGTATAGCAACTCGCAC
77238535 AAATGCCTTCGGGTC
65 AAATGCCTTC-GGTC
* *
77238550 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGACTTAGCCCGG
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGG
77238599 ATATCATTCA
Statistics
Matches: 195, Mismatches: 9, Indels: 5
0.93 0.04 0.02
Matches are distributed among these distances:
78 78 0.40
79 69 0.35
80 48 0.25
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (78 bp):
TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGTATAGCAACTCGCACA
AATGCCTTCGGTC
Found at i:77246114 original size:40 final size:40
Alignment explanation
Indices: 77246043--77246237 Score: 214
Period size: 40 Copynumber: 4.9 Consensus size: 40
77246033 ACAAAATTAT
* * * *
77246043 ACTAGCACAATTGCCTTCGGATCTTAACCCGGGT-ATAGC
1 ACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATAAAAGC
* * * *
77246082 AACTCGTACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC
1 -ACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATAAAAGC
* * * *
77246123 ACTAGCACAATTGCCTTCGGGTCTTAACCTGGGT-ATAGC
1 ACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATAAAAGC
* * *
77246162 AACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC
1 -ACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATAAAAGC
*
77246203 ACTAGCACAATTGCCTTCGGGACTTAGCCCGGATA
1 ACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATA
77246238 TCATTCAAAT
Statistics
Matches: 126, Mismatches: 26, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
39 3 0.02
40 117 0.93
41 6 0.05
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
ACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATAAAAGC
Found at i:77246176 original size:80 final size:80
Alignment explanation
Indices: 77246043--77246234 Score: 339
Period size: 80 Copynumber: 2.4 Consensus size: 80
77246033 ACAAAATTAT
* *
77246043 ACTAGCACAATTGCCTTCGGATCTTAACCCGGGTATAGCAACTCGTACAAATGCCTTCGGGTCTT
1 ACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTCTT
77246108 AGCCCGGATAAAATC
66 AGCCCGGATAAAATC
*
77246123 ACTAGCACAATTGCCTTCGGGTCTTAACCTGGGTATAGCAACTCGCACAAATGCCTTCGGGTCTT
1 ACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTCTT
77246188 AGCCCGGATAAAATC
66 AGCCCGGATAAAATC
* *
77246203 ACTAGCACAATTGCCTTCGGGACTTAGCCCGG
1 ACTAGCACAATTGCCTTCGGGTCTTAACCCGG
77246235 ATATCATTCA
Statistics
Matches: 106, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
80 106 1.00
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
ACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTCTT
AGCCCGGATAAAATC
Found at i:77263601 original size:42 final size:43
Alignment explanation
Indices: 77263488--77263613 Score: 125
Period size: 44 Copynumber: 2.9 Consensus size: 43
77263478 TGTGTTTTCA
* * *
77263488 TGTAAGACCACGTCTGGAACGTTGGCATCGAT-TTATG-TTTTACG
1 TGTAAGACCATGTCTGGAACATCGGCATCGATATT-TGATTTT--G
77263532 TGTAAGACCATGTCTGGAACATCGGCATCG-TATTTGATTTTG
1 TGTAAGACCATGTCTGGAACATCGGCATCGATATTTGATTTTG
* * * *
77263574 TGTAAGACCCTGTGTGGGACAAT-GGCATCGATGTTTGATT
1 TGTAAGACCATGTCTGGAAC-ATCGGCATCGATATTTGATT
77263614 ACATGTAAGA
Statistics
Matches: 71, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
42 25 0.35
43 13 0.18
44 33 0.46
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.34
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGAACATCGGCATCGATATTTGATTTTG
Found at i:77268316 original size:15 final size:14
Alignment explanation
Indices: 77268289--77268318 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
77268279 CCAAATTATG
77268289 ATTTTATTTTATTT
1 ATTTTATTTTATTT
77268303 ATTTTATGTTTATTT
1 ATTTTAT-TTTATTT
77268318 A
1 A
77268319 CATATTTACT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.73
Consensus pattern (14 bp):
ATTTTATTTTATTT
Found at i:77282212 original size:49 final size:47
Alignment explanation
Indices: 77282067--77282220 Score: 161
Period size: 49 Copynumber: 3.3 Consensus size: 47
77282057 TATACAAGCT
* * * *
77282067 AGTGTAAGACCTATCTGGGACATGGCGTCAGCTTG-T-TATG-TGTC
1 AGTGTAAGACCTATCTGGGACATGGCATCGGCCTGATATATGAAGTC
* * * **
77282111 AGTGTAAGACCTGTCTGGGACATGGCATCGACACTGATAGATGAGACCC
1 AGTGTAAGACCTATCTGGGACATGGCATCGGC-CTGATATATGA-AGTC
*
77282160 AGTGTAAGACCTATCTGGGACATGGCATCGGCCTCGATATAGGAAAGTC
1 AGTGTAAGACCTATCTGGGACATGGCATCGGCCT-GATATATG-AAGTC
77282209 AGTGTAAGACCT
1 AGTGTAAGACCT
77282221 GATTAAGACA
Statistics
Matches: 88, Mismatches: 15, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
44 28 0.32
45 2 0.02
46 1 0.01
47 3 0.03
48 2 0.02
49 51 0.58
50 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.25
Consensus pattern (47 bp):
AGTGTAAGACCTATCTGGGACATGGCATCGGCCTGATATATGAAGTC
Found at i:77286769 original size:17 final size:19
Alignment explanation
Indices: 77286727--77286770 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
77286717 ATGAAATTTT
*
77286727 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
77286746 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
77286764 AA-TATTA
1 AATTATTA
77286771 CTGTATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:77295092 original size:16 final size:16
Alignment explanation
Indices: 77295071--77295101 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
77295061 GTTTAAATAA
*
77295071 GTAATTTAAAATTATC
1 GTAATTCAAAATTATC
77295087 GTAATTCAAAATTAT
1 GTAATTCAAAATTAT
77295102 TTGTACTCGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.45, C:0.06, G:0.06, T:0.42
Consensus pattern (16 bp):
GTAATTCAAAATTATC
Found at i:77309671 original size:15 final size:15
Alignment explanation
Indices: 77309651--77309684 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
77309641 TGGTATTTAG
77309651 ATTCATGAGTAGCTA
1 ATTCATGAGTAGCTA
*
77309666 ATTCATGAGTATCTA
1 ATTCATGAGTAGCTA
77309681 ATTC
1 ATTC
77309685 CTTTAAAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.38
Consensus pattern (15 bp):
ATTCATGAGTAGCTA
Done.